format-version: 1.2 data-version: releases/2019-06-11 saved-by: chris-grove subsetdef: phenotype_slim_wb "WB phenotype slim" default-namespace: C_elegans_phenotype_ontology remark: C elegans Phenotype Ontology ontology: wbphenotype property_value: property-value "http://purl.org/dc/elements/1.1/license http://creativecommons.org/licenses/by/4.0/" xsd:string [Term] id: BFO:0000001 name: entity property_value: BFO:0000179 "entity" xsd:string property_value: BFO:0000180 "Entity" xsd:string property_value: editor_note "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" xsd:string property_value: editor_note "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", http://www.w3.org/2000/01/rdf-schema#seeAlso="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"} property_value: example_of_usage "Julius Caesar" xsd:string property_value: example_of_usage "the Second World War" xsd:string property_value: example_of_usage "Verdi’s Requiem" xsd:string property_value: example_of_usage "your body mass index" xsd:string property_value: IAO:0000600 "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/001-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000002 name: continuant def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] is_a: BFO:0000001 ! entity disjoint_from: BFO:0000003 ! occurrent relationship: part_of BFO:0000002 ! continuant property_value: BFO:0000179 "continuant" xsd:string property_value: BFO:0000180 "Continuant" xsd:string property_value: editor_note "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" xsd:string property_value: editor_note "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000007"} property_value: IAO:0000600 "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"} property_value: IAO:0000601 "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"} property_value: IAO:0000601 "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"} property_value: IAO:0000601 "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"} property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"} property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"} property_value: IAO:0000602 "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"} property_value: IAO:0000602 "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000003 name: occurrent def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] is_a: BFO:0000001 ! entity relationship: part_of BFO:0000003 ! occurrent property_value: BFO:0000179 "occurrent" xsd:string property_value: BFO:0000180 "Occurrent" xsd:string property_value: editor_note "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" xsd:string property_value: editor_note "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." xsd:string property_value: editor_note "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000006", comment="per discussion with Barry Smith"} property_value: editor_note "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000012"} property_value: IAO:0000600 "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/077-002"} property_value: IAO:0000601 "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"} property_value: IAO:0000601 "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"} property_value: IAO:0000602 "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"} property_value: IAO:0000602 "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000004 name: independent continuant def: "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." [] def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000031 ! generically dependent continuant relationship: part_of BFO:0000004 ! independent continuant property_value: BFO:0000179 "ic" xsd:string property_value: BFO:0000180 "IndependentContinuant" xsd:string property_value: example_of_usage "a chair" xsd:string property_value: example_of_usage "a heart" xsd:string property_value: example_of_usage "a leg" xsd:string property_value: example_of_usage "a molecule" xsd:string property_value: example_of_usage "a spatial region" xsd:string property_value: example_of_usage "an atom" xsd:string property_value: example_of_usage "an orchestra." xsd:string property_value: example_of_usage "an organism" xsd:string property_value: example_of_usage "the bottom right portion of a human torso" xsd:string property_value: example_of_usage "the interior of your mouth" xsd:string property_value: IAO:0000601 "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"} property_value: IAO:0000601 "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"} property_value: IAO:0000602 "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"} property_value: IAO:0000602 "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"} property_value: IAO:0000602 "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000006 name: spatial region is_a: BFO:0000141 ! immaterial entity property_value: BFO:0000179 "s-region" xsd:string property_value: BFO:0000180 "SpatialRegion" xsd:string property_value: editor_note "BFO 2 Reference: Spatial regions do not participate in processes." xsd:string property_value: editor_note "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000002", comment="per discussion with Barry Smith"} property_value: IAO:0000600 "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/035-001"} property_value: IAO:0000601 "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/036-001"} property_value: IAO:0000602 "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/036-001"} property_value: IAO:0000602 "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/035-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000015 name: process namespace: bfo def: "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." [] def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"} is_a: BFO:0000003 ! occurrent property_value: BFO:0000179 "process" xsd:string property_value: BFO:0000180 "Process" xsd:string property_value: editor_note "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" xsd:string property_value: example_of_usage "a process of cell-division, \\ a beating of the heart" xsd:string property_value: example_of_usage "a process of meiosis" xsd:string property_value: example_of_usage "a process of sleeping" xsd:string property_value: example_of_usage "the course of a disease" xsd:string property_value: example_of_usage "the flight of a bird" xsd:string property_value: example_of_usage "the life of an organism" xsd:string property_value: example_of_usage "your process of aging." xsd:string property_value: IAO:0000602 "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000017 name: realizable entity def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] is_a: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000019 ! quality relationship: part_of BFO:0000017 ! realizable entity property_value: BFO:0000179 "realizable" xsd:string property_value: BFO:0000180 "RealizableEntity" xsd:string property_value: example_of_usage "the disposition of this piece of metal to conduct electricity." xsd:string property_value: example_of_usage "the disposition of your blood to coagulate" xsd:string property_value: example_of_usage "the function of your reproductive organs" xsd:string property_value: example_of_usage "the role of being a doctor" xsd:string property_value: example_of_usage "the role of this boundary to delineate where Utah and Colorado meet" xsd:string property_value: IAO:0000600 "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"} property_value: IAO:0000601 "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"} property_value: IAO:0000602 "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"} property_value: IAO:0000602 "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000019 name: quality namespace: bfo is_a: BFO:0000020 ! specifically dependent continuant relationship: part_of BFO:0000019 ! quality property_value: BFO:0000179 "quality" xsd:string property_value: BFO:0000180 "Quality" xsd:string property_value: example_of_usage "the ambient temperature of this portion of air" xsd:string property_value: example_of_usage "the color of a tomato" xsd:string property_value: example_of_usage "the length of the circumference of your waist" xsd:string property_value: example_of_usage "the mass of this piece of gold." xsd:string property_value: example_of_usage "the shape of your nose" xsd:string property_value: example_of_usage "the shape of your nostril" xsd:string property_value: IAO:0000600 "a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/055-001"} property_value: IAO:0000601 "If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/105-001"} property_value: IAO:0000602 "(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/105-001"} property_value: IAO:0000602 "(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/055-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000020 name: specifically dependent continuant def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." [] def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000031 ! generically dependent continuant relationship: part_of BFO:0000020 ! specifically dependent continuant property_value: BFO:0000179 "sdc" xsd:string property_value: BFO:0000180 "SpecificallyDependentContinuant" xsd:string property_value: editor_note "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000005", comment="per discussion with Barry Smith"} property_value: example_of_usage "of one-sided specifically dependent continuants: the mass of this tomato" xsd:string property_value: example_of_usage "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." xsd:string property_value: example_of_usage "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" xsd:string property_value: example_of_usage "the disposition of this fish to decay" xsd:string property_value: example_of_usage "the function of this heart: to pump blood" xsd:string property_value: example_of_usage "the mutual dependence of proton donors and acceptors in chemical reactions [79" xsd:string property_value: example_of_usage "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" xsd:string property_value: example_of_usage "the pink color of a medium rare piece of grilled filet mignon at its center" xsd:string property_value: example_of_usage "the role of being a doctor" xsd:string property_value: example_of_usage "the shape of this hole." xsd:string property_value: example_of_usage "the smell of this portion of mozzarella" xsd:string property_value: IAO:0000602 "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000023 name: role def: "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." [] is_a: BFO:0000017 ! realizable entity property_value: BFO:0000179 "role" xsd:string property_value: BFO:0000180 "Role" xsd:string property_value: editor_note "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." xsd:string property_value: example_of_usage "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." xsd:string property_value: example_of_usage "the priest role" xsd:string property_value: example_of_usage "the role of a boundary to demarcate two neighboring administrative territories" xsd:string property_value: example_of_usage "the role of a building in serving as a military target" xsd:string property_value: example_of_usage "the role of a stone in marking a property boundary" xsd:string property_value: example_of_usage "the role of subject in a clinical trial" xsd:string property_value: example_of_usage "the student role" xsd:string property_value: IAO:0000600 "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"} property_value: IAO:0000602 "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000030 name: object namespace: bfo is_a: BFO:0000040 ! material entity property_value: BFO:0000179 "object" xsd:string property_value: BFO:0000180 "Object" xsd:string property_value: editor_note "BFO 2 Reference: an object is a maximal causally unified material entity" xsd:string property_value: editor_note "BFO 2 Reference: BFO rests on the presupposition that at multiple micro-, meso- and macroscopic scales reality exhibits certain stable, spatially separated or separable material units, combined or combinable into aggregates of various sorts (for example organisms into what are called ‘populations’). Such units play a central role in almost all domains of natural science from particle physics to cosmology. Many scientific laws govern the units in question, employing general terms (such as ‘molecule’ or ‘planet’) referring to the types and subtypes of units, and also to the types and subtypes of the processes through which such units develop and interact. The division of reality into such natural units is at the heart of biological science, as also is the fact that these units may form higher-level units (as cells form multicellular organisms) and that they may also form aggregates of units, for example as cells form portions of tissue and organs form families, herds, breeds, species, and so on. At the same time, the division of certain portions of reality into engineered units (manufactured artifacts) is the basis of modern industrial technology, which rests on the distributed mass production of engineered parts through division of labor and on their assembly into larger, compound units such as cars and laptops. The division of portions of reality into units is one starting point for the phenomenon of counting." xsd:string property_value: editor_note "BFO 2 Reference: Each object is such that there are entities of which we can assert unproblematically that they lie in its interior, and other entities of which we can assert unproblematically that they lie in its exterior. This may not be so for entities lying at or near the boundary between the interior and exterior. This means that two objects – for example the two cells depicted in Figure 3 – may be such that there are material entities crossing their boundaries which belong determinately to neither cell. Something similar obtains in certain cases of conjoined twins (see below)." xsd:string property_value: editor_note "BFO 2 Reference: To say that b is causally unified means: b is a material entity which is such that its material parts are tied together in such a way that, in environments typical for entities of the type in question,if c, a continuant part of b that is in the interior of b at t, is larger than a certain threshold size (which will be determined differently from case to case, depending on factors such as porosity of external cover) and is moved in space to be at t at a location on the exterior of the spatial region that had been occupied by b at t, then either b’s other parts will be moved in coordinated fashion or b will be damaged (be affected, for example, by breakage or tearing) in the interval between t and t.causal changes in one part of b can have consequences for other parts of b without the mediation of any entity that lies on the exterior of b. Material entities with no proper material parts would satisfy these conditions trivially. Candidate examples of types of causal unity for material entities of more complex sorts are as follows (this is not intended to be an exhaustive list):CU1: Causal unity via physical coveringHere the parts in the interior of the unified entity are combined together causally through a common membrane or other physical covering\\. The latter points outwards toward and may serve a protective function in relation to what lies on the exterior of the entity [13, 47" xsd:string property_value: editor_note "BFO 2 Reference: ‘objects’ are sometimes referred to as ‘grains’ [74" xsd:string property_value: example_of_usage "atom" xsd:string property_value: example_of_usage "cell" xsd:string property_value: example_of_usage "cells and organisms" xsd:string property_value: example_of_usage "engineered artifacts" xsd:string property_value: example_of_usage "grain of sand" xsd:string property_value: example_of_usage "molecule" xsd:string property_value: example_of_usage "organelle" xsd:string property_value: example_of_usage "organism" xsd:string property_value: example_of_usage "planet" xsd:string property_value: example_of_usage "solid portions of matter" xsd:string property_value: example_of_usage "star" xsd:string property_value: IAO:0000600 "b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/024-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000031 name: generically dependent continuant def: "A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time." [] def: "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"} is_a: BFO:0000002 ! continuant relationship: part_of BFO:0000031 ! generically dependent continuant property_value: BFO:0000179 "gdc" xsd:string property_value: BFO:0000180 "GenericallyDependentContinuant" xsd:string property_value: example_of_usage "The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity." xsd:string property_value: example_of_usage "the pdf file on your laptop, the pdf file that is a copy thereof on my laptop" xsd:string property_value: example_of_usage "the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule." xsd:string property_value: IAO:0000602 "(iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000040 name: material entity namespace: bfo def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] is_a: BFO:0000004 ! independent continuant disjoint_from: BFO:0000141 ! immaterial entity property_value: BFO:0000179 "material" xsd:string property_value: BFO:0000180 "MaterialEntity" xsd:string property_value: editor_note "BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60" xsd:string property_value: editor_note "BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity." xsd:string property_value: editor_note "BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here." xsd:string property_value: example_of_usage "a flame" xsd:string property_value: example_of_usage "a forest fire" xsd:string property_value: example_of_usage "a human being" xsd:string property_value: example_of_usage "a hurricane" xsd:string property_value: example_of_usage "a photon" xsd:string property_value: example_of_usage "a puff of smoke" xsd:string property_value: example_of_usage "a sea wave" xsd:string property_value: example_of_usage "a tornado" xsd:string property_value: example_of_usage "an aggregate of human beings." xsd:string property_value: example_of_usage "an energy wave" xsd:string property_value: example_of_usage "an epidemic" xsd:string property_value: example_of_usage "the undetached arm of a human being" xsd:string property_value: IAO:0000600 "A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"} property_value: IAO:0000601 "every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"} property_value: IAO:0000601 "Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"} property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"} property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"} property_value: IAO:0000602 "(forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000141 name: immaterial entity is_a: BFO:0000004 ! independent continuant property_value: BFO:0000179 "immaterial" xsd:string property_value: BFO:0000180 "ImmaterialEntity" xsd:string property_value: editor_note "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: CARO:0000000 name: anatomical entity is_a: CARO:0030000 ! biological entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0000003 name: connected anatomical structure is_a: CARO:0000006 ! material anatomical entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0000006 name: material anatomical entity is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity relationship: drains CARO:0000003 ! connected anatomical structure property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0000007 name: immaterial anatomical entity is_a: BFO:0000141 ! immaterial entity [Term] id: CARO:0000014 name: cell part is_a: CARO:0000003 ! connected anatomical structure property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl property_value: IAO:0000589 "cell part (CARO)" xsd:string [Term] id: CARO:0010000 name: multicellular anatomical structure is_a: CARO:0000003 ! connected anatomical structure relationship: directly_develops_from CARO:0010000 ! multicellular anatomical structure property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0030000 name: biological entity is_a: BFO:0000004 ! independent continuant [Term] id: CHEBI:10545 name: electron namespace: chebi_ontology def: "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." [] subset: 3_STAR synonym: "beta" RELATED [IUPAC] synonym: "beta(-)" RELATED [ChEBI] synonym: "beta-particle" RELATED [IUPAC] synonym: "e" RELATED [IUPAC] synonym: "e(-)" RELATED [UniProt] synonym: "e-" RELATED [KEGG_COMPOUND] synonym: "electron" EXACT [KEGG_COMPOUND] synonym: "electron" EXACT IUPAC_NAME [IUPAC] synonym: "electron" EXACT [ChEBI] synonym: "Elektron" RELATED [ChEBI] synonym: "negatron" RELATED [IUPAC] xref: KEGG:C05359 xref: PMID:21614077 "Europe PMC" xref: Wikipedia:Electron is_a: CHEBI:36338 ! lepton property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.000548579903" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "0.0" xsd:string [Term] id: CHEBI:131604 name: Mycoplasma genitalium metabolite namespace: chebi_ontology def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] subset: 3_STAR synonym: "Mycoplasma genitalium metabolites" RELATED [ChEBI] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:132992 name: radiosensitizing agent namespace: chebi_ontology def: "A drug that makes increases the sensitivity of tumour cells to radiation therapy." [] subset: 3_STAR synonym: "radiosensitiser" RELATED [ChEBI] synonym: "radiosensitisers" RELATED [ChEBI] synonym: "radiosensitising agent" RELATED [ChEBI] synonym: "radiosensitising agents" RELATED [ChEBI] synonym: "radiosensitizer" RELATED [ChEBI] synonym: "radiosensitizers" RELATED [ChEBI] synonym: "radiosensitizing agents" RELATED [ChEBI] xref: PMID:12520460 "Europe PMC" xref: Wikipedia:Radiosensitizer is_a: CHEBI:23888 ! drug [Term] id: CHEBI:134179 name: volatile organic compound namespace: chebi_ontology def: "Any organic compound having an initial boiling point less than or equal to 250 degreeC (482 degreeF) measured at a standard atmospheric pressure of 101.3 kPa." [] subset: 3_STAR synonym: "VOC" RELATED [ChEBI] synonym: "VOCs" RELATED [ChEBI] synonym: "volatile organic compounds" RELATED [ChEBI] xref: Wikipedia:Volatile_organic_compound is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:134249 name: alkanesulfonate oxoanion namespace: chebi_ontology alt_id: CHEBI:22318 def: "An alkanesulfonate in which the carbon at position 1 is attached to R, which can represent hydrogens, a carbon chain, or other groups." [] subset: 3_STAR synonym: "alkanesulfonate oxoanions" RELATED [ChEBI] synonym: "alkanesulfonates" RELATED [ChEBI] synonym: "an alkanesulfonate" RELATED [UniProt] xref: MetaCyc:Alkanesulfonates is_a: CHEBI:33554 ! organosulfonate oxoanion property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2O3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "94.091" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "93.97246" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C(S([O-])(=O)=O)*" xsd:string [Term] id: CHEBI:136859 name: pro-agent namespace: chebi_ontology def: "A compound that, on administration, undergoes conversion by biochemical (enzymatic), chemical (possibly following an enzymatic step), or physical (e.g. photochemical) activation processes before becoming the active agent for which it is a pro-agent." [] subset: 3_STAR synonym: "pro-agents" RELATED [ChEBI] synonym: "proagent" RELATED [ChEBI] synonym: "proagents" RELATED [ChEBI] xref: PMID:26449612 "Europe PMC" is_a: CHEBI:33232 ! application [Term] id: CHEBI:136889 name: 5beta steroid namespace: chebi_ontology def: "Any steroid that has beta-configuration at position 5." [] subset: 3_STAR synonym: "5beta steroids" RELATED [ChEBI] synonym: "5beta-steroid" RELATED [ChEBI] synonym: "5beta-steroids" RELATED [ChEBI] is_a: CHEBI:35341 ! steroid [Term] id: CHEBI:137041 name: quinine(1+) namespace: chebi_ontology def: "The monoprotonated form of quinine, the predominant species at pH7.3." [] subset: 3_STAR synonym: "(9R)-9-hydroxy-6'-methoxy-8alpha-cinchonan-1-ium" EXACT IUPAC_NAME [IUPAC] synonym: "quinine" RELATED [UniProt] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:51323 ! cinchona alkaloid relationship: has_parent_hydride CHEBI:59138 ! (8S)-cinchonan relationship: has_role CHEBI:38068 ! antimalarial relationship: has_role CHEBI:51371 ! muscle relaxant relationship: is_conjugate_acid_of CHEBI:15854 ! quinine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C20H25N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C20H24N2O2/c1-3-13-12-22-9-7-14(13)10-19(22)20(23)16-6-8-21-18-5-4-15(24-2)11-17(16)18/h3-6,8,11,13-14,19-20,23H,1,7,9-10,12H2,2H3/p+1/t13-,14-,19-,20+/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LOUPRKONTZGTKE-WZBLMQSHSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "325.42470" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "325.19105" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@H]2CC[N@H+]1C[C@@H]2C=C)[C@H](O)c1ccnc2ccc(OC)cc12" xsd:string [Term] id: CHEBI:138000 name: 3-(1-methylpyrrolidin-2-yl)pyridine namespace: chebi_ontology def: "An N-alkylpyrrolidine that consists of N-methylpyrrolidine bearing a pyridin-3-yl substituent at position 2." [] subset: 3_STAR synonym: "3-(1-methylpyrrolidin-2-yl)pyridine" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:26416 ! pyridine alkaloid is_a: CHEBI:26456 ! pyrrolidine alkaloid is_a: CHEBI:46775 ! N-alkylpyrrolidine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H14N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H14N2/c1-12-7-3-5-10(12)9-4-2-6-11-8-9/h2,4,6,8,10H,3,5,7H2,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SNICXCGAKADSCV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "162.232" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "162.11570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C=1C=C(C2N(CCC2)C)C=NC1" xsd:string [Term] id: CHEBI:138015 name: endocrine disruptor namespace: chebi_ontology def: "Any compound that can disrupt the functions of the endocrine (hormone) system" [] subset: 3_STAR synonym: "endocrine disrupting chemical" RELATED [ChEBI] synonym: "endocrine disrupting chemicals" RELATED [ChEBI] synonym: "endocrine disrupting compound" RELATED [ChEBI] synonym: "endocrine disrupting compounds" RELATED [ChEBI] synonym: "endocrine disruptors" RELATED [ChEBI] synonym: "endocrine-disrupting chemical" RELATED [ChEBI] synonym: "endocrine-disrupting chemicals" RELATED [ChEBI] synonym: "hormonally active agent" RELATED [ChEBI] synonym: "hormonally active agents" RELATED [ChEBI] xref: PMID:27929035 "Europe PMC" xref: PMID:28356401 "Europe PMC" xref: PMID:28526231 "Europe PMC" xref: Wikipedia:Endocrine_disruptor is_a: CHEBI:51061 ! hormone receptor modulator [Term] id: CHEBI:138103 name: inorganic acid namespace: chebi_ontology def: "A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." [] subset: 3_STAR synonym: "inorganic acids" RELATED [ChEBI] synonym: "mineral acid" RELATED [ChEBI] synonym: "mineral acids" RELATED [ChEBI] xref: Wikipedia:Mineral_acid is_a: CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:138675 name: gas molecular entity namespace: chebi_ontology def: "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa)." [] subset: 3_STAR synonym: "gas molecular entities" RELATED [ChEBI] synonym: "gaseous molecular entities" RELATED [ChEBI] synonym: "gaseous molecular entity" RELATED [ChEBI] xref: Wikipedia:https\://en.wikipedia.org/wiki/Gas is_a: CHEBI:33579 ! main group molecular entity [Term] id: CHEBI:13941 name: carbamate namespace: chebi_ontology subset: 3_STAR synonym: "Carbamat" RELATED [ChEBI] synonym: "carbamate" EXACT [UniProt] synonym: "carbamate" EXACT IUPAC_NAME [IUPAC] synonym: "carbamate ion" RELATED [ChemIDplus] synonym: "carbamic acid, ion(1-)" RELATED [ChemIDplus] synonym: "Karbamat" RELATED [ChEBI] xref: Beilstein:3903503 "Beilstein" xref: CAS:302-11-4 "ChemIDplus" xref: Gmelin:239604 "Gmelin" is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:28616 ! carbamic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3NO2/c2-1(3)4/h2H2,(H,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KXDHJXZQYSOELW-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "60.03212" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "60.00910" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC([O-])=O" xsd:string [Term] id: CHEBI:140601 name: fatty acid 4:0 namespace: chebi_ontology def: "Any saturated fatty acid containing 4 carbons." [] subset: 3_STAR is_a: CHEBI:26666 ! short-chain fatty acid relationship: is_conjugate_acid_of CHEBI:78115 ! fatty acid anion 4:0 property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.017" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(O)=O" xsd:string [Term] id: CHEBI:142355 name: purines D-ribonucleoside namespace: chebi_ontology def: "A purine ribonucleoside that is a purine derivative attached to a beta-D-ribofuranosyl residue at position 9 via a glycosidic (N-glycosyl) linkage." [] subset: 3_STAR synonym: "a purine D-ribonucleoside" RELATED [UniProt] is_a: CHEBI:26399 ! purine ribonucleoside relationship: has_functional_parent CHEBI:26386 ! purine nucleobase relationship: has_functional_parent CHEBI:47013 ! D-ribofuranose property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H11N4O4R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "251.219" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "251.07803" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1(=*)NC(=NC2=C1N=CN2[C@@H]3O[C@H](CO)[C@@H](O)[C@H]3O)*" xsd:string [Term] id: CHEBI:142513 name: oxime anion namespace: chebi_ontology def: "A organic ion resulting from the deprotonation of the hydroxy group of any oxime." [] subset: 3_STAR synonym: "oximate" RELATED [ChEBI] synonym: "oximates" RELATED [ChEBI] synonym: "oxime anion" EXACT [ChEBI] synonym: "oxime anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion relationship: is_conjugate_base_of CHEBI:25750 ! oxime property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CNO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "42.017" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "41.99799" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C(*)(=N[O-])*" xsd:string [Term] id: CHEBI:15318 name: xanthine namespace: chebi_ontology def: "A purine nucleobase found in humans and other organisms." [] subset: 3_STAR xref: ECMDB:ECMDB00292 xref: KNApSAcK:C00019660 xref: PMID:24629268 "Europe PMC" xref: YMDB:YMDB00263 is_a: CHEBI:25810 ! oxopurine is_a: CHEBI:26386 ! purine nucleobase relationship: has_role CHEBI:78675 ! fundamental metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "152.111" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "152.03343" xsd:string [Term] id: CHEBI:15339 name: acceptor namespace: chebi_ontology alt_id: CHEBI:13699 alt_id: CHEBI:2377 def: "A molecular entity that can accept an electron, a pair of electrons, an atom or a group from another molecular entity." [] subset: 3_STAR synonym: "A" RELATED [KEGG_COMPOUND] synonym: "accepteur" RELATED [ChEBI] synonym: "Acceptor" EXACT [KEGG_COMPOUND] synonym: "Akzeptor" RELATED [ChEBI] synonym: "Hydrogen-acceptor" RELATED [KEGG_COMPOUND] synonym: "Oxidized donor" RELATED [KEGG_COMPOUND] xref: KEGG:C00028 xref: KEGG:C16722 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:15347 name: acetone namespace: chebi_ontology alt_id: CHEBI:13708 alt_id: CHEBI:22182 alt_id: CHEBI:2398 alt_id: CHEBI:40571 def: "A methyl ketone that consists of propane bearing an oxo group at C2." [] subset: 3_STAR synonym: "2-Propanone" RELATED [KEGG_COMPOUND] synonym: "Aceton" RELATED [ChemIDplus] synonym: "ACETONE" EXACT [PDBeChem] synonym: "Acetone" EXACT [KEGG_COMPOUND] synonym: "acetone" EXACT [ChEBI] synonym: "acetone" EXACT [UniProt] synonym: "Azeton" RELATED [ChEBI] synonym: "beta-Ketopropane" RELATED [HMDB] synonym: "Dimethyl ketone" RELATED [KEGG_COMPOUND] synonym: "dimethylcetone" RELATED [ChEBI] synonym: "Dimethylketon" RELATED [ChEBI] synonym: "dimethylketone" RELATED [MetaCyc] synonym: "methyl ketone" RELATED [ChemIDplus] synonym: "propan-2-one" EXACT IUPAC_NAME [IUPAC] synonym: "Propanon" RELATED [ChEBI] synonym: "propanone" RELATED [ChemIDplus] synonym: "Pyroacetic ether" RELATED [HMDB] xref: Beilstein:635680 "Beilstein" xref: CAS:67-64-1 "KEGG COMPOUND" xref: Gmelin:1466 "Gmelin" xref: HMDB:HMDB0001659 xref: KEGG:C00207 xref: KEGG:D02311 xref: LIPID_MAPS_instance:LMFA12000057 "LIPID MAPS" xref: MetaCyc:ACETONE xref: PDBeChem:ACN xref: PMID:17190852 "Europe PMC" xref: PMID:17347819 "Europe PMC" xref: Reaxys:635680 "Reaxys" xref: UM-BBD_compID:c0556 "UM-BBD" xref: Wikipedia:Acetone is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:26292 ! propanones is_a: CHEBI:51867 ! methyl ketone is_a: CHEBI:73693 ! ketone body relationship: has_role CHEBI:48358 ! polar aprotic solvent relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:77941 ! EC 3.5.1.4 (amidase) inhibitor property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H6O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H6O/c1-3(2)4/h1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CSCPPACGZOOCGX-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "58.07914" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "58.04186" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(C)=O" xsd:string [Term] id: CHEBI:15355 name: acetylcholine namespace: chebi_ontology alt_id: CHEBI:12686 alt_id: CHEBI:13715 alt_id: CHEBI:22197 alt_id: CHEBI:2416 alt_id: CHEBI:40559 def: "Actylcholine is an ester of acetic acid and choline, which acts as a neurotransmitter." [] subset: 3_STAR synonym: "2-acetyloxy-N,N,N-trimethylethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "ACETYLCHOLINE" EXACT [PDBeChem] synonym: "Acetylcholine" EXACT [KEGG_COMPOUND] synonym: "acetylcholine" EXACT [UniProt] synonym: "ACh" RELATED [ChemIDplus] synonym: "Azetylcholin" RELATED [ChEBI] synonym: "choline acetate" RELATED [ChemIDplus] synonym: "O-Acetylcholine" RELATED [KEGG_COMPOUND] xref: Beilstein:1764436 "ChemIDplus" xref: CAS:51-84-3 "ChemIDplus" xref: Drug_Central:65 "DrugCentral" xref: DrugBank:DB03128 xref: Gmelin:326108 "Gmelin" xref: KEGG:C01996 xref: LINCS:LSM-5888 xref: PDBeChem:ACH xref: PMID:14764638 "Europe PMC" xref: PMID:15014918 "Europe PMC" xref: PMID:15231705 "Europe PMC" xref: PMID:15361288 "Europe PMC" xref: PMID:18050502 "Europe PMC" xref: PMID:18407448 "Europe PMC" xref: PMID:19255787 "Europe PMC" xref: PMID:20963497 "Europe PMC" xref: PMID:21130809 "Europe PMC" xref: PMID:21246223 "Europe PMC" xref: PMID:21545631 "Europe PMC" xref: PMID:21601579 "Europe PMC" xref: Wikipedia:Acetylcholine is_a: CHEBI:35287 ! acylcholine is_a: CHEBI:47622 ! acetate ester relationship: has_role CHEBI:24621 ! hormone relationship: has_role CHEBI:25512 ! neurotransmitter relationship: has_role CHEBI:35620 ! vasodilator agent relationship: has_role CHEBI:38325 ! muscarinic agonist relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77746 ! human metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C7H16NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C7H16NO2/c1-7(9)10-6-5-8(2,3)4/h5-6H2,1-4H3/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OIPILFWXSMYKGL-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "146.20748" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "146.11756" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(=O)OCC[N+](C)(C)C" xsd:string [Term] id: CHEBI:15366 name: acetic acid namespace: chebi_ontology alt_id: CHEBI:22169 alt_id: CHEBI:2387 alt_id: CHEBI:40486 def: "A simple monocarboxylic acid containing two carbons." [] subset: 3_STAR synonym: "ACETIC ACID" EXACT [PDBeChem] synonym: "Acetic acid" EXACT [KEGG_COMPOUND] synonym: "acetic acid" EXACT IUPAC_NAME [IUPAC] synonym: "acide acetique" RELATED [ChemIDplus] synonym: "AcOH" RELATED [ChEBI] synonym: "CH3-COOH" RELATED [IUPAC] synonym: "CH3CO2H" RELATED [ChEBI] synonym: "E 260" RELATED [ChEBI] synonym: "E-260" RELATED [ChEBI] synonym: "E260" RELATED [ChEBI] synonym: "Essigsaeure" RELATED [ChEBI] synonym: "Ethanoic acid" RELATED [KEGG_COMPOUND] synonym: "ethoic acid" RELATED [ChEBI] synonym: "Ethylic acid" RELATED [ChemIDplus] synonym: "HOAc" RELATED [ChEBI] synonym: "INS No. 260" RELATED [ChEBI] synonym: "MeCO2H" RELATED [ChEBI] synonym: "MeCOOH" RELATED [ChEBI] synonym: "Methanecarboxylic acid" RELATED [ChemIDplus] xref: Beilstein:506007 "Beilstein" xref: CAS:64-19-7 "KEGG COMPOUND" xref: Drug_Central:4211 "DrugCentral" xref: Gmelin:1380 "Gmelin" xref: HMDB:HMDB0000042 xref: KEGG:C00033 xref: KEGG:D00010 xref: KNApSAcK:C00001176 xref: LIPID_MAPS_instance:LMFA01010002 "LIPID MAPS" xref: MetaCyc:ACET xref: PDBeChem:ACT xref: PDBeChem:ACY xref: PMID:12005138 "Europe PMC" xref: PMID:15107950 "Europe PMC" xref: PMID:16630552 "Europe PMC" xref: PMID:16774200 "Europe PMC" xref: PMID:17190852 "Europe PMC" xref: PMID:19416101 "Europe PMC" xref: PMID:19469536 "Europe PMC" xref: PMID:22153255 "Europe PMC" xref: PMID:22173419 "Europe PMC" xref: PPDB:1333 xref: Reaxys:506007 "Reaxys" xref: Wikipedia:Acetic_acid is_a: CHEBI:25384 ! monocarboxylic acid relationship: has_role CHEBI:48356 ! protic solvent relationship: has_role CHEBI:64049 ! food acidity regulator relationship: has_role CHEBI:65256 ! antimicrobial food preservative relationship: has_role CHEBI:83056 ! Daphnia magna metabolite relationship: is_conjugate_acid_of CHEBI:30089 ! acetate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4O2/c1-2(3)4/h1H3,(H,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QTBSBXVTEAMEQO-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "60.05200" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "60.02113" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(O)=O" xsd:string [Term] id: CHEBI:15422 name: ATP namespace: chebi_ontology alt_id: CHEBI:10789 alt_id: CHEBI:10841 alt_id: CHEBI:13236 alt_id: CHEBI:22249 alt_id: CHEBI:2359 alt_id: CHEBI:40938 def: "An adenosine 5'-phosphate in which the 5'-phosphate is a triphosphate group. It is involved in the transportation of chemical energy during metabolic pathways." [] subset: 3_STAR synonym: "adenosine 5'-(tetrahydrogen triphosphate)" EXACT IUPAC_NAME [IUPAC] synonym: "Adenosine 5'-triphosphate" RELATED [KEGG_COMPOUND] synonym: "Adenosine triphosphate" RELATED [ChemIDplus] synonym: "ADENOSINE-5'-TRIPHOSPHATE" RELATED [PDBeChem] synonym: "ATP" EXACT [KEGG_COMPOUND] synonym: "H4atp" RELATED [IUPAC] xref: Beilstein:73010 "Beilstein" xref: CAS:56-65-5 "KEGG COMPOUND" xref: Drug_Central:91 "DrugCentral" xref: DrugBank:DB00171 xref: Gmelin:34857 "Gmelin" xref: HMDB:HMDB0000538 xref: KEGG:C00002 xref: KEGG:D08646 xref: KNApSAcK:C00001491 xref: Patent:US3079379 xref: PDBeChem:ATP xref: Reaxys:73010 "Reaxys" xref: Wikipedia:Adenosine_triphosphate is_a: CHEBI:37045 ! purine ribonucleoside 5'-triphosphate is_a: CHEBI:37096 ! adenosine 5'-phosphate relationship: has_role CHEBI:27027 ! micronutrient relationship: has_role CHEBI:50733 ! nutraceutical relationship: has_role CHEBI:78675 ! fundamental metabolite relationship: is_conjugate_acid_of CHEBI:57299 ! ATP(3-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H16N5O13P3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZKHQWZAMYRWXGA-KQYNXXCUSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "507.18100" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "506.99575" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@H](COP(O)(=O)OP(O)(=O)OP(O)(O)=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:15693 name: aldose namespace: chebi_ontology alt_id: CHEBI:13755 alt_id: CHEBI:22305 alt_id: CHEBI:2561 def: "Aldehydic parent sugars (polyhydroxy aldehydes H[CH(OH)]nC(=O)H, n >= 2) and their intramolecular hemiacetals." [] subset: 3_STAR synonym: "Aldose" EXACT [KEGG_COMPOUND] synonym: "aldoses" RELATED [ChEBI] synonym: "an aldose" RELATED [UniProt] xref: KEGG:C01370 xref: Wikipedia:Aldose is_a: CHEBI:35381 ! monosaccharide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4O2(CH2O)n" xsd:string [Term] id: CHEBI:15734 name: primary alcohol namespace: chebi_ontology alt_id: CHEBI:13676 alt_id: CHEBI:14887 alt_id: CHEBI:26262 alt_id: CHEBI:57489 alt_id: CHEBI:8406 def: "A primary alcohol is a compound in which a hydroxy group, -OH, is attached to a saturated carbon atom which has either three hydrogen atoms attached to it or only one other carbon atom and two hydrogen atoms attached to it." [] subset: 3_STAR synonym: "1-Alcohol" RELATED [KEGG_COMPOUND] synonym: "a primary alcohol" RELATED [UniProt] synonym: "Primary alcohol" EXACT [KEGG_COMPOUND] synonym: "primary alcohols" RELATED [ChEBI] xref: KEGG:C00226 is_a: CHEBI:30879 ! alcohol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3OR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.034" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.01839" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(O)([H])[H]" xsd:string [Term] id: CHEBI:15740 name: formate namespace: chebi_ontology alt_id: CHEBI:14276 alt_id: CHEBI:24081 def: "A monocarboxylic acid anion that is the conjugate base of formic acid. Induces severe metabolic acidosis and ocular injury in human subjects." [] subset: 3_STAR synonym: "aminate" RELATED [ChEBI] synonym: "formate" EXACT IUPAC_NAME [IUPAC] synonym: "formate" EXACT [UniProt] synonym: "formiate" RELATED [ChEBI] synonym: "formic acid, ion(1-)" RELATED [ChemIDplus] synonym: "formylate" RELATED [ChEBI] synonym: "HCO2 anion" RELATED [NIST_Chemistry_WebBook] synonym: "hydrogen carboxylate" RELATED [ChEBI] synonym: "methanoate" RELATED [ChEBI] xref: Beilstein:1901205 "Beilstein" xref: CAS:71-47-6 "NIST Chemistry WebBook" xref: Gmelin:1006 "Gmelin" xref: HMDB:HMDB0000142 xref: KEGG:C00058 xref: MetaCyc:FORMATE xref: PMID:17190852 "Europe PMC" xref: PMID:3946945 "Europe PMC" xref: Reaxys:1901205 "Reaxys" xref: UM-BBD_compID:c0106 "UM-BBD" xref: Wikipedia:Formate is_a: CHEBI:35757 ! monocarboxylic acid anion relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:30751 ! formic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH2O2/c2-1-3/h1H,(H,2,3)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BDAGIHXWWSANSR-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01744" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99820" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([O-])=O" xsd:string [Term] id: CHEBI:15837 name: isoamylol namespace: chebi_ontology alt_id: CHEBI:11855 alt_id: CHEBI:1597 alt_id: CHEBI:20125 alt_id: CHEBI:43359 def: "An primary alcohol that is butan-1-ol in which a hydrogen at position 3 has been replaced by a methyl group." [] subset: 3_STAR synonym: "1-HYDROXY-3-METHYLBUTANE" RELATED [PDBeChem] synonym: "2-methyl-4-butanol" RELATED [ChemIDplus] synonym: "3-methyl-1-butanol" RELATED [NIST_Chemistry_WebBook] synonym: "3-methylbutan-1-ol" EXACT IUPAC_NAME [IUPAC] synonym: "3-Methylbutanol" RELATED [KEGG_COMPOUND] synonym: "3-methylbutanol" RELATED [UniProt] synonym: "alcool isoamylique" RELATED [ChemIDplus] synonym: "i-amyl alcohol" RELATED [NIST_Chemistry_WebBook] synonym: "Iso-amylalkohol" RELATED [ChemIDplus] synonym: "Isoamyl alcohol" RELATED [KEGG_COMPOUND] synonym: "isoamylol" EXACT [ChemIDplus] synonym: "isobutylcarbinol" RELATED [ChemIDplus] synonym: "isopentan-1-ol" RELATED [NIST_Chemistry_WebBook] synonym: "isopentanol" RELATED [ChemIDplus] synonym: "Isopentyl alcohol" RELATED [KEGG_COMPOUND] synonym: "Isopentylalkohol" RELATED [ChEBI] synonym: "primary isoamyl alcohol" RELATED [ChemIDplus] xref: Beilstein:1718835 "Beilstein" xref: CAS:123-51-3 "KEGG COMPOUND" xref: DrugBank:DB02296 xref: Gmelin:49460 "Gmelin" xref: HMDB:HMDB0006007 xref: KEGG:C07328 xref: PDBeChem:IP3 xref: PMID:23043843 "Europe PMC" xref: PMID:23698045 "Europe PMC" xref: PMID:24487533 "Europe PMC" xref: PMID:24767042 "Europe PMC" xref: PMID:24804072 "Europe PMC" xref: PMID:24862930 "Europe PMC" xref: Reaxys:1718835 "Reaxys" xref: YMDB:YMDB00570 is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:15734 ! primary alcohol is_a: CHEBI:50584 ! alkyl alcohol relationship: has_parent_hydride CHEBI:30362 ! isopentane relationship: has_role CHEBI:35718 ! antifungal agent relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76206 ! xenobiotic metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H12O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H12O/c1-5(2)3-4-6/h5-6H,3-4H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "PHTQWCKDNZKARW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "88.14818" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "88.08882" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(C)CCO" xsd:string [Term] id: CHEBI:15854 name: quinine namespace: chebi_ontology alt_id: CHEBI:127176 alt_id: CHEBI:15001 alt_id: CHEBI:26499 alt_id: CHEBI:355947 alt_id: CHEBI:569215 alt_id: CHEBI:602929 alt_id: CHEBI:8723 def: "A cinchona alkaloid that is cinchonidine in which the hydrogen at the 6-position of the quinoline ring is substituted by methoxy." [] subset: 3_STAR synonym: "(-)-Quinine" RELATED [KEGG_COMPOUND] synonym: "(-)-quinine" RELATED [ChemIDplus] synonym: "(8S,9R)-quinine" RELATED [NIST_Chemistry_WebBook] synonym: "(9R)-6'-methoxy-8alpha-cinchonan-9-ol" EXACT IUPAC_NAME [IUPAC] synonym: "(R)-(-)-quinine" RELATED [ChEBI] synonym: "(R)-(6-methoxyquinolin-4-yl)((2S,4S,8R)-8-vinylquinuclidin-2-yl)methanol" RELATED [ChEBI] synonym: "6'-methoxycinchonidine" RELATED [ChEBI] synonym: "Chinin" RELATED [ChemIDplus] synonym: "chinine" RELATED [ChEBI] synonym: "chininum" RELATED [ChEBI] synonym: "quinina" RELATED [ChEBI] synonym: "Quinine" EXACT [KEGG_COMPOUND] synonym: "quinine" EXACT [ChEMBL] xref: Beilstein:91867 "Beilstein" xref: CAS:130-95-0 "KEGG COMPOUND" xref: Drug_Central:4523 "DrugCentral" xref: DrugBank:DB00468 xref: KEGG:C06526 xref: KEGG:D08460 xref: KNApSAcK:C00002193 xref: PMID:10821711 "ChEMBL" xref: PMID:10891117 "ChEMBL" xref: PMID:10937718 "ChEMBL" xref: PMID:11212126 "ChEMBL" xref: PMID:11549443 "ChEMBL" xref: PMID:11728183 "ChEMBL" xref: PMID:11844668 "ChEMBL" xref: PMID:11855978 "ChEMBL" xref: PMID:12127529 "ChEMBL" xref: PMID:12213073 "ChEMBL" xref: PMID:12217353 "ChEMBL" xref: PMID:12477351 "ChEMBL" xref: PMID:12502361 "ChEMBL" xref: PMID:12798326 "ChEMBL" xref: PMID:12873511 "ChEMBL" xref: PMID:14761192 "Europe PMC" xref: PMID:15026051 "ChEMBL" xref: PMID:15027870 "ChEMBL" xref: PMID:15225721 "ChEMBL" xref: PMID:15857133 "ChEMBL" xref: PMID:16524728 "ChEMBL" xref: PMID:16933872 "ChEMBL" xref: PMID:17482816 "ChEMBL" xref: PMID:17506538 "ChEMBL" xref: PMID:17570664 "ChEMBL" xref: PMID:17850126 "ChEMBL" xref: PMID:18348514 "ChEMBL" xref: PMID:18788725 "ChEMBL" xref: PMID:2579237 "ChEMBL" xref: PMID:2657065 "ChEMBL" xref: PMID:7009867 "ChEMBL" xref: PMID:8182707 "ChEMBL" xref: Wikipedia:Quinine is_a: CHEBI:51323 ! cinchona alkaloid relationship: has_parent_hydride CHEBI:59138 ! (8S)-cinchonan relationship: has_role CHEBI:35481 ! non-narcotic analgesic relationship: has_role CHEBI:38068 ! antimalarial relationship: has_role CHEBI:51371 ! muscle relaxant relationship: is_conjugate_base_of CHEBI:137041 ! quinine(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C20H24N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C20H24N2O2/c1-3-13-12-22-9-7-14(13)10-19(22)20(23)16-6-8-21-18-5-4-15(24-2)11-17(16)18/h3-6,8,11,13-14,19-20,23H,1,7,9-10,12H2,2H3/t13-,14-,19-,20+/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LOUPRKONTZGTKE-WZBLMQSHSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "324.41680" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "324.18378" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@H]2CC[N@]1C[C@@H]2C=C)[C@H](O)c1ccnc2ccc(OC)cc12" xsd:string [Term] id: CHEBI:15858 name: bromide namespace: chebi_ontology alt_id: CHEBI:13918 alt_id: CHEBI:3178 alt_id: CHEBI:49515 subset: 3_STAR synonym: "Br(-)" RELATED [IUPAC] synonym: "Br-" RELATED [KEGG_COMPOUND] synonym: "Bromide" EXACT [KEGG_COMPOUND] synonym: "bromide" EXACT [UniProt] synonym: "bromide" EXACT IUPAC_NAME [IUPAC] synonym: "BROMIDE ION" RELATED [PDBeChem] synonym: "bromide(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "bromine anion" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:3587179 "Beilstein" xref: CAS:24959-67-9 "KEGG COMPOUND" xref: Gmelin:14908 "Gmelin" xref: KEGG:C00720 xref: KEGG:C01324 xref: PDBeChem:BR is_a: CHEBI:16042 ! halide anion is_a: CHEBI:36896 ! monoatomic bromine relationship: is_conjugate_base_of CHEBI:47266 ! hydrogen bromide property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Br" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/BrH/h1H/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CPELXLSAUQHCOX-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "79.90400" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "78.91889" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Br-]" xsd:string [Term] id: CHEBI:15986 name: polynucleotide namespace: chebi_ontology alt_id: CHEBI:13672 alt_id: CHEBI:14859 alt_id: CHEBI:8312 def: "A nucleobase-containing molecular entity with a polymeric structure comprised of a linear sequence of 13 or more nucleotide residues." [] subset: 3_STAR synonym: "Polynucleotide" EXACT [KEGG_COMPOUND] synonym: "polynucleotides" RELATED [ChEBI] xref: KEGG:C00419 is_a: CHEBI:33695 ! information biomacromolecule is_a: CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_part CHEBI:50319 ! nucleotide residue property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C5H8O6PR)n.C10H17O10PR2" xsd:string [Term] id: CHEBI:16042 name: halide anion namespace: chebi_ontology alt_id: CHEBI:14384 alt_id: CHEBI:5605 def: "A monoatomic monoanion resulting from the addition of an electron to any halogen atom." [] subset: 3_STAR synonym: "a halide anion" RELATED [UniProt] synonym: "Halide" RELATED [KEGG_COMPOUND] synonym: "halide anions" RELATED [ChEBI] synonym: "halide ions" EXACT IUPAC_NAME [IUPAC] synonym: "halide(1-)" RELATED [ChEBI] synonym: "halides" RELATED [ChEBI] synonym: "halogen anion" RELATED [ChEBI] synonym: "HX" RELATED [KEGG_COMPOUND] xref: KEGG:C00462 is_a: CHEBI:33429 ! monoatomic monoanion is_a: CHEBI:79389 ! monovalent inorganic anion property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "X" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "0.0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*-]" xsd:string [Term] id: CHEBI:16133 name: cyclopentanol namespace: chebi_ontology alt_id: CHEBI:14057 alt_id: CHEBI:23494 alt_id: CHEBI:4022 def: "The simplest member of the class of cyclopentanols bearing a single hydroxy substituent. The parent of the class of cyclopentanols." [] subset: 3_STAR synonym: "Cyclopentanol" EXACT [KEGG_COMPOUND] synonym: "cyclopentanol" EXACT IUPAC_NAME [IUPAC] synonym: "cyclopentanol" EXACT [UniProt] synonym: "Cyclopentyl alcohol" RELATED [KEGG_COMPOUND] synonym: "Hydroxycyclopentane" RELATED [ChemIDplus] xref: CAS:96-41-3 "ChemIDplus" xref: KEGG:C02020 xref: MetaCyc:CYCLOPENTANOL xref: PMID:22145629 "Europe PMC" xref: PMID:24273356 "Europe PMC" xref: Reaxys:1900556 "Reaxys" xref: Wikipedia:Cyclopentanol is_a: CHEBI:23495 ! cyclopentanols property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H10O/c6-5-3-1-2-4-5/h5-6H,1-4H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XCIXKGXIYUWCLL-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "86.13230" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "86.07316" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC1CCCC1" xsd:string [Term] id: CHEBI:16134 name: ammonia namespace: chebi_ontology alt_id: CHEBI:13405 alt_id: CHEBI:13406 alt_id: CHEBI:13407 alt_id: CHEBI:13771 alt_id: CHEBI:22533 alt_id: CHEBI:44269 alt_id: CHEBI:44284 alt_id: CHEBI:44404 alt_id: CHEBI:7434 def: "An azane that consists of a single nitrogen atom covelently bonded to three hydrogen atoms." [] subset: 3_STAR synonym: "[NH3]" RELATED [MolBase] synonym: "AMMONIA" EXACT [PDBeChem] synonym: "Ammonia" EXACT [KEGG_COMPOUND] synonym: "ammonia" EXACT IUPAC_NAME [IUPAC] synonym: "ammoniac" RELATED [ChEBI] synonym: "Ammoniak" RELATED [ChemIDplus] synonym: "amoniaco" RELATED [ChEBI] synonym: "azane" EXACT IUPAC_NAME [IUPAC] synonym: "NH3" RELATED [KEGG_COMPOUND] synonym: "NH3" RELATED [UniProt] synonym: "NH3" RELATED [IUPAC] synonym: "R-717" RELATED [ChEBI] synonym: "spirit of hartshorn" RELATED [ChemIDplus] xref: Beilstein:3587154 "Beilstein" xref: CAS:7664-41-7 "ChemIDplus" xref: Drug_Central:4625 "DrugCentral" xref: Gmelin:79 "Gmelin" xref: HMDB:HMDB0000051 xref: KEGG:C00014 xref: KEGG:D02916 xref: KNApSAcK:C00007267 xref: MetaCyc:AMMONIA xref: MolBase:930 xref: PDBeChem:NH3 xref: PMID:110589 "Europe PMC" xref: PMID:11139349 "Europe PMC" xref: PMID:11540049 "Europe PMC" xref: PMID:11746427 "Europe PMC" xref: PMID:11783653 "Europe PMC" xref: PMID:13753780 "Europe PMC" xref: PMID:14663195 "Europe PMC" xref: PMID:15092448 "Europe PMC" xref: PMID:15094021 "Europe PMC" xref: PMID:15554424 "Europe PMC" xref: PMID:15969015 "Europe PMC" xref: PMID:16008360 "Europe PMC" xref: PMID:16050680 "Europe PMC" xref: PMID:16348008 "Europe PMC" xref: PMID:16349403 "Europe PMC" xref: PMID:16614889 "Europe PMC" xref: PMID:16664306 "Europe PMC" xref: PMID:16842901 "Europe PMC" xref: PMID:17025297 "Europe PMC" xref: PMID:17439666 "Europe PMC" xref: PMID:17569513 "Europe PMC" xref: PMID:17737668 "Europe PMC" xref: PMID:18670398 "Europe PMC" xref: PMID:22002069 "Europe PMC" xref: PMID:22081570 "Europe PMC" xref: PMID:22088435 "Europe PMC" xref: PMID:22100291 "Europe PMC" xref: PMID:22130175 "Europe PMC" xref: PMID:22150211 "Europe PMC" xref: PMID:22240068 "Europe PMC" xref: PMID:22290316 "Europe PMC" xref: PMID:22342082 "Europe PMC" xref: PMID:22385337 "Europe PMC" xref: PMID:22443779 "Europe PMC" xref: PMID:22560242 "Europe PMC" xref: Reaxys:3587154 "Reaxys" xref: Wikipedia:Ammonia is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:35107 ! azane is_a: CHEBI:37176 ! mononuclear parent hydride relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:59740 ! nucleophilic reagent relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77941 ! EC 3.5.1.4 (amidase) inhibitor relationship: has_role CHEBI:78433 ! refrigerant relationship: is_conjugate_acid_of CHEBI:29337 ! azanide relationship: is_conjugate_base_of CHEBI:28938 ! ammonium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3N/h1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QGZKDVFQNNGYKY-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.03056" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.02655" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]N([H])[H]" xsd:string [Term] id: CHEBI:16183 name: methane namespace: chebi_ontology alt_id: CHEBI:14585 alt_id: CHEBI:25220 alt_id: CHEBI:6811 def: "A one-carbon compound in which the carbon is attached by single bonds to four hydrogen atoms. It is a colourless, odourless, non-toxic but flammable gas (b.p. -161degreeC)." [] subset: 3_STAR synonym: "CH4" RELATED [IUPAC] synonym: "marsh gas" RELATED [NIST_Chemistry_WebBook] synonym: "metano" RELATED [ChEBI] synonym: "Methan" RELATED [ChEBI] synonym: "Methane" EXACT [KEGG_COMPOUND] synonym: "methane" EXACT IUPAC_NAME [IUPAC] synonym: "methane" EXACT [UniProt] synonym: "methane" EXACT [ChEBI] synonym: "methyl hydride" RELATED [ChemIDplus] synonym: "tetrahydridocarbon" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1718732 "ChemIDplus" xref: CAS:74-82-8 "KEGG COMPOUND" xref: Gmelin:59 "Gmelin" xref: HMDB:HMDB0002714 xref: KEGG:C01438 xref: MetaCyc:CH4 xref: Patent:FR994032 xref: Patent:US2583090 xref: PDBeChem:CH3 xref: PMID:17791569 "Europe PMC" xref: PMID:23104415 "Europe PMC" xref: PMID:23353606 "Europe PMC" xref: PMID:23376302 "Europe PMC" xref: PMID:23397538 "Europe PMC" xref: PMID:23718889 "Europe PMC" xref: PMID:23739479 "Europe PMC" xref: PMID:23742231 "Europe PMC" xref: PMID:23756351 "Europe PMC" xref: PMID:24132456 "Europe PMC" xref: PMID:24161402 "Europe PMC" xref: PMID:24259373 "Europe PMC" xref: Reaxys:1718732 "Reaxys" xref: UM-BBD_compID:c0095 "UM-BBD" xref: Wikipedia:Methane is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:18310 ! alkane is_a: CHEBI:37176 ! mononuclear parent hydride is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:35230 ! fossil fuel relationship: has_role CHEBI:76413 ! greenhouse gas relationship: has_role CHEBI:76969 ! bacterial metabolite relationship: is_conjugate_acid_of CHEBI:29438 ! methanide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH4/h1H4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VNWKTOKETHGBQD-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "16.04246" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "16.03130" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([H])([H])[H]" xsd:string [Term] id: CHEBI:16236 name: ethanol namespace: chebi_ontology alt_id: CHEBI:14222 alt_id: CHEBI:23978 alt_id: CHEBI:30878 alt_id: CHEBI:30880 alt_id: CHEBI:42377 alt_id: CHEBI:44594 alt_id: CHEBI:4879 def: "A primary alcohol that is ethane in which one of the hydrogens is substituted by a hydroxy group." [] subset: 3_STAR synonym: "1-hydroxyethane" RELATED [ChemIDplus] synonym: "[CH2Me(OH)]" RELATED [MolBase] synonym: "[OEtH]" RELATED [MolBase] synonym: "Aethanol" RELATED [ChemIDplus] synonym: "Aethylalkohol" RELATED [ChemIDplus] synonym: "alcohol" RELATED [NIST_Chemistry_WebBook] synonym: "alcohol etilico" RELATED [ChEBI] synonym: "alcool ethylique" RELATED [ChemIDplus] synonym: "Alkohol" RELATED [ChemIDplus] synonym: "C2H5OH" RELATED [ChEBI] synonym: "Dehydrated ethanol" RELATED BRAND_NAME [KEGG_DRUG] synonym: "etanol" RELATED [ChEBI] synonym: "ETHANOL" EXACT [PDBeChem] synonym: "Ethanol" EXACT [KEGG_COMPOUND] synonym: "ethanol" EXACT IUPAC_NAME [IUPAC] synonym: "ethanol" EXACT [UniProt] synonym: "ethanol" EXACT [ChEBI] synonym: "Ethyl alcohol" RELATED [KEGG_COMPOUND] synonym: "EtOH" RELATED [ChemIDplus] synonym: "hydroxyethane" RELATED [ChemIDplus] synonym: "Methylcarbinol" RELATED [KEGG_COMPOUND] synonym: "spiritus vini" RELATED [ChEBI] xref: Beilstein:1718733 "Beilstein" xref: CAS:64-17-5 "NIST Chemistry WebBook" xref: Drug_Central:1076 "DrugCentral" xref: DrugBank:DB00898 xref: Gmelin:787 "Gmelin" xref: HMDB:HMDB0000108 xref: KEGG:C00469 xref: KEGG:D00068 xref: KEGG:D06542 xref: KNApSAcK:C00019560 xref: MetaCyc:ETOH xref: MolBase:858 xref: MolBase:859 xref: PDBeChem:EOH xref: PDBeChem:OHE xref: PMID:11046114 "Europe PMC" xref: PMID:11090978 "Europe PMC" xref: PMID:11198720 "Europe PMC" xref: PMID:11200745 "Europe PMC" xref: PMID:11262320 "Europe PMC" xref: PMID:11303910 "Europe PMC" xref: PMID:11333032 "Europe PMC" xref: PMID:11505026 "Europe PMC" xref: PMID:11590970 "Europe PMC" xref: PMID:11728426 "Europe PMC" xref: PMID:11750186 "Europe PMC" xref: PMID:11754521 "Europe PMC" xref: PMID:11810019 "Europe PMC" xref: PMID:11826039 "Europe PMC" xref: PMID:11981228 "Europe PMC" xref: PMID:12824058 "Europe PMC" xref: PMID:12829422 "Europe PMC" xref: PMID:12888778 "Europe PMC" xref: PMID:12946583 "Europe PMC" xref: PMID:14674846 "Europe PMC" xref: PMID:15019421 "Europe PMC" xref: PMID:15239123 "Europe PMC" xref: PMID:15285839 "Europe PMC" xref: PMID:15464411 "Europe PMC" xref: PMID:15465973 "Europe PMC" xref: PMID:15749123 "Europe PMC" xref: PMID:15900217 "Europe PMC" xref: PMID:15902919 "Europe PMC" xref: PMID:16084479 "Europe PMC" xref: PMID:16133132 "Europe PMC" xref: PMID:16352430 "Europe PMC" xref: PMID:16390872 "Europe PMC" xref: PMID:16737463 "Europe PMC" xref: PMID:16891664 "Europe PMC" xref: PMID:16934862 "Europe PMC" xref: PMID:17043811 "Europe PMC" xref: PMID:17190852 "Europe PMC" xref: PMID:17663926 "Europe PMC" xref: PMID:17687877 "Europe PMC" xref: PMID:18095657 "Europe PMC" xref: PMID:18249266 "Europe PMC" xref: PMID:18320157 "Europe PMC" xref: PMID:18347649 "Europe PMC" xref: PMID:18408978 "Europe PMC" xref: PMID:18411066 "Europe PMC" xref: PMID:18456322 "Europe PMC" xref: PMID:18513832 "Europe PMC" xref: PMID:18922656 "Europe PMC" xref: PMID:18925476 "Europe PMC" xref: PMID:19280886 "Europe PMC" xref: PMID:19359288 "Europe PMC" xref: PMID:19384566 "Europe PMC" xref: PMID:19458312 "Europe PMC" xref: PMID:19851413 "Europe PMC" xref: PMID:19901811 "Europe PMC" xref: PMID:21600756 "Europe PMC" xref: PMID:21762181 "Europe PMC" xref: PMID:21881875 "Europe PMC" xref: PMID:21967628 "Europe PMC" xref: PMID:22019193 "Europe PMC" xref: PMID:22222864 "Europe PMC" xref: PMID:22261437 "Europe PMC" xref: PMID:22286266 "Europe PMC" xref: PMID:22306018 "Europe PMC" xref: PMID:22331491 "Europe PMC" xref: PMID:22336593 "Europe PMC" xref: PPDB:1373 xref: Reaxys:1718733 "Reaxys" xref: UM-BBD_compID:c0038 "UM-BBD" xref: Wikipedia:Ethanol is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:23982 ! ethanols is_a: CHEBI:50584 ! alkyl alcohol relationship: has_role CHEBI:35488 ! central nervous system depressant relationship: has_role CHEBI:48218 ! antiseptic drug relationship: has_role CHEBI:48219 ! disinfectant relationship: has_role CHEBI:48354 ! polar solvent relationship: has_role CHEBI:50905 ! teratogenic agent relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:60643 ! NMDA receptor antagonist relationship: has_role CHEBI:64018 ! protein kinase C agonist relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:52092 ! ethoxide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H6O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H6O/c1-2-3/h3H,2H2,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LFQSCWFLJHTTHZ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "46.06844" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "46.04186" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCO" xsd:string [Term] id: CHEBI:16335 name: adenosine namespace: chebi_ontology alt_id: CHEBI:13734 alt_id: CHEBI:22237 alt_id: CHEBI:2472 alt_id: CHEBI:40558 alt_id: CHEBI:40825 alt_id: CHEBI:40906 def: "A ribonucleoside composed of a molecule of adenine attached to a ribofuranose moiety via a beta-N(9)-glycosidic bond." [] subset: 3_STAR synonym: "(2R,3R,4S,5R)-2-(6-aminopurin-9-yl)-5-(hydroxymethyl)oxolane-3,4-diol" RELATED [DrugBank] synonym: "6-Amino-9-beta-D-ribofuranosyl-9H-purine" RELATED [ChemIDplus] synonym: "9-beta-D-Ribofuranosidoadenine" RELATED [ChemIDplus] synonym: "9-beta-D-Ribofuranosyl-9H-purin-6-amine" RELATED [ChemIDplus] synonym: "9-beta-D-ribofuranosyl-9H-purin-6-amine" RELATED [ChEBI] synonym: "Ade-Rib" RELATED [CBN] synonym: "Adenine Deoxyribonucleoside" RELATED [DrugBank] synonym: "Adenocard" RELATED BRAND_NAME [DrugBank] synonym: "Adenocor" RELATED BRAND_NAME [DrugBank] synonym: "Adenoscan" RELATED BRAND_NAME [DrugBank] synonym: "Adenosin" RELATED [ChEBI] synonym: "ADENOSINE" EXACT [PDBeChem] synonym: "Adenosine" EXACT [KEGG_COMPOUND] synonym: "adenosine" EXACT IUPAC_NAME [IUPAC] synonym: "adenosine" EXACT [UniProt] synonym: "Adenyldeoxyriboside" RELATED [DrugBank] synonym: "Ado" RELATED [CBN] synonym: "beta-D-Adenosine" RELATED [ChemIDplus] synonym: "Deoxyadenosine" RELATED [DrugBank] synonym: "Desoxyadenosine" RELATED [DrugBank] xref: Beilstein:93029 "Beilstein" xref: CAS:58-61-7 "NIST Chemistry WebBook" xref: Drug_Central:90 "DrugCentral" xref: DrugBank:DB00640 xref: ECMDB:ECMDB00050 xref: Gmelin:53385 "Gmelin" xref: HMDB:HMDB0000050 xref: KEGG:C00212 xref: KEGG:D00045 xref: KNApSAcK:C00007444 xref: LINCS:LSM-28568 xref: MetaCyc:ADENOSINE xref: PDBeChem:ADN xref: PMID:11213237 "Europe PMC" xref: PMID:11820865 "Europe PMC" xref: PMID:11978011 "Europe PMC" xref: PMID:16183671 "Europe PMC" xref: PMID:16917093 "Europe PMC" xref: PMID:17190852 "Europe PMC" xref: PMID:18000974 "Europe PMC" xref: PMID:323854 "Europe PMC" xref: Reaxys:93029 "Reaxys" xref: Wikipedia:Adenosine xref: YMDB:YMDB00058 is_a: CHEBI:142355 ! purines D-ribonucleoside is_a: CHEBI:22260 ! adenosines relationship: has_role CHEBI:35480 ! analgesic relationship: has_role CHEBI:35620 ! vasodilator agent relationship: has_role CHEBI:38070 ! anti-arrhythmia drug relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:78675 ! fundamental metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N5O4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H13N5O4/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(18)6(17)4(1-16)19-10/h2-4,6-7,10,16-18H,1H2,(H2,11,12,13)/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OIRDTQYFTABQOQ-KQYNXXCUSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "267.24152" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "267.09675" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@H](CO)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:16382 name: iodide namespace: chebi_ontology alt_id: CHEBI:14460 alt_id: CHEBI:49698 alt_id: CHEBI:5946 subset: 3_STAR synonym: "I(-)" RELATED [IUPAC] synonym: "I-" RELATED [KEGG_COMPOUND] synonym: "Iodide" EXACT [KEGG_COMPOUND] synonym: "iodide" EXACT [UniProt] synonym: "iodide" EXACT IUPAC_NAME [IUPAC] synonym: "IODIDE ION" RELATED [PDBeChem] synonym: "iodide(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "iodine anion" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:3587184 "Beilstein" xref: CAS:20461-54-5 "NIST Chemistry WebBook" xref: Gmelin:14912 "Gmelin" xref: KEGG:C00708 xref: PDBeChem:IOD is_a: CHEBI:16042 ! halide anion is_a: CHEBI:36897 ! monoatomic iodine relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:43451 ! hydrogen iodide property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/HI/h1H/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XMBWDFGMSWQBCA-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "126.90447" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "126.90502" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[I-]" xsd:string [Term] id: CHEBI:16385 name: organic sulfide namespace: chebi_ontology alt_id: CHEBI:13694 alt_id: CHEBI:26960 alt_id: CHEBI:9340 def: "Compounds having the structure RSR (R =/= H). Such compounds were once called thioethers." [] subset: 3_STAR synonym: "organic sulfides" RELATED [ChEBI] synonym: "RSR" RELATED [IUPAC] synonym: "Sulfide" RELATED [KEGG_COMPOUND] synonym: "sulfides" EXACT IUPAC_NAME [IUPAC] synonym: "Thioether" RELATED [KEGG_COMPOUND] synonym: "thioethers" RELATED [IUPAC] xref: KEGG:C00297 is_a: CHEBI:26822 ! sulfide is_a: CHEBI:33261 ! organosulfur compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "SR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "32.066" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.97207" xsd:string [Term] id: CHEBI:16526 name: carbon dioxide namespace: chebi_ontology alt_id: CHEBI:13282 alt_id: CHEBI:13283 alt_id: CHEBI:13284 alt_id: CHEBI:13285 alt_id: CHEBI:23011 alt_id: CHEBI:3283 alt_id: CHEBI:48829 def: "A one-carbon compound with formula CO2 in which the carbon is attached to each oxygen atom by a double bond. A colourless, odourless gas under normal conditions, it is produced during respiration by all animals, fungi and microorganisms that depend directly or indirectly on living or decaying plants for food." [] subset: 3_STAR synonym: "[CO2]" RELATED [MolBase] synonym: "CARBON DIOXIDE" EXACT [PDBeChem] synonym: "Carbon dioxide" EXACT [KEGG_COMPOUND] synonym: "carbon dioxide" EXACT IUPAC_NAME [IUPAC] synonym: "carbonic anhydride" RELATED [UM-BBD] synonym: "CO2" RELATED [UniProt] synonym: "CO2" RELATED [KEGG_COMPOUND] synonym: "dioxidocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "E 290" RELATED [ChEBI] synonym: "E-290" RELATED [ChEBI] synonym: "E290" RELATED [ChEBI] synonym: "methanedione" EXACT IUPAC_NAME [IUPAC] synonym: "R-744" RELATED [ChEBI] xref: Beilstein:1900390 "Beilstein" xref: CAS:124-38-9 "KEGG COMPOUND" xref: Drug_Central:4256 "DrugCentral" xref: Gmelin:989 "Gmelin" xref: HMDB:HMDB0001967 xref: KEGG:C00011 xref: KEGG:D00004 xref: MetaCyc:CARBON-DIOXIDE xref: MolBase:752 xref: PDBeChem:CO2 xref: PMID:10826146 "Europe PMC" xref: PMID:11094503 "Europe PMC" xref: PMID:11584085 "Europe PMC" xref: PMID:11802652 "Europe PMC" xref: PMID:14639145 "Europe PMC" xref: PMID:15050588 "Europe PMC" xref: PMID:16591971 "Europe PMC" xref: PMID:16656478 "Europe PMC" xref: PMID:16659660 "Europe PMC" xref: PMID:17190796 "Europe PMC" xref: PMID:17448243 "Europe PMC" xref: PMID:17878298 "Europe PMC" xref: PMID:17884085 "Europe PMC" xref: PMID:19043767 "Europe PMC" xref: PMID:19259576 "Europe PMC" xref: PMID:19854893 "Europe PMC" xref: PMID:23384758 "Europe PMC" xref: PMID:23828359 "Europe PMC" xref: PMID:24258718 "Europe PMC" xref: PMID:8482095 "Europe PMC" xref: PMID:8818713 "Europe PMC" xref: PMID:8869828 "Europe PMC" xref: PMID:9611769 "Europe PMC" xref: PMID:9730350 "Europe PMC" xref: PPDB:119 xref: Reaxys:1900390 "Reaxys" xref: UM-BBD_compID:c0131 "UM-BBD" xref: Wikipedia:Carbon_dioxide is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:23014 ! carbon oxide is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:35620 ! vasodilator agent relationship: has_role CHEBI:38867 ! anaesthetic relationship: has_role CHEBI:46787 ! solvent relationship: has_role CHEBI:48706 ! antagonist relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76413 ! greenhouse gas relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:77974 ! food packaging gas relationship: has_role CHEBI:78017 ! food propellant relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CO2/c2-1-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CURLTUGMZLYLDI-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=C=O" xsd:string [Term] id: CHEBI:16555 name: ethanethioic S-acid namespace: chebi_ontology alt_id: CHEBI:9547 def: "A thioacetic acid that is acetic acid in which the oxygen atom of the hydroxy group has been replaced by a sulfur atom." [] subset: 3_STAR synonym: "acetyl mercaptan" RELATED [NIST_Chemistry_WebBook] synonym: "CH3COSH" RELATED [NIST_Chemistry_WebBook] synonym: "ethanethioic S-acid" EXACT IUPAC_NAME [IUPAC] synonym: "Thioacetic acid" RELATED [KEGG_COMPOUND] synonym: "thioacetic S-acid" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:773684 "Beilstein" xref: CAS:507-09-5 "KEGG COMPOUND" xref: Gmelin:49262 "Gmelin" xref: KEGG:C01857 xref: PMID:23298036 "Europe PMC" xref: Reaxys:773684 "Reaxys" is_a: CHEBI:26952 ! thioacetic acid relationship: is_tautomer_of CHEBI:46800 ! ethanethioic O-acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4OS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4OS/c1-2(3)4/h1H3,(H,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DUYAAUVXQSMXQP-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "76.11856" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "75.99829" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(S)=O" xsd:string [Term] id: CHEBI:16583 name: butane-2,3-dione namespace: chebi_ontology alt_id: CHEBI:14134 alt_id: CHEBI:4479 def: "An alpha-diketone that is butane substituted by oxo groups at positions 2 and 3. It is a metabolite produced during the malolactic fermentation." [] subset: 3_STAR synonym: "2,3-Butadione" RELATED [ChemIDplus] synonym: "2,3-butandione" RELATED [NIST_Chemistry_WebBook] synonym: "2,3-Butanedione" RELATED [KEGG_COMPOUND] synonym: "2,3-Diketobutane" RELATED [ChemIDplus] synonym: "2,3-Dioxobutane" RELATED [ChemIDplus] synonym: "Biacetyl" RELATED [KEGG_COMPOUND] synonym: "butane-2,3-dione" EXACT IUPAC_NAME [IUPAC] synonym: "Diacetyl" RELATED [KEGG_COMPOUND] synonym: "diacetyl" RELATED [UniProt] synonym: "Dimethyl glyoxal" RELATED [ChemIDplus] synonym: "Dimethylglyoxal" RELATED [KEGG_COMPOUND] xref: Beilstein:605398 "Beilstein" xref: CAS:431-03-8 "KEGG COMPOUND" xref: HMDB:HMDB0003407 xref: KEGG:C00741 xref: PMID:15654607 "Europe PMC" xref: PMID:24614328 "Europe PMC" xref: Reaxys:605398 "Reaxys" is_a: CHEBI:51869 ! alpha-diketone relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H6O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H6O2/c1-3(5)4(2)6/h1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QSJXEFYPDANLFS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "86.08924" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "86.03678" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(=O)C(C)=O" xsd:string [Term] id: CHEBI:16646 name: carbohydrate namespace: chebi_ontology alt_id: CHEBI:15131 alt_id: CHEBI:23008 alt_id: CHEBI:9318 def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] subset: 3_STAR synonym: "carbohidrato" RELATED [IUPAC] synonym: "carbohidratos" RELATED [IUPAC] synonym: "carbohydrate" EXACT IUPAC_NAME [IUPAC] synonym: "carbohydrates" EXACT IUPAC_NAME [IUPAC] synonym: "glucide" RELATED [ChEBI] synonym: "glucides" RELATED [ChEBI] synonym: "glucido" RELATED [ChEBI] synonym: "glucidos" RELATED [ChEBI] synonym: "hydrates de carbone" RELATED [ChEBI] synonym: "Kohlenhydrat" RELATED [ChEBI] synonym: "Kohlenhydrate" RELATED [ChEBI] synonym: "saccharide" RELATED [IUPAC] synonym: "saccharides" RELATED [IUPAC] synonym: "saccharidum" RELATED [ChEBI] xref: Wikipedia:Carbohydrate is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] id: CHEBI:16670 name: peptide namespace: chebi_ontology alt_id: CHEBI:14753 alt_id: CHEBI:25906 alt_id: CHEBI:7990 def: "Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc." [] subset: 3_STAR synonym: "Peptid" RELATED [ChEBI] synonym: "Peptide" EXACT [KEGG_COMPOUND] synonym: "peptides" EXACT IUPAC_NAME [IUPAC] synonym: "peptido" RELATED [ChEBI] synonym: "peptidos" RELATED [ChEBI] xref: KEGG:C00012 is_a: CHEBI:37622 ! carboxamide is_a: CHEBI:50047 ! organic amino compound relationship: has_part CHEBI:33708 ! amino-acid residue relationship: is_tautomer_of CHEBI:60466 ! peptide zwitterion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C2H2NOR)nC2H3NOR" xsd:string [Term] id: CHEBI:16701 name: nucleoside 5'-phosphate namespace: chebi_ontology alt_id: CHEBI:14674 alt_id: CHEBI:25603 alt_id: CHEBI:7650 def: "A ribosyl or deoxyribosyl derivative of a pyrimidine or purine base in which C-5 of the ribose ring is mono-, di-, tri- or tetra-phosphorylated." [] subset: 3_STAR synonym: "Nucleoside 5'-phosphate" EXACT [KEGG_COMPOUND] synonym: "nucleoside 5'-phosphates" RELATED [ChEBI] xref: KEGG:C01117 is_a: CHEBI:29075 ! mononucleotide relationship: is_conjugate_acid_of CHEBI:57867 ! nucleoside 5'-phosphate dianion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9O6PR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "196.09510" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "196.01367" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[C@H]1[C@@H]([*])[C@H]([*])O[C@@H]1COP(O)(O)=O" xsd:string [Term] id: CHEBI:16708 name: adenine namespace: chebi_ontology alt_id: CHEBI:13733 alt_id: CHEBI:22236 alt_id: CHEBI:2470 alt_id: CHEBI:40579 def: "The parent compound of the 6-aminopurines, composed of a purine having an amino group at C-6." [] subset: 3_STAR synonym: "6-Aminopurine" RELATED [KEGG_COMPOUND] synonym: "9H-purin-6-amine" EXACT IUPAC_NAME [IUPAC] synonym: "A" RELATED [ChEBI] synonym: "Ade" RELATED [CBN] synonym: "Adenin" RELATED [NIST_Chemistry_WebBook] synonym: "ADENINE" EXACT [PDBeChem] synonym: "Adenine" EXACT [KEGG_COMPOUND] synonym: "adenine" EXACT [UniProt] xref: Beilstein:608603 "Beilstein" xref: CAS:73-24-5 "ChemIDplus" xref: Drug_Central:89 "DrugCentral" xref: DrugBank:DB00173 xref: Gmelin:3903 "Gmelin" xref: HMDB:HMDB0000034 xref: KEGG:C00147 xref: KEGG:D00034 xref: KNApSAcK:C00001490 xref: MetaCyc:ADENINE xref: PDBeChem:ADE xref: PMID:11985597 "Europe PMC" xref: PMID:12829005 "Europe PMC" xref: PMID:12951489 "Europe PMC" xref: PMID:15063338 "Europe PMC" xref: PMID:15715490 "Europe PMC" xref: PMID:17439666 "Europe PMC" xref: PMID:8070089 "Europe PMC" xref: Reaxys:608603 "Reaxys" xref: Wikipedia:Adenine is_a: CHEBI:20706 ! 6-aminopurines is_a: CHEBI:26386 ! purine nucleobase relationship: has_parent_hydride CHEBI:35589 ! 9H-purine relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:83056 ! Daphnia magna metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H5N5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "GFFGJBXGBJISGV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "135.12690" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "135.05450" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2[nH]cnc12" xsd:string [Term] id: CHEBI:16765 name: tryptamine namespace: chebi_ontology alt_id: CHEBI:15274 alt_id: CHEBI:27161 alt_id: CHEBI:46157 alt_id: CHEBI:9767 def: "An aminoalkylindole consisting of indole having a 2-aminoethyl group at the 3-position." [] subset: 3_STAR synonym: "1H-indole-3-ethanamine" RELATED [NIST_Chemistry_WebBook] synonym: "2-(1H-INDOL-3-YL)ETHANAMINE" RELATED [PDBeChem] synonym: "2-(1H-indol-3-yl)ethanamine" EXACT IUPAC_NAME [IUPAC] synonym: "2-(3-indolyl)ethylamine" RELATED [ChemIDplus] synonym: "3-(2-Aminoethyl)indole" RELATED [KEGG_COMPOUND] synonym: "Tryptamine" EXACT [KEGG_COMPOUND] xref: Beilstein:125513 "Beilstein" xref: CAS:61-54-1 "KEGG COMPOUND" xref: DrugBank:DB08653 xref: Gmelin:603448 "Gmelin" xref: HMDB:HMDB0000303 xref: KEGG:C00398 xref: KNApSAcK:C00001434 xref: MetaCyc:TRYPTAMINE xref: PDBeChem:TSS xref: PMID:16126914 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: PMID:24345948 "Europe PMC" xref: PMID:24558969 "Europe PMC" xref: Reaxys:125513 "Reaxys" xref: Wikipedia:Tryptamine is_a: CHEBI:27162 ! tryptamines is_a: CHEBI:38631 ! aminoalkylindole is_a: CHEBI:38958 ! indole alkaloid is_a: CHEBI:64365 ! aralkylamino compound relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:57887 ! tryptaminium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2/c11-6-5-8-7-12-10-4-2-1-3-9(8)10/h1-4,7,12H,5-6,11H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "APJYDQYYACXCRM-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "160.21570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "160.10005" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCc1c[nH]c2ccccc12" xsd:string [Term] id: CHEBI:16865 name: gamma-aminobutyric acid namespace: chebi_ontology alt_id: CHEBI:1786 alt_id: CHEBI:193777 alt_id: CHEBI:20318 alt_id: CHEBI:40483 def: "A gamma-amino acid that is butanoic acid with the amino substituent located at C-4." [] subset: 3_STAR synonym: "4-Aminobutanoic acid" RELATED [KEGG_COMPOUND] synonym: "4-aminobutanoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "4-aminobutanoic acid" RELATED [ChEBI] synonym: "4-Aminobutyric acid" RELATED [KEGG_COMPOUND] synonym: "4-aminobutyric acid" RELATED [ChEBI] synonym: "4Abu" RELATED [ChEBI] synonym: "GABA" RELATED [KEGG_COMPOUND] synonym: "GABA" RELATED [IUPHAR] synonym: "GAMMA-AMINO-BUTANOIC ACID" RELATED [PDBeChem] synonym: "gamma-amino-n-butyric acid" RELATED [NIST_Chemistry_WebBook] synonym: "gamma-aminobutanoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "gamma-Aminobuttersaeure" RELATED [NIST_Chemistry_WebBook] synonym: "gamma-Aminobutyric acid" EXACT [KEGG_COMPOUND] synonym: "gamma-aminobutyric acid" EXACT [NIST_Chemistry_WebBook] synonym: "omega-aminobutyric acid" RELATED [NIST_Chemistry_WebBook] synonym: "piperidic acid" RELATED [ChemIDplus] synonym: "piperidinic acid" RELATED [ChemIDplus] xref: Beilstein:906818 "Beilstein" xref: BPDB:2298 xref: CAS:56-12-2 "ChemIDplus" xref: Drug_Central:1262 "DrugCentral" xref: DrugBank:DB02530 xref: Gmelin:49775 "Gmelin" xref: HMDB:HMDB0000112 xref: KEGG:C00334 xref: KEGG:D00058 xref: KNApSAcK:C00001337 xref: LIPID_MAPS_instance:LMFA01100039 "LIPID MAPS" xref: MetaCyc:4-AMINO-BUTYRATE xref: PDBeChem:ABU xref: PMID:10630630 "Europe PMC" xref: PMID:10930630 "Europe PMC" xref: PMID:16276116 "Europe PMC" xref: PMID:21614609 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: Reaxys:906818 "Reaxys" xref: Wikipedia:Gamma-Aminobutyric_acid is_a: CHEBI:25384 ! monocarboxylic acid is_a: CHEBI:33707 ! gamma-amino acid relationship: has_functional_parent CHEBI:30772 ! butyric acid relationship: has_role CHEBI:25512 ! neurotransmitter relationship: has_role CHEBI:62488 ! signalling molecule relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:30566 ! gamma-aminobutyrate relationship: is_tautomer_of CHEBI:59888 ! gamma-aminobutyric acid zwitterion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H9NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H9NO2/c5-3-1-2-4(6)7/h1-3,5H2,(H,6,7)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BTCSSZJGUNDROE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "103.11980" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "103.06333" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCCC(O)=O" xsd:string [Term] id: CHEBI:16988 name: D-ribose namespace: chebi_ontology alt_id: CHEBI:13011 alt_id: CHEBI:21078 def: "A ribose in which the chiral carbon atom furthest away from the aldehyde group (C4') has the same configuration as in D-glyceraldehyde." [] subset: 3_STAR synonym: "D-Rib" RELATED [JCBN] synonym: "D-ribo-pentose" EXACT IUPAC_NAME [IUPAC] synonym: "D-ribose" EXACT IUPAC_NAME [IUPAC] xref: DrugBank:DB01936 xref: PMID:24404872 "Europe PMC" xref: PMID:24752650 "Europe PMC" is_a: CHEBI:33942 ! ribose relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:78675 ! fundamental metabolite relationship: is_enantiomer_of CHEBI:46997 ! L-ribose property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "150.12990" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "150.05282" xsd:string [Term] id: CHEBI:17062 name: primary aliphatic amine namespace: chebi_ontology alt_id: CHEBI:13431 alt_id: CHEBI:8749 subset: 3_STAR synonym: "primary aliphatic amines" RELATED [ChEBI] synonym: "RCH2NH2" RELATED [KEGG_COMPOUND] synonym: "RCH2NH2" RELATED [ChEBI] xref: KEGG:C00375 is_a: CHEBI:32877 ! primary amine relationship: is_conjugate_base_of CHEBI:58001 ! primary aliphatic ammonium ion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH4NR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "30.04920" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "30.03437" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC[*]" xsd:string [Term] id: CHEBI:17087 name: ketone namespace: chebi_ontology alt_id: CHEBI:13427 alt_id: CHEBI:13646 alt_id: CHEBI:24974 alt_id: CHEBI:6127 alt_id: CHEBI:8742 def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] subset: 3_STAR synonym: "a ketone" RELATED [UniProt] synonym: "cetone" RELATED [ChEBI] synonym: "Keton" RELATED [ChEBI] synonym: "Ketone" EXACT [KEGG_COMPOUND] synonym: "ketones" EXACT IUPAC_NAME [IUPAC] synonym: "ketones" RELATED [ChEBI] synonym: "R-CO-R'" RELATED [KEGG_COMPOUND] xref: KEGG:C01450 xref: Wikipedia:Ketone is_a: CHEBI:36586 ! carbonyl compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "COR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "28.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "27.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C([*])=O" xsd:string [Term] id: CHEBI:17120 name: hexanoate namespace: chebi_ontology alt_id: CHEBI:14398 alt_id: CHEBI:24569 def: "A short-chain fatty acid anion that is the conjugate base of hexanoic acid (also known as caproic acid)." [] subset: 3_STAR synonym: "1-hexanoate" RELATED [ChEBI] synonym: "1-pentacarboxylate" RELATED [ChEBI] synonym: "1-pentanecarboxylate" RELATED [ChEBI] synonym: "butylacetate" RELATED [ChEBI] synonym: "caproate" RELATED [ChEBI] synonym: "capronate" RELATED [ChEBI] synonym: "CH3-[CH2]4-COO(-)" RELATED [IUPAC] synonym: "hexanoate" EXACT [UniProt] synonym: "hexanoate" EXACT IUPAC_NAME [IUPAC] synonym: "hexoate" RELATED [ChEBI] synonym: "hexylate" RELATED [ChEBI] synonym: "n-caproate" RELATED [ChEBI] synonym: "n-hexanoate" RELATED [ChEBI] synonym: "n-hexoate" RELATED [ChEBI] synonym: "n-hexylate" RELATED [ChEBI] synonym: "nPnCO2 anion" RELATED [NIST_Chemistry_WebBook] synonym: "pentanecarboxylate" RELATED [ChEBI] synonym: "pentylformate" RELATED [ChEBI] xref: Beilstein:3601453 "Beilstein" xref: CAS:151-33-7 "Beilstein" xref: ECMDB:ECMDB21229 xref: Gmelin:326340 "Gmelin" xref: KEGG:C01585 xref: MetaCyc:HEXANOATE is_a: CHEBI:58951 ! short-chain fatty acid anion is_a: CHEBI:58954 ! straight-chain saturated fatty acid anion is_a: CHEBI:78116 ! fatty acid anion 6:0 relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:30776 ! hexanoic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H11O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H12O2/c1-2-3-4-5-6(7)8/h2-5H2,1H3,(H,7,8)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FUZZWVXGSFPDMH-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "115.15034" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "115.07645" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCCCC([O-])=O" xsd:string [Term] id: CHEBI:17134 name: octopamine namespace: chebi_ontology alt_id: CHEBI:11191 alt_id: CHEBI:25655 alt_id: CHEBI:571 def: "Octopamine is a biogenic phenylethanolamine, which has been found to act as a neurotransmitter, neurohormone or neuromodulator in invertebrates." [] subset: 3_STAR synonym: "1-(4-Hydroxyphenyl)-2-aminoethanol" RELATED [KEGG_COMPOUND] synonym: "1-(p-hydroxyphenyl)-2-aminoethanol" RELATED [ChemIDplus] synonym: "4-(2-amino-1-hydroxyethyl)phenol" EXACT IUPAC_NAME [IUPAC] synonym: "alpha-(aminomethyl)-4-hydroxybenzenemethanol" RELATED [ChemIDplus] synonym: "alpha-(aminomethyl)-p-hydroxybenzyl alcohol" RELATED [ChemIDplus] synonym: "beta-hydroxytyramine" RELATED [ChEBI] synonym: "norsynephrine" RELATED [ChemIDplus] synonym: "Octopamin" RELATED [ChEBI] synonym: "Octopamine" EXACT [KEGG_COMPOUND] synonym: "octopaminum" RELATED [ChemIDplus] synonym: "p-Hydroxyphenylethanolamine" RELATED [KEGG_COMPOUND] xref: Beilstein:1211019 "ChemIDplus" xref: CAS:104-14-3 "KEGG COMPOUND" xref: Drug_Central:3396 "DrugCentral" xref: KEGG:C04227 xref: LINCS:LSM-4975 is_a: CHEBI:25990 ! phenylethanolamines is_a: CHEBI:27175 ! tyramines relationship: has_role CHEBI:25512 ! neurotransmitter relationship: is_conjugate_base_of CHEBI:58025 ! octopaminium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H11NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO2/c9-5-8(11)6-1-3-7(10)4-2-6/h1-4,8,10-11H,5,9H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QHGUCRYDKWKLMG-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "153.17848" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "153.07898" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCC(O)c1ccc(O)cc1" xsd:string [Term] id: CHEBI:17137 name: hydrogensulfite namespace: chebi_ontology alt_id: CHEBI:13367 alt_id: CHEBI:5598 subset: 3_STAR synonym: "[SO2(OH)](-)" RELATED [IUPAC] synonym: "Bisulfite" RELATED [KEGG_COMPOUND] synonym: "bisulfite" RELATED [ChemIDplus] synonym: "bisulphite" RELATED [ChemIDplus] synonym: "HSO3(-)" RELATED [IUPAC] synonym: "HSO3-" RELATED [KEGG_COMPOUND] synonym: "Hydrogen sulfite" RELATED [KEGG_COMPOUND] synonym: "hydrogen sulfite(1-)" RELATED [ChemIDplus] synonym: "hydrogen(trioxidosulfate)(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogensulfite(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentrioxosulfate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentrioxosulfate(IV)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrosulfite anion" RELATED [ChemIDplus] synonym: "hydroxidodioxidosulfate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "monohydrogentrioxosulfate" EXACT IUPAC_NAME [IUPAC] xref: CAS:15181-46-1 "ChemIDplus" xref: Gmelin:1455 "Gmelin" xref: KEGG:C11481 xref: PDBeChem:SO3 is_a: CHEBI:33482 ! sulfur oxoanion relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:17359 ! sulfite relationship: is_conjugate_base_of CHEBI:48854 ! sulfurous acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O3S/c1-4(2)3/h(H2,1,2,3)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LSNNMFCWUKXFEE-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "81.07214" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.96519" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OS([O-])=O" xsd:string [Term] id: CHEBI:17188 name: nucleoside 5'-monophosphate namespace: chebi_ontology alt_id: CHEBI:14676 alt_id: CHEBI:25607 alt_id: CHEBI:7439 alt_id: CHEBI:7653 alt_id: CHEBI:7654 subset: 3_STAR synonym: "NMP" RELATED [KEGG_COMPOUND] synonym: "Nucleoside monophosphate" RELATED [KEGG_COMPOUND] synonym: "nucleoside monophosphate" RELATED [ChEBI] synonym: "nucleoside monophosphates" RELATED [ChEBI] synonym: "Nucleoside phosphate" RELATED [KEGG_COMPOUND] xref: KEGG:C01329 xref: KEGG:C02520 is_a: CHEBI:25608 ! nucleoside phosphate relationship: is_conjugate_acid_of CHEBI:58043 ! nucleoside 5'-monophosphate(2-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O7PR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "213.103" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "213.01641" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[C@H]1[C@H]([*])O[C@H](COP(O)(O)=O)[C@H]1O" xsd:string [Term] id: CHEBI:17258 name: 7H-purine namespace: chebi_ontology alt_id: CHEBI:14968 alt_id: CHEBI:8639 def: "The 7H-tautomer of purine." [] subset: 3_STAR synonym: "7H-purine" EXACT IUPAC_NAME [IUPAC] synonym: "Purine" RELATED [KEGG_COMPOUND] synonym: "Purine base" RELATED [KEGG_COMPOUND] xref: Beilstein:3200 "Beilstein" xref: Gmelin:601779 "Gmelin" xref: HMDB:HMDB0001366 xref: KEGG:C15587 xref: Reaxys:3200 "Reaxys" is_a: CHEBI:35584 ! purine relationship: is_tautomer_of CHEBI:35586 ! 1H-purine relationship: is_tautomer_of CHEBI:35588 ! 3H-purine relationship: is_tautomer_of CHEBI:35589 ! 9H-purine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDCGOANMDULRCW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "120.11222" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "120.04360" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1ncc2[nH]cnc2n1" xsd:string [Term] id: CHEBI:17326 name: nucleoside triphosphate namespace: chebi_ontology alt_id: CHEBI:13411 alt_id: CHEBI:14677 alt_id: CHEBI:25610 alt_id: CHEBI:7442 alt_id: CHEBI:7655 subset: 3_STAR synonym: "NTP" RELATED [KEGG_COMPOUND] synonym: "Nucleoside triphosphate" EXACT [KEGG_COMPOUND] synonym: "nucleoside triphosphates" RELATED [ChEBI] xref: KEGG:C00201 is_a: CHEBI:25608 ! nucleoside phosphate relationship: has_role CHEBI:75771 ! mouse metabolite relationship: is_conjugate_acid_of CHEBI:58104 ! nucleoside triphosphate(3-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H12O13P3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "388.09680" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "372.94908" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[C@@H]1O[C@H](COP(O)(=O)OP(O)(=O)OP(O)(O)=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:17359 name: sulfite namespace: chebi_ontology alt_id: CHEBI:15139 alt_id: CHEBI:45548 def: "Sulfite is an inorganic anion, which is the conjugate base of hydrogen sulfite." [] subset: 3_STAR synonym: "[SO3](2-)" RELATED [IUPAC] synonym: "SO3" RELATED [ChEBI] synonym: "SO3(2-)" RELATED [IUPAC] synonym: "sulfite" EXACT IUPAC_NAME [IUPAC] synonym: "sulfite" EXACT [UniProt] synonym: "SULFITE ION" RELATED [PDBeChem] synonym: "sulphite" RELATED [ChEBI] synonym: "trioxidosulfate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "trioxosulfate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "trioxosulfate(IV)" EXACT IUPAC_NAME [IUPAC] xref: CAS:14265-45-3 "ChemIDplus" xref: Gmelin:1449 "Gmelin" xref: PDBeChem:SO3 is_a: CHEBI:33482 ! sulfur oxoanion is_a: CHEBI:48154 ! sulfur oxide is_a: CHEBI:79388 ! divalent inorganic anion relationship: is_conjugate_base_of CHEBI:17137 ! hydrogensulfite property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O3S/c1-4(2)3/h(H2,1,2,3)/p-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LSNNMFCWUKXFEE-UHFFFAOYSA-L" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.06420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "79.95791" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]S([O-])=O" xsd:string [Term] id: CHEBI:17478 name: aldehyde namespace: chebi_ontology alt_id: CHEBI:13432 alt_id: CHEBI:13753 alt_id: CHEBI:13805 alt_id: CHEBI:13806 alt_id: CHEBI:22291 alt_id: CHEBI:2554 alt_id: CHEBI:8750 def: "A compound RC(=O)H, in which a carbonyl group is bonded to one hydrogen atom and to one R group." [] subset: 3_STAR synonym: "aldehido" RELATED [ChEBI] synonym: "aldehidos" RELATED [ChEBI] synonym: "Aldehyd" RELATED [ChEBI] synonym: "Aldehyde" EXACT [KEGG_COMPOUND] synonym: "aldehyde" EXACT [ChEBI] synonym: "aldehyde" EXACT IUPAC_NAME [IUPAC] synonym: "aldehydes" EXACT IUPAC_NAME [IUPAC] synonym: "aldehydes" RELATED [ChEBI] synonym: "aldehydum" RELATED [ChEBI] synonym: "an aldehyde" RELATED [UniProt] synonym: "RC(=O)H" RELATED [IUPAC] synonym: "RCHO" RELATED [KEGG_COMPOUND] xref: KEGG:C00071 is_a: CHEBI:36586 ! carbonyl compound relationship: has_part CHEBI:42485 ! formyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "29.01800" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "29.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([*])=O" xsd:string [Term] id: CHEBI:17489 name: 3',5'-cyclic AMP namespace: chebi_ontology alt_id: CHEBI:11673 alt_id: CHEBI:1325 alt_id: CHEBI:19827 alt_id: CHEBI:41588 def: "A 3',5'-cyclic purine nucleotide having having adenine as the nucleobase." [] subset: 3_STAR synonym: "3',5'-Cyclic AMP" EXACT [KEGG_COMPOUND] synonym: "adenosine 3',5'-(hydrogen phosphate)" EXACT IUPAC_NAME [IUPAC] synonym: "adenosine 3',5'-cyclic monophosphate" RELATED [NIST_Chemistry_WebBook] synonym: "Adenosine 3',5'-cyclic phosphate" RELATED [KEGG_COMPOUND] synonym: "Adenosine 3',5'-phosphate" RELATED [KEGG_COMPOUND] synonym: "ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE" RELATED [PDBeChem] synonym: "cAMP" RELATED [KEGG_COMPOUND] synonym: "Cyclic adenylic acid" RELATED [KEGG_COMPOUND] synonym: "Cyclic AMP" RELATED [KEGG_COMPOUND] xref: Beilstein:52645 "Beilstein" xref: CAS:60-92-4 "NIST Chemistry WebBook" xref: DrugBank:DB02527 xref: HMDB:HMDB0000058 xref: KEGG:C00575 xref: KNApSAcK:C00001497 xref: MetaCyc:CAMP xref: PDBeChem:CMP xref: PMID:16295522 "Europe PMC" xref: PMID:18372334 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: Reaxys:52645 "Reaxys" xref: Wikipedia:Cyclic_AMP is_a: CHEBI:19834 ! 3',5'-cyclic purine nucleotide is_a: CHEBI:61296 ! adenyl ribonucleotide relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:58165 ! 3',5'-cyclic AMP(1-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N5O6P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N5O6P/c11-8-5-9(13-2-12-8)15(3-14-5)10-6(16)7-4(20-10)1-19-22(17,18)21-7/h2-4,6-7,10,16H,1H2,(H,17,18)(H2,11,12,13)/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IVOMOUWHDPKRLL-KQYNXXCUSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "329.20614" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "329.05252" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@@H]2COP(O)(=O)O[C@H]2[C@H]1O" xsd:string [Term] id: CHEBI:17568 name: uracil namespace: chebi_ontology alt_id: CHEBI:15288 alt_id: CHEBI:27210 alt_id: CHEBI:46375 alt_id: CHEBI:9882 def: "A common and naturally occurring pyrimidine nucleobase in which the pyrimidine ring is substituted with two oxo groups at positions 2 and 4. Found in RNA, it base pairs with adenine and replaces thymine during DNA transcription." [] subset: 3_STAR synonym: "2,4(1H,3H)-pyrimidinedione" RELATED [NIST_Chemistry_WebBook] synonym: "2,4-Dioxopyrimidine" RELATED [HMDB] synonym: "2,4-Pyrimidinedione" RELATED [HMDB] synonym: "pyrimidine-2,4(1H,3H)-dione" EXACT IUPAC_NAME [IUPAC] synonym: "U" RELATED [ChEBI] synonym: "Ura" RELATED [CBN] synonym: "URACIL" EXACT [PDBeChem] synonym: "Uracil" EXACT [KEGG_COMPOUND] synonym: "uracil" EXACT [UniProt] synonym: "Urazil" RELATED [ChEBI] xref: Beilstein:606623 "Beilstein" xref: CAS:66-22-8 "NIST Chemistry WebBook" xref: DrugBank:DB03419 xref: Gmelin:2896 "Gmelin" xref: HMDB:HMDB0000300 xref: KEGG:C00106 xref: KEGG:D00027 xref: KNApSAcK:C00001513 xref: MetaCyc:URACIL xref: PDBeChem:URA xref: PMID:11279060 "Europe PMC" xref: PMID:12855717 "Europe PMC" xref: PMID:15274295 "Europe PMC" xref: PMID:16834123 "Europe PMC" xref: PMID:17439666 "Europe PMC" xref: PMID:18533995 "Europe PMC" xref: PMID:18815805 "Europe PMC" xref: PMID:19175333 "Europe PMC" xref: PMID:22020693 "Europe PMC" xref: PMID:22074393 "Europe PMC" xref: PMID:22120518 "Europe PMC" xref: PMID:22171528 "Europe PMC" xref: PMID:22237209 "Europe PMC" xref: PMID:22299724 "Europe PMC" xref: PMID:22356544 "Europe PMC" xref: PMID:22447672 "Europe PMC" xref: PMID:22483865 "Europe PMC" xref: PMID:22567906 "Europe PMC" xref: PMID:22685418 "Europe PMC" xref: PMID:3654008 "Europe PMC" xref: Reaxys:606623 "Reaxys" xref: Wikipedia:Uracil is_a: CHEBI:26432 ! pyrimidine nucleobase is_a: CHEBI:38337 ! pyrimidone relationship: has_role CHEBI:50266 ! prodrug relationship: has_role CHEBI:50904 ! allergen relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:83056 ! Daphnia magna metabolite relationship: is_tautomer_of CHEBI:43254 ! (4S)-4-hydroxy-3,4-dihydropyrimidin-2(1H)-one property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H4N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H4N2O2/c7-3-1-2-5-4(8)6-3/h1-2H,(H2,5,6,7,8)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ISAKRJDGNUQOIC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "112.08684" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "112.02728" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=c1cc[nH]c(=O)[nH]1" xsd:string [Term] id: CHEBI:17590 name: octane namespace: chebi_ontology alt_id: CHEBI:14680 alt_id: CHEBI:25465 alt_id: CHEBI:25645 alt_id: CHEBI:44621 alt_id: CHEBI:7723 def: "A straight chain alkane composed of 8 carbon atoms." [] subset: 3_STAR synonym: "CH3-[CH2]6-CH3" RELATED [IUPAC] synonym: "N-OCTANE" RELATED [PDBeChem] synonym: "n-Octane" RELATED [KEGG_COMPOUND] synonym: "n-Oktan" RELATED [ChEBI] synonym: "Octane" EXACT [KEGG_COMPOUND] synonym: "octane" EXACT IUPAC_NAME [IUPAC] synonym: "octane" EXACT [UniProt] synonym: "Oktan" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1696875 "Beilstein" xref: CAS:111-65-9 "ChemIDplus" xref: DrugBank:DB02440 xref: Gmelin:82412 "Gmelin" xref: HMDB:HMDB0001485 xref: KEGG:C01387 xref: LIPID_MAPS_instance:LMFA11000002 "LIPID MAPS" xref: MetaCyc:CPD-148 xref: PDBeChem:OCT xref: PMID:11255151 "Europe PMC" xref: PMID:24354334 "Europe PMC" xref: Reaxys:1696875 "Reaxys" xref: UM-BBD_compID:c0044 "UM-BBD" xref: Wikipedia:Octane is_a: CHEBI:18310 ! alkane relationship: has_role CHEBI:35703 ! xenobiotic property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H18" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H18/c1-3-5-7-8-6-4-2/h3-8H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "TVMXDCGIABBOFY-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "114.22852" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "114.14085" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCCCCCC" xsd:string [Term] id: CHEBI:17688 name: (S)-nicotine namespace: chebi_ontology alt_id: CHEBI:14653 alt_id: CHEBI:25536 alt_id: CHEBI:44268 alt_id: CHEBI:7562 def: "A 3-(1-methylpyrrolidin-2-yl)pyridine in which the chiral centre has S-configuration. The naturally occurring and most active enantiomer of nicotine, isolated from Nicotiana tabacum." [] subset: 3_STAR synonym: "(-)-3-(1-Methyl-2-pyrrolidyl)pyridine" RELATED [HMDB] synonym: "(-)-3-(N-Methylpyrrolidino)pyridine" RELATED [HMDB] synonym: "(-)-nicotine" RELATED [ChemIDplus] synonym: "(R)-3-(1-Methyl-2-pyrrolidinyl)pyridine" RELATED [HMDB] synonym: "(S)-(-)-nicotine" RELATED [NIST_Chemistry_WebBook] synonym: "(S)-3-(1-methylpyrrolidin-2-yl)pyridine" RELATED [KEGG_COMPOUND] synonym: "(S)-3-(N-methylpyrrolidin-2-yl)pyridine" RELATED [IUBMB] synonym: "(S)-Nicotine" EXACT [KEGG_COMPOUND] synonym: "(S)-nicotine" EXACT [ChemIDplus] synonym: "1-Methyl-2-(3-pyridyl)pyrrolidine" RELATED [HMDB] synonym: "3-(1-Methyl-2-pyrollidinyl)pyridine" RELATED [HMDB] synonym: "3-(1-Methylpyrrolidin-2-yl)pyridine" RELATED [HMDB] synonym: "3-(2-(N-methylpyrrolidinyl))pyridine" RELATED [NIST_Chemistry_WebBook] synonym: "3-(N-methylpyrollidino)pyridine" RELATED [NIST_Chemistry_WebBook] synonym: "3-[(2S)-1-methylpyrrolidin-2-yl]pyridine" EXACT IUPAC_NAME [IUPAC] synonym: "L(-)-nicotine" RELATED [IUBMB] synonym: "L-3-(1-Methyl-2-pyrrolidyl)pyridine" RELATED [HMDB] synonym: "L-Nicotine" RELATED [HMDB] synonym: "Nicotine" RELATED [KEGG_COMPOUND] synonym: "Nicotine" RELATED [HMDB] xref: Beilstein:3604351 "Beilstein" xref: Beilstein:82109 "Beilstein" xref: BPDB:485 xref: CAS:54-11-5 "NIST Chemistry WebBook" xref: Drug_Central:1920 "DrugCentral" xref: DrugBank:DB00184 xref: HMDB:HMDB0001934 xref: KEGG:C00745 xref: KEGG:D03365 xref: KNApSAcK:C00002057 xref: LINCS:LSM-2093 xref: MetaCyc:NICOTINE xref: PDBeChem:NCT xref: PMID:11209966 "Europe PMC" xref: PMID:11322615 "Europe PMC" xref: PMID:11406005 "Europe PMC" xref: PMID:11719700 "Europe PMC" xref: PMID:11768184 "Europe PMC" xref: PMID:11821649 "Europe PMC" xref: PMID:11851194 "Europe PMC" xref: PMID:12575980 "Europe PMC" xref: PMID:12692774 "Europe PMC" xref: PMID:12769614 "Europe PMC" xref: PMID:12850578 "Europe PMC" xref: PMID:12971663 "Europe PMC" xref: PMID:13590907 "Europe PMC" xref: PMID:14674846 "Europe PMC" xref: PMID:14761239 "Europe PMC" xref: PMID:14975706 "Europe PMC" xref: PMID:15019421 "Europe PMC" xref: PMID:15027713 "Europe PMC" xref: PMID:15251917 "Europe PMC" xref: PMID:15276225 "Europe PMC" xref: PMID:15380834 "Europe PMC" xref: PMID:15502843 "Europe PMC" xref: PMID:15527885 "Europe PMC" xref: PMID:15707677 "Europe PMC" xref: PMID:15734728 "Europe PMC" xref: PMID:15826609 "Europe PMC" xref: PMID:15894687 "Europe PMC" xref: PMID:15902919 "Europe PMC" xref: PMID:15960296 "Europe PMC" xref: PMID:15963341 "Europe PMC" xref: PMID:16059663 "Europe PMC" xref: PMID:16212709 "Europe PMC" xref: PMID:16333621 "Europe PMC" xref: PMID:16370520 "Europe PMC" xref: PMID:16496293 "Europe PMC" xref: PMID:17023324 "Europe PMC" xref: PMID:17206646 "Europe PMC" xref: PMID:17292347 "Europe PMC" xref: PMID:17350101 "Europe PMC" xref: PMID:17498763 "Europe PMC" xref: PMID:17504235 "Europe PMC" xref: PMID:17525204 "Europe PMC" xref: PMID:17560039 "Europe PMC" xref: PMID:17683794 "Europe PMC" xref: PMID:18380035 "Europe PMC" xref: PMID:18383130 "Europe PMC" xref: PMID:18490768 "Europe PMC" xref: PMID:18683238 "Europe PMC" xref: PMID:18685152 "Europe PMC" xref: PMID:18805442 "Europe PMC" xref: PMID:18922921 "Europe PMC" xref: PMID:19100291 "Europe PMC" xref: PMID:19100331 "Europe PMC" xref: PMID:19287496 "Europe PMC" xref: PMID:19389046 "Europe PMC" xref: PMID:19448649 "Europe PMC" xref: PMID:19465085 "Europe PMC" xref: PMID:19850423 "Europe PMC" xref: PMID:19954906 "Europe PMC" xref: PMID:21521420 "Europe PMC" xref: PMID:21636612 "Europe PMC" xref: PMID:21822688 "Europe PMC" xref: PMID:21945235 "Europe PMC" xref: PMID:21947355 "Europe PMC" xref: PMID:22030716 "Europe PMC" xref: PMID:22129149 "Europe PMC" xref: PMID:22218403 "Europe PMC" xref: PMID:22265518 "Europe PMC" xref: PMID:22331007 "Europe PMC" xref: PMID:22377934 "Europe PMC" xref: PMID:22459798 "Europe PMC" xref: PMID:22529223 "Europe PMC" xref: PMID:22530136 "Europe PMC" xref: PMID:27951416 "Europe PMC" xref: PMID:28187919 "Europe PMC" xref: PMID:28391535 "Europe PMC" xref: PMID:28574230 "Europe PMC" xref: PMID:28641297 "Europe PMC" xref: PMID:28678400 "Europe PMC" xref: PMID:28683421 "Europe PMC" xref: PMID:28686840 "Europe PMC" xref: PMID:28698187 "Europe PMC" xref: PMID:28700952 "Europe PMC" xref: PMID:28704277 "Europe PMC" xref: PMID:28710519 "Europe PMC" xref: PMID:28711472 "Europe PMC" xref: PMID:28714396 "Europe PMC" xref: PMID:28718768 "Europe PMC" xref: PMID:28718828 "Europe PMC" xref: PMID:28726253 "Europe PMC" xref: PMID:28735272 "Europe PMC" xref: Reaxys:82109 "Reaxys" xref: Wikipedia:Nicotine is_a: CHEBI:138000 ! 3-(1-methylpyrrolidin-2-yl)pyridine relationship: has_role CHEBI:22917 ! phytogenic insecticide relationship: has_role CHEBI:35474 ! anxiolytic drug relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:47958 ! nicotinic acetylcholine receptor agonist relationship: has_role CHEBI:49110 ! peripheral nervous system drug relationship: has_role CHEBI:50846 ! immunomodulator relationship: has_role CHEBI:50905 ! teratogenic agent relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:52290 ! mitogen relationship: has_role CHEBI:59163 ! biomarker relationship: has_role CHEBI:76924 ! plant metabolite relationship: is_conjugate_base_of CHEBI:59806 ! (S)-nicotinium(1+) relationship: is_enantiomer_of CHEBI:39162 ! (R)-nicotine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H14N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H14N2/c1-12-7-3-5-10(12)9-4-2-6-11-8-9/h2,4,6,8,10H,3,5,7H2,1H3/t10-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SNICXCGAKADSCV-JTQLQIEISA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "162.232" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "162.11570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C=1C=C([C@]2(N(CCC2)C)[H])C=NC1" xsd:string [Term] id: CHEBI:17883 name: hydrogen chloride namespace: chebi_ontology alt_id: CHEBI:13364 alt_id: CHEBI:24635 alt_id: CHEBI:5590 def: "A mononuclear parent hydride consisting of covalently bonded hydrogen and chlorine atoms." [] subset: 3_STAR synonym: "[HCl]" RELATED [IUPAC] synonym: "chlorane" EXACT IUPAC_NAME [IUPAC] synonym: "chloridohydrogen" EXACT IUPAC_NAME [IUPAC] synonym: "chlorure d'hydrogene" RELATED [ChEBI] synonym: "Chlorwasserstoff" RELATED [ChEBI] synonym: "cloruro de hidrogeno" RELATED [ChEBI] synonym: "HCl" RELATED [KEGG_COMPOUND] synonym: "hydrochloric acid" RELATED [ChemIDplus] synonym: "Hydrochloride" RELATED [KEGG_COMPOUND] synonym: "Hydrogen chloride" EXACT [KEGG_COMPOUND] synonym: "hydrogen chloride" EXACT IUPAC_NAME [IUPAC] synonym: "Hydrogenchlorid" RELATED [ChEBI] synonym: "Wasserstoffchlorid" RELATED [ChEBI] xref: CAS:7647-01-0 "KEGG COMPOUND" xref: Drug_Central:4568 "DrugCentral" xref: Gmelin:322 "Gmelin" xref: HMDB:HMDB0002306 xref: KEGG:C01327 xref: KEGG:D02057 xref: MetaCyc:HCL xref: PMID:15823700 "Europe PMC" xref: PMID:17492841 "Europe PMC" xref: PMID:22804993 "Europe PMC" xref: Reaxys:1098214 "Reaxys" xref: Wikipedia:HCl xref: Wikipedia:Hydrochloric_acid is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:18140 ! hydrogen halide is_a: CHEBI:23117 ! chlorine molecular entity is_a: CHEBI:37176 ! mononuclear parent hydride relationship: has_role CHEBI:75771 ! mouse metabolite relationship: is_conjugate_acid_of CHEBI:17996 ! chloride relationship: is_conjugate_base_of CHEBI:50315 ! chloronium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "ClH" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HCl" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/ClH/h1H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VEXZGXHMUGYJMC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "36.46064" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "35.97668" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Cl[H]" xsd:string [Term] id: CHEBI:17891 name: donor namespace: chebi_ontology alt_id: CHEBI:14202 alt_id: CHEBI:4697 def: "A molecular entity that can transfer (\"donate\") an electron, a pair of electrons, an atom or a group to another molecular entity." [] subset: 3_STAR synonym: "Donator" RELATED [ChEBI] synonym: "donneur" RELATED [ChEBI] synonym: "Donor" EXACT [KEGG_COMPOUND] xref: KEGG:C01351 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:17968 name: butyrate namespace: chebi_ontology alt_id: CHEBI:13924 alt_id: CHEBI:22946 def: "A short-chain fatty acid anion that is the conjugate base of butyric acid, obtained by deprotonation of the carboxy group." [] subset: 3_STAR synonym: "1-butanoate" RELATED [ChEBI] synonym: "1-butyrate" RELATED [ChEBI] synonym: "1-propanecarboxylate" RELATED [ChEBI] synonym: "butanate" RELATED [ChEBI] synonym: "butanoate" EXACT IUPAC_NAME [IUPAC] synonym: "butanoate" RELATED [ChEBI] synonym: "butanoate" RELATED [UniProt] synonym: "butanoic acid, ion(1-)" RELATED [ChemIDplus] synonym: "butyrate" EXACT [IUPAC] synonym: "CH3-[CH2]2-COO(-)" RELATED [IUPAC] synonym: "n-butanoate" RELATED [ChEBI] synonym: "n-butyrate" RELATED [ChemIDplus] synonym: "propanecarboxylate" RELATED [ChEBI] synonym: "propylformate" RELATED [ChEBI] xref: Beilstein:3601060 "Beilstein" xref: CAS:461-55-2 "ChemIDplus" xref: Gmelin:324289 "Gmelin" xref: KEGG:C00246 xref: MetaCyc:BUTYRIC_ACID xref: PMID:17190852 "Europe PMC" xref: PMID:7496326 "Europe PMC" xref: Reaxys:3601060 "Reaxys" xref: UM-BBD_compID:c0035 "UM-BBD" is_a: CHEBI:78115 ! fatty acid anion 4:0 relationship: has_role CHEBI:61115 ! EC 3.5.1.98 (histone deacetylase) inhibitor relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:30772 ! butyric acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H7O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H8O2/c1-2-3-4(5)6/h2-3H2,1H3,(H,5,6)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FERIUCNNQQJTOY-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "87.09718" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "87.04515" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCC([O-])=O" xsd:string [Term] id: CHEBI:17972 name: ribonucleoside triphosphate namespace: chebi_ontology alt_id: CHEBI:15047 alt_id: CHEBI:26559 alt_id: CHEBI:8846 subset: 3_STAR synonym: "Ribonucleoside triphosphate" EXACT [KEGG_COMPOUND] synonym: "ribonucleoside triphosphates" RELATED [ChEBI] xref: KEGG:C03802 is_a: CHEBI:17326 ! nucleoside triphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H12O13P3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "373.063" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "372.94908" xsd:string [Term] id: CHEBI:17996 name: chloride namespace: chebi_ontology alt_id: CHEBI:13291 alt_id: CHEBI:13970 alt_id: CHEBI:3616 alt_id: CHEBI:3731 alt_id: CHEBI:48804 def: "A halide anion formed when chlorine picks up an electron to form an an anion." [] subset: 3_STAR synonym: "Chloride" EXACT [KEGG_COMPOUND] synonym: "chloride" EXACT [UniProt] synonym: "chloride" EXACT IUPAC_NAME [IUPAC] synonym: "CHLORIDE ION" RELATED [PDBeChem] synonym: "Chloride ion" RELATED [KEGG_COMPOUND] synonym: "Chloride(1-)" RELATED [ChemIDplus] synonym: "chloride(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "Chlorine anion" RELATED [NIST_Chemistry_WebBook] synonym: "Cl(-)" RELATED [IUPAC] synonym: "Cl-" RELATED [KEGG_COMPOUND] xref: Beilstein:3587171 "Beilstein" xref: CAS:16887-00-6 "KEGG COMPOUND" xref: Gmelin:14910 "Gmelin" xref: KEGG:C00115 xref: KEGG:C00698 xref: PDBeChem:CL xref: UM-BBD_compID:c0884 "UM-BBD" is_a: CHEBI:16042 ! halide anion is_a: CHEBI:33432 ! monoatomic chlorine relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:17883 ! hydrogen chloride property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cl" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/ClH/h1H/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VEXZGXHMUGYJMC-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "35.45270" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "34.96940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cl-]" xsd:string [Term] id: CHEBI:18059 name: lipid namespace: chebi_ontology alt_id: CHEBI:14517 alt_id: CHEBI:25054 alt_id: CHEBI:6486 def: "'Lipids' is a loosely defined term for substances of biological origin that are soluble in nonpolar solvents. They consist of saponifiable lipids, such as glycerides (fats and oils) and phospholipids, as well as nonsaponifiable lipids, principally steroids." [] subset: 3_STAR synonym: "Lipid" EXACT [KEGG_COMPOUND] synonym: "lipids" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C01356 is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:18099 name: cyclohexanol namespace: chebi_ontology alt_id: CHEBI:14051 alt_id: CHEBI:23471 alt_id: CHEBI:4013 alt_id: CHEBI:41739 def: "An alcohol that consists of cyclohexane bearing a single hydroxy substituent. The parent of the class of cyclohexanols." [] subset: 3_STAR synonym: "1-Cyclohexanol" RELATED [ChemIDplus] synonym: "Cyclohexan-1-ol" RELATED [KEGG_COMPOUND] synonym: "Cyclohexanol" EXACT [KEGG_COMPOUND] synonym: "cyclohexanol" EXACT IUPAC_NAME [IUPAC] synonym: "cyclohexanol" EXACT [UniProt] synonym: "Cyclohexyl alcohol" RELATED [ChemIDplus] synonym: "Hexahydrophenol" RELATED [KEGG_COMPOUND] synonym: "Hexalin" RELATED [KEGG_COMPOUND] synonym: "Hydrophenol" RELATED [NIST_Chemistry_WebBook] synonym: "Hydroxycyclohexane" RELATED [ChemIDplus] xref: CAS:108-93-0 "KEGG COMPOUND" xref: DrugBank:DB03703 xref: KEGG:C00854 xref: MetaCyc:CYCLOHEXANOL xref: PDBeChem:CXL xref: PMID:11682644 "Europe PMC" xref: PMID:23825601 "Europe PMC" xref: Reaxys:906744 "Reaxys" xref: UM-BBD_compID:c0175 "UM-BBD" xref: Wikipedia:Cyclohexanol is_a: CHEBI:23480 ! cyclohexanols is_a: CHEBI:35681 ! secondary alcohol relationship: has_role CHEBI:46787 ! solvent property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H12O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H12O/c7-6-4-2-1-3-5-6/h6-7H,1-5H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HPXRVTGHNJAIIH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "100.15888" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "100.08882" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC1CCCCC1" xsd:string [Term] id: CHEBI:18140 name: hydrogen halide namespace: chebi_ontology alt_id: CHEBI:13368 alt_id: CHEBI:37140 alt_id: CHEBI:5599 subset: 3_STAR synonym: "HX" RELATED [UniProt] synonym: "hydrogen halide" EXACT [IUPAC] synonym: "hydrogen halides" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogen halides" RELATED [ChEBI] is_a: CHEBI:33405 ! hydracid relationship: has_role CHEBI:138103 ! inorganic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HX" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "1.008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "1.00783" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[F,Cl,Br,I]" xsd:string [Term] id: CHEBI:18243 name: dopamine namespace: chebi_ontology alt_id: CHEBI:11695 alt_id: CHEBI:11930 alt_id: CHEBI:14203 alt_id: CHEBI:1764 alt_id: CHEBI:23886 alt_id: CHEBI:43686 def: "Catechol in which the hydrogen at position 4 is substituted by a 2-aminoethyl group." [] subset: 3_STAR synonym: "2-(3,4-Dihydroxyphenyl)ethylamine" RELATED [KEGG_COMPOUND] synonym: "2-(3,4-dihydroxyphenyl)ethylamine" RELATED [ChEBI] synonym: "3,4-Dihydroxyphenethylamine" RELATED [KEGG_COMPOUND] synonym: "3-Hydroxytyramine" RELATED [ChemIDplus] synonym: "4-(2-Aminoethyl)-1,2-benzenediol" RELATED [KEGG_COMPOUND] synonym: "4-(2-aminoethyl)-1,2-benzenediol" RELATED [ChEBI] synonym: "4-(2-Aminoethyl)benzene-1,2-diol" RELATED [KEGG_COMPOUND] synonym: "4-(2-aminoethyl)benzene-1,2-diol" EXACT IUPAC_NAME [IUPAC] synonym: "4-(2-aminoethyl)catechol" RELATED [ChemIDplus] synonym: "4-(2-aminoethyl)pyrocatechol" RELATED [ChemIDplus] synonym: "Deoxyepinephrine" RELATED [DrugBank] synonym: "dopamina" RELATED INN [ChemIDplus] synonym: "Dopamine" EXACT [KEGG_COMPOUND] synonym: "dopamine" RELATED INN [ChEBI] synonym: "dopaminum" RELATED INN [ChemIDplus] synonym: "Hydroxytyramin" RELATED [DrugBank] xref: CAS:51-61-6 "ChemIDplus" xref: Drug_Central:947 "DrugCentral" xref: DrugBank:DB00988 xref: HMDB:HMDB0000073 xref: KEGG:C03758 xref: KEGG:D07870 xref: KNApSAcK:C00001408 xref: LINCS:LSM-4630 xref: MetaCyc:DOPAMINE xref: PMID:10629745 "Europe PMC" xref: PMID:11149432 "Europe PMC" xref: PMID:9422813 "Europe PMC" xref: Reaxys:1072822 "Reaxys" xref: Wikipedia:Dopamine is_a: CHEBI:33567 ! catecholamine relationship: has_role CHEBI:35522 ! beta-adrenergic agonist relationship: has_role CHEBI:35524 ! sympathomimetic agent relationship: has_role CHEBI:38147 ! cardiotonic drug relationship: has_role CHEBI:48560 ! dopaminergic agent relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:59905 ! dopaminium(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H11NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO2/c9-4-3-6-1-2-7(10)8(11)5-6/h1-2,5,10-11H,3-4,9H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VYFYYTLLBUKUHU-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "153.17840" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "153.07898" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCc1ccc(O)c(O)c1" xsd:string [Term] id: CHEBI:18254 name: ribonucleoside namespace: chebi_ontology alt_id: CHEBI:13014 alt_id: CHEBI:13015 alt_id: CHEBI:13685 alt_id: CHEBI:21085 alt_id: CHEBI:26560 alt_id: CHEBI:4240 alt_id: CHEBI:8844 def: "Any nucleoside where the sugar component is D-ribose." [] subset: 3_STAR synonym: "a ribonucleoside" RELATED [UniProt] synonym: "Ribonucleoside" EXACT [KEGG_COMPOUND] synonym: "ribonucleosides" RELATED [ChEBI] xref: KEGG:C00911 is_a: CHEBI:33838 ! nucleoside is_a: CHEBI:47019 ! dihydroxytetrahydrofuran property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9O4R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "133.123" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "133.05008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC[C@H]1O[C@@H]([*])[C@H](O)[C@@H]1O" xsd:string [Term] id: CHEBI:18282 name: nucleobase namespace: chebi_ontology alt_id: CHEBI:13873 alt_id: CHEBI:25598 alt_id: CHEBI:2995 def: "That part of DNA or RNA that may be involved in pairing." [] subset: 3_STAR synonym: "Base" RELATED [KEGG_COMPOUND] synonym: "nucleobases" RELATED [ChEBI] xref: KEGG:C00701 xref: Wikipedia:Nucleobase is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:18310 name: alkane namespace: chebi_ontology alt_id: CHEBI:13435 alt_id: CHEBI:22317 alt_id: CHEBI:2576 def: "An acyclic branched or unbranched hydrocarbon having the general formula CnH2n+2, and therefore consisting entirely of hydrogen atoms and saturated carbon atoms." [] subset: 3_STAR synonym: "alcane" RELATED [IUPAC] synonym: "alcanes" RELATED [IUPAC] synonym: "alcano" RELATED [IUPAC] synonym: "alcanos" RELATED [IUPAC] synonym: "Alkan" RELATED [ChEBI] synonym: "Alkane" EXACT [KEGG_COMPOUND] synonym: "alkane" EXACT IUPAC_NAME [IUPAC] synonym: "alkanes" EXACT IUPAC_NAME [IUPAC] synonym: "an alkane" RELATED [UniProt] synonym: "RH" RELATED [KEGG_COMPOUND] xref: KEGG:C01371 is_a: CHEBI:24632 ! hydrocarbon is_a: CHEBI:33653 ! aliphatic compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.035" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.02348" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[*]" xsd:string [Term] id: CHEBI:18367 name: phosphate(3-) namespace: chebi_ontology alt_id: CHEBI:14791 alt_id: CHEBI:45024 alt_id: CHEBI:7793 def: "A phosphate ion that is the conjugate base of hydrogenphosphate." [] subset: 3_STAR synonym: "[PO4](3-)" RELATED [IUPAC] synonym: "Orthophosphate" RELATED [KEGG_COMPOUND] synonym: "Phosphate" RELATED [KEGG_COMPOUND] synonym: "phosphate" EXACT IUPAC_NAME [IUPAC] synonym: "PHOSPHATE ION" RELATED [PDBeChem] synonym: "PO4(3-)" RELATED [IUPAC] synonym: "tetraoxidophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:3903772 "Beilstein" xref: CAS:14265-44-2 "ChemIDplus" xref: Gmelin:1997 "Gmelin" xref: KEGG:C00009 xref: PDBeChem:PO4 "ChEBI" xref: Reaxys:3903772 "Reaxys" is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79387 ! trivalent inorganic anion relationship: is_conjugate_base_of CHEBI:43474 ! hydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "94.97136" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "94.95507" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]P([O-])([O-])=O" xsd:string [Term] id: CHEBI:18375 name: nucleoside 3',5'-cyclic phosphate namespace: chebi_ontology alt_id: CHEBI:1331 alt_id: CHEBI:14672 alt_id: CHEBI:19833 def: "A ribosyl or deoxyribosyl derivative of a pyrimidine or purine base in which C-3 and C-5 of the ribose ring are engaged in formation of a cyclic mono-, di-, tri- or tetra-phosphate." [] subset: 3_STAR synonym: "nucleoside 3',5'-cyclic phosphates" RELATED [ChEBI] is_a: CHEBI:23447 ! cyclic nucleotide relationship: is_conjugate_acid_of CHEBI:58464 ! nucleoside 3',5'-cyclic phosphate anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H7O5PR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "178.07980" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "178.00311" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OP1(=O)OC[C@H]2O[C@@H]([*])[C@H]([*])[C@@H]2O1" xsd:string [Term] id: CHEBI:18723 name: nicotine namespace: chebi_ontology def: "A racemate composed of equimolar amounts of (R)- and (S)-nicotine." [] subset: 3_STAR synonym: "(+-)-3-(1-Methyl-2-pyrrolidinyl)pyridine" RELATED [KEGG_COMPOUND] synonym: "(+-)-nicotine" RELATED [ChemIDplus] synonym: "(R,S)-nicotine" RELATED [ChemIDplus] synonym: "(RS)-nicotine" RELATED [UM-BBD] synonym: "nicotin" RELATED [ChEBI] synonym: "nikotin" RELATED [ChEBI] synonym: "rac-3-(1-methylpyrrolidin-2-yl)pyridine" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:82108 "Beilstein" xref: Beilstein:82111 "Beilstein" xref: CAS:22083-74-5 "KEGG COMPOUND" xref: DrugBank:DB00184 xref: HMDB:HMDB0014330 xref: KEGG:C16150 xref: KNApSAcK:C00002057 xref: PMID:10751565 "Europe PMC" xref: PMID:11192937 "Europe PMC" xref: PMID:11471991 "Europe PMC" xref: PMID:11559179 "Europe PMC" xref: PMID:11682702 "Europe PMC" xref: PMID:11714820 "Europe PMC" xref: PMID:11719700 "Europe PMC" xref: PMID:11801622 "Europe PMC" xref: PMID:11818389 "Europe PMC" xref: PMID:11860617 "Europe PMC" xref: PMID:12197757 "Europe PMC" xref: PMID:12700710 "Europe PMC" xref: PMID:12965231 "Europe PMC" xref: PMID:14715938 "Europe PMC" xref: PMID:15183514 "Europe PMC" xref: PMID:15251917 "Europe PMC" xref: PMID:15313135 "Europe PMC" xref: PMID:15458549 "Europe PMC" xref: PMID:15707677 "Europe PMC" xref: PMID:15894687 "Europe PMC" xref: PMID:15960296 "Europe PMC" xref: PMID:15961264 "Europe PMC" xref: PMID:16496293 "Europe PMC" xref: PMID:16950410 "Europe PMC" xref: PMID:17167832 "Europe PMC" xref: PMID:17206646 "Europe PMC" xref: PMID:17438652 "Europe PMC" xref: PMID:17498149 "Europe PMC" xref: PMID:17942810 "Europe PMC" xref: PMID:18077004 "Europe PMC" xref: PMID:18311975 "Europe PMC" xref: PMID:18380035 "Europe PMC" xref: PMID:18383130 "Europe PMC" xref: PMID:18651995 "Europe PMC" xref: PMID:18922921 "Europe PMC" xref: PMID:19100331 "Europe PMC" xref: PMID:19287496 "Europe PMC" xref: PMID:19389046 "Europe PMC" xref: PMID:19465085 "Europe PMC" xref: PMID:20338106 "Europe PMC" xref: PMID:20528766 "Europe PMC" xref: PMID:21636612 "Europe PMC" xref: PMID:21822688 "Europe PMC" xref: PMID:21945235 "Europe PMC" xref: PMID:22129149 "Europe PMC" xref: PMID:22218403 "Europe PMC" xref: PMID:22331007 "Europe PMC" xref: PMID:22377934 "Europe PMC" xref: PMID:22448647 "Europe PMC" xref: PMID:22459798 "Europe PMC" xref: PMID:22529223 "Europe PMC" xref: PMID:22573728 "Europe PMC" xref: PMID:22585541 "Europe PMC" xref: PMID:22589423 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: PMID:22792725 "Europe PMC" xref: PMID:22855884 "Europe PMC" xref: PMID:22930863 "Europe PMC" xref: PMID:22935730 "Europe PMC" xref: PMID:23108361 "Europe PMC" xref: PMID:23117126 "Europe PMC" xref: PMID:7097594 "Europe PMC" xref: PMID:7564279 "Europe PMC" xref: PMID:7566693 "Europe PMC" xref: PMID:7807214 "Europe PMC" xref: PMID:7896575 "Europe PMC" xref: PMID:8156919 "Europe PMC" xref: PMID:8545712 "Europe PMC" xref: PMID:8764340 "Europe PMC" xref: PMID:9203638 "Europe PMC" xref: PMID:9450943 "Europe PMC" xref: PMID:9621392 "Europe PMC" xref: Reaxys:82108 "Reaxys" xref: UM-BBD_compID:c0468 "UM-BBD" xref: Wikipedia:Nicotine is_a: CHEBI:60911 ! racemate relationship: has_part CHEBI:17688 ! (S)-nicotine relationship: has_part CHEBI:39162 ! (R)-nicotine relationship: has_role CHEBI:35474 ! anxiolytic drug relationship: has_role CHEBI:47958 ! nicotinic acetylcholine receptor agonist relationship: has_role CHEBI:49110 ! peripheral nervous system drug relationship: has_role CHEBI:50846 ! immunomodulator relationship: has_role CHEBI:50905 ! teratogenic agent relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:52290 ! mitogen relationship: has_role CHEBI:59163 ! biomarker [Term] id: CHEBI:19129 name: 11alpha-hydroxy steroid namespace: chebi_ontology subset: 3_STAR synonym: "11alpha-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:36841 ! 11-hydroxy steroid [Term] id: CHEBI:19834 name: 3',5'-cyclic purine nucleotide namespace: chebi_ontology subset: 3_STAR synonym: "3',5'-cyclic purine nucleotides" RELATED [ChEBI] is_a: CHEBI:18375 ! nucleoside 3',5'-cyclic phosphate is_a: CHEBI:36982 ! cyclic purine nucleotide [Term] id: CHEBI:20706 name: 6-aminopurines namespace: chebi_ontology def: "Any compound having 6-aminopurine (adenine) as part of its structure." [] subset: 3_STAR synonym: "6-aminopurines" EXACT [ChEBI] xref: PMID:1646334 "Europe PMC" xref: PMID:18524423 "Europe PMC" xref: PMID:7342604 "Europe PMC" is_a: CHEBI:22527 ! aminopurine [Term] id: CHEBI:21731 name: N-glycosyl compound namespace: chebi_ontology def: "A glycosyl compound arising formally from the elimination of water from a glycosidic hydroxy group and an H atom bound to a nitrogen atom, thus creating a C-N bond." [] subset: 3_STAR synonym: "glycosylamine" EXACT IUPAC_NAME [IUPAC] synonym: "glycosylamines" RELATED [IUPAC] synonym: "N-glycoside" RELATED [ChEBI] synonym: "N-glycosides" RELATED [ChEBI] synonym: "N-glycosyl compounds" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:63161 ! glycosyl compound [Term] id: CHEBI:22153 name: acaricide namespace: chebi_ontology def: "A substance used to destroy pests of the subclass Acari (mites and ticks)." [] subset: 3_STAR synonym: "acaricides" RELATED [ChEBI] synonym: "Akarizid" RELATED [ChEBI] synonym: "Akarizide" RELATED [ChEBI] synonym: "miticide" RELATED [ChEBI] xref: Wikipedia:Acaricide is_a: CHEBI:25944 ! pesticide [Term] id: CHEBI:22160 name: acetamides namespace: chebi_ontology def: "Compounds with the general formula RNHC(=O)CH3." [] subset: 3_STAR is_a: CHEBI:37622 ! carboxamide [Term] id: CHEBI:22221 name: acyl group namespace: chebi_ontology def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] subset: 3_STAR synonym: "acyl group" EXACT [IUPAC] synonym: "acyl groups" RELATED [ChEBI] synonym: "alkanoyl" EXACT IUPAC_NAME [IUPAC] synonym: "alkanoyl group" RELATED [ChEBI] synonym: "groupe acyle" RELATED [IUPAC] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:22256 name: adenosine phosphate namespace: chebi_ontology subset: 3_STAR synonym: "adenosine phosphates" RELATED [ChEBI] is_a: CHEBI:61296 ! adenyl ribonucleotide relationship: has_functional_parent CHEBI:16335 ! adenosine [Term] id: CHEBI:22260 name: adenosines namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:26399 ! purine ribonucleoside relationship: has_functional_parent CHEBI:16708 ! adenine [Term] id: CHEBI:22307 name: aldoxime namespace: chebi_ontology def: "Oximes of aldehydes RCH=NOH." [] subset: 3_STAR synonym: "aldoxime" EXACT [ChEBI] synonym: "aldoximes" EXACT IUPAC_NAME [IUPAC] synonym: "aldoximes" RELATED [ChEBI] xref: KEGG:C02658 is_a: CHEBI:25750 ! oxime property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.03270" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.01364" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([*])=NO" xsd:string [Term] id: CHEBI:22313 name: alkaline earth metal atom namespace: chebi_ontology subset: 3_STAR synonym: "alkaline earth metal" RELATED [ChEBI] synonym: "alkaline earth metals" EXACT IUPAC_NAME [IUPAC] synonym: "alkaline-earth metal" RELATED [ChEBI] synonym: "alkaline-earth metals" RELATED [ChEBI] synonym: "Erdalkalimetall" RELATED [ChEBI] synonym: "Erdalkalimetalle" RELATED [ChEBI] synonym: "metal alcalino-terreux" RELATED [ChEBI] synonym: "metal alcalinoterreo" RELATED [ChEBI] synonym: "metales alcalinoterreos" RELATED [ChEBI] synonym: "metaux alcalino-terreux" RELATED [ChEBI] is_a: CHEBI:33318 ! main group element atom is_a: CHEBI:33521 ! metal atom is_a: CHEBI:33559 ! s-block element atom [Term] id: CHEBI:22314 name: alkali metal atom namespace: chebi_ontology subset: 3_STAR synonym: "alkali metal" RELATED [ChEBI] synonym: "alkali metals" EXACT IUPAC_NAME [IUPAC] synonym: "Alkalimetall" RELATED [ChEBI] synonym: "Alkalimetalle" RELATED [ChEBI] synonym: "metal alcalin" RELATED [ChEBI] synonym: "metal alcalino" RELATED [ChEBI] synonym: "metales alcalinos" RELATED [ChEBI] synonym: "metaux alcalins" RELATED [ChEBI] is_a: CHEBI:33318 ! main group element atom is_a: CHEBI:33521 ! metal atom is_a: CHEBI:33559 ! s-block element atom [Term] id: CHEBI:22315 name: alkaloid namespace: chebi_ontology def: "Any of the naturally occurring, basic nitrogen compounds (mostly heterocyclic) occurring mostly in the plant kingdom, but also found in bacteria, fungi, and animals. By extension, certain neutral compounds biogenetically related to basic alkaloids are also classed as alkaloids. Amino acids, peptides, proteins, nucleotides, nucleic acids, amino sugars and antibiotics are not normally regarded as alkaloids. Compounds in which the nitrogen is exocyclic (dopamine, mescaline, serotonin, etc.) are usually classed as amines rather than alkaloids." [] subset: 3_STAR synonym: "alcaloide" RELATED [ChEBI] synonym: "alcaloides" RELATED [ChEBI] synonym: "Alkaloid" EXACT [ChEBI] synonym: "Alkaloide" RELATED [ChEBI] synonym: "alkaloids" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Alkaloid is_a: CHEBI:35352 ! organonitrogen compound relationship: has_role CHEBI:25212 ! metabolite [Term] id: CHEBI:22323 name: alkyl group namespace: chebi_ontology def: "A univalent group -CnH2n+1 derived from an alkane by removal of a hydrogen atom from any carbon atom." [] subset: 3_STAR synonym: "alkyl group" EXACT IUPAC_NAME [IUPAC] synonym: "alkyl groups" EXACT IUPAC_NAME [IUPAC] synonym: "groupe alkyle" RELATED [IUPAC] synonym: "grupo alquilo" RELATED [IUPAC] synonym: "grupos alquilo" RELATED [IUPAC] is_a: CHEBI:33248 ! hydrocarbyl group relationship: is_substituent_group_from CHEBI:18310 ! alkane [Term] id: CHEBI:22327 name: aliphatic sulfide namespace: chebi_ontology subset: 3_STAR synonym: "aliphatic thioether" RELATED [ChEBI] synonym: "aliphatic thioethers" RELATED [ChEBI] is_a: CHEBI:16385 ! organic sulfide [Term] id: CHEBI:22333 name: alkylating agent namespace: chebi_ontology def: "Highly reactive chemical that introduces alkyl radicals into biologically active molecules and thereby prevents their proper functioning. It could be used as an antineoplastic agent, but it might be very toxic, with carcinogenic, mutagenic, teratogenic, and immunosuppressant actions. It could also be used as a component of poison gases." [] subset: 3_STAR is_a: CHEBI:25435 ! mutagen [Term] id: CHEBI:22478 name: amino alcohol namespace: chebi_ontology def: "An alcohol containing an amino functional group in addition to the alcohol-defining hydroxy group." [] subset: 3_STAR synonym: "amino alcohols" RELATED [ChEBI] synonym: "aminoalcohol" RELATED [ChEBI] synonym: "aminoalcohols" RELATED [ChEBI] is_a: CHEBI:30879 ! alcohol is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:22527 name: aminopurine namespace: chebi_ontology def: "Any purine having at least one amino substituent." [] subset: 3_STAR synonym: "aminopurines" RELATED [ChEBI] is_a: CHEBI:26401 ! purines [Term] id: CHEBI:22563 name: anion namespace: chebi_ontology def: "A monoatomic or polyatomic species having one or more elementary charges of the electron." [] subset: 3_STAR synonym: "Anion" EXACT [ChEBI] synonym: "anion" EXACT IUPAC_NAME [IUPAC] synonym: "anion" EXACT [ChEBI] synonym: "Anionen" RELATED [ChEBI] synonym: "aniones" RELATED [ChEBI] synonym: "anions" RELATED [IUPAC] is_a: CHEBI:24870 ! ion [Term] id: CHEBI:22695 name: base namespace: chebi_ontology def: "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base)." [] subset: 3_STAR synonym: "Base" EXACT [ChEBI] synonym: "base" EXACT [ChEBI] synonym: "base" EXACT IUPAC_NAME [IUPAC] synonym: "Base1" RELATED [KEGG_COMPOUND] synonym: "Base2" RELATED [KEGG_COMPOUND] synonym: "Basen" RELATED [ChEBI] synonym: "bases" RELATED [ChEBI] synonym: "Nucleobase" RELATED [KEGG_COMPOUND] xref: KEGG:C00701 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:22698 name: benzaldehydes namespace: chebi_ontology def: "Any arenecarbaldehyde that consists of a formyl substituted benzene ring and its substituted derivatives thereof." [] subset: 3_STAR is_a: CHEBI:33855 ! arenecarbaldehyde [Term] id: CHEBI:22712 name: benzenes namespace: chebi_ontology def: "Any benzenoid aromatic compound consisting of the benzene skeleton and its substituted derivatives." [] subset: 3_STAR is_a: CHEBI:33836 ! benzenoid aromatic compound [Term] id: CHEBI:22728 name: benzopyrrole namespace: chebi_ontology subset: 3_STAR synonym: "benzopyrroles" RELATED [ChEBI] is_a: CHEBI:27171 ! organic heterobicyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound is_a: CHEBI:38180 ! polycyclic heteroarene [Term] id: CHEBI:22901 name: bisphenol namespace: chebi_ontology def: "By usage, the methylenediphenols, HOC6H4CH2C6H4OH, commonly p,p-methylenediphenol, and their substitution products (generally derived from condensation of two equivalent amounts of a phenol with an aldehyde or ketone). The term also includes analogues in the the methylene (or substituted methylene) group has been replaced by a heteroatom." [] subset: 3_STAR synonym: "bisphenols" RELATED [ChEBI] xref: Wikipedia:Bisphenol is_a: CHEBI:33853 ! phenols [Term] id: CHEBI:22917 name: phytogenic insecticide namespace: chebi_ontology def: "An insecticide compound naturally occurring in plants." [] subset: 3_STAR synonym: "botanical insecticide" RELATED [ChEBI] synonym: "botanical insecticides" RELATED [ChEBI] synonym: "phytogenic insecticides" RELATED [ChEBI] is_a: CHEBI:24852 ! insecticide [Term] id: CHEBI:22927 name: bromine atom namespace: chebi_ontology subset: 3_STAR synonym: "35Br" RELATED [IUPAC] synonym: "Br" RELATED [ChEBI] synonym: "Brom" RELATED [ChEBI] synonym: "brome" RELATED [ChEBI] synonym: "bromine" EXACT IUPAC_NAME [IUPAC] synonym: "bromine" RELATED [ChEBI] synonym: "bromo" RELATED [ChEBI] synonym: "bromum" RELATED [ChEBI] xref: WebElements:Br is_a: CHEBI:24473 ! halogen relationship: has_role CHEBI:27027 ! micronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Br" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Br" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WKBOTKDWSSQWDR-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "79.90400" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "78.91834" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Br]" xsd:string [Term] id: CHEBI:22928 name: bromine molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "bromine compounds" RELATED [ChEBI] synonym: "bromine molecular entities" RELATED [ChEBI] synonym: "bromine molecular entity" EXACT [ChEBI] is_a: CHEBI:24471 ! halogen molecular entity relationship: has_part CHEBI:22927 ! bromine atom [Term] id: CHEBI:22951 name: butanone namespace: chebi_ontology def: "Any ketone that is butane substituted by an oxo group at unspecified position." [] subset: 3_STAR synonym: "butanones" RELATED [ChEBI] is_a: CHEBI:17087 ! ketone [Term] id: CHEBI:22977 name: cadmium atom namespace: chebi_ontology subset: 3_STAR synonym: "48Cd" RELATED [IUPAC] synonym: "cadmio" RELATED [ChEBI] synonym: "cadmium" EXACT IUPAC_NAME [IUPAC] synonym: "cadmium" RELATED [ChEBI] synonym: "Cd" RELATED [IUPAC] synonym: "Kadmium" RELATED [NIST_Chemistry_WebBook] xref: CAS:7440-43-9 "ChemIDplus" xref: KEGG:C01413 xref: WebElements:Cd is_a: CHEBI:33340 ! zinc group element atom property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cd" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Cd" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BDOSMKKIYDKNTQ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "112.41100" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "113.90336" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cd]" xsd:string [Term] id: CHEBI:23003 name: carbamate ester namespace: chebi_ontology def: "Any ester of carbamic acid or its N-substituted derivatives." [] subset: 3_STAR synonym: "carbamate esters" RELATED [ChEBI] synonym: "carbamates" RELATED [ChEBI] xref: Wikipedia:Carbamate is_a: CHEBI:33308 ! carboxylic ester relationship: has_functional_parent CHEBI:28616 ! carbamic acid [Term] id: CHEBI:23004 name: carbamoyl group namespace: chebi_ontology def: "The univalent carboacyl group formed by loss of -OH from the carboxy group of carbamic acid." [] subset: 3_STAR synonym: "-C(O)NH2" RELATED [ChEBI] synonym: "-CONH2" RELATED [IUPAC] synonym: "aminocarbonyl" RELATED [IUPAC] synonym: "carbamoyl" EXACT IUPAC_NAME [IUPAC] synonym: "carbamyl" RELATED [ChEBI] synonym: "carbamyl group" RELATED [ChEBI] synonym: "carboxamide" RELATED [IUPAC] xref: PMID:24168430 "Europe PMC" is_a: CHEBI:27207 ! univalent carboacyl group relationship: is_substituent_group_from CHEBI:28616 ! carbamic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.03272" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.01364" xsd:string [Term] id: CHEBI:23014 name: carbon oxide namespace: chebi_ontology subset: 3_STAR synonym: "carbon oxides" RELATED [ChEBI] synonym: "oxides of carbon" RELATED [ChEBI] is_a: CHEBI:25701 ! organic oxide is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:23019 name: carbonyl group namespace: chebi_ontology subset: 3_STAR synonym: ">C=O" RELATED [IUPAC] synonym: "carbonyl" EXACT IUPAC_NAME [IUPAC] synonym: "carbonyl group" EXACT [ChEBI] synonym: "carbonyl group" EXACT [UniProt] is_a: CHEBI:51422 ! organodiyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "28.01010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "27.99491" xsd:string [Term] id: CHEBI:23114 name: chloride salt namespace: chebi_ontology subset: 3_STAR synonym: "chloride salts" RELATED [ChEBI] synonym: "chlorides" RELATED [ChEBI] is_a: CHEBI:23117 ! chlorine molecular entity is_a: CHEBI:33958 ! halide salt relationship: has_part CHEBI:17996 ! chloride [Term] id: CHEBI:23116 name: chlorine atom namespace: chebi_ontology subset: 3_STAR synonym: "17Cl" RELATED [IUPAC] synonym: "Chlor" RELATED [ChEBI] synonym: "chlore" RELATED [ChEBI] synonym: "chlorine" EXACT IUPAC_NAME [IUPAC] synonym: "chlorine" RELATED [ChEBI] synonym: "chlorum" RELATED [ChEBI] synonym: "Cl" RELATED [IUPAC] synonym: "cloro" RELATED [ChEBI] xref: WebElements:Cl is_a: CHEBI:24473 ! halogen relationship: has_role CHEBI:27027 ! micronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cl" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Cl" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZAMOUSCENKQFHK-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "35.45270" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "34.96885" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cl]" xsd:string [Term] id: CHEBI:23117 name: chlorine molecular entity namespace: chebi_ontology def: "A halogen molecular entity containing one or more atoms of chlorine." [] subset: 3_STAR is_a: CHEBI:24471 ! halogen molecular entity relationship: has_part CHEBI:23116 ! chlorine atom [Term] id: CHEBI:23359 name: colchicine namespace: chebi_ontology def: "An alkaloid that is a carbotricyclic compound comprising 5,6,7,9-tetrahydrobenzo[a]heptalene having four methoxy substituents at the 1-, 2-, 3- and 10-positions as well as an oxo group at the 9-position and an acetamido group at the 7-position. It has been isolated from the plants belonging to genus Colchicum." [] subset: 3_STAR synonym: "N-(1,2,3,10-tetramethoxy-9-oxo-5,6,7,9-tetrahydrobenzo[a]heptalen-7-yl)acetamide" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:2228812 "Beilstein" xref: CAS:54192-66-4 "NIST Chemistry WebBook" xref: DrugBank:DB01394 xref: HMDB:HMDB0015466 xref: LINCS:LSM-6449 xref: PMID:10680067 "Europe PMC" xref: PMID:24074178 "Europe PMC" xref: PMID:7200520 "Europe PMC" xref: PMID:9819133 "Europe PMC" xref: Reaxys:2228812 "Reaxys" is_a: CHEBI:22160 ! acetamides is_a: CHEBI:22315 ! alkaloid is_a: CHEBI:35618 ! aromatic ether is_a: CHEBI:38032 ! carbotricyclic compound relationship: has_role CHEBI:61951 ! microtubule-destabilising agent relationship: has_role CHEBI:76924 ! plant metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C22H25NO6" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C22H25NO6/c1-12(24)23-16-8-6-13-10-19(27-3)21(28-4)22(29-5)20(13)14-7-9-18(26-2)17(25)11-15(14)16/h7,9-11,16H,6,8H2,1-5H3,(H,23,24)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IAKHMKGGTNLKSZ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "399.43704" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "399.16819" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "COc1cc2CCC(NC(C)=O)c3cc(=O)c(OC)ccc3-c2c(OC)c1OC" xsd:string [Term] id: CHEBI:23367 name: molecular entity namespace: chebi_ontology def: "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." [fake:2] subset: 3_STAR synonym: "entidad molecular" RELATED [IUPAC] synonym: "entidades moleculares" RELATED [IUPAC] synonym: "entite moleculaire" RELATED [IUPAC] synonym: "molecular entities" RELATED [IUPAC] synonym: "molecular entity" EXACT IUPAC_NAME [IUPAC] synonym: "molekulare Entitaet" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity [Term] id: CHEBI:23377 name: copper molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "copper compounds" RELATED [ChEBI] synonym: "copper molecular entities" RELATED [ChEBI] synonym: "copper molecular entity" EXACT [ChEBI] is_a: CHEBI:33745 ! copper group molecular entity relationship: has_part CHEBI:28694 ! copper atom [Term] id: CHEBI:23423 name: pseudohalogen oxoacid namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:24833 ! oxoacid [Term] id: CHEBI:23447 name: cyclic nucleotide namespace: chebi_ontology subset: 3_STAR synonym: "cyclic nucleotides" RELATED [ChEBI] is_a: CHEBI:36976 ! nucleotide [Term] id: CHEBI:23449 name: cyclic peptide namespace: chebi_ontology subset: 3_STAR synonym: "cyclic peptides" RELATED [ChEBI] synonym: "Cyclopeptid" RELATED [ChEBI] synonym: "peptide cyclique" RELATED [IUPAC] synonym: "peptido ciclico" RELATED [IUPAC] synonym: "Zyklopeptid" RELATED [ChEBI] is_a: CHEBI:16670 ! peptide [Term] id: CHEBI:23480 name: cyclohexanols namespace: chebi_ontology def: "An alcohol in which one or more hydroxy groups are attached to a cyclohexane skeleton." [] subset: 3_STAR is_a: CHEBI:30879 ! alcohol [Term] id: CHEBI:23493 name: cyclopentanes namespace: chebi_ontology def: "Cyclopentane and its derivatives formed by substitution." [] subset: 3_STAR is_a: CHEBI:33598 ! carbocyclic compound [Term] id: CHEBI:23495 name: cyclopentanols namespace: chebi_ontology def: "An alcohol in which one or more hydroxy groups are attached to a cyclopentane skeleton." [] subset: 3_STAR is_a: CHEBI:23493 ! cyclopentanes is_a: CHEBI:30879 ! alcohol [Term] id: CHEBI:237958 name: (\{[(2R,3S,4R,5R)-3,4-dihydroxy-5-(9H-purin-9-yl)oxolan-2-yl]methyl phosphonato}oxy)(phosphonatooxy)phosphinate namespace: chebi_ontology subset: 2_STAR is_a: CHEBI:37045 ! purine ribonucleoside 5'-triphosphate is_a: CHEBI:37096 ! adenosine 5'-phosphate relationship: has_role CHEBI:50733 ! nutraceutical relationship: is_conjugate_acid_of CHEBI:57299 ! ATP(3-) [Term] id: CHEBI:23888 name: drug namespace: chebi_ontology def: "Any substance which when absorbed into a living organism may modify one or more of its functions. The term is generally accepted for a substance taken for a therapeutic purpose, but is also commonly used for abused substances." [] subset: 3_STAR synonym: "drugs" RELATED [ChEBI] synonym: "medicine" RELATED [ChEBI] is_a: CHEBI:52217 ! pharmaceutical [Term] id: CHEBI:23905 name: monoatomic anion namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:24867 ! monoatomic ion [Term] id: CHEBI:23906 name: monoatomic cation namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic cations" RELATED [ChEBI] is_a: CHEBI:24867 ! monoatomic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:23924 name: enzyme inhibitor namespace: chebi_ontology def: "A compound or agent that combines with an enzyme in such a manner as to prevent the normal substrate-enzyme combination and the catalytic reaction." [] subset: 3_STAR synonym: "enzyme inhibitor" EXACT IUPAC_NAME [IUPAC] synonym: "enzyme inhibitors" RELATED [ChEBI] synonym: "inhibidor enzimatico" RELATED [ChEBI] synonym: "inhibidores enzimaticos" RELATED [ChEBI] synonym: "inhibiteur enzymatique" RELATED [ChEBI] synonym: "inhibiteurs enzymatiques" RELATED [ChEBI] is_a: CHEBI:35222 ! inhibitor is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:23981 name: ethanolamines namespace: chebi_ontology subset: 3_STAR synonym: "ethanolamine" RELATED [ChEBI] is_a: CHEBI:22478 ! amino alcohol [Term] id: CHEBI:23982 name: ethanols namespace: chebi_ontology def: "Any primary alcohol based on an ethanol skeleton." [] subset: 3_STAR is_a: CHEBI:15734 ! primary alcohol [Term] id: CHEBI:23994 name: ethyl methanesulfonate namespace: chebi_ontology def: "A methanesulfonate ester resulting from the formal condensation of methanesulfonic acid with ethanol." [] subset: 3_STAR synonym: "EMS" RELATED [ChemIDplus] synonym: "ethyl mesylate" RELATED [ChemIDplus] synonym: "ethyl methanesulphonate" RELATED [ChemIDplus] synonym: "methylsulfonic acid ethyl ester" RELATED [ChemIDplus] synonym: "methylsulfonic acid, ethyl ester" RELATED [ChemIDplus] xref: CAS:62-50-0 "KEGG COMPOUND" xref: KEGG:C19239 xref: PMID:16039156 "Europe PMC" xref: PMID:19797863 "Europe PMC" xref: PMID:20102787 "Europe PMC" xref: PMID:24475756 "Europe PMC" xref: PMID:24524729 "Europe PMC" xref: PMID:24531730 "Europe PMC" xref: PMID:24728647 "Europe PMC" xref: PMID:6936603 "Europe PMC" xref: PMID:7285888 "Europe PMC" xref: Reaxys:773969 "Reaxys" xref: Wikipedia:Ethyl_methanesulfonate is_a: CHEBI:25223 ! methanesulfonate ester relationship: has_role CHEBI:22333 ! alkylating agent relationship: has_role CHEBI:35610 ! antineoplastic agent relationship: has_role CHEBI:50903 ! carcinogenic agent relationship: has_role CHEBI:50905 ! teratogenic agent property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H8O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H8O3S/c1-3-6-7(2,4)5/h3H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "PLUBXMRUUVWRLT-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "124.15900" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "124.01942" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCOS(C)(=O)=O" xsd:string [Term] id: CHEBI:24026 name: fatty alcohol namespace: chebi_ontology def: "An aliphatic alcohol consisting of a chain of 8 to 22 carbon atoms. Fatty alcohols may be saturated or unsaturated and may be branched or unbranched." [] subset: 3_STAR synonym: "alcool gras" RELATED [ChEBI] synonym: "fatty alcohol" EXACT [ChEBI] synonym: "fatty alcohols" RELATED [LIPID_MAPS] synonym: "fatty alcohols" RELATED [ChEBI] synonym: "Fettalkohol" RELATED [ChEBI] synonym: "Fettalkohole" RELATED [ChEBI] xref: LIPID_MAPS_class:LMFA05 "LIPID MAPS" is_a: CHEBI:18059 ! lipid is_a: CHEBI:30879 ! alcohol [Term] id: CHEBI:24061 name: fluorine atom namespace: chebi_ontology subset: 3_STAR synonym: "9F" RELATED [IUPAC] synonym: "F" RELATED [IUPAC] synonym: "Fluor" RELATED [ChemIDplus] synonym: "fluor" RELATED [ChEBI] synonym: "fluorine" EXACT IUPAC_NAME [IUPAC] synonym: "fluorine" RELATED [ChEBI] synonym: "fluorum" RELATED [ChEBI] xref: CAS:7782-41-4 "ChemIDplus" xref: WebElements:F is_a: CHEBI:24473 ! halogen relationship: has_role CHEBI:27027 ! micronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "F" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/F" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "YCKRFDGAMUMZLT-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "18.99840" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "18.99840" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[F]" xsd:string [Term] id: CHEBI:24062 name: fluorine molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "fluorine compounds" RELATED [ChEBI] synonym: "fluorine molecular entities" RELATED [ChEBI] synonym: "fluorine molecular entity" EXACT [ChEBI] is_a: CHEBI:24471 ! halogen molecular entity relationship: has_part CHEBI:24061 ! fluorine atom [Term] id: CHEBI:24067 name: fluoroalkane namespace: chebi_ontology def: "A haloalkane that is an alkane in which at least one hydrogen atom has been replaced by a fluorine atom." [] subset: 3_STAR synonym: "fluoroalkane" EXACT [ChEBI] synonym: "fluoroalkanes" RELATED [ChEBI] is_a: CHEBI:24469 ! haloalkane is_a: CHEBI:37143 ! organofluorine compound [Term] id: CHEBI:24129 name: furans namespace: chebi_ontology def: "Compounds containing at least one furan ring." [] subset: 3_STAR synonym: "oxacyclopenta-2,4-dienes" RELATED [ChEBI] is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38104 ! oxacycle [Term] id: CHEBI:24400 name: glycoside namespace: chebi_ontology def: "A glycosyl compound resulting from the attachment of a glycosyl group to a non-acyl group RO-, RS-, RSe-, etc. The bond between the glycosyl group and the non-acyl group is called a glycosidic bond. By extension, the terms N-glycosides and C-glycosides are used as class names for glycosylamines and for compounds having a glycosyl group attached to a hydrocarbyl group respectively. These terms are misnomers and should not be used. The preferred terms are glycosylamines and C-glycosyl compounds, respectively." [] subset: 3_STAR synonym: "glycosides" EXACT IUPAC_NAME [IUPAC] synonym: "glycosides" RELATED [ChEBI] synonym: "O-glycoside" RELATED [ChEBI] synonym: "O-glycosides" RELATED [ChEBI] is_a: CHEBI:63161 ! glycosyl compound [Term] id: CHEBI:24431 name: chemical entity namespace: chebi_ontology def: "A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances." [] subset: 3_STAR synonym: "chemical entity" EXACT [UniProt] is_a: BFO:0000030 ! object [Term] id: CHEBI:24432 name: biological role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof within a biological context." [] subset: 3_STAR synonym: "biological function" RELATED [ChEBI] is_a: CHEBI:50906 ! role [Term] id: CHEBI:24433 name: group namespace: chebi_ontology def: "A defined linked collection of atoms or a single atom within a molecular entity." [] subset: 3_STAR synonym: "group" EXACT IUPAC_NAME [IUPAC] synonym: "groupe" RELATED [IUPAC] synonym: "grupo" RELATED [IUPAC] synonym: "grupos" RELATED [IUPAC] synonym: "Gruppe" RELATED [ChEBI] synonym: "Rest" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity relationship: has_part CHEBI:33250 ! atom [Term] id: CHEBI:24469 name: haloalkane namespace: chebi_ontology def: "An organohalogen compound that is an alkane in which at least one hydrogen atom has been replaced by with a halogen atom." [] subset: 3_STAR synonym: "alkyl halide" RELATED [ChEBI] synonym: "alkyl halides" RELATED [ChEBI] synonym: "haloalkanes" RELATED [ChEBI] is_a: CHEBI:36684 ! organohalogen compound [Term] id: CHEBI:24471 name: halogen molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "halogen compounds" RELATED [ChEBI] synonym: "halogen molecular entities" RELATED [ChEBI] synonym: "halogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:24473 ! halogen [Term] id: CHEBI:24472 name: halohydrocarbon namespace: chebi_ontology def: "A compound derived from a hydrocarbon by replacing a hydrogen atom with a halogen atom." [] subset: 3_STAR synonym: "halogenated hydrocarbons" RELATED [ChEBI] synonym: "halohydrocarbons" RELATED [ChEBI] is_a: CHEBI:36684 ! organohalogen compound relationship: has_parent_hydride CHEBI:24632 ! hydrocarbon [Term] id: CHEBI:24473 name: halogen namespace: chebi_ontology subset: 3_STAR synonym: "group 17 elements" RELATED [ChEBI] synonym: "group VII elements" RELATED [ChEBI] synonym: "halogen" EXACT IUPAC_NAME [IUPAC] synonym: "Halogene" RELATED [ChEBI] synonym: "halogene" RELATED [ChEBI] synonym: "halogenes" RELATED [ChEBI] synonym: "halogeno" RELATED [ChEBI] synonym: "halogenos" RELATED [ChEBI] synonym: "halogens" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:24527 name: herbicide namespace: chebi_ontology def: "A substance used to destroy plant pests." [] subset: 3_STAR synonym: "herbicides" RELATED [ChEBI] synonym: "Herbizid" RELATED [ChEBI] synonym: "Unkrautbekaempfungsmittel" RELATED [ChEBI] synonym: "Unkrautvertilgungsmittel" RELATED [ChEBI] synonym: "Wildkrautbekaempfungsmittel" RELATED [ChEBI] xref: Wikipedia:Herbicide is_a: CHEBI:25944 ! pesticide [Term] id: CHEBI:24532 name: organic heterocyclic compound namespace: chebi_ontology def: "A cyclic compound having as ring members atoms of carbon and at least of one other element." [] subset: 3_STAR synonym: "organic heterocycle" RELATED [ChEBI] synonym: "organic heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:33832 ! organic cyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:24533 name: heterodetic cyclic peptide namespace: chebi_ontology def: "A heterodetic cyclic peptide is a peptide consisting only of amino-acid residues, but in which the linkages forming the ring are not solely peptide bonds; one or more is an isopeptide, disulfide, ester, or other bond." [] subset: 3_STAR synonym: "heterodetic cyclic peptide" EXACT IUPAC_NAME [IUPAC] synonym: "heterodetic cyclic peptides" RELATED [ChEBI] synonym: "peptide cyclique heterodetique" RELATED [IUPAC] synonym: "peptido ciclico heterodetico" RELATED [IUPAC] is_a: CHEBI:23449 ! cyclic peptide [Term] id: CHEBI:24621 name: hormone namespace: chebi_ontology def: "Originally referring to an endogenous compound that is formed in specialized organ or group of cells and carried to another organ or group of cells, in the same organism, upon which it has a specific regulatory function, the term is now commonly used to include non-endogenous, semi-synthetic and fully synthetic analogues of such compounds." [] subset: 3_STAR synonym: "endocrine" RELATED [ChEBI] synonym: "hormones" RELATED [ChEBI] is_a: CHEBI:33280 ! molecular messenger is_a: CHEBI:48705 ! agonist [Term] id: CHEBI:24632 name: hydrocarbon namespace: chebi_ontology def: "A compound consisting of carbon and hydrogen only." [] subset: 3_STAR synonym: "hidrocarburo" RELATED [IUPAC] synonym: "hidrocarburos" RELATED [IUPAC] synonym: "hydrocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbons" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbure" RELATED [IUPAC] synonym: "Kohlenwasserstoff" RELATED [ChEBI] synonym: "Kohlenwasserstoffe" RELATED [ChEBI] is_a: CHEBI:33245 ! organic fundamental parent [Term] id: CHEBI:24651 name: hydroxides namespace: chebi_ontology def: "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-))." [] subset: 3_STAR is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:33608 ! hydrogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_part CHEBI:43176 ! hydroxy group [Term] id: CHEBI:24828 name: indoles namespace: chebi_ontology def: "Any compound containing an indole skeleton." [] subset: 3_STAR is_a: CHEBI:22728 ! benzopyrrole [Term] id: CHEBI:24833 name: oxoacid namespace: chebi_ontology def: "A compound which contains oxygen, at least one other element, and at least one hydrogen bound to oxygen, and which produces a conjugate base by loss of positive hydrogen ion(s) (hydrons)." [] subset: 3_STAR synonym: "oxacids" RELATED [ChEBI] synonym: "oxiacids" RELATED [ChEBI] synonym: "oxo acid" RELATED [ChEBI] synonym: "oxoacid" EXACT IUPAC_NAME [IUPAC] synonym: "oxoacids" EXACT IUPAC_NAME [IUPAC] synonym: "oxy-acids" RELATED [ChEBI] synonym: "oxyacids" RELATED [ChEBI] is_a: CHEBI:24651 ! hydroxides relationship: has_role CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:24834 name: inorganic anion namespace: chebi_ontology subset: 3_STAR synonym: "inorganic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:36914 ! inorganic ion [Term] id: CHEBI:24835 name: inorganic molecular entity namespace: chebi_ontology def: "A molecular entity that contains no carbon." [] subset: 3_STAR synonym: "anorganische Verbindungen" RELATED [ChEBI] synonym: "inorganic compounds" RELATED [ChEBI] synonym: "inorganic entity" RELATED [ChEBI] synonym: "inorganic molecular entities" RELATED [ChEBI] synonym: "inorganics" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:24836 name: inorganic oxide namespace: chebi_ontology subset: 3_STAR synonym: "inorganic oxides" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:25741 ! oxide [Term] id: CHEBI:24839 name: inorganic salt namespace: chebi_ontology subset: 3_STAR synonym: "anorganisches Salz" RELATED [ChEBI] synonym: "inorganic salts" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:24866 ! salt [Term] id: CHEBI:24852 name: insecticide namespace: chebi_ontology def: "Strictly, a substance intended to kill members of the class Insecta. In common usage, any substance used for preventing, destroying, repelling or controlling insects." [] subset: 3_STAR synonym: "insecticides" RELATED [ChEBI] xref: Wikipedia:Insecticide is_a: CHEBI:25944 ! pesticide [Term] id: CHEBI:24858 name: iodide salt namespace: chebi_ontology subset: 3_STAR synonym: "iodide salts" RELATED [ChEBI] synonym: "iodides" RELATED [ChEBI] is_a: CHEBI:24860 ! iodine molecular entity is_a: CHEBI:33958 ! halide salt relationship: has_part CHEBI:16382 ! iodide [Term] id: CHEBI:24859 name: iodine atom namespace: chebi_ontology def: "Chemical element with atomic number 53." [] subset: 3_STAR synonym: "53I" RELATED [IUPAC] synonym: "I" RELATED [ChEBI] synonym: "Iod" RELATED [ChEBI] synonym: "iode" RELATED [ChEBI] synonym: "iodine" EXACT IUPAC_NAME [IUPAC] synonym: "iodine" RELATED [ChEBI] synonym: "iodium" RELATED [ChEBI] synonym: "J" RELATED [ChEBI] synonym: "Jod" RELATED [ChEBI] synonym: "yodo" RELATED [ChEBI] xref: WebElements:I is_a: CHEBI:24473 ! halogen relationship: has_role CHEBI:27027 ! micronutrient relationship: has_role CHEBI:77746 ! human metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZCYVEMRRCGMTRW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "126.90447" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "126.90447" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[I]" xsd:string [Term] id: CHEBI:24860 name: iodine molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "iodine compounds" RELATED [ChEBI] synonym: "iodine molecular entities" RELATED [ChEBI] synonym: "iodine molecular entity" EXACT [ChEBI] is_a: CHEBI:24471 ! halogen molecular entity relationship: has_part CHEBI:24859 ! iodine atom [Term] id: CHEBI:24866 name: salt namespace: chebi_ontology def: "A salt is an assembly of cations and anions." [] subset: 3_STAR synonym: "ionic compound" RELATED [ChEBI] synonym: "ionic compounds" RELATED [ChEBI] synonym: "sal" RELATED [ChEBI] synonym: "sales" RELATED [ChEBI] synonym: "salt" EXACT IUPAC_NAME [IUPAC] synonym: "salts" RELATED [ChEBI] synonym: "Salz" RELATED [ChEBI] synonym: "Salze" RELATED [ChEBI] synonym: "sel" RELATED [ChEBI] synonym: "sels" RELATED [ChEBI] is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_part CHEBI:22563 ! anion relationship: has_part CHEBI:36916 ! cation [Term] id: CHEBI:24867 name: monoatomic ion namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic ions" RELATED [ChEBI] is_a: CHEBI:24870 ! ion is_a: CHEBI:33238 ! monoatomic entity [Term] id: CHEBI:24868 name: organic salt namespace: chebi_ontology subset: 3_STAR synonym: "organic salts" RELATED [ChEBI] synonym: "organisches Salz" RELATED [ChEBI] is_a: CHEBI:24866 ! salt [Term] id: CHEBI:24870 name: ion namespace: chebi_ontology def: "A molecular entity having a net electric charge." [] subset: 3_STAR synonym: "Ion" EXACT [ChEBI] synonym: "ion" EXACT IUPAC_NAME [IUPAC] synonym: "ion" EXACT [ChEBI] synonym: "Ionen" RELATED [ChEBI] synonym: "iones" RELATED [ChEBI] synonym: "ions" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:24921 name: isoquinoline alkaloid namespace: chebi_ontology def: "Any alkaloid that has a structure based on an isoquinoline nucleus. They are derived from the amino acids like tyrosine and phenylalanine." [] subset: 3_STAR synonym: "isoquinoline alkaloids" RELATED [ChEBI] is_a: CHEBI:22315 ! alkaloid [Term] id: CHEBI:24922 name: isoquinolines namespace: chebi_ontology def: "A class of organic heteropolycyclic compound consisting of isoquinoline and its substitution derivatives." [] subset: 3_STAR is_a: CHEBI:38101 ! organonitrogen heterocyclic compound is_a: CHEBI:38166 ! organic heteropolycyclic compound [Term] id: CHEBI:25000 name: lactone namespace: chebi_ontology def: "Any cyclic carboxylic ester containing a 1-oxacycloalkan-2-one structure, or an analogue having unsaturation or heteroatoms replacing one or more carbon atoms of the ring." [] subset: 3_STAR synonym: "Lacton" RELATED [ChEBI] synonym: "lactona" RELATED [IUPAC] synonym: "lactonas" RELATED [IUPAC] synonym: "lactone" EXACT IUPAC_NAME [IUPAC] synonym: "lactones" EXACT IUPAC_NAME [IUPAC] synonym: "Lakton" RELATED [ChEBI] synonym: "Laktone" RELATED [ChEBI] is_a: CHEBI:33308 ! carboxylic ester is_a: CHEBI:38104 ! oxacycle [Term] id: CHEBI:25094 name: lysine namespace: chebi_ontology def: "A diamino acid that is caproic (hexanoic) acid bearing two amino substituents at positions 2 and 6." [] subset: 3_STAR synonym: "2,6-diaminohexanoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "alpha,epsilon-diaminocaproic acid" RELATED [ChEBI] synonym: "K" RELATED [ChEBI] synonym: "LYS" RELATED [ChEBI] synonym: "Lysin" RELATED [ChEBI] synonym: "lysine" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1616991 "Beilstein" xref: CAS:70-54-2 "NIST Chemistry WebBook" xref: Gmelin:279284 "Gmelin" xref: KEGG:C16440 xref: PMID:17439666 "Europe PMC" xref: PMID:22264337 "Europe PMC" xref: Reaxys:1616991 "Reaxys" xref: Wikipedia:Lysine is_a: CHEBI:33704 ! alpha-amino acid is_a: CHEBI:35987 ! diamino acid relationship: has_functional_parent CHEBI:30776 ! hexanoic acid relationship: has_part CHEBI:50339 ! 4-aminobutyl group relationship: has_role CHEBI:83056 ! Daphnia magna metabolite relationship: is_conjugate_acid_of CHEBI:32563 ! lysinate relationship: is_conjugate_base_of CHEBI:32564 ! lysinium(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H14N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDXKERNSBIXSRK-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "146.18764" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "146.10553" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCCCC(N)C(O)=O" xsd:string [Term] id: CHEBI:25107 name: magnesium atom namespace: chebi_ontology subset: 3_STAR synonym: "12Mg" RELATED [IUPAC] synonym: "magnesio" RELATED [ChEBI] synonym: "Magnesium" RELATED [ChEBI] synonym: "magnesium" EXACT IUPAC_NAME [IUPAC] synonym: "magnesium" RELATED [ChEBI] synonym: "Mg" RELATED [IUPAC] xref: CAS:7439-95-4 "ChemIDplus" xref: DrugBank:DB01378 xref: Gmelin:16207 "Gmelin" xref: KEGG:C00305 xref: WebElements:Mg is_a: CHEBI:22313 ! alkaline earth metal atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Mg" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Mg" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FYYHWMGAXLPEAU-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "24.30500" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "23.98504" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Mg]" xsd:string [Term] id: CHEBI:25212 name: metabolite namespace: chebi_ontology alt_id: CHEBI:26619 alt_id: CHEBI:35220 def: "Any intermediate or product resulting from metabolism. The term 'metabolite' subsumes the classes commonly known as primary and secondary metabolites." [] subset: 3_STAR synonym: "metabolite" EXACT IUPAC_NAME [IUPAC] synonym: "metabolites" RELATED [ChEBI] synonym: "primary metabolites" RELATED [ChEBI] synonym: "secondary metabolites" RELATED [ChEBI] is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:25213 name: metal cation namespace: chebi_ontology subset: 3_STAR synonym: "a metal cation" RELATED [UniProt] synonym: "metal cations" RELATED [ChEBI] is_a: CHEBI:23906 ! monoatomic cation is_a: CHEBI:36915 ! inorganic cation [Term] id: CHEBI:25223 name: methanesulfonate ester namespace: chebi_ontology def: "An organosulfonic ester resulting from the formal condensation of methanesulfonic acid with the hydroxy group of an alcohol, phenol, heteroarenol, or enol." [] subset: 3_STAR synonym: "mesylate ester" RELATED [ChEBI] synonym: "mesylate esters" RELATED [ChEBI] synonym: "methanesulfonic acid esters" RELATED [ChEBI] is_a: CHEBI:48544 ! methanesulfonates is_a: CHEBI:83347 ! organosulfonic ester property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3O3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "95.099" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "94.98029" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CS(O*)(=O)=O" xsd:string [Term] id: CHEBI:25224 name: methanesulfonate namespace: chebi_ontology def: "A 1,1-diunsubstituted alkanesulfonate that is the conjugate base of methanesulfonic acid." [] subset: 3_STAR synonym: "methanesulfonate" EXACT IUPAC_NAME [IUPAC] synonym: "methanesulfonate" EXACT [UniProt] synonym: "methylsulfonate" RELATED [UM-BBD] xref: MetaCyc:CPD-3746 xref: UM-BBD_compID:c0347 "UM-BBD" is_a: CHEBI:62081 ! 1,1-diunsubstituted alkanesulfonate relationship: is_conjugate_base_of CHEBI:27376 ! methanesulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH4O3S/c1-5(2,3)4/h1H3,(H,2,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "AFVFQIVMOAPDHO-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "95.09872" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "94.98084" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CS([O-])(=O)=O" xsd:string [Term] id: CHEBI:25255 name: methyl methanesulfonate namespace: chebi_ontology def: "A methanesulfonate ester resulting from the formal condensation of methanesulfonic acid with methanol." [] subset: 3_STAR synonym: "as-Dimethyl sulfite" RELATED [ChemIDplus] synonym: "CB1540" RELATED [ChEBI] synonym: "Methanesulfonic acid methyl ester" RELATED [ChemIDplus] synonym: "Methyl mesylate" RELATED [ChemIDplus] synonym: "methyl methanesulfonate" EXACT IUPAC_NAME [IUPAC] synonym: "MMS" RELATED [KEGG_COMPOUND] synonym: "MMS" RELATED [ChemIDplus] xref: CAS:66-27-3 "KEGG COMPOUND" xref: KEGG:C19181 xref: MetaCyc:CPD-7038 xref: PMID:11016630 "Europe PMC" xref: PMID:14761437 "Europe PMC" xref: PMID:16764919 "Europe PMC" xref: PMID:21353429 "Europe PMC" xref: PMID:21860482 "Europe PMC" xref: PMID:22907509 "Europe PMC" xref: PMID:23117069 "Europe PMC" xref: PMID:23384783 "Europe PMC" xref: PMID:23483329 "Europe PMC" xref: Reaxys:1098586 "Reaxys" xref: Wikipedia:Methyl_methanesulfonate is_a: CHEBI:25223 ! methanesulfonate ester relationship: has_role CHEBI:22333 ! alkylating agent relationship: has_role CHEBI:50903 ! carcinogenic agent relationship: has_role CHEBI:68495 ! apoptosis inducer property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H6O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H6O3S/c1-5-6(2,3)4/h1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MBABOKRGFJTBAE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "110.13200" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "110.00377" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "COS(C)(=O)=O" xsd:string [Term] id: CHEBI:25348 name: methylxanthine namespace: chebi_ontology subset: 3_STAR synonym: "methylxanthines" RELATED [ChEBI] is_a: CHEBI:26385 ! purine alkaloid relationship: has_functional_parent CHEBI:15318 ! xanthine [Term] id: CHEBI:25367 name: molecule namespace: chebi_ontology def: "Any polyatomic entity that is an electrically neutral entity consisting of more than one atom." [] subset: 3_STAR synonym: "molecula" RELATED [IUPAC] synonym: "molecule" EXACT [IUPAC] synonym: "molecules" RELATED [IUPAC] synonym: "Molekuel" RELATED [ChEBI] synonym: "neutral molecular compounds" RELATED [IUPAC] is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:25375 name: monoamine molecular messenger namespace: chebi_ontology def: "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." [] subset: 3_STAR synonym: "monamines" RELATED [ChEBI] synonym: "monoamines" RELATED [ChEBI] is_a: CHEBI:63534 ! monoamine relationship: has_role CHEBI:33280 ! molecular messenger [Term] id: CHEBI:25384 name: monocarboxylic acid namespace: chebi_ontology def: "An oxoacid containing a single carboxy group." [] subset: 3_STAR synonym: "monocarboxylic acids" RELATED [ChEBI] is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:35757 ! monocarboxylic acid anion [Term] id: CHEBI:25413 name: monounsaturated fatty acid namespace: chebi_ontology def: "Any fatty acid with one double or triple bond in the fatty acid chain and singly bonded carbon atoms in the rest of the chain. MUFAs have positive effects on the cardiovascular system, and in diabetes treatment." [] subset: 3_STAR synonym: "monounsaturated fatty acids" RELATED [ChEBI] synonym: "MUFA" RELATED [ChEBI] synonym: "MUFAs" RELATED [ChEBI] xref: PMID:10584045 "Europe PMC" xref: PMID:12936956 "Europe PMC" is_a: CHEBI:27208 ! unsaturated fatty acid relationship: is_conjugate_acid_of CHEBI:82680 ! monounsaturated fatty acid anion [Term] id: CHEBI:25414 name: monoatomic monocation namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic monocations" RELATED [ChEBI] synonym: "monovalent inorganic cations" RELATED [ChEBI] is_a: CHEBI:23906 ! monoatomic cation property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.00000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*+]" xsd:string [Term] id: CHEBI:25435 name: mutagen namespace: chebi_ontology def: "An agent that increases the frequency of mutations above the normal background level, usually by interacting directly with DNA and causing it damage, including base substitution." [] subset: 3_STAR synonym: "mutagene" RELATED [ChEBI] synonym: "mutagenes" RELATED [ChEBI] synonym: "mutagenic agent" RELATED [ChEBI] synonym: "mutageno" RELATED [ChEBI] synonym: "mutagenos" RELATED [ChEBI] synonym: "mutagens" RELATED [ChEBI] xref: Wikipedia:Mutagen is_a: CHEBI:50902 ! genotoxin [Term] id: CHEBI:25442 name: mycotoxin namespace: chebi_ontology def: "Poisonous substance produced by fungi." [] subset: 3_STAR synonym: "fungal toxins" RELATED [ChEBI] synonym: "mycotoxins" RELATED [ChEBI] is_a: CHEBI:27026 ! toxin is_a: CHEBI:76946 ! fungal metabolite [Term] id: CHEBI:25491 name: nematicide namespace: chebi_ontology def: "A substance used to destroy pests of the phylum Nematoda (roundworms)." [] subset: 3_STAR synonym: "nematicides" RELATED [ChEBI] synonym: "nematocide" RELATED [ChEBI] synonym: "nematocides" RELATED [ChEBI] xref: Wikipedia:Nematicide is_a: CHEBI:25944 ! pesticide [Term] id: CHEBI:25512 name: neurotransmitter namespace: chebi_ontology def: "An endogenous compound that is used to transmit information across the synapse between a neuron and another cell." [] subset: 3_STAR synonym: "neurotransmitters" RELATED [ChEBI] xref: Wikipedia:Neurotransmitter is_a: CHEBI:33280 ! molecular messenger [Term] id: CHEBI:2555 name: aldicarb namespace: chebi_ontology def: "The oxime carbamate resulting from the addition of 2-methyl-2-(methylsulfanyl)propanaldoxime to methyl isocyanate. A member of the class of oxime carbamate insecticides, aldicarb is a mixture of E and Z isomers; it is not known which isomer is more active." [] subset: 3_STAR synonym: "2-Methyl-2-(methylthio)propanal, O-((methylamino)carbonyl)oxime" RELATED [ChemIDplus] synonym: "2-Methyl-2-(methylthio)propionaldehyde O-(methylcarbamoyl)oxime" RELATED [ChemIDplus] synonym: "2-Methyl-2-methylthio-propionaldehyd-O-(N-methyl-carbamoyl)-oxim" RELATED [ChemIDplus] synonym: "2-Methyl-2-methylthio-propionaldehyd-O-(N-methyl-carbamoyl)-oxim" RELATED [COMe] synonym: "2-methyl-N-[(methylcarbamoyl)oxy]-2-(methylsulfanyl)propan-1-imine" EXACT IUPAC_NAME [IUPAC] synonym: "Aldicarb" EXACT [KEGG_COMPOUND] synonym: "aldicarbe" RELATED [ChemIDplus] xref: Beilstein:2046931 "Beilstein" xref: CAS:116-06-3 "KEGG COMPOUND" xref: KEGG:C11015 xref: LINCS:LSM-20978 xref: Patent:US3217037 xref: PPDB:19 is_a: CHEBI:23003 ! carbamate ester relationship: has_functional_parent CHEBI:59059 ! methyl isocyanate relationship: has_functional_parent CHEBI:60330 ! 2-methyl-2-(methylsulfanyl)propanal oxime relationship: has_role CHEBI:22153 ! acaricide relationship: has_role CHEBI:25491 ! nematicide relationship: has_role CHEBI:38461 ! carbamate insecticide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C7H14N2O2S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C7H14N2O2S/c1-7(2,12-4)5-9-11-6(10)8-3/h5H,1-4H3,(H,8,10)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QGLZXHRNAYXIBU-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "190.26300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "190.07760" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(=NOC(=O)NC)C(C)(C)SC" xsd:string [Term] id: CHEBI:25555 name: nitrogen atom namespace: chebi_ontology subset: 3_STAR synonym: "7N" RELATED [IUPAC] synonym: "azote" RELATED [IUPAC] synonym: "N" RELATED [IUPAC] synonym: "nitrogen" EXACT IUPAC_NAME [IUPAC] synonym: "nitrogen" RELATED [ChEBI] synonym: "nitrogeno" RELATED [ChEBI] synonym: "Stickstoff" RELATED [ChEBI] xref: WebElements:N is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33300 ! pnictogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "14.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "14.00307" xsd:string [Term] id: CHEBI:25579 name: nonanone namespace: chebi_ontology def: "Any ketone that is nonane substituted by an oxo group at unspecified position." [] subset: 3_STAR synonym: "nonanones" RELATED [ChEBI] is_a: CHEBI:17087 ! ketone [Term] id: CHEBI:25585 name: nonmetal atom namespace: chebi_ontology subset: 3_STAR synonym: "Nichtmetall" RELATED [ChEBI] synonym: "Nichtmetalle" RELATED [ChEBI] synonym: "no metal" RELATED [ChEBI] synonym: "no metales" RELATED [ChEBI] synonym: "non-metal" RELATED [ChEBI] synonym: "non-metaux" RELATED [ChEBI] synonym: "nonmetal" EXACT IUPAC_NAME [IUPAC] synonym: "nonmetal" RELATED [ChEBI] synonym: "nonmetals" RELATED [ChEBI] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:25608 name: nucleoside phosphate namespace: chebi_ontology def: "A nucleobase-containing molecular entity that is a nucleoside in which one or more of the sugar hydroxy groups has been converted into a mono- or poly-phosphate. The term includes both nucleotides and non-nucleotide nucleoside phosphates." [] subset: 3_STAR synonym: "NMP" RELATED [KEGG_COMPOUND] synonym: "Nucleoside monophosphate" RELATED [KEGG_COMPOUND] synonym: "nucleoside phosphates" RELATED [ChEBI] xref: KEGG:C01329 is_a: CHEBI:25703 ! organic phosphate is_a: CHEBI:37734 ! phosphoric ester is_a: CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_functional_parent CHEBI:33838 ! nucleoside [Term] id: CHEBI:25693 name: organic heteromonocyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic heteromonocyclic compounds" RELATED [ChEBI] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:33670 ! heteromonocyclic compound [Term] id: CHEBI:25696 name: organic anion namespace: chebi_ontology def: "Any organic ion with a net negative charge." [] subset: 3_STAR synonym: "organic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:25699 ! organic ion [Term] id: CHEBI:25697 name: organic cation namespace: chebi_ontology def: "Any organic ion with a net positive charge." [] subset: 3_STAR synonym: "organic cations" RELATED [ChEBI] is_a: CHEBI:25699 ! organic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:25698 name: ether namespace: chebi_ontology def: "An organooxygen compound with formula ROR, where R is not hydrogen." [] subset: 3_STAR synonym: "ether" EXACT IUPAC_NAME [IUPAC] synonym: "ethers" EXACT IUPAC_NAME [IUPAC] synonym: "ethers" RELATED [ChEBI] is_a: CHEBI:36963 ! organooxygen compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "OR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.99940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]O[*]" xsd:string [Term] id: CHEBI:25699 name: organic ion namespace: chebi_ontology subset: 3_STAR synonym: "organic ions" RELATED [ChEBI] is_a: CHEBI:24870 ! ion is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:25701 name: organic oxide namespace: chebi_ontology def: "An oxide in which the oxygen atom is bonded to a carbon atom." [] subset: 3_STAR synonym: "organic oxides" RELATED [ChEBI] is_a: CHEBI:25741 ! oxide is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:25703 name: organic phosphate namespace: chebi_ontology subset: 3_STAR synonym: "organic phosphate" EXACT [ChEBI] synonym: "organic phosphate ester" RELATED [ChEBI] synonym: "organic phosphate esters" RELATED [ChEBI] synonym: "organic phosphates" RELATED [ChEBI] synonym: "organophosphate ester" RELATED [ChEBI] synonym: "organophosphate esters" RELATED [ChEBI] is_a: CHEBI:25710 ! organophosphorus compound is_a: CHEBI:26020 ! phosphate [Term] id: CHEBI:2571 name: aliphatic alcohol namespace: chebi_ontology def: "An alcohol derived from an aliphatic compound." [] subset: 3_STAR synonym: "Aliphatic alcohol" EXACT [KEGG_COMPOUND] synonym: "aliphatic alcohols" RELATED [ChEBI] synonym: "an aliphatic alcohol" RELATED [UniProt] xref: KEGG:C02525 is_a: CHEBI:30879 ! alcohol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O*" xsd:string [Term] id: CHEBI:25710 name: organophosphorus compound namespace: chebi_ontology def: "An organophosphorus compound is formally a compound containing at least one carbon-phosphorus bond, but the term is often extended to include esters and thioesters." [] subset: 3_STAR synonym: "organophosphorus compound" EXACT [ChEBI] synonym: "organophosphorus compounds" RELATED [ChEBI] is_a: CHEBI:26082 ! phosphorus molecular entity is_a: CHEBI:33285 ! heteroorganic entity [Term] id: CHEBI:25741 name: oxide namespace: chebi_ontology def: "An oxide is a chemical compound of oxygen with other chemical elements." [] subset: 3_STAR synonym: "oxide" EXACT [ChEBI] synonym: "oxides" RELATED [ChEBI] is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:25750 name: oxime namespace: chebi_ontology def: "Compounds of structure R2C=NOH derived from condensation of aldehydes or ketones with hydroxylamine. Oximes from aldehydes may be called aldoximes; those from ketones may be called ketoximes." [] subset: 3_STAR synonym: "oxime" EXACT [IUPAC] synonym: "oximes" EXACT IUPAC_NAME [IUPAC] synonym: "oximes" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity is_a: CHEBI:51143 ! nitrogen molecular entity relationship: is_conjugate_acid_of CHEBI:142513 ! oxime anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHNOR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "43.02470" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.00581" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O\\N=C(\\[*])[*]" xsd:string [Term] id: CHEBI:2580 name: unsaturated fatty acid anion namespace: chebi_ontology def: "Any fatty acid anion containing at least one C-C unsaturated bond; formed by deprotonation of the carboxylic acid moiety." [] subset: 3_STAR is_a: CHEBI:28868 ! fatty acid anion relationship: is_conjugate_base_of CHEBI:27208 ! unsaturated fatty acid [Term] id: CHEBI:25805 name: oxygen atom namespace: chebi_ontology subset: 3_STAR synonym: "8O" RELATED [IUPAC] synonym: "O" RELATED [IUPAC] synonym: "oxigeno" RELATED [ChEBI] synonym: "oxygen" EXACT IUPAC_NAME [IUPAC] synonym: "oxygen" RELATED [ChEBI] synonym: "oxygene" RELATED [ChEBI] synonym: "Sauerstoff" RELATED [ChEBI] xref: KEGG:C00007 xref: WebElements:O is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33303 ! chalcogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QVGXLLKOCUKJST-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.99940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O]" xsd:string [Term] id: CHEBI:25806 name: oxygen molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "oxygen molecular entities" RELATED [ChEBI] synonym: "oxygen molecular entity" EXACT [ChEBI] is_a: CHEBI:33304 ! chalcogen molecular entity relationship: has_part CHEBI:25805 ! oxygen atom [Term] id: CHEBI:25810 name: oxopurine namespace: chebi_ontology subset: 3_STAR synonym: "oxopurines" RELATED [ChEBI] is_a: CHEBI:26401 ! purines [Term] id: CHEBI:25897 name: pentenoic acid namespace: chebi_ontology def: "Any C5, straight-chain, monounsaturated fatty acid." [] subset: 3_STAR synonym: "C5:1" RELATED [ChEBI] synonym: "pentenoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "pentenoic acids" RELATED [ChEBI] is_a: CHEBI:25413 ! monounsaturated fatty acid is_a: CHEBI:26666 ! short-chain fatty acid is_a: CHEBI:59202 ! straight-chain fatty acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "100.116" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "100.05243" xsd:string [Term] id: CHEBI:25900 name: aldopentose phosphate namespace: chebi_ontology subset: 3_STAR synonym: "aldopentose phosphate" EXACT [ChEBI] synonym: "aldopentose phosphates" RELATED [ChEBI] is_a: CHEBI:35131 ! aldose phosphate is_a: CHEBI:84055 ! pentose phosphate [Term] id: CHEBI:25901 name: pentose namespace: chebi_ontology def: "A five-carbon monosaccharide which in its linear form contains either an aldehyde group at position 1 (aldopentose) or a ketone group at position 2 (ketopentose)." [] subset: 3_STAR synonym: "pentose" EXACT [ChEBI] synonym: "pentoses" RELATED [ChEBI] is_a: CHEBI:35381 ! monosaccharide [Term] id: CHEBI:25944 name: pesticide namespace: chebi_ontology def: "Strictly, a substance intended to kill pests. In common usage, any substance used for controlling, preventing, or destroying animal, microbiological or plant pests." [] subset: 3_STAR synonym: "pesticide" EXACT IUPAC_NAME [IUPAC] synonym: "pesticides" RELATED [ChEBI] synonym: "Pestizid" RELATED [ChEBI] synonym: "Pestizide" RELATED [ChEBI] xref: Wikipedia:Pesticide is_a: CHEBI:33232 ! application [Term] id: CHEBI:25990 name: phenylethanolamines namespace: chebi_ontology def: "An ethanolamine compound having a phenyl (substituted or unsubstituted) group on the carbon bearing the hydroxy substituent." [] subset: 3_STAR is_a: CHEBI:23981 ! ethanolamines [Term] id: CHEBI:26020 name: phosphate namespace: chebi_ontology def: "Salts and esters of phosphoric and oligophosphoric acids and their chalcogen analogues. In inorganic chemistry, the term is also used to describe anionic coordination entities with phosphorus as central atom." [] subset: 3_STAR synonym: "phosphates" EXACT IUPAC_NAME [IUPAC] synonym: "phosphates" RELATED [ChEBI] is_a: CHEBI:26079 ! phosphoric acid derivative [Term] id: CHEBI:26078 name: phosphoric acid namespace: chebi_ontology def: "A phosphorus oxoacid that consits of one oxo and three hydroxy groups joined covalently to a central phosphorus atom." [] subset: 3_STAR synonym: "[PO(OH)3]" RELATED [IUPAC] synonym: "acide phosphorique" RELATED [ChEBI] synonym: "acidum phosphoricum" RELATED [ChEBI] synonym: "H3PO4" RELATED [IUPAC] synonym: "Orthophosphoric acid" RELATED [KEGG_COMPOUND] synonym: "orthophosphoric acid" RELATED [NIST_Chemistry_WebBook] synonym: "Phosphate" RELATED [KEGG_COMPOUND] synonym: "Phosphoric acid" EXACT [KEGG_COMPOUND] synonym: "phosphoric acid" EXACT [IUPAC] synonym: "Phosphorsaeure" RELATED [ChEBI] synonym: "Phosphorsaeureloesungen" RELATED [ChEBI] synonym: "tetraoxophosphoric acid" EXACT IUPAC_NAME [IUPAC] synonym: "trihydrogen tetraoxophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "trihydroxidooxidophosphorus" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1921286 "Beilstein" xref: CAS:7664-38-2 "ChemIDplus" xref: Drug_Central:4478 "DrugCentral" xref: Gmelin:2000 "Gmelin" xref: HMDB:HMDB0002142 xref: KEGG:C00009 xref: KEGG:D05467 xref: KNApSAcK:C00007408 xref: PMID:11455380 "Europe PMC" xref: PMID:15630224 "Europe PMC" xref: PMID:17439666 "Europe PMC" xref: PMID:17518491 "Europe PMC" xref: PMID:22282755 "Europe PMC" xref: PMID:22333268 "Europe PMC" xref: PMID:22381614 "Europe PMC" xref: PMID:22401268 "Europe PMC" xref: Reaxys:1921286 "Reaxys" xref: Wikipedia:Phosphoric_Acid is_a: CHEBI:59698 ! phosphoric acids relationship: has_role CHEBI:33287 ! fertilizer relationship: has_role CHEBI:46787 ! solvent relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:84735 ! algal metabolite relationship: is_conjugate_acid_of CHEBI:39745 ! dihydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "97.99520" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "97.97690" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OP(=O)(O[H])O[H]" xsd:string [Term] id: CHEBI:26079 name: phosphoric acid derivative namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:36359 ! phosphorus oxoacid derivative relationship: has_functional_parent CHEBI:26078 ! phosphoric acid [Term] id: CHEBI:26082 name: phosphorus molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "phosphorus molecular entities" RELATED [ChEBI] is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_part CHEBI:28659 ! phosphorus atom [Term] id: CHEBI:26144 name: piperazines namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:26216 name: potassium atom namespace: chebi_ontology subset: 3_STAR synonym: "19K" RELATED [IUPAC] synonym: "K" RELATED [IUPAC] synonym: "Kalium" RELATED [ChemIDplus] synonym: "kalium" RELATED [IUPAC] synonym: "potasio" RELATED [ChEBI] synonym: "potassium" EXACT IUPAC_NAME [IUPAC] synonym: "potassium" RELATED [ChEBI] xref: CAS:7440-09-7 "ChemIDplus" xref: DrugBank:DB01345 xref: KEGG:C00238 xref: WebElements:K is_a: CHEBI:22314 ! alkali metal atom relationship: has_role CHEBI:33937 ! macronutrient relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZLMJMSJWJFRBEC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "39.09830" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "38.96371" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[K]" xsd:string [Term] id: CHEBI:26292 name: propanones namespace: chebi_ontology def: "A ketone that is propane carrying at least one oxo substituent." [] subset: 3_STAR is_a: CHEBI:17087 ! ketone [Term] id: CHEBI:26385 name: purine alkaloid namespace: chebi_ontology subset: 3_STAR synonym: "purine alkaloids" RELATED [ChEBI] is_a: CHEBI:22315 ! alkaloid is_a: CHEBI:26401 ! purines [Term] id: CHEBI:26386 name: purine nucleobase namespace: chebi_ontology def: "A nucleobase whose skeleton is derived from purine." [] subset: 3_STAR synonym: "a purine nucleobase" RELATED [UniProt] synonym: "purine bases" RELATED [ChEBI] synonym: "purine nucleobase" EXACT [ChEBI] synonym: "purine nucleobases" RELATED [ChEBI] xref: KEGG:C15587 is_a: CHEBI:18282 ! nucleobase is_a: CHEBI:26401 ! purines property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H3N4R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "119.104" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "119.03577" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1(NC(=NC=2NC=NC12)*)=*" xsd:string [Term] id: CHEBI:26392 name: purine nucleoside monophosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine nucleoside monophosphates" RELATED [ChEBI] is_a: CHEBI:17188 ! nucleoside 5'-monophosphate [Term] id: CHEBI:26393 name: purine nucleoside triphosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine nucleoside triphosphates" RELATED [ChEBI] is_a: CHEBI:17326 ! nucleoside triphosphate [Term] id: CHEBI:26394 name: purine nucleoside namespace: chebi_ontology subset: 3_STAR synonym: "purine nucleoside" EXACT [ChEBI] synonym: "purine nucleosides" RELATED [ChEBI] is_a: CHEBI:26401 ! purines is_a: CHEBI:33838 ! nucleoside [Term] id: CHEBI:26395 name: purine nucleotide namespace: chebi_ontology def: "Any nucleotide that has a purine nucleobase." [] subset: 3_STAR synonym: "purine nucleotides" RELATED [ChEBI] is_a: CHEBI:26401 ! purines is_a: CHEBI:36976 ! nucleotide [Term] id: CHEBI:26397 name: purine ribonucleoside monophosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine ribonucleoside monophosphates" RELATED [ChEBI] is_a: CHEBI:26392 ! purine nucleoside monophosphate is_a: CHEBI:26558 ! ribonucleoside monophosphate [Term] id: CHEBI:26398 name: purine ribonucleoside triphosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine ribonucleoside triphosphates" RELATED [ChEBI] is_a: CHEBI:17972 ! ribonucleoside triphosphate is_a: CHEBI:26393 ! purine nucleoside triphosphate [Term] id: CHEBI:26399 name: purine ribonucleoside namespace: chebi_ontology def: "A ribonucleoside that has a purine moiety as the nucleobase (the R group in the illustration)." [] subset: 3_STAR synonym: "purine ribonucleosides" RELATED [ChEBI] is_a: CHEBI:18254 ! ribonucleoside is_a: CHEBI:26394 ! purine nucleoside property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9O4R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "133.123" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "133.05008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*[C@@H]1O[C@H](CO)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:26400 name: purine ribonucleotide namespace: chebi_ontology def: "Any ribonucleotide that has a purine nucleobase." [] subset: 3_STAR synonym: "purine ribonucleotides" RELATED [ChEBI] is_a: CHEBI:26395 ! purine nucleotide is_a: CHEBI:26561 ! ribonucleotide [Term] id: CHEBI:26401 name: purines namespace: chebi_ontology alt_id: CHEBI:13678 def: "A class of imidazopyrimidines that consists of purine and its substituted derivatives." [] subset: 3_STAR is_a: CHEBI:35875 ! imidazopyrimidine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5N4R7" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "116.080" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "116.01230" xsd:string [Term] id: CHEBI:26416 name: pyridine alkaloid namespace: chebi_ontology subset: 3_STAR synonym: "pyridine alkaloids" RELATED [ChEBI] is_a: CHEBI:22315 ! alkaloid is_a: CHEBI:26421 ! pyridines [Term] id: CHEBI:26421 name: pyridines namespace: chebi_ontology def: "Any organonitrogen heterocyclic compound based on a pyridine skeleton and its substituted derivatives." [] subset: 3_STAR is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:26432 name: pyrimidine nucleobase namespace: chebi_ontology def: "A nucleobase whose skeleton is derived from pyrimidine." [] subset: 3_STAR synonym: "a pyrimidine nucleobase" RELATED [UniProt] synonym: "pyrimidine bases" RELATED [ChEBI] synonym: "pyrimidine nucleobase" EXACT [ChEBI] synonym: "pyrimidine nucleobases" RELATED [ChEBI] is_a: CHEBI:18282 ! nucleobase is_a: CHEBI:39447 ! pyrimidines property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4HN2R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "77.064" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "77.01397" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "N1C(=C(C(=NC1=*)*)*)*" xsd:string [Term] id: CHEBI:26456 name: pyrrolidine alkaloid namespace: chebi_ontology subset: 3_STAR synonym: "pyrrolidine alkaloids" RELATED [ChEBI] is_a: CHEBI:22315 ! alkaloid is_a: CHEBI:38260 ! pyrrolidines [Term] id: CHEBI:26469 name: quaternary nitrogen compound namespace: chebi_ontology def: "A nitrogen molecular entity that is electronically neutral but which contains a quaternary nitrogen." [] subset: 3_STAR is_a: CHEBI:35352 ! organonitrogen compound relationship: has_part CHEBI:35267 ! quaternary ammonium ion [Term] id: CHEBI:26509 name: quinoline alkaloid namespace: chebi_ontology subset: 3_STAR synonym: "quinoline alkaloids" RELATED [ChEBI] is_a: CHEBI:22315 ! alkaloid [Term] id: CHEBI:26513 name: quinolines namespace: chebi_ontology def: "A class of aromatic heterocyclic compounds each of which contains a benzene ring ortho fused to carbons 2 and 3 of a pyridine ring." [] subset: 3_STAR is_a: CHEBI:33659 ! organic aromatic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:26547 name: rhamnoside namespace: chebi_ontology subset: 3_STAR synonym: "rhamnoside" EXACT [ChEBI] synonym: "rhamnosides" RELATED [ChEBI] is_a: CHEBI:35315 ! deoxy hexoside [Term] id: CHEBI:26558 name: ribonucleoside monophosphate namespace: chebi_ontology subset: 3_STAR synonym: "ribonucleoside monophosphates" RELATED [ChEBI] is_a: CHEBI:17188 ! nucleoside 5'-monophosphate relationship: is_conjugate_acid_of CHEBI:63165 ! ribonucleoside monophosphate oxoanion [Term] id: CHEBI:26561 name: ribonucleotide namespace: chebi_ontology subset: 3_STAR synonym: "ribonucleotides" RELATED [ChEBI] is_a: CHEBI:26562 ! ribose phosphate is_a: CHEBI:36976 ! nucleotide [Term] id: CHEBI:26562 name: ribose phosphate namespace: chebi_ontology subset: 3_STAR synonym: "ribose phosphate" EXACT [ChEBI] synonym: "ribose phosphates" RELATED [ChEBI] is_a: CHEBI:25900 ! aldopentose phosphate [Term] id: CHEBI:26607 name: saturated fatty acid namespace: chebi_ontology def: "Any fatty acid containing no carbon to carbon multiple bonds. Known to produce adverse biological effects when ingested to excess." [] subset: 3_STAR synonym: "saturated fatty acid" EXACT [ChEBI] synonym: "saturated fatty acids" RELATED [ChEBI] synonym: "SFA" RELATED [ChEBI] synonym: "SFAs" RELATED [ChEBI] xref: PMID:16492686 "Europe PMC" xref: PMID:19763019 "Europe PMC" xref: PMID:20237329 "Europe PMC" is_a: CHEBI:35366 ! fatty acid [Term] id: CHEBI:26666 name: short-chain fatty acid namespace: chebi_ontology def: "An aliphatic monocarboxylic acid with a chain length of less than C6. If any non-hydrocarbon substituent is present, the compound is not normally regarded as a short-chain fatty acid." [] subset: 3_STAR synonym: "SCFA" RELATED [ChEBI] synonym: "SCFAs" RELATED [ChEBI] synonym: "short-chain fatty acids" RELATED [ChEBI] xref: PMID:16633129 "Europe PMC" xref: PMID:16870803 "Europe PMC" xref: PMID:18203540 "Europe PMC" xref: PMID:20148677 "Europe PMC" is_a: CHEBI:35366 ! fatty acid relationship: is_conjugate_acid_of CHEBI:58951 ! short-chain fatty acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2OR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.017" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])=O" xsd:string [Term] id: CHEBI:26708 name: sodium atom namespace: chebi_ontology subset: 3_STAR synonym: "11Na" RELATED [IUPAC] synonym: "Na" RELATED [IUPAC] synonym: "Natrium" RELATED [ChemIDplus] synonym: "natrium" RELATED [IUPAC] synonym: "sodio" RELATED [ChemIDplus] synonym: "sodium" EXACT IUPAC_NAME [IUPAC] synonym: "sodium" RELATED [ChEBI] xref: CAS:7440-23-5 "ChemIDplus" xref: Gmelin:16221 "Gmelin" xref: KEGG:C01330 xref: WebElements:Na is_a: CHEBI:22314 ! alkali metal atom relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Na" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Na" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KEAYESYHFKHZAL-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "22.98977" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "22.98977" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Na]" xsd:string [Term] id: CHEBI:26710 name: sodium chloride namespace: chebi_ontology def: "An inorganic chloride salt having sodium(1+) as the counterion." [] subset: 3_STAR synonym: "chlorure de sodium" RELATED [ChEBI] synonym: "cloruro sodico" RELATED [ChEBI] synonym: "common salt" RELATED [ChemIDplus] synonym: "halite" RELATED [NIST_Chemistry_WebBook] synonym: "Kochsalz" RELATED [ChEBI] synonym: "NaCl" RELATED [IUPAC] synonym: "natrii chloridum" RELATED [ChEBI] synonym: "Natriumchlorid" RELATED [NIST_Chemistry_WebBook] synonym: "rock salt" RELATED [ChemIDplus] synonym: "salt" RELATED [ChemIDplus] synonym: "sodium chloride" EXACT [ChEBI] synonym: "sodium chloride" EXACT IUPAC_NAME [IUPAC] synonym: "table salt" RELATED [ChemIDplus] xref: Beilstein:3534976 "Beilstein" xref: CAS:7647-14-5 "KEGG COMPOUND" xref: Gmelin:13673 "Gmelin" xref: KEGG:C13563 xref: KEGG:D02056 xref: MetaCyc:NACL xref: PPDB:595 xref: Reaxys:3534976 "Reaxys" xref: Wikipedia:Sodium_Chloride is_a: CHEBI:36093 ! inorganic chloride is_a: CHEBI:38702 ! inorganic sodium salt property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "ClNa" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/ClH.Na/h1H;/q;+1/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FAPWRFPIFSIZLT-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "58.44247" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "57.95862" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Na+].[Cl-]" xsd:string [Term] id: CHEBI:26712 name: sodium molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "sodium compounds" RELATED [ChEBI] synonym: "sodium molecular entities" RELATED [ChEBI] is_a: CHEBI:33296 ! alkali metal molecular entity relationship: has_part CHEBI:26708 ! sodium atom [Term] id: CHEBI:26714 name: sodium salt namespace: chebi_ontology def: "Any alkali metal salt having sodium(1+) as the cation." [] subset: 3_STAR synonym: "Natriumsalz" RELATED [ChEBI] synonym: "Natriumsalze" RELATED [ChEBI] synonym: "sodium salts" RELATED [ChEBI] is_a: CHEBI:26712 ! sodium molecular entity is_a: CHEBI:35479 ! alkali metal salt relationship: has_part CHEBI:29101 ! sodium(1+) [Term] id: CHEBI:26764 name: steroid hormone namespace: chebi_ontology def: "Any steroid that acts as hormone." [] subset: 3_STAR synonym: "hormona esteroide" RELATED [ChEBI] synonym: "hormonas esteroideas" RELATED [ChEBI] synonym: "hormone steroide" RELATED [ChEBI] synonym: "hormones steroides" RELATED [ChEBI] synonym: "steroid hormones" RELATED [ChEBI] synonym: "Steroidhormon" RELATED [ChEBI] synonym: "Steroidhormone" RELATED [ChEBI] is_a: CHEBI:35341 ! steroid relationship: has_role CHEBI:24621 ! hormone [Term] id: CHEBI:26766 name: steroid lactone namespace: chebi_ontology subset: 3_STAR synonym: "steroid lactones" RELATED [ChEBI] xref: KEGG:C15507 is_a: CHEBI:25000 ! lactone is_a: CHEBI:35341 ! steroid [Term] id: CHEBI:26816 name: carbohydrate phosphate namespace: chebi_ontology subset: 3_STAR synonym: "carbohydrate phosphates" RELATED [ChEBI] is_a: CHEBI:25703 ! organic phosphate is_a: CHEBI:37734 ! phosphoric ester is_a: CHEBI:63299 ! carbohydrate derivative [Term] id: CHEBI:26822 name: sulfide namespace: chebi_ontology def: "Any sulfur molecular entity that involves either covalently bonded or anionic sulfur." [] subset: 3_STAR synonym: "sulphides" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity [Term] id: CHEBI:26833 name: sulfur atom namespace: chebi_ontology subset: 3_STAR synonym: "16S" RELATED [IUPAC] synonym: "azufre" RELATED [ChEBI] synonym: "Elemental sulfur" RELATED [KEGG_COMPOUND] synonym: "S" RELATED [KEGG_COMPOUND] synonym: "S" RELATED [IUPAC] synonym: "Schwefel" RELATED [ChEBI] synonym: "soufre" RELATED [ChEBI] synonym: "sulfur" EXACT IUPAC_NAME [IUPAC] synonym: "sulfur" RELATED [ChEBI] synonym: "sulfur" RELATED [UniProt] synonym: "sulphur" RELATED [ChEBI] synonym: "theion" RELATED [IUPAC] xref: CAS:7704-34-9 "ChemIDplus" xref: KEGG:C00087 xref: KEGG:D06527 xref: PPDB:605 xref: WebElements:S is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33303 ! chalcogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NINIDFKCEFEMDL-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "32.06600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.97207" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[S]" xsd:string [Term] id: CHEBI:26835 name: sulfur molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "sulfur molecular entities" RELATED [ChEBI] synonym: "sulfur molecular entity" EXACT [ChEBI] is_a: CHEBI:33304 ! chalcogen molecular entity relationship: has_part CHEBI:26833 ! sulfur atom [Term] id: CHEBI:26912 name: oxolanes namespace: chebi_ontology def: "Any oxacycle having an oxolane (tetrahydrofuran) skeleton." [] subset: 3_STAR is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38104 ! oxacycle [Term] id: CHEBI:26952 name: thioacetic acid namespace: chebi_ontology subset: 3_STAR synonym: "ethanethioic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Thioessigsaeure" RELATED [ChEBI] xref: KEGG:C01857 is_a: CHEBI:35737 ! monothiocarboxylic acid relationship: is_conjugate_acid_of CHEBI:30320 ! thioacetate [Term] id: CHEBI:26959 name: thiocarboxylic ester namespace: chebi_ontology def: "An ester in which one or both oxygens of an ester group have been replaced by divalent sulfur." [] subset: 3_STAR synonym: "thiocarboxylic esters" RELATED [ChEBI] is_a: CHEBI:33261 ! organosulfur compound is_a: CHEBI:35701 ! ester [Term] id: CHEBI:26979 name: organic heterotricyclic compound namespace: chebi_ontology def: "An organic tricyclic compound in which at least one of the rings of the tricyclic skeleton contains one or more heteroatoms." [] subset: 3_STAR synonym: "heterotricyclic compounds" RELATED [ChEBI] synonym: "organic heterotricyclic compounds" RELATED [ChEBI] is_a: CHEBI:36688 ! heterotricyclic compound is_a: CHEBI:38166 ! organic heteropolycyclic compound is_a: CHEBI:51959 ! organic tricyclic compound [Term] id: CHEBI:27026 name: toxin namespace: chebi_ontology def: "Poisonous substance produced by a biological organism such as a microbe, animal or plant." [] subset: 3_STAR synonym: "toxin" EXACT IUPAC_NAME [IUPAC] synonym: "toxins" RELATED [ChEBI] xref: Wikipedia:Toxin is_a: CHEBI:25212 ! metabolite is_a: CHEBI:64909 ! poison [Term] id: CHEBI:27027 name: micronutrient namespace: chebi_ontology def: "Any nutrient required in small quantities by organisms throughout their life in order to orchestrate a range of physiological functions." [] subset: 3_STAR synonym: "micronutrients" RELATED [ChEBI] synonym: "trace elements" RELATED [ChEBI] xref: Wikipedia:Micronutrient is_a: CHEBI:33284 ! nutrient [Term] id: CHEBI:27081 name: transition element atom namespace: chebi_ontology def: "An element whose atom has an incomplete d sub-shell, or which can give rise to cations with an incomplete d sub-shell." [] subset: 3_STAR synonym: "metal de transicion" RELATED [ChEBI] synonym: "metal de transition" RELATED [ChEBI] synonym: "metales de transicion" RELATED [ChEBI] synonym: "metaux de transition" RELATED [ChEBI] synonym: "transition element" EXACT IUPAC_NAME [IUPAC] synonym: "transition element" RELATED [ChEBI] synonym: "transition elements" RELATED [ChEBI] synonym: "transition metal" RELATED [ChEBI] synonym: "transition metals" RELATED [ChEBI] synonym: "Uebergangselement" RELATED [ChEBI] synonym: "Uebergangsmetalle" RELATED [ChEBI] is_a: CHEBI:33521 ! metal atom [Term] id: CHEBI:27134 name: trimethylxanthine namespace: chebi_ontology subset: 3_STAR synonym: "trimethylxanthines" RELATED [ChEBI] is_a: CHEBI:25348 ! methylxanthine [Term] id: CHEBI:27162 name: tryptamines namespace: chebi_ontology def: "Tryptamine and its substitution derivatives." [] subset: 3_STAR is_a: CHEBI:24828 ! indoles [Term] id: CHEBI:27171 name: organic heterobicyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "heterobicyclic compounds" RELATED [ChEBI] synonym: "organic heterobicyclic compounds" RELATED [ChEBI] is_a: CHEBI:33672 ! heterobicyclic compound is_a: CHEBI:38166 ! organic heteropolycyclic compound [Term] id: CHEBI:27175 name: tyramines namespace: chebi_ontology def: "Aralkylamino compounds which contain a tyramine skeleton." [] subset: 3_STAR is_a: CHEBI:33853 ! phenols is_a: CHEBI:64365 ! aralkylamino compound [Term] id: CHEBI:27207 name: univalent carboacyl group namespace: chebi_ontology def: "A univalent carboacyl group is a group formed by loss of OH from the carboxy group of a carboxylic acid." [] subset: 3_STAR synonym: "univalent acyl group" RELATED [ChEBI] synonym: "univalent carboacyl groups" RELATED [ChEBI] synonym: "univalent carboxylic acyl groups" RELATED [ChEBI] is_a: CHEBI:37838 ! carboacyl group [Term] id: CHEBI:27208 name: unsaturated fatty acid namespace: chebi_ontology def: "Any fatty acid containing at least one C=C or C#C bond." [] subset: 3_STAR synonym: "alkene acid" RELATED [ChEBI] synonym: "olefinic acid" RELATED [ChEBI] synonym: "unsaturated fatty acids" RELATED [LIPID_MAPS] synonym: "unsaturated fatty acids" RELATED [ChEBI] xref: LIPID_MAPS_class:LMFA0103 "LIPID MAPS" xref: PMID:5322381 "Europe PMC" is_a: CHEBI:35366 ! fatty acid relationship: is_conjugate_acid_of CHEBI:2580 ! unsaturated fatty acid anion [Term] id: CHEBI:27363 name: zinc atom namespace: chebi_ontology subset: 3_STAR synonym: "30Zn" RELATED [IUPAC] synonym: "cinc" RELATED [ChEBI] synonym: "zinc" EXACT IUPAC_NAME [IUPAC] synonym: "zinc" RELATED [ChEBI] synonym: "zincum" RELATED [ChEBI] synonym: "Zink" RELATED [ChEBI] synonym: "Zn" RELATED [IUPAC] synonym: "Zn(II)" RELATED [KEGG_COMPOUND] synonym: "Zn2+" RELATED [KEGG_COMPOUND] xref: CAS:7440-66-6 "KEGG COMPOUND" xref: Gmelin:16321 "Gmelin" xref: KEGG:C00038 xref: PDBeChem:ZN xref: WebElements:Zn is_a: CHEBI:33340 ! zinc group element atom relationship: has_role CHEBI:27027 ! micronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Zn" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Zn" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HCHKCACWOHOZIP-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "65.39000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "63.92914" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Zn]" xsd:string [Term] id: CHEBI:27364 name: zinc molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "zinc compounds" RELATED [ChEBI] synonym: "zinc molecular entities" RELATED [ChEBI] is_a: CHEBI:33673 ! zinc group molecular entity relationship: has_part CHEBI:27363 ! zinc atom [Term] id: CHEBI:27369 name: zwitterion namespace: chebi_ontology def: "A neutral compound having formal unit electrical charges of opposite sign on non-adjacent atoms. Sometimes referred to as inner salts, dipolar ions (a misnomer)." [] subset: 3_STAR synonym: "compose zwitterionique" RELATED [IUPAC] synonym: "compuestos zwitterionicos" RELATED [IUPAC] synonym: "zwitterion" EXACT IUPAC_NAME [IUPAC] synonym: "zwitteriones" RELATED [IUPAC] synonym: "zwitterionic compounds" RELATED [IUPAC] synonym: "zwitterions" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:51151 ! dipolar compound [Term] id: CHEBI:27376 name: methanesulfonic acid namespace: chebi_ontology alt_id: CHEBI:6813 def: "An alkanesulfonic acid in which the alkyl group directly linked to the sulfo functionality is methyl." [] subset: 3_STAR synonym: "Methanesulfonic acid" EXACT [KEGG_COMPOUND] synonym: "methanesulfonic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Methansulfonsaeure" RELATED [ChEBI] synonym: "methylsulfonic acid" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1446024 "Beilstein" xref: CAS:75-75-2 "NIST Chemistry WebBook" xref: Gmelin:1681 "Gmelin" xref: KEGG:C11145 xref: MetaCyc:CPD-3746 xref: PMID:24304088 "Europe PMC" xref: PMID:24593036 "Europe PMC" xref: Reaxys:1446024 "Reaxys" xref: Wikipedia:Methanesulfonic_acid is_a: CHEBI:47901 ! alkanesulfonic acid is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: is_conjugate_acid_of CHEBI:25224 ! methanesulfonate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH4O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH4O3S/c1-5(2,3)4/h1H3,(H,2,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "AFVFQIVMOAPDHO-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.10666" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.98812" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CS(O)(=O)=O" xsd:string [Term] id: CHEBI:27594 name: carbon atom namespace: chebi_ontology alt_id: CHEBI:23009 alt_id: CHEBI:3399 subset: 3_STAR synonym: "6C" RELATED [IUPAC] synonym: "C" RELATED [KEGG_COMPOUND] synonym: "C" RELATED [IUPAC] synonym: "Carbon" RELATED [KEGG_COMPOUND] synonym: "carbon" EXACT IUPAC_NAME [IUPAC] synonym: "carbon" RELATED [ChEBI] synonym: "carbone" RELATED [ChEBI] synonym: "carbonium" RELATED [ChEBI] synonym: "carbono" RELATED [ChEBI] synonym: "Kohlenstoff" RELATED [ChEBI] xref: CAS:7440-44-0 "KEGG COMPOUND" xref: KEGG:C06265 xref: WebElements:C is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33306 ! carbon group element atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OKTJSMMVPCPJKN-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "12.01070" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "12.00000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[C]" xsd:string [Term] id: CHEBI:27682 name: 3',5'-cyclic dGMP namespace: chebi_ontology alt_id: CHEBI:1330 alt_id: CHEBI:19832 subset: 1_STAR is_a: CHEBI:19834 ! 3',5'-cyclic purine nucleotide [Term] id: CHEBI:27732 name: caffeine namespace: chebi_ontology alt_id: CHEBI:22982 alt_id: CHEBI:3295 alt_id: CHEBI:41472 def: "A trimethylxanthine in which the three methyl groups are located at positions 1, 3, and 7. A purine alkaloid that occurs naturally in tea and coffee." [] subset: 3_STAR synonym: "1,3,7-trimethyl-2,6-dioxopurine" RELATED [ChemIDplus] synonym: "1,3,7-trimethyl-3,7-dihydro-1H-purine-2,6-dione" EXACT IUPAC_NAME [IUPAC] synonym: "1,3,7-trimethylpurine-2,6-dione" RELATED [IUPHAR] synonym: "1,3,7-Trimethylxanthine" RELATED [KEGG_COMPOUND] synonym: "1,3,7-trimethylxanthine" RELATED [NIST_Chemistry_WebBook] synonym: "1-methyltheobromine" RELATED [ChemIDplus] synonym: "3,7-Dihydro-1,3,7-trimethyl-1H-purin-2,6-dion" RELATED [NIST_Chemistry_WebBook] synonym: "7-methyltheophylline" RELATED [NIST_Chemistry_WebBook] synonym: "anhydrous caffeine" RELATED [KEGG_DRUG] synonym: "cafeina" RELATED [ChemIDplus] synonym: "cafeine" RELATED [ChEBI] synonym: "CAFFEINE" EXACT [PDBeChem] synonym: "Caffeine" EXACT [KEGG_COMPOUND] synonym: "caffeine" EXACT [UniProt] synonym: "Coffein" RELATED [ChemIDplus] synonym: "guaranine" RELATED [IUPHAR] synonym: "Koffein" RELATED [ChemIDplus] synonym: "mateina" RELATED [ChemIDplus] synonym: "methyltheobromine" RELATED [IUPHAR] synonym: "teina" RELATED [ChEBI] synonym: "Thein" RELATED [ChemIDplus] synonym: "theine" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:17705 "Beilstein" xref: CAS:58-08-2 "NIST Chemistry WebBook" xref: Drug_Central:463 "DrugCentral" xref: DrugBank:DB00201 xref: Gmelin:103040 "Gmelin" xref: HMDB:HMDB0001847 xref: KEGG:C07481 xref: KEGG:D00528 xref: KNApSAcK:C00001492 xref: LINCS:LSM-2026 xref: MetaCyc:1-3-7-TRIMETHYLXANTHINE xref: PDBeChem:CFF xref: PMID:10510174 "Europe PMC" xref: PMID:10796597 "Europe PMC" xref: PMID:10803761 "Europe PMC" xref: PMID:10822912 "Europe PMC" xref: PMID:10884512 "Europe PMC" xref: PMID:10924888 "Europe PMC" xref: PMID:10983026 "Europe PMC" xref: PMID:11014293 "Europe PMC" xref: PMID:11022879 "Europe PMC" xref: PMID:11209966 "Europe PMC" xref: PMID:11312039 "Europe PMC" xref: PMID:11410911 "Europe PMC" xref: PMID:11431501 "Europe PMC" xref: PMID:11815511 "Europe PMC" xref: PMID:11949272 "Europe PMC" xref: PMID:12397877 "Europe PMC" xref: PMID:12457274 "Europe PMC" xref: PMID:12574990 "Europe PMC" xref: PMID:12915014 "Europe PMC" xref: PMID:12943586 "Europe PMC" xref: PMID:14521986 "Europe PMC" xref: PMID:14607010 "Europe PMC" xref: PMID:15257305 "Europe PMC" xref: PMID:15280431 "Europe PMC" xref: PMID:15681408 "Europe PMC" xref: PMID:15718055 "Europe PMC" xref: PMID:15840517 "Europe PMC" xref: PMID:16143823 "Europe PMC" xref: PMID:16391865 "Europe PMC" xref: PMID:16528931 "Europe PMC" xref: PMID:16644114 "Europe PMC" xref: PMID:16709440 "Europe PMC" xref: PMID:16805851 "Europe PMC" xref: PMID:16856769 "Europe PMC" xref: PMID:17132260 "Europe PMC" xref: PMID:17387608 "Europe PMC" xref: PMID:17508167 "Europe PMC" xref: PMID:17724925 "Europe PMC" xref: PMID:17932622 "Europe PMC" xref: PMID:17957400 "Europe PMC" xref: PMID:18068204 "Europe PMC" xref: PMID:18258404 "Europe PMC" xref: PMID:18421070 "Europe PMC" xref: PMID:18625110 "Europe PMC" xref: PMID:18647558 "Europe PMC" xref: PMID:19007524 "Europe PMC" xref: PMID:19047957 "Europe PMC" xref: PMID:19084078 "Europe PMC" xref: PMID:19088793 "Europe PMC" xref: PMID:19418355 "Europe PMC" xref: PMID:19879252 "Europe PMC" xref: PMID:20164568 "Europe PMC" xref: PMID:20470411 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: PMID:7441110 "Europe PMC" xref: PMID:7689104 "Europe PMC" xref: PMID:8332255 "Europe PMC" xref: PMID:8347173 "Europe PMC" xref: PMID:8679661 "Europe PMC" xref: PMID:9063686 "Europe PMC" xref: PMID:9067318 "Europe PMC" xref: PMID:9132918 "Europe PMC" xref: PMID:9218278 "Europe PMC" xref: Reaxys:17705 "Reaxys" xref: Wikipedia:Caffeine is_a: CHEBI:27134 ! trimethylxanthine relationship: has_role CHEBI:25435 ! mutagen relationship: has_role CHEBI:35337 ! central nervous system stimulant relationship: has_role CHEBI:35471 ! psychotropic drug relationship: has_role CHEBI:35498 ! diuretic relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:50218 ! EC 3.1.4.* (phosphoric diester hydrolase) inhibitor relationship: has_role CHEBI:50925 ! EC 2.7.11.1 (non-specific serine/threonine protein kinase) inhibitor relationship: has_role CHEBI:53121 ! adenosine A2A receptor antagonist relationship: has_role CHEBI:60809 ! adjuvant relationship: has_role CHEBI:64047 ! food additive relationship: has_role CHEBI:67114 ! ryanodine receptor agonist relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:76946 ! fungal metabolite relationship: has_role CHEBI:78298 ! environmental contaminant relationship: has_role CHEBI:85234 ! human blood serum metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H10N4O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H10N4O2/c1-10-4-9-6-5(10)7(13)12(3)8(14)11(6)2/h4H,1-3H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RYYVLZVUVIJVGH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "194.19076" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "194.08038" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Cn1cnc2n(C)c(=O)n(C)c(=O)c12" xsd:string [Term] id: CHEBI:27848 name: alpha-L-rhamnoside namespace: chebi_ontology alt_id: CHEBI:10294 alt_id: CHEBI:22426 subset: 3_STAR synonym: "6-deoxy-alpha-L-mannopyranoside" EXACT IUPAC_NAME [IUPAC] synonym: "alpha-L-Rhamnoside" EXACT [KEGG_COMPOUND] synonym: "alpha-L-rhamnosides" RELATED [ChEBI] xref: KEGG:C02757 is_a: CHEBI:26547 ! rhamnoside property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H11O5R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "163.14850" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "163.06065" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[C@@H]1O[C@@H](O[*])[C@H](O)[C@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:27882 name: (S)-colchicine namespace: chebi_ontology alt_id: CHEBI:3811 subset: 3_STAR synonym: "(S)-N-(5,6,7,9-tetrahydro-1,2,3,10-tetramethoxy-9-oxobenzo[a]heptalen-7-yl)acetamide" RELATED [NIST_Chemistry_WebBook] synonym: "7alphaH-colchicine" RELATED [NIST_Chemistry_WebBook] synonym: "Colchicin" RELATED [ChemIDplus] synonym: "colchicina" RELATED [DrugBank] synonym: "Colchicine" RELATED [KEGG_COMPOUND] synonym: "colchicinum" RELATED [DrugBank] synonym: "N-[(7S)-1,2,3,10-tetramethoxy-9-oxo-5,6,7,9-tetrahydrobenzo[a]heptalen-7-yl]acetamide" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:2228813 "Beilstein" xref: CAS:64-86-8 "ChemIDplus" xref: Drug_Central:726 "DrugCentral" xref: DrugBank:DB01394 xref: KEGG:C07592 xref: KEGG:D00570 xref: KNApSAcK:C00002327 xref: LINCS:LSM-5199 xref: PDBeChem:LOC xref: Wikipedia:Colchicine is_a: CHEBI:23359 ! colchicine relationship: has_role CHEBI:25435 ! mutagen relationship: is_enantiomer_of CHEBI:51074 ! (R)-colchicine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C22H25NO6" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C22H25NO6/c1-12(24)23-16-8-6-13-10-19(27-3)21(28-4)22(29-5)20(13)14-7-9-18(26-2)17(25)11-15(14)16/h7,9-11,16H,6,8H2,1-5H3,(H,23,24)/t16-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IAKHMKGGTNLKSZ-INIZCTEOSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "399.43700" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "399.16819" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "COc1cc2CC[C@H](NC(C)=O)c3cc(=O)c(OC)ccc3-c2c(OC)c1OC" xsd:string [Term] id: CHEBI:28024 name: cyanic acid namespace: chebi_ontology alt_id: CHEBI:23422 alt_id: CHEBI:3968 subset: 3_STAR synonym: "[C(N)OH]" RELATED [IUPAC] synonym: "Cyanic acid" EXACT [KEGG_COMPOUND] synonym: "Cyansaeure" RELATED [ChEBI] synonym: "HOCN" RELATED [IUPAC] synonym: "hydrogen nitridooxocarbonate" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxidonitridocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "nitridooxocarbonic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Zyansaeure" RELATED [ChEBI] xref: Beilstein:1732479 "Beilstein" xref: CAS:420-05-3 "NIST Chemistry WebBook" xref: CAS:71000-82-3 "KEGG COMPOUND" xref: Gmelin:839 "Gmelin" xref: KEGG:C01417 is_a: CHEBI:23423 ! pseudohalogen oxoacid is_a: CHEBI:64708 ! one-carbon compound relationship: is_conjugate_acid_of CHEBI:29195 ! cyanate relationship: is_tautomer_of CHEBI:29202 ! isocyanic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHNO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CHNO/c2-1-3/h3H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XLJMAIOERFSOGZ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "43.02478" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.00581" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC#N" xsd:string [Term] id: CHEBI:28616 name: carbamic acid namespace: chebi_ontology alt_id: CHEBI:22504 alt_id: CHEBI:23002 alt_id: CHEBI:3386 alt_id: CHEBI:44573 def: "A one-carbon compound that is ammonia in which one of the hydrogens is replaced by a carboxy group. Although carbamic acid derivatives are common, carbamic acid itself has never been synthesised." [] subset: 3_STAR synonym: "Aminoameisensaeure" RELATED [ChEBI] synonym: "Aminoformic acid" RELATED [KEGG_COMPOUND] synonym: "Carbamate" RELATED [KEGG_COMPOUND] synonym: "CARBAMIC ACID" EXACT [PDBeChem] synonym: "Carbamic acid" EXACT [KEGG_COMPOUND] synonym: "carbamic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Carbamidsaeure" RELATED [ChEBI] xref: Beilstein:1734754 "Beilstein" xref: CAS:463-77-4 "ChemIDplus" xref: DrugBank:DB04261 xref: Gmelin:130345 "Gmelin" xref: KEGG:C01563 xref: PDBeChem:OUT xref: Wikipedia:Carbamic_acid is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: is_conjugate_acid_of CHEBI:13941 ! carbamate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3NO2/c2-1(3)4/h2H2,(H,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KXDHJXZQYSOELW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "61.04006" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "61.01638" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC(O)=O" xsd:string [Term] id: CHEBI:28659 name: phosphorus atom namespace: chebi_ontology alt_id: CHEBI:26080 alt_id: CHEBI:8168 subset: 3_STAR synonym: "15P" RELATED [IUPAC] synonym: "fosforo" RELATED [ChEBI] synonym: "P" RELATED [IUPAC] synonym: "P" RELATED [KEGG_COMPOUND] synonym: "Phosphor" RELATED [ChEBI] synonym: "phosphore" RELATED [ChEBI] synonym: "Phosphorus" RELATED [KEGG_COMPOUND] synonym: "phosphorus" EXACT IUPAC_NAME [IUPAC] synonym: "phosphorus" RELATED [ChEBI] xref: CAS:7723-14-0 "KEGG COMPOUND" xref: Gmelin:16235 "Gmelin" xref: KEGG:C06262 xref: WebElements:P is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33300 ! pnictogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OAICVXFJPJFONN-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "30.97376" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "30.97376" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[P]" xsd:string [Term] id: CHEBI:28694 name: copper atom namespace: chebi_ontology alt_id: CHEBI:23376 alt_id: CHEBI:3874 subset: 3_STAR synonym: "29Cu" RELATED [IUPAC] synonym: "cobre" RELATED [ChEBI] synonym: "Copper" RELATED [KEGG_COMPOUND] synonym: "copper" EXACT IUPAC_NAME [IUPAC] synonym: "copper" RELATED [ChEBI] synonym: "Cu" RELATED [ChEBI] synonym: "Cu" RELATED [IUPAC] synonym: "cuivre" RELATED [ChEBI] synonym: "cuprum" RELATED [IUPAC] synonym: "Kupfer" RELATED [ChEBI] xref: CAS:7440-50-8 "KEGG COMPOUND" xref: Gmelin:16269 "Gmelin" xref: KEGG:C00070 xref: WebElements:Cu is_a: CHEBI:33366 ! copper group element atom is_a: CHEBI:88184 ! metal allergen relationship: has_role CHEBI:27027 ! micronutrient relationship: has_role CHEBI:76971 ! Escherichia coli metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cu" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Cu" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RYGMFSIKBFXOCR-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "63.54600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "62.92960" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cu]" xsd:string [Term] id: CHEBI:28790 name: serotonin namespace: chebi_ontology alt_id: CHEBI:1420 alt_id: CHEBI:26652 alt_id: CHEBI:49894 def: "A primary amino compound that is the 5-hydroxy derivative of tryptamine." [] subset: 3_STAR synonym: "3-(2-Aminoethyl)-1H-indol-5-ol" RELATED [KEGG_COMPOUND] synonym: "3-(2-aminoethyl)-1H-indol-5-ol" EXACT IUPAC_NAME [IUPAC] synonym: "5-HT" RELATED [IUPHAR] synonym: "5-Hydroxytryptamine" RELATED [KEGG_COMPOUND] synonym: "Enteramine" RELATED [KEGG_COMPOUND] synonym: "SEROTONIN" EXACT [PDBeChem] synonym: "Serotonin" EXACT [KEGG_COMPOUND] synonym: "serotonine" RELATED [ChEBI] synonym: "thrombocytin" RELATED [ChemIDplus] synonym: "thrombotonin" RELATED [ChemIDplus] xref: Beilstein:143524 "Beilstein" xref: CAS:50-67-9 "ChemIDplus" xref: Gmelin:1861995 "Gmelin" xref: HMDB:HMDB0000259 xref: KEGG:C00780 xref: KNApSAcK:C00001429 xref: LINCS:LSM-6589 xref: MetaCyc:SEROTONIN xref: PDBeChem:SRO xref: PMID:18593914 "Europe PMC" xref: PMID:22770225 "Europe PMC" xref: PMID:24136337 "Europe PMC" xref: Reaxys:143524 "Reaxys" xref: Wikipedia:Serotonin is_a: CHEBI:25375 ! monoamine molecular messenger is_a: CHEBI:27162 ! tryptamines is_a: CHEBI:33853 ! phenols is_a: CHEBI:50994 ! primary amino compound is_a: CHEBI:84729 ! hydroxyindoles relationship: has_functional_parent CHEBI:16765 ! tryptamine relationship: has_role CHEBI:25512 ! neurotransmitter relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:350546 ! serotonin(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N2O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2O/c11-4-3-7-6-12-10-2-1-8(13)5-9(7)10/h1-2,5-6,12-13H,3-4,11H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QZAYGJVTTNCVMB-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "176.215" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "176.09496" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=CC(=CC=2C(=CNC12)CCN)O" xsd:string [Term] id: CHEBI:28868 name: fatty acid anion namespace: chebi_ontology alt_id: CHEBI:13634 alt_id: CHEBI:24022 alt_id: CHEBI:4985 def: "The conjugate base of a fatty acid, arising from deprotonation of the carboxylic acid group of the corresponding fatty acid." [] subset: 3_STAR synonym: "a fatty acid" RELATED [UniProt] synonym: "acido graso anionico" RELATED [ChEBI] synonym: "acidos grasos anionicos" RELATED [ChEBI] synonym: "Alkanate" RELATED [KEGG_COMPOUND] synonym: "anion de l'acide gras" RELATED [ChEBI] synonym: "Fatty acid anion" EXACT [KEGG_COMPOUND] synonym: "fatty acid anions" RELATED [ChEBI] synonym: "Fettsaeureanion" RELATED [ChEBI] synonym: "Fettsaeureanionen" RELATED [ChEBI] xref: KEGG:C02403 xref: PMID:18628202 "Europe PMC" is_a: CHEBI:18059 ! lipid is_a: CHEBI:35757 ! monocarboxylic acid anion relationship: is_conjugate_base_of CHEBI:35366 ! fatty acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.00950" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:28938 name: ammonium namespace: chebi_ontology alt_id: CHEBI:22534 alt_id: CHEBI:49783 alt_id: CHEBI:7435 def: "An onium cation obtained by protonation of ammonia." [] subset: 3_STAR synonym: "[NH4](+)" RELATED [MolBase] synonym: "ammonium" EXACT IUPAC_NAME [IUPAC] synonym: "ammonium" EXACT [ChEBI] synonym: "AMMONIUM ION" RELATED [PDBeChem] synonym: "Ammonium(1+)" RELATED [ChemIDplus] synonym: "azanium" EXACT IUPAC_NAME [IUPAC] synonym: "NH4(+)" RELATED [UniProt] synonym: "NH4(+)" RELATED [IUPAC] synonym: "NH4+" RELATED [KEGG_COMPOUND] xref: CAS:14798-03-9 "NIST Chemistry WebBook" xref: Gmelin:84 "Gmelin" xref: KEGG:C01342 xref: MetaCyc:AMMONIUM xref: MolBase:929 xref: PDBeChem:NH4 xref: PMID:11319011 "Europe PMC" xref: PMID:11341317 "Europe PMC" xref: PMID:12096804 "Europe PMC" xref: PMID:14512268 "Europe PMC" xref: PMID:14879753 "Europe PMC" xref: PMID:16345391 "Europe PMC" xref: PMID:16903292 "Europe PMC" xref: PMID:17392693 "Europe PMC" xref: PMID:18515490 "Europe PMC" xref: PMID:19199063 "Europe PMC" xref: PMID:19596600 "Europe PMC" xref: PMID:19682559 "Europe PMC" xref: PMID:19716251 "Europe PMC" xref: PMID:21993530 "Europe PMC" xref: PMID:22265469 "Europe PMC" xref: PMID:22524020 "Europe PMC" xref: PMID:22562341 "Europe PMC" xref: PMID:22631217 "Europe PMC" xref: Reaxys:16093784 "Reaxys" xref: Wikipedia:Ammonium is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:35274 ! ammonium ion is_a: CHEBI:50313 ! onium cation is_a: CHEBI:60242 ! monovalent inorganic cation relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:16134 ! ammonia property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H4N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3N/h1H3/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QGZKDVFQNNGYKY-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "18.03850" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "18.03383" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][N+]([H])([H])[H]" xsd:string [Term] id: CHEBI:29067 name: carboxylic acid anion namespace: chebi_ontology alt_id: CHEBI:13626 alt_id: CHEBI:13945 alt_id: CHEBI:23026 alt_id: CHEBI:58657 def: "The conjugate base formed when the carboxy group of a carboxylic acid is deprotonated." [] subset: 3_STAR synonym: "a carboxylate" RELATED [UniProt] synonym: "carboxylic acid anions" RELATED [ChEBI] synonym: "carboxylic anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion relationship: is_conjugate_base_of CHEBI:33575 ! carboxylic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.00950" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:29075 name: mononucleotide namespace: chebi_ontology alt_id: CHEBI:14616 alt_id: CHEBI:25404 alt_id: CHEBI:6983 subset: 3_STAR synonym: "Mononucleotide" EXACT [KEGG_COMPOUND] synonym: "mononucleotides" RELATED [ChEBI] xref: KEGG:C02171 is_a: CHEBI:36976 ! nucleotide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O7PR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "213.103" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "213.01641" xsd:string [Term] id: CHEBI:29101 name: sodium(1+) namespace: chebi_ontology alt_id: CHEBI:26717 alt_id: CHEBI:49766 alt_id: CHEBI:9175 def: "A monoatomic monocation obtained from sodium." [] subset: 3_STAR synonym: "Na(+)" RELATED [UniProt] synonym: "Na(+)" RELATED [IUPAC] synonym: "Na+" RELATED [KEGG_COMPOUND] synonym: "sodium cation" EXACT IUPAC_NAME [IUPAC] synonym: "SODIUM ION" RELATED [PDBeChem] synonym: "sodium(1+)" EXACT IUPAC_NAME [IUPAC] synonym: "sodium(1+) ion" EXACT IUPAC_NAME [IUPAC] synonym: "sodium(I) cation" EXACT IUPAC_NAME [IUPAC] xref: CAS:17341-25-2 "ChemIDplus" xref: Gmelin:15196 "Gmelin" xref: KEGG:C01330 xref: PDBeChem:NA is_a: CHEBI:25414 ! monoatomic monocation is_a: CHEBI:33504 ! alkali metal cation is_a: CHEBI:37246 ! elemental sodium is_a: CHEBI:60242 ! monovalent inorganic cation relationship: has_role CHEBI:77746 ! human metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Na" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Na/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FKNQFGJONOIPTF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "22.98977" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "22.98922" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Na+]" xsd:string [Term] id: CHEBI:29195 name: cyanate namespace: chebi_ontology alt_id: CHEBI:14037 alt_id: CHEBI:23419 subset: 3_STAR synonym: "[C(N)O](-)" RELATED [IUPAC] synonym: "Cyanat" RELATED [ChEBI] synonym: "cyanate" EXACT [UniProt] synonym: "cyanate" EXACT IUPAC_NAME [IUPAC] synonym: "cyanate ion" RELATED [ChemIDplus] synonym: "nitridooxidocarbonate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "OCN(-)" RELATED [IUPAC] synonym: "Zyanat" RELATED [ChEBI] xref: CAS:661-20-1 "UM-BBD" xref: CAS:71000-82-3 "ChemIDplus" xref: KEGG:C01417 xref: UM-BBD_compID:c0568 "UM-BBD" is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:36828 ! pseudohalide anion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:28024 ! cyanic acid relationship: is_conjugate_base_of CHEBI:29202 ! isocyanic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CNO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CHNO/c2-1-3/h3H/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XLJMAIOERFSOGZ-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "42.01684" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "41.99854" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C#N" xsd:string [Term] id: CHEBI:29202 name: isocyanic acid namespace: chebi_ontology def: "A colourless, volatile, poisonous inorganic compound with the formula HNCO; the simplest stable chemical compound that contains carbon, hydrogen, nitrogen, and oxygen, the four most commonly-found elements in organic chemistry and biology." [] subset: 3_STAR synonym: "[C(NH)O]" RELATED [IUPAC] synonym: "carbimide" RELATED [ChEBI] synonym: "HN=C=O" RELATED [NIST_Chemistry_WebBook] synonym: "HNCO" RELATED [IUPAC] synonym: "hydrogen isocyanate" RELATED [NIST_Chemistry_WebBook] synonym: "ICA" RELATED [ChEBI] synonym: "isocyanate" RELATED [UniProt] synonym: "isocyanic acid" EXACT IUPAC_NAME [IUPAC] synonym: "isocyansaeure" RELATED [ChEBI] synonym: "isozyansaeure" RELATED [ChEBI] synonym: "methenamide" RELATED [ChEBI] synonym: "oxidoazanediidocarbon" RELATED [IUPAC] xref: Beilstein:1616281 "Beilstein" xref: CAS:75-13-8 "ChemIDplus" xref: Gmelin:840 "Gmelin" xref: PMID:19494520 "Europe PMC" xref: PMID:26124058 "Europe PMC" xref: PMID:26760716 "Europe PMC" xref: PMID:977566 "Europe PMC" xref: Reaxys:1616281 "Reaxys" is_a: CHEBI:33405 ! hydracid is_a: CHEBI:64708 ! one-carbon compound relationship: is_conjugate_acid_of CHEBI:29195 ! cyanate relationship: is_tautomer_of CHEBI:28024 ! cyanic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHNO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CHNO/c2-1-3/h2H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OWIKHYCFFJSOEH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "43.02478" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.00581" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "N=C=O" xsd:string [Term] id: CHEBI:29214 name: sulfonic acid namespace: chebi_ontology subset: 3_STAR synonym: "[SHO2(OH)]" RELATED [IUPAC] synonym: "acide sulfonique" RELATED [ChEBI] synonym: "HSHO3" RELATED [IUPAC] synonym: "hydridohydroxidodioxidosulfur" EXACT IUPAC_NAME [IUPAC] synonym: "sulfonic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Sulfonsaeure" RELATED [ChEBI] synonym: "sulphonic acid" RELATED [ChEBI] xref: Gmelin:1404640 "Gmelin" is_a: CHEBI:33402 ! sulfur oxoacid relationship: is_conjugate_acid_of CHEBI:33543 ! sulfonate relationship: is_tautomer_of CHEBI:48854 ! sulfurous acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O3S/c1-4(2)3/h4H,(H,1,2,3)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BDHFUVZGWQCTTF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "82.08008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "81.97247" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]S(O)(=O)=O" xsd:string [Term] id: CHEBI:29337 name: azanide namespace: chebi_ontology subset: 3_STAR synonym: "amide" EXACT IUPAC_NAME [IUPAC] synonym: "azanide" EXACT IUPAC_NAME [IUPAC] synonym: "dihydridonitrate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "NH2(-)" RELATED [IUPAC] is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:29340 ! hydridonitrate(2-) relationship: is_conjugate_base_of CHEBI:16134 ! ammonia property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2N/h1H2/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HYGWNUKOUCZBND-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "16.02262" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "16.01927" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][N-][H]" xsd:string [Term] id: CHEBI:29340 name: hydridonitrate(2-) namespace: chebi_ontology def: "A divalent inorganic anion resulting from the removal of two protons from ammonia." [] subset: 3_STAR synonym: "azanediide" EXACT IUPAC_NAME [IUPAC] synonym: "hydridonitrate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "imide" RELATED [IUPAC] synonym: "NH(2-)" RELATED [IUPAC] is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79388 ! divalent inorganic anion relationship: is_conjugate_base_of CHEBI:29337 ! azanide property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HN" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/HN/h1H/q-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DZQYTNGKSBCIOE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.01468" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.01200" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[N--][H]" xsd:string [Term] id: CHEBI:29360 name: methanediide namespace: chebi_ontology subset: 3_STAR synonym: "[CH2](2-)" RELATED [ChEBI] synonym: "CH2(2-)" RELATED [IUPAC] synonym: "dihydridocarbonate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "methanediide" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:5915711 "Beilstein" xref: Gmelin:322698 "Gmelin" is_a: CHEBI:38222 ! hydrocarbyl anion relationship: is_conjugate_base_of CHEBI:29438 ! methanide property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH2/h1H2/q-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "PZPOWPOFQLSNJO-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "14.02658" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "14.01675" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C--][H]" xsd:string [Term] id: CHEBI:29438 name: methanide namespace: chebi_ontology subset: 3_STAR synonym: "[CH3](-)" RELATED [ChEBI] synonym: "CH3(-)" RELATED [IUPAC] synonym: "lambda(2)-methanuide" RELATED [IUPAC] synonym: "methanide" EXACT IUPAC_NAME [IUPAC] synonym: "methyl anion" RELATED [IUPAC] synonym: "trihydridocarbonate(1-)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1813938 "Beilstein" xref: CAS:15194-58-8 "NIST Chemistry WebBook" xref: Gmelin:259263 "Gmelin" is_a: CHEBI:38222 ! hydrocarbyl anion relationship: is_conjugate_acid_of CHEBI:29360 ! methanediide relationship: is_conjugate_base_of CHEBI:16183 ! methane property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3/h1H3/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LGRLWUINFJPLSH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.03452" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.02402" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C-]([H])[H]" xsd:string [Term] id: CHEBI:29922 name: sulfo group namespace: chebi_ontology subset: 3_STAR synonym: "-S(O)2(OH)" RELATED [IUPAC] synonym: "hydroxydioxo-lambda(6)-sulfanyl" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxysulfonyl" EXACT IUPAC_NAME [IUPAC] synonym: "sulfo" EXACT IUPAC_NAME [IUPAC] synonym: "SULFO GROUP" EXACT [PDBeChem] xref: PDBeChem:SFO is_a: CHEBI:33246 ! inorganic group relationship: is_substituent_group_from CHEBI:29214 ! sulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "81.07214" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.96464" xsd:string [Term] id: CHEBI:30052 name: copper(0) namespace: chebi_ontology subset: 3_STAR synonym: "copper" EXACT IUPAC_NAME [IUPAC] synonym: "copper(0)" EXACT [IUPAC] synonym: "Cu(0)" RELATED [ChEBI] synonym: "Cun" RELATED [IUPAC] xref: CAS:7440-50-8 "ChemIDplus" is_a: CHEBI:37404 ! elemental copper property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cu" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Cu" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RYGMFSIKBFXOCR-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "63.54600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "62.92960" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cu]" xsd:string [Term] id: CHEBI:30089 name: acetate namespace: chebi_ontology alt_id: CHEBI:13704 alt_id: CHEBI:22165 alt_id: CHEBI:40480 def: "A monocarboxylic acid anion resulting from the removal of a proton from the carboxy group of acetic acid." [] subset: 3_STAR synonym: "acetate" EXACT [UniProt] synonym: "acetate" EXACT IUPAC_NAME [IUPAC] synonym: "ACETATE ION" RELATED [PDBeChem] synonym: "acetic acid, ion(1-)" RELATED [ChemIDplus] synonym: "Azetat" RELATED [ChEBI] synonym: "CH3-COO(-)" RELATED [IUPAC] synonym: "Ethanoat" RELATED [ChEBI] synonym: "ethanoate" RELATED [ChEBI] synonym: "MeCO2 anion" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1901470 "Beilstein" xref: CAS:71-50-1 "NIST Chemistry WebBook" xref: DrugBank:DB03166 xref: Gmelin:1379 "Gmelin" xref: KEGG:C00033 xref: MetaCyc:ACET xref: PDBeChem:ACT xref: PMID:17190852 "Europe PMC" xref: PMID:22211106 "Europe PMC" xref: PMID:22371380 "Europe PMC" xref: Reaxys:1901470 "Reaxys" xref: UM-BBD_compID:c0050 "UM-BBD" xref: Wikipedia:Acetate is_a: CHEBI:35757 ! monocarboxylic acid anion relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:15366 ! acetic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4O2/c1-2(3)4/h1H3,(H,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QTBSBXVTEAMEQO-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "59.04402" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "59.01385" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC([O-])=O" xsd:string [Term] id: CHEBI:30145 name: lithium atom namespace: chebi_ontology subset: 3_STAR synonym: "3Li" RELATED [IUPAC] synonym: "Li" RELATED [IUPAC] synonym: "Lithium" RELATED [ChEBI] synonym: "lithium" EXACT IUPAC_NAME [IUPAC] synonym: "lithium" RELATED [ChEBI] synonym: "litio" RELATED [ChEBI] xref: CAS:7439-93-2 "NIST Chemistry WebBook" xref: WebElements:Li is_a: CHEBI:22314 ! alkali metal atom property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Li" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Li" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHXSMMKQMYFTQS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "6.94100" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "7.01600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Li]" xsd:string [Term] id: CHEBI:30185 name: zinc(0) namespace: chebi_ontology subset: 3_STAR synonym: "zinc" RELATED [IUPAC] synonym: "zinc(0)" EXACT IUPAC_NAME [IUPAC] synonym: "Zn(0)" RELATED [ChEBI] synonym: "Znn" RELATED [IUPAC] xref: CAS:7440-66-6 "ChemIDplus" xref: DrugBank:DB01593 is_a: CHEBI:37253 ! elemental zinc property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Zn" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Zn" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HCHKCACWOHOZIP-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "65.39000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "63.92914" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Zn]" xsd:string [Term] id: CHEBI:30320 name: thioacetate namespace: chebi_ontology alt_id: CHEBI:15233 alt_id: CHEBI:26951 subset: 3_STAR synonym: "ethanethioate" EXACT IUPAC_NAME [IUPAC] synonym: "Thioacetat" RELATED [ChEBI] synonym: "thioacetate" EXACT [UniProt] synonym: "thioacetate" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1848542 "Beilstein" xref: Beilstein:3903387 "Beilstein" xref: CAS:29632-72-2 "ChemIDplus" xref: Gmelin:323277 "Gmelin" is_a: CHEBI:35367 ! thiocarboxylic acid anion relationship: is_conjugate_base_of CHEBI:26952 ! thioacetic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3OS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4OS/c1-2(3)4/h1H3,(H,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DUYAAUVXQSMXQP-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "75.11062" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.99101" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC([S-])=O" xsd:string [Term] id: CHEBI:30362 name: isopentane namespace: chebi_ontology def: "An alkane that is butane substituted by a methyl group at position 2." [] subset: 3_STAR synonym: "(CH3)2CH-CH2-CH3" RELATED [IUPAC] synonym: "1,1,2-trimethylethane" RELATED [NIST_Chemistry_WebBook] synonym: "1,1-dimethylpropane" RELATED [NIST_Chemistry_WebBook] synonym: "2-methylbutane" EXACT IUPAC_NAME [IUPAC] synonym: "dimethylethylmethane" RELATED [ChemIDplus] synonym: "iso-C5H12" RELATED [NIST_Chemistry_WebBook] synonym: "iso-pentane" RELATED [NIST_Chemistry_WebBook] synonym: "isoamylhydride" RELATED [ChemIDplus] synonym: "isopentane" EXACT IUPAC_NAME [IUPAC] synonym: "R-601a" RELATED [ChEBI] xref: Beilstein:1730723 "Beilstein" xref: CAS:78-78-4 "ChemIDplus" xref: Gmelin:49318 "Gmelin" xref: PMID:21481069 "Europe PMC" xref: PMID:23904008 "Europe PMC" xref: PMID:24833189 "Europe PMC" xref: PMID:24932627 "Europe PMC" xref: Reaxys:1730723 "Reaxys" xref: Wikipedia:Isopentane is_a: CHEBI:18310 ! alkane relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H12" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H12/c1-4-5(2)3/h5H,4H2,1-3H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QWTDNUCVQCZILF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "72.14878" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "72.09390" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC(C)C" xsd:string [Term] id: CHEBI:30566 name: gamma-aminobutyrate namespace: chebi_ontology alt_id: CHEBI:11961 alt_id: CHEBI:20317 def: "An gamma-amino acid anion resulting from the deprotonation of the carboxy group of gamma-aminobutyric acid." [] subset: 3_STAR synonym: "4-Amino-butyrat" RELATED [ChEBI] synonym: "4-aminobutanoate" EXACT IUPAC_NAME [IUPAC] synonym: "4-aminobutanoic acid ion (1-)" RELATED [ChEBI] synonym: "4-Aminobutylate" RELATED [KEGG_COMPOUND] synonym: "4-aminobutyrate" RELATED [ChEBI] synonym: "gamma-aminobutanoate" RELATED [ChEBI] synonym: "gamma-aminobutyrate anion" RELATED [ChEBI] xref: Beilstein:3536873 "Beilstein" xref: Gmelin:559138 "Gmelin" xref: KEGG:C00334 xref: PMID:12509893 "Europe PMC" xref: Reaxys:3536873 "Reaxys" is_a: CHEBI:71666 ! gamma-amino acid anion relationship: has_functional_parent CHEBI:17968 ! butyrate relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:16865 ! gamma-aminobutyric acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H8NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H9NO2/c5-3-1-2-4(6)7/h1-3,5H2,(H,6,7)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BTCSSZJGUNDROE-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "102.11186" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "102.05605" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCCC([O-])=O" xsd:string [Term] id: CHEBI:30616 name: ATP(4-) namespace: chebi_ontology def: "A nucleoside triphosphate(4-) obtained by global deprotonation of the triphosphate OH groups of ATP; major species present at pH 7.3." [] subset: 3_STAR synonym: "adenosine 5'-triphosphate(4-)" EXACT IUPAC_NAME [IUPAC] synonym: "ATP" RELATED [UniProt] synonym: "atp" RELATED [IUPAC] xref: Beilstein:3581767 "Beilstein" xref: Gmelin:342798 "Gmelin" is_a: CHEBI:61557 ! nucleoside triphosphate(4-) relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:78675 ! fundamental metabolite relationship: is_conjugate_base_of CHEBI:57299 ! ATP(3-) property_value: http://purl.obolibrary.org/obo/chebi/charge "-4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N5O13P3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/p-4/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZKHQWZAMYRWXGA-KQYNXXCUSA-J" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "503.14946" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "502.96664" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@H](COP([O-])(=O)OP([O-])(=O)OP([O-])([O-])=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:30751 name: formic acid namespace: chebi_ontology alt_id: CHEBI:24082 alt_id: CHEBI:42460 alt_id: CHEBI:5145 def: "The simplest carboxylic acid, containing a single carbon. Occurs naturally in various sources including the venom of bee and ant stings, and is a useful organic synthetic reagent. Principally used as a preservative and antibacterial agent in livestock feed. Induces severe metabolic acidosis and ocular injury in human subjects." [] subset: 3_STAR synonym: "Acide formique" RELATED [ChemIDplus] synonym: "Ameisensaeure" RELATED [ChemIDplus] synonym: "aminic acid" RELATED [ChemIDplus] synonym: "bilorin" RELATED [ChemIDplus] synonym: "FORMIC ACID" EXACT [PDBeChem] synonym: "Formic acid" EXACT [KEGG_COMPOUND] synonym: "formic acid" EXACT IUPAC_NAME [IUPAC] synonym: "formylic acid" RELATED [ChemIDplus] synonym: "H-COOH" RELATED [IUPAC] synonym: "HCO2H" RELATED [ChEBI] synonym: "HCOOH" RELATED [NIST_Chemistry_WebBook] synonym: "hydrogen carboxylic acid" RELATED [ChemIDplus] synonym: "Methanoic acid" RELATED [KEGG_COMPOUND] synonym: "methoic acid" RELATED [ChEBI] xref: Beilstein:1209246 "Beilstein" xref: BPDB:1749 xref: CAS:64-18-6 "NIST Chemistry WebBook" xref: DrugBank:DB01942 xref: Gmelin:1008 "Gmelin" xref: HMDB:HMDB0000142 xref: KEGG:C00058 xref: KNApSAcK:C00001182 xref: LIPID_MAPS_instance:LMFA01010040 "LIPID MAPS" xref: MetaCyc:FORMATE xref: Patent:CN101481304 xref: PDBeChem:FMT xref: PMID:12591956 "Europe PMC" xref: PMID:14637377 "Europe PMC" xref: PMID:15811469 "Europe PMC" xref: PMID:16120414 "Europe PMC" xref: PMID:16185830 "Europe PMC" xref: PMID:16222862 "Europe PMC" xref: PMID:16230297 "Europe PMC" xref: PMID:16445901 "Europe PMC" xref: PMID:16465784 "Europe PMC" xref: PMID:18034701 "Europe PMC" xref: PMID:18397576 "Europe PMC" xref: PMID:22080171 "Europe PMC" xref: PMID:22280475 "Europe PMC" xref: PMID:22304812 "Europe PMC" xref: PMID:22385261 "Europe PMC" xref: PMID:22447125 "Europe PMC" xref: PMID:22483350 "Europe PMC" xref: PMID:22499553 "Europe PMC" xref: PMID:22540994 "Europe PMC" xref: PMID:22606986 "Europe PMC" xref: PMID:22622393 "Europe PMC" xref: PMID:3946945 "Europe PMC" xref: PMID:7361809 "Europe PMC" xref: Reaxys:1209246 "Reaxys" xref: Wikipedia:Formic_acid is_a: CHEBI:25384 ! monocarboxylic acid relationship: has_role CHEBI:25212 ! metabolite relationship: has_role CHEBI:33282 ! antibacterial agent relationship: has_role CHEBI:48356 ! protic solvent relationship: has_role CHEBI:74783 ! astringent relationship: is_conjugate_acid_of CHEBI:15740 ! formate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH2O2/c2-1-3/h1H,(H,2,3)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BDAGIHXWWSANSR-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "46.02538" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "46.00548" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(O)=O" xsd:string [Term] id: CHEBI:30772 name: butyric acid namespace: chebi_ontology alt_id: CHEBI:113450 alt_id: CHEBI:22948 alt_id: CHEBI:3234 alt_id: CHEBI:41208 def: "A straight-chain saturated fatty acid that is butane in which one of the terminal methyl groups has been oxidised to a carboxy group." [] subset: 3_STAR synonym: "1-butanoic acid" RELATED [HMDB] synonym: "1-butyric acid" RELATED [HMDB] synonym: "1-propanecarboxylic acid" RELATED [MetaCyc] synonym: "4:0" RELATED [ChEBI] synonym: "acide butanoique" RELATED [IUPAC] synonym: "acide butyrique" RELATED [ChEBI] synonym: "butanic acid" RELATED [ChEBI] synonym: "Butanoate" RELATED [KEGG_COMPOUND] synonym: "BUTANOIC ACID" RELATED [PDBeChem] synonym: "Butanoic acid" RELATED [KEGG_COMPOUND] synonym: "butanoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "butoic acid" RELATED [ChEBI] synonym: "Buttersaeure" RELATED [ChEBI] synonym: "Butyric acid" EXACT [KEGG_COMPOUND] synonym: "butyric acid" EXACT [IUPAC] synonym: "C4:0" RELATED [ChEBI] synonym: "CH3-[CH2]2-COOH" RELATED [IUPAC] synonym: "ethylacetic acid" RELATED [NIST_Chemistry_WebBook] synonym: "n-butanoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "n-butyric acid" RELATED [NIST_Chemistry_WebBook] synonym: "propanecarboxylic acid" RELATED [HMDB] synonym: "propylformic acid" RELATED [MetaCyc] xref: Beilstein:906770 "Beilstein" xref: CAS:107-92-6 "KEGG COMPOUND" xref: DrugBank:DB03568 xref: Gmelin:26242 "Gmelin" xref: HMDB:HMDB0000039 xref: KEGG:C00246 xref: KNApSAcK:C00001180 xref: LIPID_MAPS_instance:LMFA01010004 "LIPID MAPS" xref: MetaCyc:BUTYRIC_ACID xref: PDBeChem:BUA xref: PMID:10736622 "Europe PMC" xref: PMID:10956204 "ChEMBL" xref: PMID:11201044 "Europe PMC" xref: PMID:11208715 "Europe PMC" xref: PMID:11238216 "Europe PMC" xref: PMID:11305323 "Europe PMC" xref: PMID:12068484 "Europe PMC" xref: PMID:13678314 "Europe PMC" xref: PMID:14962641 "Europe PMC" xref: PMID:1542095 "ChEMBL" xref: PMID:15809727 "Europe PMC" xref: PMID:15810631 "Europe PMC" xref: PMID:15938880 "Europe PMC" xref: PMID:19318247 "Europe PMC" xref: PMID:19366864 "Europe PMC" xref: PMID:19703412 "Europe PMC" xref: PMID:21699495 "Europe PMC" xref: PMID:22038864 "Europe PMC" xref: PMID:22194341 "Europe PMC" xref: PMID:22322557 "Europe PMC" xref: PMID:22339023 "Europe PMC" xref: PMID:22466881 "Europe PMC" xref: Reaxys:906770 "Reaxys" xref: Wikipedia:Butyric_acid is_a: CHEBI:140601 ! fatty acid 4:0 is_a: CHEBI:39418 ! straight-chain saturated fatty acid relationship: has_role CHEBI:131604 ! Mycoplasma genitalium metabolite relationship: has_role CHEBI:84087 ! human urinary metabolite relationship: is_conjugate_acid_of CHEBI:17968 ! butyrate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H8O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H8O2/c1-2-3-4(5)6/h2-3H2,1H3,(H,5,6)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FERIUCNNQQJTOY-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "88.10510" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "88.05243" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCC(O)=O" xsd:string [Term] id: CHEBI:30776 name: hexanoic acid namespace: chebi_ontology alt_id: CHEBI:24571 alt_id: CHEBI:40213 alt_id: CHEBI:5702 def: "A C6, straight-chain saturated fatty acid." [] subset: 3_STAR synonym: "1-hexanoic acid" RELATED [ChemIDplus] synonym: "1-pentanecarboxylic acid" RELATED [ChemIDplus] synonym: "6:0" RELATED [ChEBI] synonym: "butylacetic acid" RELATED [ChemIDplus] synonym: "C6:0" RELATED [ChEBI] synonym: "caproic acid" RELATED [ChEBI] synonym: "capronic acid" RELATED [NIST_Chemistry_WebBook] synonym: "CH3-[CH2]4-COOH" RELATED [IUPAC] synonym: "Hexanoate" RELATED [KEGG_COMPOUND] synonym: "HEXANOIC ACID" EXACT [PDBeChem] synonym: "Hexanoic acid" EXACT [KEGG_COMPOUND] synonym: "hexanoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "hexoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "Hexylic acid" RELATED [KEGG_COMPOUND] synonym: "n-Caproic acid" RELATED [KEGG_COMPOUND] synonym: "n-hexanoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "n-hexoic acid" RELATED [ChemIDplus] synonym: "n-hexylic acid" RELATED [ChemIDplus] synonym: "Pentanecarboxylic acid" RELATED [ChemIDplus] synonym: "pentiformic acid" RELATED [ChemIDplus] synonym: "pentylformic acid" RELATED [ChemIDplus] xref: Beilstein:773837 "Beilstein" xref: CAS:142-62-1 "ChemIDplus" xref: ECMDB:ECMDB21229 xref: Gmelin:185066 "Gmelin" xref: HMDB:HMDB0000535 xref: KEGG:C01585 xref: KNApSAcK:C00001218 xref: LIPID_MAPS_instance:LMFA01010006 "LIPID MAPS" xref: MetaCyc:HEXANOATE xref: PDBeChem:6NA xref: PMID:10685018 "Europe PMC" xref: PMID:1556177 "Europe PMC" xref: PMID:24357269 "Europe PMC" xref: PMID:24924750 "Europe PMC" xref: Reaxys:773837 "Reaxys" xref: Wikipedia:Hexanoic_acid xref: YMDB:YMDB01424 is_a: CHEBI:39418 ! straight-chain saturated fatty acid is_a: CHEBI:59554 ! medium-chain fatty acid relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:17120 ! hexanoate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H12O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H12O2/c1-2-3-4-5-6(7)8/h2-5H2,1H3,(H,7,8)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FUZZWVXGSFPDMH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "116.15830" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "116.08373" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCCCC(O)=O" xsd:string [Term] id: CHEBI:30879 name: alcohol namespace: chebi_ontology alt_id: CHEBI:13804 alt_id: CHEBI:22288 alt_id: CHEBI:2553 def: "A compound in which a hydroxy group, -OH, is attached to a saturated carbon atom." [] subset: 3_STAR synonym: "Alcohol" EXACT [KEGG_COMPOUND] synonym: "alcohols" EXACT IUPAC_NAME [IUPAC] synonym: "an alcohol" RELATED [UniProt] xref: KEGG:C00069 is_a: CHEBI:33822 ! organic hydroxy compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[*]" xsd:string [Term] id: CHEBI:30953 name: pyrazine namespace: chebi_ontology def: "A diazine that is benzene in which the carbon atoms at positions 1 and 4 have been replaced by nitrogen atoms." [] subset: 3_STAR synonym: "1,4-Diazin" RELATED [ChEBI] synonym: "1,4-diazine" RELATED [NIST_Chemistry_WebBook] synonym: "p-diazine" RELATED [NIST_Chemistry_WebBook] synonym: "paradiazine" RELATED [NIST_Chemistry_WebBook] synonym: "Pyrazin" RELATED [ChEBI] synonym: "pyrazine" EXACT IUPAC_NAME [IUPAC] synonym: "pyz" RELATED [IUPAC] xref: Beilstein:103905 "Beilstein" xref: CAS:290-37-9 "ChemIDplus" xref: Gmelin:1733 "Gmelin" xref: HMDB:HMDB0034176 xref: PMID:24964033 "Europe PMC" xref: Reaxys:103905 "Reaxys" xref: Wikipedia:Pyrazine is_a: CHEBI:38314 ! pyrazines is_a: CHEBI:38627 ! diazine relationship: has_role CHEBI:83056 ! Daphnia magna metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H4N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H4N2/c1-2-6-4-3-5-1/h1-4H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KYQCOXFCLRTKLS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.08804" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.03745" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1cnccn1" xsd:string [Term] id: CHEBI:30985 name: 4,4'-bipyridine namespace: chebi_ontology def: "A bipyridine in which the two pyridine moieties are linked by a bond between positions C-4 and C-4'." [] subset: 3_STAR synonym: "4,4'-bipyridine" EXACT IUPAC_NAME [IUPAC] synonym: "4,4'-bipyridyl" RELATED [ChemIDplus] synonym: "4,4'-bpy" RELATED [IUPAC] synonym: "4,4'-dipyridine" RELATED [NIST_Chemistry_WebBook] synonym: "4,4'-dipyridyl" RELATED [NIST_Chemistry_WebBook] synonym: "4,4-Bipyridin" RELATED [ChEBI] synonym: "4-(4-pyridyl)pyridine" RELATED [ChemIDplus] synonym: "gamma,gamma'-bipyridyl" RELATED [NIST_Chemistry_WebBook] synonym: "gamma,gamma'-dipyridyl" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:113176 "Beilstein" xref: CAS:553-26-4 "NIST Chemistry WebBook" xref: Gmelin:3759 "Gmelin" xref: PMID:24022647 "Europe PMC" xref: PMID:24358992 "Europe PMC" xref: PMID:24446585 "Europe PMC" xref: Reaxys:113176 "Reaxys" xref: Wikipedia:4\,4%27-Bipyridine is_a: CHEBI:35545 ! bipyridine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H8N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H8N2/c1-5-11-6-2-9(1)10-3-7-12-8-4-10/h1-8H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MWVTWFVJZLCBMC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "156.18400" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "156.06875" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1cc(ccn1)-c1ccncc1" xsd:string [Term] id: CHEBI:31206 name: ammonium chloride namespace: chebi_ontology def: "An inorganic chloride having ammonium as the counterion." [] subset: 3_STAR synonym: "[NH4]Cl" RELATED [IUPAC] synonym: "Ammonium chloride" EXACT [KEGG_COMPOUND] synonym: "ammonium chloride" EXACT IUPAC_NAME [IUPAC] synonym: "Ammoniumchlorid" RELATED [NIST_Chemistry_WebBook] synonym: "azanium chloride" RELATED [ChEBI] synonym: "NH4Cl" RELATED [IUPAC] xref: CAS:12125-02-9 "ChemIDplus" xref: Gmelin:10120 "Gmelin" xref: KEGG:C12538 xref: KEGG:D01139 xref: Wikipedia:Ammonium_Chloride is_a: CHEBI:36093 ! inorganic chloride is_a: CHEBI:47704 ! ammonium salt property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cl.H4N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "ClH4N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/ClH.H3N/h1H;1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NLXLAEXVIDQMFP-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "53.49120" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "53.00323" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Cl-].[H][N+]([H])([H])[H]" xsd:string [Term] id: CHEBI:32563 name: lysinate namespace: chebi_ontology def: "An alpha-amino-acid anion that is the conjugate base of lysine, arising from deprotonation of the carboxy group." [] subset: 3_STAR synonym: "2,6-diaminohexanoate" RELATED [IUPAC] synonym: "lys(-)" RELATED [IUPAC] synonym: "lysinate" EXACT IUPAC_NAME [IUPAC] synonym: "lysinate(1-)" RELATED [ChEBI] synonym: "lysine anion" RELATED [JCBN] xref: Gmelin:815095 "Gmelin" is_a: CHEBI:33558 ! alpha-amino-acid anion relationship: is_conjugate_base_of CHEBI:25094 ! lysine property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H13N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDXKERNSBIXSRK-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "145.17970" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "145.09825" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCCCC(N)C([O-])=O" xsd:string [Term] id: CHEBI:32564 name: lysinium(1+) namespace: chebi_ontology def: "An alpha-amino-acid cation that is the conjugate acid of lysine, having two cationic amino groups and an anionic carboxy group." [] subset: 3_STAR synonym: "2,6-diammoniohexanoate" RELATED [IUPAC] synonym: "lysine monocation" RELATED [JCBN] synonym: "lysinium" EXACT IUPAC_NAME [IUPAC] synonym: "lysinium(1+)" EXACT [JCBN] is_a: CHEBI:33719 ! alpha-amino-acid cation relationship: is_conjugate_acid_of CHEBI:25094 ! lysine relationship: is_conjugate_base_of CHEBI:32565 ! lysinium(2+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H15N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDXKERNSBIXSRK-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "147.19558" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "147.11280" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCCCC([NH3+])C([O-])=O" xsd:string [Term] id: CHEBI:32565 name: lysinium(2+) namespace: chebi_ontology def: "An alpha-amino-acid cation obtained by protonation of both amino groups of lysine." [] subset: 3_STAR synonym: "1-carboxypentane-1,5-diaminium" RELATED [IUPAC] synonym: "lysine dication" RELATED [JCBN] synonym: "lysinediium" EXACT IUPAC_NAME [IUPAC] synonym: "lysinium(2+)" EXACT [JCBN] is_a: CHEBI:33719 ! alpha-amino-acid cation relationship: is_conjugate_acid_of CHEBI:32564 ! lysinium(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H16N2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/p+2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDXKERNSBIXSRK-UHFFFAOYSA-P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "148.20352" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "148.12008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCCCC([NH3+])C(O)=O" xsd:string [Term] id: CHEBI:32877 name: primary amine namespace: chebi_ontology alt_id: CHEBI:26263 alt_id: CHEBI:26265 alt_id: CHEBI:8407 alt_id: CHEBI:8409 def: "A compound formally derived from ammonia by replacing one hydrogen atom by a hydrocarbyl group." [] subset: 3_STAR synonym: "primaeres Amin" RELATED [ChEBI] synonym: "Primary amine" EXACT [KEGG_COMPOUND] synonym: "primary amines" EXACT IUPAC_NAME [IUPAC] synonym: "Primary monoamine" RELATED [KEGG_COMPOUND] synonym: "R-NH2" RELATED [IUPAC] synonym: "RCH2NH2" RELATED [KEGG_COMPOUND] xref: KEGG:C00375 xref: KEGG:C00893 xref: KEGG:C02580 is_a: CHEBI:32952 ! amine is_a: CHEBI:50994 ! primary amino compound relationship: is_conjugate_base_of CHEBI:65296 ! primary ammonium ion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2NR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "16.02260" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "16.01872" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[*]" xsd:string [Term] id: CHEBI:32952 name: amine namespace: chebi_ontology alt_id: CHEBI:13814 alt_id: CHEBI:22474 alt_id: CHEBI:2641 def: "A compound formally derived from ammonia by replacing one, two or three hydrogen atoms by hydrocarbyl groups." [] subset: 3_STAR synonym: "Amin" RELATED [ChEBI] synonym: "Amine" EXACT [KEGG_COMPOUND] synonym: "amines" EXACT IUPAC_NAME [IUPAC] synonym: "Substituted amine" RELATED [KEGG_COMPOUND] xref: KEGG:C00706 is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:32954 name: sodium acetate namespace: chebi_ontology subset: 3_STAR synonym: "acetic acid, sodium salt" RELATED [ChemIDplus] synonym: "anhydrous sodium acetate" RELATED [ChemIDplus] synonym: "Natriumazetat" RELATED [ChEBI] synonym: "sodium acetate" EXACT IUPAC_NAME [IUPAC] synonym: "sodium acetate anhydrous" RELATED [ChemIDplus] xref: Beilstein:3595639 "Beilstein" xref: CAS:127-09-3 "ChemIDplus" xref: Gmelin:20502 "Gmelin" xref: Wikipedia:Sodium_Acetate is_a: CHEBI:38700 ! organic sodium salt relationship: has_part CHEBI:30089 ! acetate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3NaO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4O2.Na/c1-2(3)4;/h1H3,(H,3,4);/q;+1/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VMHLLURERBWHNL-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "82.03379" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "82.00307" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Na+].CC([O-])=O" xsd:string [Term] id: CHEBI:32988 name: amide namespace: chebi_ontology alt_id: CHEBI:22473 alt_id: CHEBI:2633 def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] subset: 3_STAR synonym: "Amide" EXACT [KEGG_COMPOUND] synonym: "amides" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00241 is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:33216 name: bisphenol A namespace: chebi_ontology alt_id: CHEBI:22900 alt_id: CHEBI:31295 alt_id: CHEBI:47094 def: "A bisphenol that is 4,4'-methanediyldiphenol in which the methylene hydrogens are replaced by two methyl groups." [] subset: 3_STAR synonym: "2, 2-Bis(4-hydroxyphenyl)propane" RELATED [HMDB] synonym: "2,2-Bis(4'-hydroxyphenyl)propane" RELATED [HMDB] synonym: "2,2-Bis(4-Hydroxyphenyl)propane" RELATED [KEGG_COMPOUND] synonym: "2,2-Bis(p-hydroxyphenyl)propane" RELATED [ChemIDplus] synonym: "2,2-Di(4-hydroxyphenyl)propane" RELATED [ChemIDplus] synonym: "2,2-Di(4-phenylol)propane" RELATED [ChemIDplus] synonym: "4,4'-(1-Methylethane-1,1-diyl)diphenol" RELATED [HMDB] synonym: "4,4'-(1-Methylethylidene)bisphenol" RELATED [ChemIDplus] synonym: "4,4'-(Propane-2,2-diyl)diphenol" RELATED [HMDB] synonym: "4,4'-(propane-2,2-diyl)diphenol" EXACT IUPAC_NAME [IUPAC] synonym: "4,4'-Bisphenol A" RELATED [ChemIDplus] synonym: "4,4'-Isopropylidenediphenol" RELATED [ChemIDplus] synonym: "Bisphenol A" EXACT [KEGG_COMPOUND] synonym: "bisphenol A" EXACT [UniProt] synonym: "bisphenol-A" RELATED [ChEBI] synonym: "BPA" RELATED [HMDB] synonym: "Dianin's compound" RELATED [ChEBI] xref: CAS:80-05-7 "KEGG COMPOUND" xref: DrugBank:DB06973 xref: HMDB:HMDB0032133 xref: KEGG:C13624 xref: LINCS:LSM-37080 xref: PMID:10593191 "Europe PMC" xref: PMID:11361040 "Europe PMC" xref: PMID:12860292 "Europe PMC" xref: PMID:15936980 "Europe PMC" xref: PMID:16904728 "Europe PMC" xref: PMID:24471646 "Europe PMC" xref: PMID:25042713 "Europe PMC" xref: PMID:25148994 "Europe PMC" xref: PMID:25524584 "Europe PMC" xref: PMID:25569640 "Europe PMC" xref: PMID:25637671 "Europe PMC" xref: PMID:25663485 "Europe PMC" xref: Reaxys:1107700 "Reaxys" xref: UM-BBD_compID:c0764 "UM-BBD" xref: Wikipedia:Bisphenol_A is_a: CHEBI:22901 ! bisphenol relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:76988 ! xenoestrogen relationship: has_role CHEBI:78298 ! environmental contaminant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C15H16O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C15H16O2/c1-15(2,11-3-7-13(16)8-4-11)12-5-9-14(17)10-6-12/h3-10,16-17H,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IISBACLAFKSPIT-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "228.28634" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "228.11503" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(C)(c1ccc(O)cc1)c1ccc(O)cc1" xsd:string [Term] id: CHEBI:33232 name: application namespace: chebi_ontology def: "Intended use of the molecular entity or part thereof by humans." [] subset: 3_STAR is_a: CHEBI:50906 ! role [Term] id: CHEBI:33233 name: fundamental particle namespace: chebi_ontology def: "A particle not known to have substructure." [] subset: 3_STAR synonym: "elementary particle" EXACT IUPAC_NAME [IUPAC] synonym: "elementary particles" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:33238 name: monoatomic entity namespace: chebi_ontology def: "A monoatomic entity is a molecular entity consisting of a single atom." [] subset: 3_STAR synonym: "atomic entity" RELATED [ChEBI] synonym: "monoatomic entities" RELATED [ChEBI] is_a: CHEBI:33259 ! elemental molecular entity [Term] id: CHEBI:33241 name: oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "oxoacid derivatives" RELATED [ChEBI] is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_functional_parent CHEBI:24833 ! oxoacid [Term] id: CHEBI:33242 name: inorganic hydride namespace: chebi_ontology subset: 3_STAR synonym: "inorganic hydrides" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:33245 name: organic fundamental parent namespace: chebi_ontology def: "An organic fundamental parent is a structure used as a basis for substitutive names in organic nomenclature, containing, in addition to one or more hydrogen atoms, a single atom of an element, a number of atoms (alike or different) linked together to form an unbranched chain, a monocyclic or polycyclic ring system, or a ring assembly or ring/chain system." [] subset: 3_STAR synonym: "organic fundamental parents" RELATED [ChEBI] synonym: "organic parent hydrides" RELATED [ChEBI] is_a: CHEBI:37175 ! organic hydride is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33246 name: inorganic group namespace: chebi_ontology def: "Any substituent group which does not contain carbon." [] subset: 3_STAR synonym: "inorganic groups" RELATED [ChEBI] is_a: CHEBI:24433 ! group [Term] id: CHEBI:33247 name: organic group namespace: chebi_ontology def: "Any substituent group or skeleton containing carbon." [] subset: 3_STAR synonym: "organic groups" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity is_a: CHEBI:24433 ! group relationship: is_substituent_group_from CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33248 name: hydrocarbyl group namespace: chebi_ontology def: "A univalent group formed by removing a hydrogen atom from a hydrocarbon." [] subset: 3_STAR synonym: "groupe hydrocarbyle" RELATED [IUPAC] synonym: "grupo hidrocarbilo" RELATED [IUPAC] synonym: "grupos hidrocarbilo" RELATED [IUPAC] synonym: "hydrocarbyl group" EXACT [IUPAC] synonym: "hydrocarbyl groups" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33249 ! organyl group relationship: is_substituent_group_from CHEBI:24632 ! hydrocarbon [Term] id: CHEBI:33249 name: organyl group namespace: chebi_ontology def: "Any organic substituent group, regardless of functional type, having one free valence at a carbon atom." [] subset: 3_STAR synonym: "groupe organyle" RELATED [IUPAC] synonym: "grupo organilo" RELATED [IUPAC] synonym: "grupos organilo" RELATED [IUPAC] synonym: "organyl group" EXACT IUPAC_NAME [IUPAC] synonym: "organyl groups" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:51447 ! organic univalent group [Term] id: CHEBI:33250 name: atom namespace: chebi_ontology alt_id: CHEBI:22671 alt_id: CHEBI:23907 def: "A chemical entity constituting the smallest component of an element having the chemical properties of the element." [] subset: 3_STAR synonym: "atom" EXACT IUPAC_NAME [IUPAC] synonym: "atome" RELATED [IUPAC] synonym: "atomo" RELATED [IUPAC] synonym: "atoms" RELATED [ChEBI] synonym: "atomus" RELATED [ChEBI] synonym: "element" RELATED [ChEBI] synonym: "elements" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity relationship: has_part CHEBI:10545 ! electron relationship: has_part CHEBI:33252 ! atomic nucleus [Term] id: CHEBI:33252 name: atomic nucleus namespace: chebi_ontology def: "A nucleus is the positively charged central portion of an atom, excluding the orbital electrons." [] subset: 3_STAR synonym: "Atomkern" RELATED [ChEBI] synonym: "Kern" RELATED [ChEBI] synonym: "noyau" RELATED [IUPAC] synonym: "noyau atomique" RELATED [ChEBI] synonym: "nuclei" RELATED [ChEBI] synonym: "nucleo" RELATED [IUPAC] synonym: "nucleo atomico" RELATED [ChEBI] synonym: "nucleus" EXACT IUPAC_NAME [IUPAC] synonym: "nucleus atomi" RELATED [ChEBI] is_a: CHEBI:36347 ! nuclear particle relationship: has_part CHEBI:33253 ! nucleon [Term] id: CHEBI:33253 name: nucleon namespace: chebi_ontology def: "Heavy nuclear particle: proton or neutron." [] subset: 3_STAR synonym: "nucleon" EXACT [IUPAC] synonym: "nucleon" EXACT IUPAC_NAME [IUPAC] synonym: "nucleons" RELATED [ChEBI] synonym: "Nukleon" RELATED [ChEBI] synonym: "Nukleonen" RELATED [ChEBI] is_a: CHEBI:36339 ! baryon is_a: CHEBI:36347 ! nuclear particle [Term] id: CHEBI:33256 name: primary amide namespace: chebi_ontology def: "A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] subset: 3_STAR synonym: "primary amide" EXACT [IUPAC] synonym: "primary amides" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:32988 ! amide [Term] id: CHEBI:33259 name: elemental molecular entity namespace: chebi_ontology def: "A molecular entity all atoms of which have the same atomic number." [] subset: 3_STAR synonym: "homoatomic entity" RELATED [ChEBI] synonym: "homoatomic molecular entities" RELATED [ChEBI] synonym: "homoatomic molecular entity" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:33261 name: organosulfur compound namespace: chebi_ontology alt_id: CHEBI:23010 alt_id: CHEBI:25714 def: "An organosulfur compound is a compound containing at least one carbon-sulfur bond." [] subset: 3_STAR synonym: "organosulfur compound" EXACT [ChEBI] synonym: "organosulfur compounds" RELATED [ChEBI] xref: Wikipedia:Organosulfur_compounds is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:36962 ! organochalcogen compound [Term] id: CHEBI:33273 name: polyatomic anion namespace: chebi_ontology def: "An anion consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:36358 ! polyatomic ion [Term] id: CHEBI:33280 name: molecular messenger namespace: chebi_ontology subset: 3_STAR synonym: "chemical messenger" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:33281 name: antimicrobial agent namespace: chebi_ontology alt_id: CHEBI:22582 def: "A substance that kills or slows the growth of microorganisms, including bacteria, viruses, fungi and protozoans." [] subset: 3_STAR synonym: "antibiotic" RELATED [ChEBI] synonym: "antibiotics" RELATED [ChEBI] synonym: "Antibiotika" RELATED [ChEBI] synonym: "Antibiotikum" RELATED [ChEBI] synonym: "antibiotique" RELATED [IUPAC] synonym: "antimicrobial" RELATED [ChEBI] synonym: "antimicrobial agents" RELATED [ChEBI] synonym: "antimicrobials" RELATED [ChEBI] synonym: "microbicide" RELATED [ChEBI] synonym: "microbicides" RELATED [ChEBI] xref: PMID:12964249 "Europe PMC" xref: PMID:22117953 "Europe PMC" xref: PMID:22439833 "Europe PMC" xref: PMID:22849268 "Europe PMC" xref: PMID:22849276 "Europe PMC" xref: PMID:22958833 "Europe PMC" is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:33282 name: antibacterial agent namespace: chebi_ontology def: "A substance (or active part thereof) that kills or slows the growth of bacteria." [] subset: 3_STAR synonym: "antibacterial agents" RELATED [ChEBI] synonym: "antibacterials" RELATED [ChEBI] synonym: "bactericide" RELATED [ChEBI] synonym: "bactericides" RELATED [ChEBI] is_a: CHEBI:33281 ! antimicrobial agent [Term] id: CHEBI:33284 name: nutrient namespace: chebi_ontology def: "A nutrient is a food component that an organism uses to survive and grow." [] subset: 3_STAR synonym: "nutrients" RELATED [ChEBI] is_a: CHEBI:78295 ! food component [Term] id: CHEBI:33285 name: heteroorganic entity namespace: chebi_ontology def: "A heteroorganic entity is an organic molecular entity in which carbon atoms or organic groups are bonded directly to one or more heteroatoms." [] subset: 3_STAR synonym: "heteroorganic entities" RELATED [ChEBI] synonym: "organoelement compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33286 name: agrochemical namespace: chebi_ontology def: "An agrochemical is a substance that is used in agriculture or horticulture." [] subset: 3_STAR synonym: "agrichemical" RELATED [ChEBI] synonym: "agrichemicals" RELATED [ChEBI] synonym: "agricultural chemicals" RELATED [ChEBI] synonym: "agrochemicals" RELATED [ChEBI] xref: Wikipedia:Agrochemical is_a: CHEBI:33232 ! application [Term] id: CHEBI:33287 name: fertilizer namespace: chebi_ontology def: "A fertilizer is any substance that is added to soil or water to assist the growth of plants." [] subset: 3_STAR synonym: "fertiliser" RELATED [ChEBI] synonym: "fertilizers" RELATED [ChEBI] is_a: CHEBI:33286 ! agrochemical [Term] id: CHEBI:33290 name: food namespace: chebi_ontology def: "Any material that can be ingested by an organism." [] subset: 3_STAR synonym: "food material" RELATED [ChEBI] synonym: "food materials" RELATED [ChEBI] synonym: "food role" RELATED [ChEBI] synonym: "foods" RELATED [ChEBI] synonym: "foodstuff" RELATED [ChEBI] synonym: "foodstuffs" RELATED [ChEBI] is_a: CHEBI:52211 ! physiological role relationship: has_part CHEBI:78295 ! food component [Term] id: CHEBI:33292 name: fuel namespace: chebi_ontology def: "An energy-rich substance that can be transformed with release of usable energy." [] subset: 3_STAR is_a: CHEBI:33232 ! application [Term] id: CHEBI:33296 name: alkali metal molecular entity namespace: chebi_ontology def: "A molecular entity containing one or more atoms of an alkali metal." [] subset: 3_STAR synonym: "alkali metal molecular entities" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity relationship: has_part CHEBI:22314 ! alkali metal atom [Term] id: CHEBI:33300 name: pnictogen namespace: chebi_ontology def: "Any p-block element atom that is in group 15 of the periodic table: nitrogen, phosphorus, arsenic, antimony and bismuth." [] subset: 3_STAR synonym: "group 15 elements" RELATED [ChEBI] synonym: "group V elements" RELATED [ChEBI] synonym: "nitrogenoideos" RELATED [ChEBI] synonym: "nitrogenoides" RELATED [ChEBI] synonym: "pnictogene" RELATED [ChEBI] synonym: "pnictogenes" RELATED [ChEBI] synonym: "pnictogens" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33302 name: pnictogen molecular entity namespace: chebi_ontology def: "A p-block molecular entity containing any pnictogen." [] subset: 3_STAR synonym: "pnictogen molecular entities" RELATED [ChEBI] synonym: "pnictogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33300 ! pnictogen [Term] id: CHEBI:33303 name: chalcogen namespace: chebi_ontology def: "Any p-block element belonging to the group 16 family of the periodic table." [] subset: 3_STAR synonym: "anfigeno" RELATED [ChEBI] synonym: "anfigenos" RELATED [ChEBI] synonym: "calcogeno" RELATED [ChEBI] synonym: "calcogenos" RELATED [ChEBI] synonym: "chalcogen" EXACT IUPAC_NAME [IUPAC] synonym: "chalcogene" RELATED [ChEBI] synonym: "chalcogenes" RELATED [ChEBI] synonym: "chalcogens" EXACT IUPAC_NAME [IUPAC] synonym: "Chalkogen" RELATED [ChEBI] synonym: "Chalkogene" RELATED [ChEBI] synonym: "group 16 elements" RELATED [ChEBI] synonym: "group VI elements" RELATED [ChEBI] xref: PMID:17084588 "Europe PMC" is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33304 name: chalcogen molecular entity namespace: chebi_ontology def: "Any p-block molecular entity containing a chalcogen." [] subset: 3_STAR synonym: "chalcogen compounds" RELATED [ChEBI] synonym: "chalcogen molecular entities" RELATED [ChEBI] synonym: "chalcogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33303 ! chalcogen [Term] id: CHEBI:33306 name: carbon group element atom namespace: chebi_ontology subset: 3_STAR synonym: "carbon group element" RELATED [ChEBI] synonym: "carbon group elements" RELATED [ChEBI] synonym: "carbonoides" RELATED [ChEBI] synonym: "cristallogene" RELATED [ChEBI] synonym: "cristallogenes" RELATED [ChEBI] synonym: "group 14 elements" EXACT IUPAC_NAME [IUPAC] synonym: "group IV elements" RELATED [ChEBI] is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33307 name: thiocarboxylic acid namespace: chebi_ontology def: "An organic acid in which one or both oxygens of a carboxy group have been replaced by divalent sulfur." [] subset: 3_STAR synonym: "carbothioic acids" EXACT IUPAC_NAME [IUPAC] synonym: "thiocarboxylic acid" EXACT [IUPAC] synonym: "thiocarboxylic acids" EXACT IUPAC_NAME [IUPAC] synonym: "thiocarboxylic acids" RELATED [ChEBI] is_a: CHEBI:33261 ! organosulfur compound is_a: CHEBI:64709 ! organic acid [Term] id: CHEBI:33308 name: carboxylic ester namespace: chebi_ontology alt_id: CHEBI:13204 alt_id: CHEBI:23028 alt_id: CHEBI:3408 def: "An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl." [] subset: 3_STAR synonym: "a carboxylic ester" RELATED [UniProt] synonym: "carboxylic acid esters" RELATED [ChEBI] synonym: "Carboxylic ester" EXACT [KEGG_COMPOUND] synonym: "carboxylic esters" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C02391 xref: Wikipedia:Ester is_a: CHEBI:35701 ! ester is_a: CHEBI:36586 ! carbonyl compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C(=O)O[*]" xsd:string [Term] id: CHEBI:33318 name: main group element atom namespace: chebi_ontology def: "An atom belonging to one of the main groups (found in the s- and p- blocks) of the periodic table." [] subset: 3_STAR synonym: "Hauptgruppenelement" RELATED [ChEBI] synonym: "Hauptgruppenelemente" RELATED [ChEBI] synonym: "main group element" RELATED [ChEBI] synonym: "main group elements" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33340 name: zinc group element atom namespace: chebi_ontology subset: 3_STAR synonym: "group 12 elements" EXACT IUPAC_NAME [IUPAC] synonym: "zinc group element" RELATED [ChEBI] synonym: "zinc group elements" RELATED [ChEBI] is_a: CHEBI:33561 ! d-block element atom [Term] id: CHEBI:33366 name: copper group element atom namespace: chebi_ontology subset: 3_STAR synonym: "coinage metals" RELATED [ChEBI] synonym: "copper group element" RELATED [ChEBI] synonym: "copper group elements" RELATED [ChEBI] synonym: "group 11 elements" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33561 ! d-block element atom [Term] id: CHEBI:33402 name: sulfur oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "oxoacids of sulfur" RELATED [ChEBI] synonym: "sulfur oxoacids" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33484 ! chalcogen oxoacid [Term] id: CHEBI:33405 name: hydracid namespace: chebi_ontology def: "A hydracid is a compound which contains hydrogen that is not bound to oxygen, and which produces a conjugate base by loss of positive hydrogen ion(s) (hydrons)." [] subset: 3_STAR synonym: "hydracid" EXACT IUPAC_NAME [IUPAC] synonym: "hydracids" RELATED [ChEBI] is_a: CHEBI:33608 ! hydrogen molecular entity relationship: has_role CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:33408 name: pnictogen oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen oxoacids" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_role CHEBI:138103 ! inorganic acid [Term] id: CHEBI:33424 name: sulfur oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "sulfur oxoacid derivative" EXACT [ChEBI] synonym: "sulfur oxoacid derivatives" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33241 ! oxoacid derivative [Term] id: CHEBI:33429 name: monoatomic monoanion namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic monoanions" RELATED [ChEBI] is_a: CHEBI:23905 ! monoatomic anion is_a: CHEBI:36830 ! monoanion property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.00000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*-]" xsd:string [Term] id: CHEBI:33431 name: elemental chlorine namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:23117 ! chlorine molecular entity is_a: CHEBI:33434 ! elemental halogen [Term] id: CHEBI:33432 name: monoatomic chlorine namespace: chebi_ontology subset: 3_STAR synonym: "atomic chlorine" RELATED [ChEBI] is_a: CHEBI:33431 ! elemental chlorine is_a: CHEBI:33433 ! monoatomic halogen property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Cl" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "35.453" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "34.96885" xsd:string [Term] id: CHEBI:33433 name: monoatomic halogen namespace: chebi_ontology subset: 3_STAR synonym: "monoatomic halogens" RELATED [ChEBI] is_a: CHEBI:33238 ! monoatomic entity [Term] id: CHEBI:33434 name: elemental halogen namespace: chebi_ontology subset: 3_STAR synonym: "elemental halogen" EXACT [ChEBI] synonym: "elemental halogens" RELATED [ChEBI] is_a: CHEBI:33259 ! elemental molecular entity [Term] id: CHEBI:33447 name: phospho sugar namespace: chebi_ontology alt_id: CHEBI:15132 alt_id: CHEBI:25406 alt_id: CHEBI:26086 alt_id: CHEBI:9320 def: "Any monosaccharide containing an alcoholic hydroxy group esterified with phosphoric acid." [] subset: 3_STAR synonym: "monosaccharide phosphates" RELATED [ChEBI] synonym: "phospho sugar" EXACT [ChEBI] synonym: "phospho sugars" RELATED [ChEBI] synonym: "phosphorylated sugar" RELATED [ChEBI] synonym: "phosphorylated sugars" RELATED [ChEBI] synonym: "phosphosugar" RELATED [ChEBI] synonym: "phosphosugars" RELATED [ChEBI] xref: KEGG:C00934 xref: PMID:18186488 "Europe PMC" is_a: CHEBI:26816 ! carbohydrate phosphate is_a: CHEBI:63367 ! monosaccharide derivative [Term] id: CHEBI:33457 name: phosphorus oxoacid namespace: chebi_ontology def: "A pnictogen oxoacid which contains phosphorus and oxygen, at least one hydrogen atom bound to oxygen, and forms an ion by the loss of one or more protons." [] subset: 3_STAR synonym: "oxoacids of phosphorus" RELATED [ChEBI] synonym: "Oxosaeure des Phosphors" RELATED [ChEBI] synonym: "phosphorus oxoacid" EXACT [ChEBI] synonym: "phosphorus oxoacids" RELATED [ChEBI] is_a: CHEBI:33408 ! pnictogen oxoacid is_a: CHEBI:36360 ! phosphorus oxoacids and derivatives [Term] id: CHEBI:33459 name: pnictogen oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen oxoanion" EXACT [ChEBI] synonym: "pnictogen oxoanions" RELATED [ChEBI] is_a: CHEBI:33302 ! pnictogen molecular entity is_a: CHEBI:35406 ! oxoanion [Term] id: CHEBI:33461 name: phosphorus oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "oxoanions of phosphorus" RELATED [ChEBI] synonym: "phosphorus oxoanion" EXACT [ChEBI] synonym: "phosphorus oxoanions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion is_a: CHEBI:26082 ! phosphorus molecular entity is_a: CHEBI:33459 ! pnictogen oxoanion [Term] id: CHEBI:33482 name: sulfur oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "oxoanions of sulfur" RELATED [ChEBI] synonym: "sulfur oxoanion" EXACT [ChEBI] synonym: "sulfur oxoanions" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33485 ! chalcogen oxoanion [Term] id: CHEBI:33484 name: chalcogen oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "chalcogen oxoacid" EXACT [ChEBI] synonym: "chalcogen oxoacids" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid relationship: has_role CHEBI:138103 ! inorganic acid [Term] id: CHEBI:33485 name: chalcogen oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "chalcogen oxoanion" EXACT [ChEBI] synonym: "chalcogen oxoanions" RELATED [ChEBI] is_a: CHEBI:35406 ! oxoanion [Term] id: CHEBI:33497 name: transition element molecular entity namespace: chebi_ontology def: "A molecular entity containing one or more atoms of a transition element." [] subset: 3_STAR synonym: "transition element molecular entities" RELATED [ChEBI] synonym: "transition metal molecular entity" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity relationship: has_part CHEBI:27081 ! transition element atom [Term] id: CHEBI:33504 name: alkali metal cation namespace: chebi_ontology subset: 3_STAR synonym: "alkali metal cations" RELATED [ChEBI] is_a: CHEBI:25213 ! metal cation [Term] id: CHEBI:33521 name: metal atom namespace: chebi_ontology alt_id: CHEBI:25217 alt_id: CHEBI:6788 def: "An atom of an element that exhibits typical metallic properties, being typically shiny, with high electrical and thermal conductivity." [] subset: 3_STAR synonym: "elemental metal" RELATED [ChEBI] synonym: "elemental metals" RELATED [ChEBI] synonym: "metal element" RELATED [ChEBI] synonym: "metal elements" RELATED [ChEBI] synonym: "metals" RELATED [ChEBI] xref: KEGG:C00050 xref: PMID:21784043 "Europe PMC" xref: Wikipedia:Metal is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33543 name: sulfonate namespace: chebi_ontology def: "The sulfur oxoanion formed by deprotonation of sulfonic acid." [] subset: 3_STAR synonym: "[SHO3](-)" RELATED [IUPAC] synonym: "hydridotrioxidosulfate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "SHO3(-)" RELATED [IUPAC] synonym: "sulfonates" RELATED [ChEBI] xref: Gmelin:971569 "Gmelin" is_a: CHEBI:33482 ! sulfur oxoanion relationship: is_conjugate_base_of CHEBI:29214 ! sulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O3S/c1-4(2)3/h4H,(H,1,2,3)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BDHFUVZGWQCTTF-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "81.07214" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.96519" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]S([O-])(=O)=O" xsd:string [Term] id: CHEBI:33551 name: organosulfonic acid namespace: chebi_ontology def: "An organic derivative of sulfonic acid in which the sulfo group is linked directly to carbon." [] subset: 3_STAR synonym: "organosulfonic acids" RELATED [ChEBI] synonym: "sulfonic acids" RELATED [ChEBI] is_a: CHEBI:33261 ! organosulfur compound is_a: CHEBI:33552 ! sulfonic acid derivative is_a: CHEBI:64709 ! organic acid relationship: has_part CHEBI:29922 ! sulfo group relationship: has_part CHEBI:33249 ! organyl group relationship: is_conjugate_acid_of CHEBI:33554 ! organosulfonate oxoanion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "81.07100" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.96464" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OS([*])(=O)=O" xsd:string [Term] id: CHEBI:33552 name: sulfonic acid derivative namespace: chebi_ontology subset: 3_STAR synonym: "derivatives of sulfonic acid" RELATED [ChEBI] synonym: "sulfonic acid derivative" EXACT [ChEBI] synonym: "sulfonic acid derivatives" RELATED [ChEBI] is_a: CHEBI:33424 ! sulfur oxoacid derivative relationship: has_functional_parent CHEBI:29214 ! sulfonic acid [Term] id: CHEBI:33554 name: organosulfonate oxoanion namespace: chebi_ontology def: "An organic anion obtained by deprotonation of the sufonate group(s) of any organosulfonic acid." [] subset: 3_STAR synonym: "organosulfonate" RELATED [ChEBI] synonym: "organosulfonate oxoanions" RELATED [ChEBI] synonym: "organosulfonates" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion relationship: has_functional_parent CHEBI:33543 ! sulfonate relationship: is_conjugate_base_of CHEBI:33551 ! organosulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.064" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "79.95681" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*S([O-])(=O)=O" xsd:string [Term] id: CHEBI:33558 name: alpha-amino-acid anion namespace: chebi_ontology def: "An amino-acid anion obtained by deprotonation of any alpha-amino acid." [] subset: 3_STAR synonym: "alpha-amino acid anions" RELATED [ChEBI] synonym: "alpha-amino-acid anion" EXACT [ChEBI] synonym: "alpha-amino-acid anions" RELATED [ChEBI] is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33704 ! alpha-amino acid [Term] id: CHEBI:33559 name: s-block element atom namespace: chebi_ontology subset: 3_STAR synonym: "s-block element" RELATED [ChEBI] synonym: "s-block elements" RELATED [ChEBI] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33560 name: p-block element atom namespace: chebi_ontology def: "Any main group element atom belonging to the p-block of the periodic table." [] subset: 3_STAR synonym: "p-block element" RELATED [ChEBI] synonym: "p-block elements" RELATED [ChEBI] is_a: CHEBI:33318 ! main group element atom [Term] id: CHEBI:33561 name: d-block element atom namespace: chebi_ontology subset: 3_STAR synonym: "d-block element" RELATED [ChEBI] synonym: "d-block elements" RELATED [ChEBI] is_a: CHEBI:27081 ! transition element atom [Term] id: CHEBI:33566 name: catechols namespace: chebi_ontology alt_id: CHEBI:134187 alt_id: CHEBI:13628 alt_id: CHEBI:18862 def: "Any compound containing an o-diphenol component." [] subset: 3_STAR synonym: "1,2-benzenediols" RELATED [ChEBI] synonym: "a catechol" RELATED [UniProt] synonym: "benzene-1,2-diols" RELATED [ChEBI] xref: KEGG:C15571 is_a: CHEBI:33570 ! benzenediols property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H2O2R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "106.079" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "106.00548" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC1=C(O)C(*)=C(*)C(*)=C1*" xsd:string [Term] id: CHEBI:33567 name: catecholamine namespace: chebi_ontology alt_id: CHEBI:23056 alt_id: CHEBI:3468 def: "4-(2-Aminoethyl)pyrocatechol [4-(2-aminoethyl)benzene-1,2-diol] and derivatives formed by substitution." [] subset: 3_STAR synonym: "Catecholamine" EXACT [KEGG_COMPOUND] synonym: "catecholamines" EXACT IUPAC_NAME [IUPAC] synonym: "catecholamines" RELATED [ChEBI] xref: KEGG:C02012 is_a: CHEBI:25375 ! monoamine molecular messenger is_a: CHEBI:33566 ! catechols property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H9NO2R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "151.163" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "151.06333" xsd:string [Term] id: CHEBI:33570 name: benzenediols namespace: chebi_ontology alt_id: CHEBI:22705 alt_id: CHEBI:22711 subset: 3_STAR is_a: CHEBI:33853 ! phenols [Term] id: CHEBI:33575 name: carboxylic acid namespace: chebi_ontology alt_id: CHEBI:13428 alt_id: CHEBI:13627 alt_id: CHEBI:23027 def: "A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." [] subset: 3_STAR synonym: "acide carboxylique" RELATED [IUPAC] synonym: "acides carboxyliques" RELATED [IUPAC] synonym: "acido carboxilico" RELATED [IUPAC] synonym: "acidos carboxilicos" RELATED [IUPAC] synonym: "Carbonsaeure" RELATED [ChEBI] synonym: "Carbonsaeuren" RELATED [ChEBI] synonym: "carboxylic acid" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acids" EXACT IUPAC_NAME [IUPAC] synonym: "Karbonsaeure" RELATED [ChEBI] synonym: "RC(=O)OH" RELATED [IUPAC] xref: PMID:17147560 "Europe PMC" xref: PMID:18433345 "Europe PMC" xref: Wikipedia:Carboxylic_acid is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:36586 ! carbonyl compound is_a: CHEBI:64709 ! organic acid relationship: has_part CHEBI:46883 ! carboxy group relationship: is_conjugate_acid_of CHEBI:29067 ! carboxylic acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01740" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])=O" xsd:string [Term] id: CHEBI:33579 name: main group molecular entity namespace: chebi_ontology def: "A molecular entity containing one or more atoms from any of groups 1, 2, 13, 14, 15, 16, 17, and 18 of the periodic table." [] subset: 3_STAR synonym: "main group compounds" RELATED [ChEBI] synonym: "main group molecular entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity relationship: has_part CHEBI:33318 ! main group element atom [Term] id: CHEBI:33582 name: carbon group molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "carbon group molecular entities" RELATED [ChEBI] synonym: "carbon group molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33306 ! carbon group element atom [Term] id: CHEBI:33595 name: cyclic compound namespace: chebi_ontology def: "Any molecule that consists of a series of atoms joined together to form a ring." [] subset: 3_STAR synonym: "cyclic compounds" RELATED [ChEBI] xref: Wikipedia:Cyclic_compound is_a: CHEBI:25367 ! molecule [Term] id: CHEBI:33597 name: homocyclic compound namespace: chebi_ontology def: "A cyclic compound having as ring members atoms of the same element only." [] subset: 3_STAR synonym: "homocyclic compound" EXACT IUPAC_NAME [IUPAC] synonym: "homocyclic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "isocyclic compounds" RELATED [IUPAC] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33598 name: carbocyclic compound namespace: chebi_ontology def: "A homocyclic compound in which all of the ring members are carbon atoms." [] subset: 3_STAR synonym: "carbocycle" RELATED [ChEBI] synonym: "carbocyclic compound" EXACT IUPAC_NAME [IUPAC] synonym: "carbocyclic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33597 ! homocyclic compound is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:33608 name: hydrogen molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "hydrogen compounds" RELATED [ChEBI] synonym: "hydrogen molecular entities" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity relationship: has_part CHEBI:49637 ! hydrogen atom [Term] id: CHEBI:33635 name: polycyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "polycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33636 name: bicyclic compound namespace: chebi_ontology def: "A molecule that features two fused rings." [] subset: 3_STAR synonym: "bicyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33653 name: aliphatic compound namespace: chebi_ontology def: "Any acyclic or cyclic, saturated or unsaturated carbon compound, excluding aromatic compounds." [] subset: 3_STAR synonym: "aliphatic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33655 name: aromatic compound namespace: chebi_ontology def: "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character." [] subset: 3_STAR synonym: "aromatic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "aromatic molecular entity" EXACT IUPAC_NAME [IUPAC] synonym: "aromatics" RELATED [ChEBI] synonym: "aromatische Verbindungen" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33659 name: organic aromatic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic aromatic compounds" RELATED [ChEBI] is_a: CHEBI:33655 ! aromatic compound is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:33661 name: monocyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "monocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33670 name: heteromonocyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "heteromonocyclic compound" EXACT IUPAC_NAME [IUPAC] synonym: "heteromonocyclic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33661 ! monocyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:33671 name: heteropolycyclic compound namespace: chebi_ontology def: "A polycyclic compound in which at least one of the rings contains at least one non-carbon atom." [] subset: 3_STAR synonym: "heteropolycyclic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "polyheterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33635 ! polycyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:33672 name: heterobicyclic compound namespace: chebi_ontology def: "A bicyclic compound in which at least one of the rings contains at least one skeletal heteroatom." [] subset: 3_STAR synonym: "heterobicyclic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33636 ! bicyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:33673 name: zinc group molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "zinc group molecular entities" RELATED [ChEBI] is_a: CHEBI:33676 ! d-block molecular entity relationship: has_part CHEBI:33340 ! zinc group element atom [Term] id: CHEBI:33674 name: s-block molecular entity namespace: chebi_ontology def: "An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element." [] subset: 3_STAR synonym: "s-block compounds" RELATED [ChEBI] synonym: "s-block molecular entities" RELATED [ChEBI] synonym: "s-block molecular entity" EXACT [ChEBI] is_a: CHEBI:33579 ! main group molecular entity relationship: has_part CHEBI:33559 ! s-block element atom [Term] id: CHEBI:33675 name: p-block molecular entity namespace: chebi_ontology def: "A main group molecular entity that contains one or more atoms of a p-block element." [] subset: 3_STAR synonym: "p-block compounds" RELATED [ChEBI] synonym: "p-block molecular entities" RELATED [ChEBI] synonym: "p-block molecular entitiy" RELATED [ChEBI] is_a: CHEBI:33579 ! main group molecular entity relationship: has_part CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33676 name: d-block molecular entity namespace: chebi_ontology def: "A d-block molecular entity is a molecular entity containing one or more atoms of a d-block element." [] subset: 3_STAR synonym: "d-block compounds" RELATED [ChEBI] synonym: "d-block molecular entities" RELATED [ChEBI] synonym: "d-block molecular entity" EXACT [ChEBI] is_a: CHEBI:33497 ! transition element molecular entity relationship: has_part CHEBI:33561 ! d-block element atom [Term] id: CHEBI:33692 name: hydrides namespace: chebi_ontology def: "Hydrides are chemical compounds of hydrogen with other chemical elements." [] subset: 3_STAR is_a: CHEBI:33608 ! hydrogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:33694 name: biomacromolecule namespace: chebi_ontology def: "A macromolecule formed by a living organism." [] subset: 3_STAR synonym: "biomacromolecules" RELATED [ChEBI] synonym: "biopolymer" EXACT IUPAC_NAME [IUPAC] synonym: "Biopolymere" RELATED [ChEBI] synonym: "biopolymers" RELATED [ChEBI] is_a: CHEBI:33839 ! macromolecule is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33695 name: information biomacromolecule namespace: chebi_ontology subset: 3_STAR synonym: "genetically encoded biomacromolecules" RELATED [ChEBI] synonym: "genetically encoded biopolymers" RELATED [ChEBI] synonym: "information biomacromolecules" RELATED [ChEBI] synonym: "information biopolymers" RELATED [ChEBI] synonym: "information macromolecule" RELATED [ChEBI] synonym: "information macromolecules" RELATED [ChEBI] is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:33696 name: nucleic acid namespace: chebi_ontology def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] subset: 3_STAR synonym: "acide nucleique" RELATED [ChEBI] synonym: "acides nucleiques" RELATED [ChEBI] synonym: "acido nucleico" RELATED [ChEBI] synonym: "acidos nucleicos" RELATED [ChEBI] synonym: "NA" RELATED [ChEBI] synonym: "nucleic acids" EXACT IUPAC_NAME [IUPAC] synonym: "Nukleinsaeure" RELATED [ChEBI] synonym: "Nukleinsaeuren" RELATED [ChEBI] is_a: CHEBI:15986 ! polynucleotide relationship: has_part CHEBI:33791 ! canonical nucleoside residue relationship: has_part CHEBI:50297 ! canonical nucleotide residue [Term] id: CHEBI:33697 name: ribonucleic acid namespace: chebi_ontology def: "High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins." [] subset: 3_STAR synonym: "pentosenucleic acids" RELATED [ChemIDplus] synonym: "ribonucleic acid" EXACT [IUPAC] synonym: "ribonucleic acids" EXACT IUPAC_NAME [IUPAC] synonym: "ribonucleic acids" RELATED [ChEBI] synonym: "Ribonukleinsaeure" RELATED [ChEBI] synonym: "ribose nucleic acid" RELATED [ChEBI] synonym: "RNA" RELATED [IUPAC] synonym: "RNS" RELATED [ChEBI] synonym: "yeast nucleic acid" RELATED [ChEBI] xref: CAS:63231-63-0 "ChemIDplus" is_a: CHEBI:33696 ! nucleic acid relationship: has_part CHEBI:33792 ! canonical ribonucleoside residue relationship: has_part CHEBI:50299 ! canonical ribonucleotide residue [Term] id: CHEBI:33699 name: messenger RNA namespace: chebi_ontology def: "An RNA molecule that transfers the coding information for protein synthesis from the chromosomes to the ribosomes mRNA is formed from a DNA template by transcription. It may be a copy of a single gene or of several adjacent genes (polycistronic mRNA). On the ribosome, the sequence is converted into the programmed amino acid sequence through translation." [] subset: 3_STAR synonym: "messenger RNA" EXACT IUPAC_NAME [IUPAC] synonym: "mRNA" RELATED [IUPAC] synonym: "template RNA" RELATED [ChEBI] is_a: CHEBI:33697 ! ribonucleic acid [Term] id: CHEBI:33702 name: polyatomic cation namespace: chebi_ontology def: "A cation consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic cations" RELATED [ChEBI] is_a: CHEBI:36358 ! polyatomic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:33703 name: amino-acid cation namespace: chebi_ontology subset: 3_STAR synonym: "amino acid cation" RELATED [ChEBI] synonym: "amino-acid cation" EXACT [ChEBI] synonym: "amino-acid cations" RELATED [ChEBI] is_a: CHEBI:33702 ! polyatomic cation [Term] id: CHEBI:33704 name: alpha-amino acid namespace: chebi_ontology alt_id: CHEBI:10208 alt_id: CHEBI:13779 alt_id: CHEBI:22442 alt_id: CHEBI:2642 def: "An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group." [] subset: 3_STAR synonym: "alpha-amino acid" EXACT IUPAC_NAME [IUPAC] synonym: "alpha-amino acids" RELATED [JCBN] synonym: "alpha-amino acids" RELATED [ChEBI] synonym: "alpha-amino carboxylic acids" RELATED [IUPAC] synonym: "Amino acid" RELATED [KEGG_COMPOUND] synonym: "Amino acids" RELATED [KEGG_COMPOUND] xref: KEGG:C00045 xref: KEGG:C05167 is_a: CHEBI:33709 ! amino acid relationship: is_conjugate_acid_of CHEBI:33558 ! alpha-amino-acid anion relationship: is_tautomer_of CHEBI:78608 ! alpha-amino acid zwitterion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "74.05870" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC([*])C(O)=O" xsd:string [Term] id: CHEBI:33707 name: gamma-amino acid namespace: chebi_ontology def: "A non-proteinogenic amino-acid in which the amino group is located on the carbon atom at the position gamma to the carboxy group." [] subset: 3_STAR synonym: "gamma-amino acid" EXACT [ChEBI] synonym: "gamma-amino acids" RELATED [ChEBI] is_a: CHEBI:83820 ! non-proteinogenic amino acid relationship: is_conjugate_acid_of CHEBI:71666 ! gamma-amino acid anion [Term] id: CHEBI:33708 name: amino-acid residue namespace: chebi_ontology def: "When two or more amino acids combine to form a peptide, the elements of water are removed, and what remains of each amino acid is called an amino-acid residue." [Dummy:dummy] subset: 3_STAR synonym: "amino acid residue" EXACT [] synonym: "amino acid residue" RELATED [ChEBI] synonym: "amino-acid residue" EXACT IUPAC_NAME [IUPAC] synonym: "amino-acid residues" RELATED [JCBN] synonym: "protein residue" NARROW [PRO:DAN] is_a: CHEBI:33247 ! organic group relationship: is_substituent_group_from CHEBI:33709 ! amino acid [Term] id: CHEBI:33709 name: amino acid namespace: chebi_ontology alt_id: CHEBI:13815 alt_id: CHEBI:22477 def: "A carboxylic acid containing one or more amino groups." [] subset: 3_STAR synonym: "amino acids" RELATED [ChEBI] synonym: "Aminocarbonsaeure" RELATED [ChEBI] synonym: "Aminokarbonsaeure" RELATED [ChEBI] synonym: "Aminosaeure" RELATED [ChEBI] xref: Wikipedia:Amino_acid is_a: CHEBI:33575 ! carboxylic acid is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_acid_of CHEBI:37022 ! amino-acid anion [Term] id: CHEBI:33719 name: alpha-amino-acid cation namespace: chebi_ontology subset: 3_STAR synonym: "alpha-amino acid cations" RELATED [ChEBI] synonym: "alpha-amino-acid cation" EXACT [ChEBI] synonym: "alpha-amino-acid cations" RELATED [ChEBI] is_a: CHEBI:33703 ! amino-acid cation [Term] id: CHEBI:33745 name: copper group molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "copper group molecular entities" RELATED [ChEBI] synonym: "copper group molecular entity" EXACT [ChEBI] is_a: CHEBI:33676 ! d-block molecular entity relationship: has_part CHEBI:33366 ! copper group element atom [Term] id: CHEBI:33791 name: canonical nucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical nucleoside residues" RELATED [ChEBI] synonym: "common nucleoside residues" RELATED [CBN] synonym: "nucleoside residue" RELATED [CBN] synonym: "standard nucleoside residues" RELATED [ChEBI] is_a: CHEBI:50320 ! nucleoside residue [Term] id: CHEBI:33792 name: canonical ribonucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical ribonucleoside residues" RELATED [ChEBI] synonym: "common ribonucleoside residue" RELATED [CBN] synonym: "common ribonucleoside residues" RELATED [CBN] synonym: "N" RELATED [CBN] synonym: "Nuc" RELATED [CBN] synonym: "standard ribonucleoside residues" RELATED [ChEBI] is_a: CHEBI:33791 ! canonical nucleoside residue [Term] id: CHEBI:33822 name: organic hydroxy compound namespace: chebi_ontology alt_id: CHEBI:64710 def: "An organic compound having at least one hydroxy group attached to a carbon atom." [] subset: 3_STAR synonym: "hydroxy compounds" EXACT IUPAC_NAME [IUPAC] synonym: "organic alcohol" RELATED [ChEBI] synonym: "organic hydroxy compounds" RELATED [ChEBI] is_a: CHEBI:24651 ! hydroxides is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33832 name: organic cyclic compound namespace: chebi_ontology def: "Any organic molecule that consists of atoms connected in the form of a ring." [] subset: 3_STAR synonym: "organic cyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:33833 name: heteroarene namespace: chebi_ontology def: "A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2)." [] subset: 3_STAR synonym: "hetarenes" RELATED [IUPAC] synonym: "heteroarenes" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:33659 ! organic aromatic compound [Term] id: CHEBI:33836 name: benzenoid aromatic compound namespace: chebi_ontology subset: 3_STAR synonym: "benzenoid aromatic compounds" RELATED [ChEBI] synonym: "benzenoid compound" RELATED [ChEBI] is_a: CHEBI:33598 ! carbocyclic compound is_a: CHEBI:33659 ! organic aromatic compound [Term] id: CHEBI:33838 name: nucleoside namespace: chebi_ontology alt_id: CHEBI:13661 alt_id: CHEBI:25611 alt_id: CHEBI:7647 def: "An N-glycosyl compound that has both a nucleobase, normally adenine, guanine, xanthine, thymine, cytosine or uracil, and either a ribose or deoxyribose as functional parents." [] subset: 3_STAR synonym: "a nucleoside" RELATED [UniProt] synonym: "Nucleoside" EXACT [KEGG_COMPOUND] synonym: "nucleosides" EXACT IUPAC_NAME [IUPAC] synonym: "nucleosides" RELATED [ChEBI] xref: KEGG:C00801 is_a: CHEBI:21731 ! N-glycosyl compound is_a: CHEBI:26912 ! oxolanes is_a: CHEBI:61120 ! nucleobase-containing molecular entity property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O3R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "116.115" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "116.04734" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[C@H]1([C@H]([C@@H](*)[C@@H](O1)*)O)CO" xsd:string [Term] id: CHEBI:33839 name: macromolecule namespace: chebi_ontology def: "A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [] subset: 3_STAR synonym: "macromolecule" EXACT IUPAC_NAME [IUPAC] synonym: "macromolecules" RELATED [ChEBI] synonym: "polymer" RELATED [ChEBI] synonym: "polymer molecule" RELATED [IUPAC] synonym: "polymers" RELATED [ChEBI] xref: Wikipedia:Macromolecule is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:33853 name: phenols namespace: chebi_ontology alt_id: CHEBI:13664 alt_id: CHEBI:13825 alt_id: CHEBI:25969 alt_id: CHEBI:2857 def: "Organic aromatic compounds having one or more hydroxy groups attached to a benzene or other arene ring." [] subset: 3_STAR synonym: "a phenol" RELATED [UniProt] synonym: "arenols" RELATED [IUPAC] synonym: "Aryl alcohol" RELATED [KEGG_COMPOUND] synonym: "phenols" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C15584 xref: MetaCyc:Phenols xref: Wikipedia:Phenols is_a: CHEBI:33659 ! organic aromatic compound is_a: CHEBI:33822 ! organic hydroxy compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6HOR5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "89.072" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "89.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1(=C(C(=C(C(=C1*)*)*)*)*)O" xsd:string [Term] id: CHEBI:33855 name: arenecarbaldehyde namespace: chebi_ontology alt_id: CHEBI:13819 alt_id: CHEBI:22621 alt_id: CHEBI:2832 alt_id: CHEBI:87908 def: "Any aldehyde in which the carbonyl group is attached to an aromatic moiety." [] subset: 3_STAR synonym: "an aromatic aldehyde" RELATED [UniProt] synonym: "arenecarbaldehyde" EXACT [ChEBI] synonym: "arenecarbaldehydes" RELATED [ChEBI] synonym: "Aromatic aldehyde" RELATED [KEGG_COMPOUND] synonym: "aryl aldehyde" RELATED [ChEBI] synonym: "aryl aldehydes" RELATED [ChEBI] xref: KEGG:C00193 xref: MetaCyc:Aryl-Aldehyde "SUBMITTER" is_a: CHEBI:17478 ! aldehyde is_a: CHEBI:33659 ! organic aromatic compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "29.018" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "29.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(=O)[H]" xsd:string [Term] id: CHEBI:33860 name: aromatic amine namespace: chebi_ontology alt_id: CHEBI:13827 alt_id: CHEBI:22622 alt_id: CHEBI:22646 alt_id: CHEBI:2834 alt_id: CHEBI:2863 def: "An amino compound in which the amino group is linked directly to an aromatic system." [] subset: 3_STAR synonym: "aromatic amines" RELATED [ChEBI] synonym: "aryl amine" RELATED [ChEBI] synonym: "aryl amines" RELATED [ChEBI] synonym: "arylamine" RELATED [ChEBI] synonym: "arylamines" RELATED [ChEBI] is_a: CHEBI:33659 ! organic aromatic compound is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:33893 name: reagent namespace: chebi_ontology def: "A substance used in a chemical reaction to detect, measure, examine, or produce other substances." [] subset: 3_STAR synonym: "reactif" RELATED [IUPAC] synonym: "reactivo" RELATED [IUPAC] synonym: "reagent" EXACT IUPAC_NAME [IUPAC] synonym: "reagents" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:33916 name: aldopentose namespace: chebi_ontology def: "A pentose with a (potential) aldehyde group at one end." [] subset: 3_STAR synonym: "aldopentose" EXACT [ChEBI] synonym: "aldopentoses" RELATED [ChEBI] xref: PMID:10723607 "Europe PMC" is_a: CHEBI:15693 ! aldose is_a: CHEBI:25901 ! pentose [Term] id: CHEBI:33937 name: macronutrient namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:33284 ! nutrient [Term] id: CHEBI:33942 name: ribose namespace: chebi_ontology alt_id: CHEBI:26564 def: "Any aldopentose where the open-chain form has all the hydroxy groups on the same side in the Fischer projection. Occurrs in two enantiomeric forms, D- and L-ribose, of which only the former is found in nature." [] subset: 3_STAR synonym: "Rib" RELATED [JCBN] synonym: "ribo-pentose" EXACT IUPAC_NAME [IUPAC] synonym: "ribose" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33916 ! aldopentose property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "150.130" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "150.05282" xsd:string [Term] id: CHEBI:33958 name: halide salt namespace: chebi_ontology subset: 3_STAR synonym: "halide salts" RELATED [ChEBI] synonym: "halides" RELATED [ChEBI] is_a: CHEBI:24866 ! salt is_a: CHEBI:37578 ! halide relationship: has_part CHEBI:16042 ! halide anion [Term] id: CHEBI:34905 name: paraquat namespace: chebi_ontology def: "An organic cation that consists of 4,4'-bipyridine bearing two N-methyl substituents loctated at the 1- and 1'-positions." [] subset: 3_STAR synonym: "1,1'-Dimethyl-4,4'-bipyridinium" RELATED [KEGG_COMPOUND] synonym: "1,1'-dimethyl-4,4'-bipyridyldiylium" RELATED [ChemIDplus] synonym: "1,1'-dimethyl-[4,4'-bipyridin]-1,1'-diium" EXACT IUPAC_NAME [IUPAC] synonym: "dimethyl viologen" RELATED [ChemIDplus] synonym: "methyl viologen ion(2+)" RELATED [ChemIDplus] synonym: "N,N'-dimethyl-4,4'-bipyridinium" RELATED [ChemIDplus] synonym: "N,N'-dimethyl-4,4'-bipyridinium dication" RELATED [ChemIDplus] synonym: "Paraquat" EXACT [KEGG_COMPOUND] synonym: "paraquat dication" RELATED [ChemIDplus] synonym: "paraquat ion" RELATED [ChemIDplus] xref: Beilstein:3590305 "Beilstein" xref: CAS:4685-14-7 "ChemIDplus" xref: Gmelin:51125 "Gmelin" xref: KEGG:C14701 xref: PMID:11349957 "Europe PMC" xref: PMID:18620719 "Europe PMC" xref: PMID:20377249 "Europe PMC" xref: PMID:20582739 "Europe PMC" xref: PMID:21236547 "Europe PMC" xref: PMID:21300143 "Europe PMC" xref: PMID:21318114 "Europe PMC" xref: PMID:21429624 "Europe PMC" xref: PMID:21493003 "Europe PMC" xref: PMID:21598522 "Europe PMC" xref: PMID:21616728 "Europe PMC" xref: PMID:21619794 "Europe PMC" xref: PMID:21619822 "Europe PMC" xref: PMID:21750730 "Europe PMC" xref: PMID:21777615 "Europe PMC" xref: PMID:21787677 "Europe PMC" xref: PMID:21802509 "Europe PMC" xref: PPDB:505 xref: Reaxys:3590305 "Reaxys" is_a: CHEBI:25697 ! organic cation relationship: has_parent_hydride CHEBI:30985 ! 4,4'-bipyridine relationship: has_role CHEBI:24527 ! herbicide property_value: http://purl.obolibrary.org/obo/chebi/charge "+2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C12H14N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C12H14N2/c1-13-7-3-11(4-8-13)12-5-9-14(2)10-6-12/h3-10H,1-2H3/q+2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "INFDPOAKFNIJBF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "186.25304" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "186.11460" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[n+]1ccc(cc1)-c1cc[n+](C)cc1" xsd:string [Term] id: CHEBI:350546 name: serotonin(1+) namespace: chebi_ontology def: "An ammonium ion that is the conjugate acid of serotonin; major species at pH 7.3." [] subset: 3_STAR synonym: "2-(5-hydroxy-1H-indol-3-yl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "serotonin" RELATED [UniProt] synonym: "serotonin cation" RELATED [ChEBI] is_a: CHEBI:35274 ! ammonium ion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:28790 ! serotonin property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N2O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2O/c11-4-3-7-6-12-10-2-1-8(13)5-9(7)10/h1-2,5-6,12-13H,3-4,11H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QZAYGJVTTNCVMB-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "177.22250" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "177.10224" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCc1c[nH]c2ccc(O)cc12" xsd:string [Term] id: CHEBI:35106 name: nitrogen hydride namespace: chebi_ontology subset: 3_STAR synonym: "nitrogen hydrides" RELATED [ChEBI] is_a: CHEBI:35881 ! pnictogen hydride is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35107 name: azane namespace: chebi_ontology def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] subset: 3_STAR synonym: "azanes" RELATED [ChEBI] is_a: CHEBI:35106 ! nitrogen hydride [Term] id: CHEBI:35131 name: aldose phosphate namespace: chebi_ontology subset: 3_STAR synonym: "aldose phosphates" RELATED [ChEBI] is_a: CHEBI:33447 ! phospho sugar [Term] id: CHEBI:35221 name: antimetabolite namespace: chebi_ontology def: "A substance which is structurally similar to a metabolite but which competes with it or replaces it, and so prevents or reduces its normal utilization." [] subset: 3_STAR synonym: "antimetabolite" EXACT IUPAC_NAME [IUPAC] synonym: "antimetabolites" RELATED [ChEBI] xref: Wikipedia:Antimetabolite is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:35222 name: inhibitor namespace: chebi_ontology def: "A substance that diminishes the rate of a chemical reaction." [] subset: 3_STAR synonym: "inhibidor" RELATED [ChEBI] synonym: "inhibiteur" RELATED [ChEBI] synonym: "inhibitor" EXACT IUPAC_NAME [IUPAC] synonym: "inhibitors" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:35230 name: fossil fuel namespace: chebi_ontology def: "A fuel such as coal, oil and natural gas which has formed over many years through the decomposition of deposited vegetation which was under extreme pressure of an overburden of earth." [] subset: 3_STAR synonym: "fossil fuel" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33292 ! fuel [Term] id: CHEBI:35238 name: amino acid zwitterion namespace: chebi_ontology def: "The zwitterionic form of an amino acid having a negatively charged carboxyl group and a positively charged amino group." [] subset: 3_STAR synonym: "amino acid zwitterion" EXACT [ChEBI] is_a: CHEBI:27369 ! zwitterion [Term] id: CHEBI:35267 name: quaternary ammonium ion namespace: chebi_ontology alt_id: CHEBI:26470 alt_id: CHEBI:8693 def: "A derivative of ammonium, NH4(+), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." [] subset: 3_STAR synonym: "Quaternary amine" RELATED [KEGG_COMPOUND] synonym: "quaternary ammonium" RELATED [UniProt] synonym: "quaternary ammonium ion" EXACT IUPAC_NAME [IUPAC] synonym: "quaternary ammonium ions" RELATED [ChEBI] xref: KEGG:C06703 is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: has_parent_hydride CHEBI:28938 ! ammonium property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "NR4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "14.00670" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "14.00307" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*][N+]([*])([*])[*]" xsd:string [Term] id: CHEBI:35273 name: quaternary ammonium salt namespace: chebi_ontology alt_id: CHEBI:26468 alt_id: CHEBI:35268 def: "Derivatives of ammonium compounds, (NH4(+))Y(-), in which all four of the hydrogens bonded to nitrogen have been replaced with univalent (usually organyl) groups." [] subset: 3_STAR synonym: "quaternary ammonium compound" RELATED [ChEBI] synonym: "quaternary ammonium compounds" EXACT IUPAC_NAME [IUPAC] synonym: "quaternary ammonium salt" EXACT [ChEBI] synonym: "quaternary ammonium salts" RELATED [ChEBI] is_a: CHEBI:26469 ! quaternary nitrogen compound is_a: CHEBI:46850 ! organoammonium salt [Term] id: CHEBI:35274 name: ammonium ion namespace: chebi_ontology def: "Ammonium, NH4(+), and derivatives formed by substitution by univalent groups." [] subset: 3_STAR synonym: "ammonium ions" RELATED [ChEBI] synonym: "azanium ions" RELATED [ChEBI] is_a: CHEBI:33702 ! polyatomic cation is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35276 name: ammonium compound namespace: chebi_ontology def: "Compounds (NH4(+))Y(-) and derivatives, in which one or more of the hydrogens bonded to nitrogen have been replaced with univalent groups." [] subset: 3_STAR synonym: "ammonium compounds" RELATED [ChEBI] synonym: "ammonium compounds" RELATED [IUPAC] synonym: "azanium compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_part CHEBI:35274 ! ammonium ion [Term] id: CHEBI:35287 name: acylcholine namespace: chebi_ontology alt_id: CHEBI:13245 alt_id: CHEBI:22227 alt_id: CHEBI:2463 def: "A choline ester formed from choline and a carboxylic acid." [] subset: 3_STAR synonym: "acylcholines" RELATED [ChEBI] synonym: "an acylcholine" RELATED [UniProt] xref: KEGG:C01777 is_a: CHEBI:35267 ! quaternary ammonium ion property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H13NO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "131.17290" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "131.09463" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[N+](C)(C)CCOC([*])=O" xsd:string [Term] id: CHEBI:35294 name: carbopolycyclic compound namespace: chebi_ontology def: "A polyclic compound in which all of the ring members are carbon atoms." [] subset: 3_STAR synonym: "carbopolycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33598 ! carbocyclic compound is_a: CHEBI:35295 ! homopolycyclic compound [Term] id: CHEBI:35295 name: homopolycyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "homopolycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33597 ! homocyclic compound is_a: CHEBI:33635 ! polycyclic compound [Term] id: CHEBI:35315 name: deoxy hexoside namespace: chebi_ontology subset: 3_STAR synonym: "deoxy hexoside" EXACT [ChEBI] synonym: "deoxy hexosides" RELATED [ChEBI] is_a: CHEBI:24400 ! glycoside [Term] id: CHEBI:3533 name: cephaeline namespace: chebi_ontology def: "A pyridoisoquinoline comprising emetam having a hydroxy group at the 6'-position and methoxy substituents at the 7'-, 10- and 11-positions." [] subset: 3_STAR synonym: "7',10,11-trimethoxyemetan-6'-ol" EXACT IUPAC_NAME [IUPAC] synonym: "Cephaelin" RELATED [ChemIDplus] synonym: "Cephaeline" EXACT [KEGG_COMPOUND] xref: Beilstein:100615 "Beilstein" xref: CAS:483-17-0 "ChemIDplus" xref: KEGG:C09390 xref: KNApSAcK:C00001835 xref: LINCS:LSM-3808 xref: PMID:11411558 "Europe PMC" xref: PMID:11913711 "Europe PMC" xref: PMID:11996324 "Europe PMC" xref: PMID:12880315 "Europe PMC" xref: PMID:13437707 "Europe PMC" xref: PMID:18327911 "Europe PMC" xref: PMID:20061395 "Europe PMC" xref: PMID:20495341 "Europe PMC" xref: PMID:21228475 "Europe PMC" xref: PMID:2715231 "Europe PMC" xref: PMID:6716976 "Europe PMC" xref: Reaxys:100615 "Reaxys" is_a: CHEBI:61692 ! pyridoisoquinoline relationship: has_parent_hydride CHEBI:36380 ! emetan property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C28H38N2O4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C28H38N2O4/c1-5-17-16-30-9-7-19-13-27(33-3)28(34-4)15-22(19)24(30)11-20(17)10-23-21-14-26(32-2)25(31)12-18(21)6-8-29-23/h12-15,17,20,23-24,29,31H,5-11,16H2,1-4H3/t17-,20-,23+,24-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DTGZHCFJNDAHEN-OZEXIGSWSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "466.61240" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "466.28316" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@]2([H])NCCc3cc(O)c(OC)cc23)C[C@]2([H])N(CCc3cc(OC)c(OC)cc23)C[C@@H]1CC" xsd:string [Term] id: CHEBI:35337 name: central nervous system stimulant namespace: chebi_ontology def: "Any drug that enhances the activity of the central nervous system." [] subset: 3_STAR synonym: "analeptic" RELATED [ChEBI] synonym: "analeptic agent" RELATED [ChEBI] synonym: "analeptic drug" RELATED [ChEBI] synonym: "analeptics" RELATED [ChEBI] synonym: "central nervous system stimulant" EXACT [ChEBI] synonym: "central stimulant" RELATED [ChEBI] synonym: "CNS stimulant" RELATED [ChEBI] xref: Wikipedia:Central_nervous_system_stimulants is_a: CHEBI:35470 ! central nervous system drug [Term] id: CHEBI:35341 name: steroid namespace: chebi_ontology alt_id: CHEBI:13687 alt_id: CHEBI:26768 alt_id: CHEBI:9263 def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene, so may be considered as triterpenoids." [] subset: 3_STAR synonym: "a steroid" RELATED [UniProt] synonym: "Steroid" EXACT [KEGG_COMPOUND] synonym: "steroids" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00377 xref: MetaCyc:Steroids is_a: CHEBI:18059 ! lipid is_a: CHEBI:51958 ! organic polycyclic compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C19H31R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "259.450" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "259.24258" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C12C(C3C(C(CC3)*)(C)CC1)CCC4C2(CCCC4)C" xsd:string [Term] id: CHEBI:35350 name: hydroxy steroid namespace: chebi_ontology alt_id: CHEBI:24748 alt_id: CHEBI:5814 subset: 3_STAR synonym: "hydroxy steroids" RELATED [ChEBI] synonym: "Hydroxysteroid" RELATED [KEGG_COMPOUND] synonym: "hydroxysteroids" RELATED [ChEBI] xref: KEGG:C02159 is_a: CHEBI:33822 ! organic hydroxy compound is_a: CHEBI:35341 ! steroid [Term] id: CHEBI:35352 name: organonitrogen compound namespace: chebi_ontology def: "Any heteroorganic entity containing at least one carbon-nitrogen bond." [] subset: 3_STAR synonym: "organonitrogen compounds" EXACT IUPAC_NAME [IUPAC] synonym: "organonitrogens" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35366 name: fatty acid namespace: chebi_ontology alt_id: CHEBI:13633 alt_id: CHEBI:24024 alt_id: CHEBI:4984 def: "Any aliphatic monocarboxylic acid derived from or contained in esterified form in an animal or vegetable fat, oil or wax." [] subset: 3_STAR synonym: "acide gras" RELATED [ChEBI] synonym: "acides gras" RELATED [ChemIDplus] synonym: "acido graso" RELATED [ChEBI] synonym: "acidos grasos" RELATED [ChEBI] synonym: "Fatty acid" EXACT [KEGG_COMPOUND] synonym: "fatty acids" EXACT IUPAC_NAME [IUPAC] synonym: "fatty acids" RELATED [ChEBI] synonym: "Fettsaeure" RELATED [ChEBI] synonym: "Fettsaeuren" RELATED [ChEBI] xref: KEGG:C00162 xref: PMID:14287444 "Europe PMC" xref: PMID:14300208 "Europe PMC" xref: PMID:14328676 "Europe PMC" xref: Wikipedia:Fatty_acid is_a: CHEBI:18059 ! lipid is_a: CHEBI:25384 ! monocarboxylic acid relationship: is_conjugate_acid_of CHEBI:28868 ! fatty acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01740" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])=O" xsd:string [Term] id: CHEBI:35367 name: thiocarboxylic acid anion namespace: chebi_ontology subset: 3_STAR synonym: "thiocarboxylates" RELATED [ChEBI] synonym: "thiocarboxylic acid anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion [Term] id: CHEBI:35381 name: monosaccharide namespace: chebi_ontology alt_id: CHEBI:25407 alt_id: CHEBI:6984 def: "Parent monosaccharides are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H-[CHOH]n-C(=O)[CHOH]m-H with three or more carbon atoms. The generic term 'monosaccharide' (as opposed to oligosaccharide or polysaccharide) denotes a single unit, without glycosidic connection to other such units. It includes aldoses, dialdoses, aldoketoses, ketoses and diketoses, as well as deoxy sugars, provided that the parent compound has a (potential) carbonyl group." [] subset: 3_STAR synonym: "monosacarido" RELATED [ChEBI] synonym: "monosacaridos" RELATED [IUPAC] synonym: "Monosaccharid" RELATED [ChEBI] synonym: "Monosaccharide" EXACT [KEGG_COMPOUND] synonym: "monosaccharides" EXACT IUPAC_NAME [IUPAC] synonym: "Monosacharid" RELATED [ChEBI] xref: KEGG:C06698 is_a: CHEBI:16646 ! carbohydrate [Term] id: CHEBI:35406 name: oxoanion namespace: chebi_ontology alt_id: CHEBI:33274 alt_id: CHEBI:33436 def: "An oxoanion is an anion derived from an oxoacid by loss of hydron(s) bound to oxygen." [] subset: 3_STAR synonym: "oxoacid anions" RELATED [ChEBI] synonym: "oxoanion" EXACT [ChEBI] synonym: "oxoanions" RELATED [ChEBI] is_a: CHEBI:25741 ! oxide is_a: CHEBI:33273 ! polyatomic anion [Term] id: CHEBI:35441 name: antiinfective agent namespace: chebi_ontology def: "A substance used in the prophylaxis or therapy of infectious diseases." [] subset: 3_STAR synonym: "anti-infective agents" RELATED [ChEBI] synonym: "anti-infective drugs" RELATED [ChEBI] synonym: "antiinfective agents" RELATED [ChEBI] synonym: "antiinfective drug" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35442 name: antiparasitic agent namespace: chebi_ontology def: "A substance used to treat or prevent parasitic infections." [] subset: 3_STAR synonym: "antiparasitic drugs" RELATED [ChEBI] synonym: "antiparasitics" RELATED [ChEBI] synonym: "parasiticides" RELATED [ChEBI] xref: Wikipedia:Antiparasitic is_a: CHEBI:35441 ! antiinfective agent [Term] id: CHEBI:35469 name: antidepressant namespace: chebi_ontology def: "Antidepressants are mood-stimulating drugs used primarily in the treatment of affective disorders and related conditions." [] subset: 3_STAR synonym: "antidepressant drugs" RELATED [ChEBI] synonym: "antidepressants" RELATED [ChEBI] synonym: "thymoanaleptics" RELATED [ChEBI] synonym: "thymoleptic drugs" RELATED [ChEBI] synonym: "thymoleptics" RELATED [ChEBI] is_a: CHEBI:35471 ! psychotropic drug [Term] id: CHEBI:35470 name: central nervous system drug namespace: chebi_ontology def: "A class of drugs producing both physiological and psychological effects through a variety of mechanisms involving the central nervous system." [] subset: 3_STAR synonym: "central nervous system agents" RELATED [ChEBI] synonym: "CNS agent" RELATED [ChEBI] synonym: "CNS drugs" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35471 name: psychotropic drug namespace: chebi_ontology def: "A loosely defined grouping of drugs that have effects on psychological function." [] subset: 3_STAR synonym: "psychoactive agent" RELATED [ChEBI] synonym: "psychoactive drugs" RELATED [ChEBI] synonym: "psychopharmaceuticals" RELATED [ChEBI] synonym: "psychotropic drugs" RELATED [ChEBI] xref: Wikipedia:Psychotropic_drug is_a: CHEBI:35470 ! central nervous system drug [Term] id: CHEBI:35473 name: tranquilizing drug namespace: chebi_ontology def: "A traditional grouping of drugs said to have a soothing or calming effect on mood, thought or behaviour." [] subset: 3_STAR synonym: "ataractics" RELATED [ChEBI] synonym: "tranquilising drug" RELATED [ChEBI] synonym: "tranquilizing drugs" RELATED [ChEBI] synonym: "tranquillising agent" RELATED [ChEBI] synonym: "tranquillizing agents" RELATED [ChEBI] is_a: CHEBI:35471 ! psychotropic drug is_a: CHEBI:35488 ! central nervous system depressant [Term] id: CHEBI:35474 name: anxiolytic drug namespace: chebi_ontology def: "Anxiolytic drugs are agents that alleviate anxiety, tension, and anxiety disorders, promote sedation, and have a calming effect without affecting clarity of consciousness or neurologic conditions." [] subset: 3_STAR synonym: "anti-anxiety agents" RELATED [ChEBI] synonym: "anti-anxiety drugs" RELATED [ChEBI] synonym: "anxiolytic agents" RELATED [ChEBI] synonym: "anxiolytics" RELATED [ChEBI] synonym: "minor tranquilisers" RELATED [ChEBI] synonym: "minor tranquilizers" RELATED [ChEBI] synonym: "minor tranquilizing agents" RELATED [ChEBI] is_a: CHEBI:35473 ! tranquilizing drug [Term] id: CHEBI:35479 name: alkali metal salt namespace: chebi_ontology subset: 3_STAR synonym: "alkali metal salts" RELATED [ChEBI] is_a: CHEBI:24866 ! salt is_a: CHEBI:33296 ! alkali metal molecular entity [Term] id: CHEBI:35480 name: analgesic namespace: chebi_ontology def: "An agent capable of relieving pain without the loss of consciousness or without producing anaesthesia. In addition, analgesic is a role played by a compound which is exhibited by a capability to cause a reduction of pain symptoms." [] subset: 3_STAR is_a: CHEBI:23888 ! drug is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:35481 name: non-narcotic analgesic namespace: chebi_ontology def: "A drug that has principally analgesic, antipyretic and anti-inflammatory actions. Non-narcotic analgesics do not bind to opioid receptors." [] subset: 3_STAR is_a: CHEBI:35480 ! analgesic [Term] id: CHEBI:35488 name: central nervous system depressant namespace: chebi_ontology def: "A loosely defined group of drugs that tend to reduce the activity of the central nervous system." [] subset: 3_STAR synonym: "central nervous system depressants" RELATED [ChEBI] synonym: "CNS depressants" RELATED [ChEBI] is_a: CHEBI:35470 ! central nervous system drug [Term] id: CHEBI:35498 name: diuretic namespace: chebi_ontology def: "An agent that promotes the excretion of urine through its effects on kidney function." [] subset: 3_STAR synonym: "diuretics" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35506 name: alkaloid fundamental parent namespace: chebi_ontology subset: 3_STAR synonym: "alkaloid fundamental parents" RELATED [ChEBI] is_a: CHEBI:35507 ! natural product fundamental parent [Term] id: CHEBI:35507 name: natural product fundamental parent namespace: chebi_ontology subset: 3_STAR synonym: "natural product fundamental parents" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33245 ! organic fundamental parent [Term] id: CHEBI:35522 name: beta-adrenergic agonist namespace: chebi_ontology def: "An agent that selectively binds to and activates beta-adrenergic receptors." [] subset: 3_STAR synonym: "beta-adrenergic agonists" RELATED [ChEBI] synonym: "beta-adrenergic receptor agonist" RELATED [ChEBI] synonym: "beta-adrenoceptor agonists" RELATED [IUPHAR] is_a: CHEBI:37886 ! adrenergic agonist is_a: CHEBI:48540 ! beta-adrenergic drug [Term] id: CHEBI:35524 name: sympathomimetic agent namespace: chebi_ontology def: "A drug that mimics the effects of stimulating postganglionic adrenergic sympathetic nerves. Included in this class are drugs that directly stimulate adrenergic receptors and drugs that act indirectly by provoking the release of adrenergic transmitters." [] subset: 3_STAR synonym: "sympathomimetic" RELATED [ChEBI] synonym: "sympathomimetics" RELATED [ChEBI] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:35545 name: bipyridine namespace: chebi_ontology subset: 3_STAR synonym: "Bipyridin" RELATED [ChEBI] synonym: "bipyridine" EXACT IUPAC_NAME [IUPAC] synonym: "bipyridyl" RELATED [IUPAC] is_a: CHEBI:50511 ! bipyridines property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H8N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "156.184" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "156.06875" xsd:string [Term] id: CHEBI:35552 name: heterocyclic organic fundamental parent namespace: chebi_ontology subset: 3_STAR synonym: "heterocyclic fundamental parent" RELATED [ChEBI] synonym: "heterocyclic organic fundamental parents" RELATED [ChEBI] synonym: "heterocyclic parent hydrides" EXACT IUPAC_NAME [IUPAC] synonym: "organic heterocyclic fundamental parents" RELATED [ChEBI] is_a: CHEBI:33245 ! organic fundamental parent [Term] id: CHEBI:35554 name: cardiovascular drug namespace: chebi_ontology def: "A drug that affects the rate or intensity of cardiac contraction, blood vessel diameter or blood volume." [] subset: 3_STAR synonym: "cardiovascular agent" RELATED [ChEBI] synonym: "cardiovascular drugs" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35555 name: mancude organic heteromonocyclic parent namespace: chebi_ontology subset: 3_STAR synonym: "mancude organic heteromonocyclic parents" RELATED [ChEBI] synonym: "mancude-ring organic heteromonocyclic parents" RELATED [ChEBI] is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:35571 ! mancude organic heterocyclic parent [Term] id: CHEBI:35568 name: mancude ring namespace: chebi_ontology def: "Any molecular entity that consists of a ring having (formally) the maximum number of noncumulative double bonds." [] subset: 3_STAR synonym: "mancude rings" RELATED [ChEBI] synonym: "mancude-ring systems" EXACT IUPAC_NAME [IUPAC] synonym: "mancunide-ring systems" RELATED [IUPAC] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:35570 name: mancude organic heterobicyclic parent namespace: chebi_ontology subset: 3_STAR synonym: "mancude organic heterobicyclic parents" RELATED [ChEBI] synonym: "mancude-ring organic heterobicyclic parents" RELATED [ChEBI] is_a: CHEBI:27171 ! organic heterobicyclic compound is_a: CHEBI:35571 ! mancude organic heterocyclic parent [Term] id: CHEBI:35571 name: mancude organic heterocyclic parent namespace: chebi_ontology subset: 3_STAR synonym: "mancude organic heterocyclic parents" RELATED [ChEBI] synonym: "mancude-ring organic heterocyclic parents" RELATED [ChEBI] is_a: CHEBI:35552 ! heterocyclic organic fundamental parent is_a: CHEBI:35573 ! organic mancude parent [Term] id: CHEBI:35573 name: organic mancude parent namespace: chebi_ontology subset: 3_STAR synonym: "organic mancude parents" RELATED [ChEBI] synonym: "organic mancude-ring parents" RELATED [ChEBI] is_a: CHEBI:33245 ! organic fundamental parent is_a: CHEBI:35568 ! mancude ring [Term] id: CHEBI:35584 name: purine namespace: chebi_ontology def: "A heterobicyclic aromatic organic compound comprising a pyrimidine ring fused to an imidazole ring; the parent compound of the purines." [] subset: 3_STAR synonym: "purine" EXACT IUPAC_NAME [IUPAC] xref: HMDB:HMDB0001366 xref: KEGG:C15587 xref: MetaCyc:PURINE xref: PMID:12865945 "Europe PMC" xref: PMID:24088627 "Europe PMC" is_a: CHEBI:26401 ! purines is_a: CHEBI:35570 ! mancude organic heterobicyclic parent relationship: has_role CHEBI:78675 ! fundamental metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "120.112" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "120.04360" xsd:string [Term] id: CHEBI:35586 name: 1H-purine namespace: chebi_ontology def: "The 1H-tautomer of purine." [] subset: 3_STAR synonym: "1H-purine" EXACT [ChEBI] xref: Gmelin:2379911 "Gmelin" is_a: CHEBI:35584 ! purine relationship: is_tautomer_of CHEBI:17258 ! 7H-purine relationship: is_tautomer_of CHEBI:35588 ! 3H-purine relationship: is_tautomer_of CHEBI:35589 ! 9H-purine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDCGOANMDULRCW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "120.11210" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "120.04360" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1nc2c[nH]cnc2n1" xsd:string [Term] id: CHEBI:35588 name: 3H-purine namespace: chebi_ontology def: "The 3H-tautomer of purine." [] subset: 3_STAR synonym: "3H-purine" EXACT IUPAC_NAME [IUPAC] xref: PMID:6149478 "Europe PMC" xref: PMID:7178185 "Europe PMC" xref: PMID:7296170 "Europe PMC" xref: Reaxys:1210196 "Reaxys" is_a: CHEBI:35584 ! purine relationship: is_tautomer_of CHEBI:17258 ! 7H-purine relationship: is_tautomer_of CHEBI:35586 ! 1H-purine relationship: is_tautomer_of CHEBI:35589 ! 9H-purine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDCGOANMDULRCW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "120.11222" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "120.04360" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1nc2cnc[nH]c2n1" xsd:string [Term] id: CHEBI:35589 name: 9H-purine namespace: chebi_ontology def: "The 9H-tautomer of purine." [] subset: 3_STAR synonym: "9H-purine" EXACT IUPAC_NAME [IUPAC] synonym: "9H-purine" EXACT [UniProt] xref: Beilstein:606899 "Beilstein" xref: CAS:120-73-0 "NIST Chemistry WebBook" xref: Gmelin:3120 "Gmelin" xref: Wikipedia:Purine is_a: CHEBI:35584 ! purine relationship: is_tautomer_of CHEBI:17258 ! 7H-purine relationship: is_tautomer_of CHEBI:35586 ! 1H-purine relationship: is_tautomer_of CHEBI:35588 ! 3H-purine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H4N4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KDCGOANMDULRCW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "120.11222" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "120.04360" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "c1ncc2nc[nH]c2n1" xsd:string [Term] id: CHEBI:35605 name: carbon oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "carbon oxoacids" RELATED [ChEBI] synonym: "oxoacids of carbon" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:35610 name: antineoplastic agent namespace: chebi_ontology def: "A substance that inhibits or prevents the proliferation of neoplasms." [] subset: 3_STAR synonym: "anticancer agent" RELATED [ChEBI] synonym: "anticancer agents" RELATED [ChEBI] synonym: "antineoplastic" RELATED [ChEBI] synonym: "antineoplastic agents" RELATED [ChEBI] synonym: "cytostatic" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35618 name: aromatic ether namespace: chebi_ontology def: "Any ether in which the oxygen is attached to at least one aryl substituent." [] subset: 3_STAR is_a: CHEBI:25698 ! ether is_a: CHEBI:33659 ! organic aromatic compound [Term] id: CHEBI:35620 name: vasodilator agent namespace: chebi_ontology def: "A drug used to cause dilation of the blood vessels." [] subset: 3_STAR synonym: "vasodilator" RELATED [ChEBI] synonym: "vasodilator agents" RELATED [ChEBI] is_a: CHEBI:35554 ! cardiovascular drug [Term] id: CHEBI:35623 name: anticonvulsant namespace: chebi_ontology def: "A drug used to prevent seizures or reduce their severity." [] subset: 3_STAR synonym: "anti-convulsant" RELATED [ChEBI] synonym: "anti-convulsants" RELATED [ChEBI] synonym: "anti-convulsive agent" RELATED [ChEBI] synonym: "anti-convulsive agents" RELATED [ChEBI] synonym: "anticonvulsants" RELATED [ChEBI] synonym: "anticonvulsive agent" RELATED [ChEBI] synonym: "anticonvulsive agents" RELATED [ChEBI] synonym: "antiepileptic" RELATED [ChEBI] synonym: "antiepileptics" RELATED [ChEBI] synonym: "Antiepileptika" RELATED [ChEBI] synonym: "Antiepileptikum" RELATED [ChEBI] synonym: "antiepileptique" RELATED [ChEBI] synonym: "antiepileptiques" RELATED [ChEBI] synonym: "Antikonvulsiva" RELATED [ChEBI] synonym: "Antikonvulsivum" RELATED [ChEBI] is_a: CHEBI:35488 ! central nervous system depressant [Term] id: CHEBI:35640 name: adrenergic uptake inhibitor namespace: chebi_ontology def: "Adrenergic uptake inhibitors are drugs that block the transport of adrenergic transmitters into axon terminals or into storage vesicles within terminals. The tricyclic antidepressants and amphetamines are among the therapeutically important drugs that may act via inhibition of adrenergic transport. Many of these drugs also block transport of serotonin." [] subset: 3_STAR synonym: "adrenergic reuptake inhibitor" RELATED [ChEBI] synonym: "adrenergic reuptake inhibitors" RELATED [ChEBI] synonym: "adrenergic uptake inhibitors" RELATED [ChEBI] synonym: "ARI" RELATED [ChEBI] synonym: "NERI" RELATED [ChEBI] synonym: "norepinephrine reuptake inhibitor" RELATED [ChEBI] synonym: "norepinephrine reuptake inhibitors" RELATED [ChEBI] synonym: "NRI" RELATED [ChEBI] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:35678 name: histamine agonist namespace: chebi_ontology def: "A drug that binds to and activates histamine receptors. Although they have been suggested for a variety of clinical applications, histamine agonists have so far been more widely used in research than therapeutically." [] subset: 3_STAR synonym: "histamine agonists" RELATED [ChEBI] is_a: CHEBI:37957 ! histaminergic drug [Term] id: CHEBI:35681 name: secondary alcohol namespace: chebi_ontology alt_id: CHEBI:13425 alt_id: CHEBI:13686 alt_id: CHEBI:26617 alt_id: CHEBI:58662 alt_id: CHEBI:8741 alt_id: CHEBI:9077 def: "A secondary alcohol is a compound in which a hydroxy group, -OH, is attached to a saturated carbon atom which has two other carbon atoms attached to it." [] subset: 3_STAR synonym: "a secondary alcohol" RELATED [UniProt] synonym: "R-CHOH-R'" RELATED [KEGG_COMPOUND] synonym: "Secondary alcohol" EXACT [KEGG_COMPOUND] synonym: "secondary alcohols" RELATED [ChEBI] xref: KEGG:C00432 xref: KEGG:C01612 is_a: CHEBI:30879 ! alcohol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2OR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "30.02600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "58.07910" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "30.01056" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])[*]" xsd:string [Term] id: CHEBI:35701 name: ester namespace: chebi_ontology alt_id: CHEBI:23960 alt_id: CHEBI:4859 def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] subset: 3_STAR synonym: "Ester" EXACT [KEGG_COMPOUND] synonym: "esters" RELATED [ChEBI] xref: KEGG:C00287 xref: Wikipedia:Ester is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:35702 name: diethyl ether namespace: chebi_ontology alt_id: CHEBI:23991 alt_id: CHEBI:31565 def: "An ether in which the oxygen atom is linked to two ethyl groups." [] subset: 3_STAR synonym: "1,1'-oxybisethane" RELATED [ChemIDplus] synonym: "1,1'-oxydiethane" EXACT IUPAC_NAME [IUPAC] synonym: "3-oxapentane" RELATED [ChemIDplus] synonym: "Aether" RELATED [ChEBI] synonym: "aether" RELATED [NIST_Chemistry_WebBook] synonym: "aether pro narcosi" RELATED [ChEBI] synonym: "Anesthetic ether" RELATED [KEGG_COMPOUND] synonym: "Diethyl ether" EXACT [KEGG_COMPOUND] synonym: "diethyl oxide" RELATED [ChemIDplus] synonym: "Diethylaether" RELATED [ChEBI] synonym: "Ether" RELATED [KEGG_COMPOUND] synonym: "ethoxyethane" RELATED [ChemIDplus] synonym: "ethyl ether" RELATED [ChemIDplus] synonym: "ethyl oxide" RELATED [ChemIDplus] synonym: "Pronarcol" RELATED [NIST_Chemistry_WebBook] synonym: "R-610" RELATED [ChEBI] xref: Beilstein:1696894 "Beilstein" xref: CAS:60-29-7 "KEGG COMPOUND" xref: Drug_Central:4417 "DrugCentral" xref: Gmelin:25444 "Gmelin" xref: KEGG:C13240 xref: KEGG:D01772 xref: PMID:24443836 "Europe PMC" xref: Reaxys:1696894 "Reaxys" xref: Wikipedia:Diethyl_ether is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:25698 ! ether relationship: has_role CHEBI:38870 ! inhalation anaesthetic relationship: has_role CHEBI:48355 ! non-polar solvent relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H10O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H10O/c1-3-5-4-2/h3-4H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTZKZFJDLAIYFH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "74.12160" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.07316" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCOCC" xsd:string [Term] id: CHEBI:35703 name: xenobiotic namespace: chebi_ontology alt_id: CHEBI:10074 alt_id: CHEBI:27333 def: "A xenobiotic (Greek, xenos \"foreign\"; bios \"life\") is a compound that is foreign to a living organism. Principal xenobiotics include: drugs, carcinogens and various compounds that have been introduced into the environment by artificial means." [] subset: 3_STAR synonym: "Xenobiotic" EXACT [KEGG_COMPOUND] synonym: "xenobiotic" EXACT IUPAC_NAME [IUPAC] synonym: "xenobiotic compounds" RELATED [ChEBI] synonym: "xenobiotics" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C06708 xref: Wikipedia:Xenobiotic is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:35705 name: immunosuppressive agent namespace: chebi_ontology def: "An agent that suppresses immune function by one of several mechanisms of action. Classical cytotoxic immunosuppressants act by inhibiting DNA synthesis. Others may act through activation of T-cells or by inhibiting the activation of helper cells. In addition, an immunosuppressive agent is a role played by a compound which is exhibited by a capability to diminish the extent and/or voracity of an immune response." [] subset: 3_STAR synonym: "immunosuppressant" RELATED [ChEBI] synonym: "immunosuppressive agents" RELATED [ChEBI] synonym: "inmunosupresor" RELATED [ChEBI] is_a: CHEBI:50846 ! immunomodulator [Term] id: CHEBI:35717 name: sedative namespace: chebi_ontology def: "A central nervous system depressant used to induce drowsiness or sleep or to reduce psychological excitement or anxiety." [] subset: 3_STAR synonym: "hypnotics" RELATED [ChEBI] synonym: "hypnotics and sedatives" RELATED [ChEBI] synonym: "sedative drug" RELATED [ChEBI] synonym: "sedatives" RELATED [ChEBI] synonym: "sedatives and hypnotics" RELATED [ChEBI] is_a: CHEBI:35488 ! central nervous system depressant [Term] id: CHEBI:35718 name: antifungal agent namespace: chebi_ontology def: "An antimicrobial agent that destroys fungi by suppressing their ability to grow or reproduce." [] subset: 3_STAR synonym: "antifungal" RELATED [ChEBI] synonym: "antifungal agents" RELATED [ChEBI] synonym: "antifungal drug" RELATED [ChEBI] synonym: "antifungal drugs" RELATED [ChEBI] synonym: "antifungals" RELATED [ChEBI] is_a: CHEBI:33281 ! antimicrobial agent [Term] id: CHEBI:35737 name: monothiocarboxylic acid namespace: chebi_ontology def: "Compounds in which one oxygen of a carboxy group has been replaced by divalent sulfur; RC(=O)SH or RC(=S)OH." [] subset: 3_STAR synonym: "monothiocarboxylic acid" EXACT [ChEBI] synonym: "monothiocarboxylic acids" EXACT IUPAC_NAME [IUPAC] synonym: "monothiocarboxylic acids" RELATED [ChEBI] synonym: "thio acid" RELATED [ChEBI] is_a: CHEBI:33307 ! thiocarboxylic acid [Term] id: CHEBI:35757 name: monocarboxylic acid anion namespace: chebi_ontology alt_id: CHEBI:13657 alt_id: CHEBI:25382 alt_id: CHEBI:3407 def: "A carboxylic acid anion formed when the carboxy group of a monocarboxylic acid is deprotonated." [] subset: 3_STAR synonym: "a monocarboxylate" RELATED [UniProt] synonym: "Carboxylate" RELATED [KEGG_COMPOUND] synonym: "Monocarboxylate" RELATED [KEGG_COMPOUND] synonym: "monocarboxylates" RELATED [ChEBI] synonym: "monocarboxylic acid anions" RELATED [ChEBI] xref: KEGG:C00060 is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:25384 ! monocarboxylic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.01000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:35780 name: phosphate ion namespace: chebi_ontology def: "A phosphorus oxoanion that is the conjugate base of phosphoric acid." [] subset: 3_STAR synonym: "phosphate" RELATED [ChEBI] synonym: "phosphate ions" RELATED [ChEBI] synonym: "Pi" RELATED [ChEBI] is_a: CHEBI:33461 ! phosphorus oxoanion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:26078 ! phosphoric acid [Term] id: CHEBI:35820 name: antiprotozoal drug namespace: chebi_ontology def: "Any antimicrobial drug which is used to treat or prevent protozoal infections." [] subset: 3_STAR synonym: "antiprotozoal agent" RELATED [ChEBI] synonym: "antiprotozoal agents" RELATED [ChEBI] synonym: "antiprotozoal drugs" RELATED [ChEBI] xref: Wikipedia:Antiprotozoal_agent is_a: CHEBI:35442 ! antiparasitic agent is_a: CHEBI:36043 ! antimicrobial drug [Term] id: CHEBI:35875 name: imidazopyrimidine namespace: chebi_ontology subset: 3_STAR synonym: "imidazopyrimidines" RELATED [ChEBI] is_a: CHEBI:27171 ! organic heterobicyclic compound is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:35881 name: pnictogen hydride namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen hydride" EXACT [ChEBI] synonym: "pnictogen hydrides" RELATED [ChEBI] is_a: CHEBI:33242 ! inorganic hydride is_a: CHEBI:33302 ! pnictogen molecular entity [Term] id: CHEBI:35939 name: pent-2-enoic acid namespace: chebi_ontology def: "A pentenoic acid having the double bond at position 2." [] subset: 3_STAR synonym: "2-pentenoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "alpha-Butylen-alpha-carbonsaeure" RELATED [ChEBI] synonym: "alpha-pentenoic acid" RELATED [ChEBI] synonym: "alpha.beta-Pentensaeure" RELATED [ChEBI] synonym: "beta-Aethyl-acrylsaeure" RELATED [ChEBI] synonym: "beta-Aethylacrylsaeure" RELATED [ChEBI] synonym: "beta-ethyl acrylic acid" RELATED [LIPID_MAPS] synonym: "C5:1, n-3" RELATED [ChEBI] synonym: "pent-2-enoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Pent-2-ensaeure" RELATED [ChEBI] synonym: "Propylidenessigsaeure" RELATED [ChEBI] xref: CAS:626-98-2 "ChemIDplus" xref: LIPID_MAPS_instance:LMFA01030005 "LIPID MAPS" xref: Reaxys:1720310 "Reaxys" is_a: CHEBI:25897 ! pentenoic acid is_a: CHEBI:79020 ! alpha,beta-unsaturated monocarboxylic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H8O2/c1-2-3-4-5(6)7/h3-4H,2H2,1H3,(H,6,7)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "YIYBQIKDCADOSF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "100.11582" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "100.05243" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(CC)=CC(O)=O" xsd:string [Term] id: CHEBI:35942 name: neurotransmitter agent namespace: chebi_ontology def: "A substance used for its pharmacological action on any aspect of neurotransmitter systems. Neurotransmitter agents include agonists, antagonists, degradation inhibitors, uptake inhibitors, depleters, precursors, and modulators of receptor function." [] subset: 3_STAR synonym: "neurotransmitter agents" RELATED [ChEBI] is_a: CHEBI:23888 ! drug is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:35987 name: diamino acid namespace: chebi_ontology def: "Any amino acid carrying two amino groups." [] subset: 3_STAR is_a: CHEBI:33709 ! amino acid relationship: is_conjugate_acid_of CHEBI:59561 ! diamino acid anion [Term] id: CHEBI:36043 name: antimicrobial drug namespace: chebi_ontology def: "A drug used to treat or prevent microbial infections." [] subset: 3_STAR synonym: "antimicrobial drugs" RELATED [ChEBI] is_a: CHEBI:33281 ! antimicrobial agent is_a: CHEBI:35441 ! antiinfective agent [Term] id: CHEBI:36093 name: inorganic chloride namespace: chebi_ontology subset: 3_STAR synonym: "inorganic chloride salt" RELATED [ChEBI] synonym: "inorganic chloride salts" RELATED [ChEBI] synonym: "inorganic chlorides" RELATED [ChEBI] is_a: CHEBI:23114 ! chloride salt is_a: CHEBI:24839 ! inorganic salt [Term] id: CHEBI:36338 name: lepton namespace: chebi_ontology def: "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin)." [] subset: 3_STAR synonym: "leptons" RELATED [ChEBI] is_a: CHEBI:33233 ! fundamental particle is_a: CHEBI:36340 ! fermion [Term] id: CHEBI:36339 name: baryon namespace: chebi_ontology def: "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy)." [] subset: 3_STAR synonym: "baryons" RELATED [ChEBI] is_a: CHEBI:36340 ! fermion is_a: CHEBI:36344 ! hadron [Term] id: CHEBI:36340 name: fermion namespace: chebi_ontology def: "Particle of half-integer spin quantum number following Fermi-Dirac statistics. Fermions are named after Enrico Fermi." [] subset: 3_STAR synonym: "fermion" EXACT IUPAC_NAME [IUPAC] synonym: "fermions" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36342 name: subatomic particle namespace: chebi_ontology def: "A particle smaller than an atom." [] subset: 3_STAR synonym: "subatomic particles" RELATED [ChEBI] [Term] id: CHEBI:36343 name: composite particle namespace: chebi_ontology def: "A subatomic particle known to have substructure (i.e. consisting of smaller particles)." [] subset: 3_STAR synonym: "composite particles" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36344 name: hadron namespace: chebi_ontology def: "Hadron is a subatomic particle which experiences the strong force." [] subset: 3_STAR synonym: "hadrons" RELATED [ChEBI] is_a: CHEBI:36343 ! composite particle [Term] id: CHEBI:36347 name: nuclear particle namespace: chebi_ontology def: "A nucleus or any of its constituents in any of their energy states." [] subset: 3_STAR synonym: "nuclear particle" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36357 name: polyatomic entity namespace: chebi_ontology def: "Any molecular entity consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity relationship: has_part CHEBI:24433 ! group [Term] id: CHEBI:36358 name: polyatomic ion namespace: chebi_ontology def: "An ion consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic ions" RELATED [ChEBI] is_a: CHEBI:24870 ! ion is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:36359 name: phosphorus oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "phosphorus oxoacid derivative" EXACT [ChEBI] is_a: CHEBI:33241 ! oxoacid derivative is_a: CHEBI:36360 ! phosphorus oxoacids and derivatives relationship: has_functional_parent CHEBI:33457 ! phosphorus oxoacid [Term] id: CHEBI:36360 name: phosphorus oxoacids and derivatives namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:26082 ! phosphorus molecular entity [Term] id: CHEBI:36380 name: emetan namespace: chebi_ontology subset: 3_STAR synonym: "emetan" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:24921 ! isoquinoline alkaloid is_a: CHEBI:24922 ! isoquinolines is_a: CHEBI:38515 ! isoquinoline alkaloid fundamental parent property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C25H32N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C25H32N2/c1-2-18-17-27-14-12-20-8-4-6-10-23(20)25(27)16-21(18)15-24-22-9-5-3-7-19(22)11-13-26-24/h3-10,18,21,24-26H,2,11-17H2,1H3/t18-,21-,24+,25-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KSQYVPHTTWSOHG-CKBKHPSWSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "360.53506" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "360.25655" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@]2([H])NCCc3ccccc23)C[C@]2([H])N(CCc3ccccc23)C[C@@H]1CC" xsd:string [Term] id: CHEBI:36416 name: mancude organic heterotricyclic parent namespace: chebi_ontology subset: 3_STAR synonym: "mancude organic heterotricyclic parents" RELATED [ChEBI] synonym: "mancude-ring organic heterotricyclic parents" RELATED [ChEBI] is_a: CHEBI:26979 ! organic heterotricyclic compound is_a: CHEBI:35571 ! mancude organic heterocyclic parent [Term] id: CHEBI:36586 name: carbonyl compound namespace: chebi_ontology def: "Any compound containing the carbonyl group, C=O. The term is commonly used in the restricted sense of aldehydes and ketones, although it actually includes carboxylic acids and derivatives." [] subset: 3_STAR synonym: "carbonyl compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:36587 ! organic oxo compound is_a: CHEBI:36963 ! organooxygen compound relationship: has_part CHEBI:23019 ! carbonyl group [Term] id: CHEBI:36587 name: organic oxo compound namespace: chebi_ontology def: "Organic compounds containing an oxygen atom, =O, doubly bonded to carbon or another element." [] subset: 3_STAR synonym: "organic oxo compounds" RELATED [ChEBI] synonym: "oxo compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:72695 ! organic molecule relationship: has_part CHEBI:46629 ! oxo group [Term] id: CHEBI:36683 name: organochlorine compound namespace: chebi_ontology def: "An organochlorine compound is a compound containing at least one carbon-chlorine bond." [] subset: 3_STAR synonym: "chloroorganic compounds" RELATED [ChEBI] synonym: "chlororganische Verbindungen" RELATED [ChEBI] synonym: "organochloride compound" RELATED [ChEBI] synonym: "organochloride compounds" RELATED [ChEBI] synonym: "organochlorine compound" EXACT [ChEBI] synonym: "organochlorine compounds" RELATED [ChEBI] xref: Wikipedia:Organochloride is_a: CHEBI:23117 ! chlorine molecular entity is_a: CHEBI:36684 ! organohalogen compound [Term] id: CHEBI:36684 name: organohalogen compound namespace: chebi_ontology def: "A compound containing at least one carbon-halogen bond." [] subset: 3_STAR synonym: "organohalogen compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:37578 ! halide [Term] id: CHEBI:36688 name: heterotricyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "heterotricyclic compound" EXACT [ChEBI] synonym: "heterotricyclic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "heterotricyclic compounds" RELATED [ChEBI] is_a: CHEBI:33671 ! heteropolycyclic compound [Term] id: CHEBI:36810 name: (trifluoromethyl)benzene namespace: chebi_ontology def: "A fluorohydrocarbon that is fluoroform in which the hydrogen is substituted by a phenyl group." [] subset: 3_STAR synonym: "(trifluoromethyl)benzene" EXACT IUPAC_NAME [IUPAC] synonym: "alpha,alpha,alpha-trifluorotoluene" RELATED [NIST_Chemistry_WebBook] synonym: "benzotrifluoride" RELATED [ChemIDplus] synonym: "C6H5CF3" RELATED [ChEBI] synonym: "CF3Ph" RELATED [ChEBI] synonym: "omega-trifluorotoluene" RELATED [NIST_Chemistry_WebBook] synonym: "PhCF3" RELATED [ChEBI] synonym: "phenylfluoroform" RELATED [NIST_Chemistry_WebBook] synonym: "trifluoromethylbenzene" RELATED [ChemIDplus] xref: Beilstein:1906908 "ChemIDplus" xref: CAS:98-08-8 "ChemIDplus" xref: Gmelin:3670 "Gmelin" xref: PMID:11671431 "Europe PMC" xref: PMID:20958547 "Europe PMC" xref: PMID:24267073 "Europe PMC" xref: PMID:24669762 "Europe PMC" xref: Reaxys:1906908 "Reaxys" is_a: CHEBI:46695 ! fluorohydrocarbon is_a: CHEBI:83565 ! (trifluoromethyl)benzenes relationship: has_functional_parent CHEBI:41550 ! fluoroform relationship: has_role CHEBI:46787 ! solvent relationship: has_role CHEBI:78298 ! environmental contaminant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C7H5F3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C7H5F3/c8-7(9,10)6-4-2-1-3-5-6/h1-5H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "GETTZEONDQJALK-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "146.10980" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "146.03433" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "FC(F)(F)c1ccccc1" xsd:string [Term] id: CHEBI:36820 name: ring assembly namespace: chebi_ontology def: "Two or more cyclic systems (single rings or fused systems) which are directly joined to each other by double or single bonds are named ring assemblies when the number of such direct ring junctions is one less than the number of cyclic systems involved." [] subset: 3_STAR synonym: "ring assemblies" EXACT IUPAC_NAME [IUPAC] synonym: "ring assembly" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:36828 name: pseudohalide anion namespace: chebi_ontology subset: 3_STAR synonym: "pseudohalide anions" RELATED [ChEBI] synonym: "pseudohalide ions" EXACT IUPAC_NAME [IUPAC] synonym: "pseudohalides" RELATED [ChEBI] synonym: "pseudohalogen anion" RELATED [ChEBI] synonym: "pseudohalogen ion" RELATED [ChEBI] is_a: CHEBI:36829 ! polyatomic monoanion [Term] id: CHEBI:36829 name: polyatomic monoanion namespace: chebi_ontology subset: 3_STAR synonym: "polyatomic monoanions" RELATED [ChEBI] is_a: CHEBI:33273 ! polyatomic anion is_a: CHEBI:36830 ! monoanion [Term] id: CHEBI:36830 name: monoanion namespace: chebi_ontology subset: 3_STAR synonym: "monoanions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string [Term] id: CHEBI:36841 name: 11-hydroxy steroid namespace: chebi_ontology subset: 3_STAR synonym: "11-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:35350 ! hydroxy steroid [Term] id: CHEBI:36848 name: 5-hydroxy steroid namespace: chebi_ontology subset: 3_STAR synonym: "5-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:35350 ! hydroxy steroid [Term] id: CHEBI:36860 name: 14-hydroxy steroid namespace: chebi_ontology subset: 3_STAR synonym: "14-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:35350 ! hydroxy steroid [Term] id: CHEBI:36862 name: 14beta-hydroxy steroid namespace: chebi_ontology def: "A 14-hydroxy steroid in which the hydroxy group has a beta-configuration." [] subset: 3_STAR synonym: "14beta-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:36860 ! 14-hydroxy steroid [Term] id: CHEBI:36893 name: elemental iodine namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:33434 ! elemental halogen [Term] id: CHEBI:36894 name: elemental bromine namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:33434 ! elemental halogen [Term] id: CHEBI:36896 name: monoatomic bromine namespace: chebi_ontology subset: 3_STAR synonym: "atomic bromine" RELATED [ChEBI] is_a: CHEBI:36894 ! elemental bromine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Br" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "79.904" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "78.91834" xsd:string [Term] id: CHEBI:36897 name: monoatomic iodine namespace: chebi_ontology subset: 3_STAR synonym: "atomic iodine" RELATED [ChEBI] is_a: CHEBI:36893 ! elemental iodine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "126.904" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "126.90447" xsd:string [Term] id: CHEBI:36914 name: inorganic ion namespace: chebi_ontology subset: 3_STAR synonym: "inorganic ions" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:24870 ! ion [Term] id: CHEBI:36915 name: inorganic cation namespace: chebi_ontology subset: 3_STAR synonym: "inorganic cations" RELATED [ChEBI] is_a: CHEBI:36914 ! inorganic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:36916 name: cation namespace: chebi_ontology alt_id: CHEBI:23058 alt_id: CHEBI:3473 def: "A monoatomic or polyatomic species having one or more elementary charges of the proton." [] subset: 3_STAR synonym: "Cation" EXACT [KEGG_COMPOUND] synonym: "cation" EXACT IUPAC_NAME [IUPAC] synonym: "cation" EXACT [ChEBI] synonym: "cationes" RELATED [ChEBI] synonym: "cations" RELATED [ChEBI] synonym: "Kation" RELATED [ChEBI] synonym: "Kationen" RELATED [ChEBI] xref: KEGG:C01373 is_a: CHEBI:24870 ! ion [Term] id: CHEBI:36962 name: organochalcogen compound namespace: chebi_ontology def: "An organochalcogen compound is a compound containing at least one carbon-chalcogen bond." [] subset: 3_STAR synonym: "organochalcogen compound" EXACT [ChEBI] synonym: "organochalcogen compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:33304 ! chalcogen molecular entity [Term] id: CHEBI:36963 name: organooxygen compound namespace: chebi_ontology def: "An organochalcogen compound containing at least one carbon-oxygen bond." [] subset: 3_STAR synonym: "organooxygen compound" EXACT [ChEBI] synonym: "organooxygen compounds" RELATED [ChEBI] xref: PMID:17586126 "Europe PMC" is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:36962 ! organochalcogen compound [Term] id: CHEBI:36976 name: nucleotide namespace: chebi_ontology alt_id: CHEBI:13215 alt_id: CHEBI:13663 alt_id: CHEBI:7656 def: "A nucleotide is a nucleoside phosphate resulting from the condensation of the 3 or 5 hydroxy group of a nucleoside with phosphoric acid." [] subset: 3_STAR synonym: "Nucleotide" EXACT [KEGG_COMPOUND] synonym: "nucleotides" RELATED [ChEBI] xref: KEGG:C00215 is_a: CHEBI:25608 ! nucleoside phosphate [Term] id: CHEBI:36982 name: cyclic purine nucleotide namespace: chebi_ontology subset: 3_STAR synonym: "cyclic purine nucleotides" RELATED [ChEBI] is_a: CHEBI:23447 ! cyclic nucleotide is_a: CHEBI:26395 ! purine nucleotide [Term] id: CHEBI:37010 name: ribonucleoside 5'-monophosphate namespace: chebi_ontology alt_id: CHEBI:1976 alt_id: CHEBI:1977 alt_id: CHEBI:20500 alt_id: CHEBI:36996 subset: 3_STAR synonym: "ribonucleoside 5'-monophosphates" RELATED [ChEBI] is_a: CHEBI:26558 ! ribonucleoside monophosphate is_a: CHEBI:37015 ! ribonucleoside 5'-phosphate [Term] id: CHEBI:37015 name: ribonucleoside 5'-phosphate namespace: chebi_ontology subset: 3_STAR synonym: "ribonucleoside 5'-phosphates" RELATED [ChEBI] is_a: CHEBI:16701 ! nucleoside 5'-phosphate is_a: CHEBI:26561 ! ribonucleotide [Term] id: CHEBI:37021 name: purine ribonucleoside 5'-monophosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine ribonucleoside 5'-monophosphates" RELATED [ChEBI] is_a: CHEBI:26397 ! purine ribonucleoside monophosphate is_a: CHEBI:26400 ! purine ribonucleotide is_a: CHEBI:37010 ! ribonucleoside 5'-monophosphate [Term] id: CHEBI:37022 name: amino-acid anion namespace: chebi_ontology subset: 3_STAR synonym: "amino acid anions" RELATED [ChEBI] synonym: "amino-acid anion" EXACT [ChEBI] synonym: "amino-acid anions" RELATED [ChEBI] is_a: CHEBI:29067 ! carboxylic acid anion is_a: CHEBI:35352 ! organonitrogen compound relationship: is_conjugate_base_of CHEBI:33709 ! amino acid [Term] id: CHEBI:37045 name: purine ribonucleoside 5'-triphosphate namespace: chebi_ontology subset: 3_STAR synonym: "purine ribonucleoside 5'-triphosphates" RELATED [ChEBI] is_a: CHEBI:26398 ! purine ribonucleoside triphosphate is_a: CHEBI:26400 ! purine ribonucleotide is_a: CHEBI:37076 ! ribonucleoside 5'-triphosphate [Term] id: CHEBI:37076 name: ribonucleoside 5'-triphosphate namespace: chebi_ontology subset: 3_STAR synonym: "ribonucleoside 5'-triphosphates" RELATED [ChEBI] is_a: CHEBI:37015 ! ribonucleoside 5'-phosphate [Term] id: CHEBI:37096 name: adenosine 5'-phosphate namespace: chebi_ontology subset: 3_STAR synonym: "adenosine 5'-phosphates" RELATED [ChEBI] is_a: CHEBI:22256 ! adenosine phosphate [Term] id: CHEBI:37141 name: organobromine compound namespace: chebi_ontology def: "A compound containing at least one carbon-bromine bond." [] subset: 3_STAR synonym: "bromoorganic compound" RELATED [ChEBI] synonym: "organobromine compounds" RELATED [ChEBI] is_a: CHEBI:22928 ! bromine molecular entity is_a: CHEBI:36684 ! organohalogen compound [Term] id: CHEBI:37143 name: organofluorine compound namespace: chebi_ontology def: "An organofluorine compound is a compound containing at least one carbon-fluorine bond." [] subset: 3_STAR synonym: "fluoroorganic compound" RELATED [ChEBI] synonym: "fluoroorganic compounds" RELATED [ChEBI] synonym: "fluoroorganics" RELATED [ChEBI] synonym: "fluororganische Verbindungen" RELATED [ChEBI] synonym: "organofluorine compound" EXACT [ChEBI] synonym: "organofluorine compounds" RELATED [ChEBI] is_a: CHEBI:24062 ! fluorine molecular entity is_a: CHEBI:36684 ! organohalogen compound [Term] id: CHEBI:37175 name: organic hydride namespace: chebi_ontology subset: 3_STAR synonym: "organic hydrides" RELATED [ChEBI] is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:37176 name: mononuclear parent hydride namespace: chebi_ontology subset: 3_STAR synonym: "mononuclear hydride" RELATED [ChEBI] synonym: "mononuclear hydrides" RELATED [IUPAC] synonym: "mononuclear parent hydrides" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:37246 name: elemental sodium namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:26712 ! sodium molecular entity [Term] id: CHEBI:37253 name: elemental zinc namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:27364 ! zinc molecular entity [Term] id: CHEBI:37404 name: elemental copper namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:23377 ! copper molecular entity [Term] id: CHEBI:37415 name: alpha-amanitin namespace: chebi_ontology alt_id: CHEBI:10207 alt_id: CHEBI:37414 def: "A heterodetic cyclic peptide consisting of eight amino acid residues and containing a thioether bridge between a cysteine and a tryptophan residue. It is found in a number of poisonous mushrooms, including Amanita phalloides (the death cap), Galerina marginata, and and Conocybe filaris." [] subset: 3_STAR synonym: "1,8-anhydro-S(1),C(2.5)-cyclo[L-cysteinyl-L-asparaginyl-trans-4-hydroxy-L-prolyl-(R)-4,5-dihydroxy-L-isoleucyl-6-hydroxy-L-tryptophylglycyl-L-isoleucylglycine] (R)-S(1)-oxide" EXACT IUPAC_NAME [IUPAC] synonym: "alpha-Amanitin" EXACT [KEGG_COMPOUND] synonym: "alpha-Amanitine" RELATED [ChemIDplus] synonym: "alpha-Amatoxin" RELATED [ChemIDplus] xref: Beilstein:1071138 "Beilstein" xref: CAS:23109-05-9 "KEGG COMPOUND" xref: KEGG:C08438 xref: KNApSAcK:C00001516 xref: PMID:109306 "Europe PMC" xref: PMID:17525082 "Europe PMC" xref: PMID:19556115 "Europe PMC" xref: PMID:20529816 "Europe PMC" xref: PMID:23763309 "Europe PMC" xref: PMID:6208374 "Europe PMC" xref: PMID:6630208 "Europe PMC" xref: PMID:9093889 "Europe PMC" xref: Reaxys:1071138 "Reaxys" xref: Wikipedia:Alpha-amanitin is_a: CHEBI:24533 ! heterodetic cyclic peptide relationship: has_role CHEBI:25442 ! mycotoxin relationship: has_role CHEBI:37416 ! EC 2.7.7.6 (RNA polymerase) inhibitor property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C39H54N10O14S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C39H54N10O14S/c1-4-16(2)31-36(60)42-11-29(55)43-25-15-64(63)38-21(20-6-5-18(51)7-22(20)46-38)9-23(33(57)41-12-30(56)47-31)44-37(61)32(17(3)27(53)14-50)48-35(59)26-8-19(52)13-49(26)39(62)24(10-28(40)54)45-34(25)58/h5-7,16-17,19,23-27,31-32,46,50-53H,4,8-15H2,1-3H3,(H2,40,54)(H,41,57)(H,42,60)(H,43,55)(H,44,61)(H,45,58)(H,47,56)(H,48,59)/t16-,17-,19+,23-,24-,25-,26-,27-,31-,32-,64+/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CIORWBWIBBPXCG-SXZCQOKQSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "918.97106" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "918.35417" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]12Cc3c([nH]c4cc(O)ccc34)[S@](=O)C[C@]([H])(NC(=O)CNC(=O)[C@@]([H])(NC(=O)CNC1=O)[C@@H](C)CC)C(=O)N[C@@H](CC(N)=O)C(=O)N1C[C@H](O)C[C@@]1([H])C(=O)N[C@@]([H])([C@@H](C)[C@@H](O)CO)C(=O)N2" xsd:string [Term] id: CHEBI:37416 name: EC 2.7.7.6 (RNA polymerase) inhibitor namespace: chebi_ontology def: "An EC 2.7.7.* (nucleotidyltransferase) inhibitor that interferes with the action of RNA polymerase (EC 2.7.7.6)." [] subset: 3_STAR synonym: "C ribonucleic acid formation factors inhibitor" RELATED [ChEBI] synonym: "C ribonucleic acid formation factors inhibitors" RELATED [ChEBI] synonym: "C RNA formation factors inhibitor" RELATED [ChEBI] synonym: "C RNA formation factors inhibitors" RELATED [ChEBI] synonym: "deoxyribonucleic acid-dependent ribonucleic acid polymerase inhibitor" RELATED [ChEBI] synonym: "deoxyribonucleic acid-dependent ribonucleic acid polymerase inhibitors" RELATED [ChEBI] synonym: "directed RNA polymerase inhibitor" RELATED [ChEBI] synonym: "DNA-dependent ribonucleate nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "DNA-dependent ribonucleate nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "DNA-dependent RNA nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "DNA-dependent RNA nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "DNA-dependent RNA polymerase inhibitor" RELATED [ChEBI] synonym: "DNA-dependent RNA polymerase inhibitors" RELATED [ChEBI] synonym: "DNA-directed nucleoside-triphosphate:RNA nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "DNA-directed nucleoside-triphosphate:RNA nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "DNA-directed RNA polymerase inhibitor" RELATED [ChEBI] synonym: "DNA-directed RNA polymerase inhibitors" RELATED [ChEBI] synonym: "EC 2.7.7.6 (RNA polymerase) inhibitors" RELATED [ChEBI] synonym: "EC 2.7.7.6 inhibitor" RELATED [ChEBI] synonym: "EC 2.7.7.6 inhibitors" RELATED [ChEBI] synonym: "nucleoside-triphosphate:RNA nucleotidyltransferase (DNA-directed) inhibitor" RELATED [ChEBI] synonym: "nucleoside-triphosphate:RNA nucleotidyltransferase (DNA-directed) inhibitors" RELATED [ChEBI] synonym: "ribonucleate nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "ribonucleate nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "ribonucleate polymerase inhibitor" RELATED [ChEBI] synonym: "ribonucleate polymerase inhibitors" RELATED [ChEBI] synonym: "ribonucleic acid nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "ribonucleic acid nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "ribonucleic acid polymerase inhibitor" RELATED [ChEBI] synonym: "ribonucleic acid polymerase inhibitors" RELATED [ChEBI] synonym: "ribonucleic acid transcriptase inhibitor" RELATED [ChEBI] synonym: "ribonucleic acid transcriptase inhibitors" RELATED [ChEBI] synonym: "ribonucleic polymerase inhibitor" RELATED [ChEBI] synonym: "ribonucleic polymerase inhibitors" RELATED [ChEBI] synonym: "ribonucleic transcriptase inhibitor" RELATED [ChEBI] synonym: "ribonucleic transcriptase inhibitors" RELATED [ChEBI] synonym: "RNA nucleotidyltransferase (DNA-directed) inhibitor" RELATED [ChEBI] synonym: "RNA nucleotidyltransferase (DNA-directed) inhibitors" RELATED [ChEBI] synonym: "RNA nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "RNA nucleotidyltransferase inhibitors" RELATED [ChEBI] synonym: "RNA polymerase (EC 2.7.7.6) inhibitor" RELATED [ChEBI] synonym: "RNA polymerase (EC 2.7.7.6) inhibitors" RELATED [ChEBI] synonym: "RNA polymerase I inhibitor" RELATED [ChEBI] synonym: "RNA polymerase I inhibitors" RELATED [ChEBI] synonym: "RNA polymerase II inhibitor" RELATED [ChEBI] synonym: "RNA polymerase II inhibitors" RELATED [ChEBI] synonym: "RNA polymerase III inhibitor" RELATED [ChEBI] synonym: "RNA polymerase III inhibitors" RELATED [ChEBI] synonym: "RNA polymerase inhibitor" RELATED [ChEBI] synonym: "RNA polymerase inhibitors" RELATED [ChEBI] synonym: "RNA transcriptase inhibitor" RELATED [ChEBI] synonym: "RNA transcriptase inhibitors" RELATED [ChEBI] synonym: "transcriptase inhibitor" RELATED [ChEBI] synonym: "transcriptase inhibitors" RELATED [ChEBI] xref: Wikipedia:RNA_polymerase is_a: CHEBI:76815 ! EC 2.7.7.* (nucleotidyltransferase) inhibitor [Term] id: CHEBI:37527 name: acid namespace: chebi_ontology alt_id: CHEBI:13800 alt_id: CHEBI:13801 alt_id: CHEBI:22209 alt_id: CHEBI:2426 def: "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." [] subset: 3_STAR synonym: "Acid" EXACT [KEGG_COMPOUND] synonym: "acid" EXACT IUPAC_NAME [IUPAC] synonym: "acide" RELATED [IUPAC] synonym: "acido" RELATED [ChEBI] synonym: "acids" RELATED [ChEBI] synonym: "Saeure" RELATED [ChEBI] synonym: "Saeuren" RELATED [ChEBI] xref: KEGG:C00174 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:37577 name: heteroatomic molecular entity namespace: chebi_ontology def: "A molecular entity consisting of two or more chemical elements." [] subset: 3_STAR synonym: "chemical compound" RELATED [ChEBI] synonym: "heteroatomic molecular entities" RELATED [ChEBI] is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:37578 name: halide namespace: chebi_ontology def: "Any heteroatomic molecular entity that is a chemical compound of halogen with other chemical elements." [] subset: 3_STAR synonym: "halides" RELATED [ChEBI] xref: Wikipedia:Halide is_a: CHEBI:24471 ! halogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:37581 name: gamma-lactone namespace: chebi_ontology alt_id: CHEBI:13194 alt_id: CHEBI:18937 alt_id: CHEBI:22971 alt_id: CHEBI:541 def: "A lactone having a five-membered lactone ring." [] subset: 3_STAR synonym: "1,4-Lactone" RELATED [KEGG_COMPOUND] synonym: "1,4-lactones" RELATED [ChEBI] synonym: "a 1,4-lactone" RELATED [UniProt] synonym: "butyrolactones" RELATED [ChEBI] synonym: "gamma-lactona" RELATED [ChEBI] synonym: "gamma-lactonas" RELATED [ChEBI] synonym: "gamma-lactones" RELATED [ChEBI] synonym: "gamma-Laktone" RELATED [ChEBI] xref: PMID:18789684 "Europe PMC" is_a: CHEBI:25000 ! lactone property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H3O2R3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "83.066" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "83.01330" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O1C(C(C(C1=O)*)*)*" xsd:string [Term] id: CHEBI:37622 name: carboxamide namespace: chebi_ontology alt_id: CHEBI:35354 alt_id: CHEBI:35355 def: "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom." [] subset: 3_STAR synonym: "carboxamides" EXACT IUPAC_NAME [IUPAC] synonym: "carboxamides" RELATED [ChEBI] synonym: "primary carboxamide" RELATED [ChEBI] is_a: CHEBI:33256 ! primary amide is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:36963 ! organooxygen compound relationship: has_part CHEBI:23004 ! carbamoyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CNOR3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "42.01680" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "41.99799" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C(=O)N([*])[*]" xsd:string [Term] id: CHEBI:37699 name: protein kinase inhibitor namespace: chebi_ontology def: "An EC 2.7.* (P-containing group transferase) inhibitor that interferes with the action of protein kinases." [] subset: 3_STAR synonym: "protein kinase inhibitors" RELATED [ChEBI] is_a: CHEBI:76668 ! EC 2.7.* (P-containing group transferase) inhibitor [Term] id: CHEBI:37733 name: EC 3.1.1.8 (cholinesterase) inhibitor namespace: chebi_ontology def: "An EC 3.1.1.* (carboxylic ester hydrolase) inhibitor that interferes with the action of cholinesterase (EC 3.1.1.8)." [] subset: 3_STAR synonym: "anticholineesterase inhibitor" RELATED [ChEBI] synonym: "anticholineesterase inhibitors" RELATED [ChEBI] synonym: "anticholinesterase" RELATED [ChEBI] synonym: "anticholinesterases" RELATED [ChEBI] synonym: "BChE inhibitor" RELATED [ChEBI] synonym: "BChE inhibitors" RELATED [ChEBI] synonym: "benzoylcholinesterase inhibitor" RELATED [ChEBI] synonym: "benzoylcholinesterase inhibitors" RELATED [ChEBI] synonym: "BtChoEase inhibitor" RELATED [ChEBI] synonym: "BtChoEase inhibitors" RELATED [ChEBI] synonym: "butyrylcholine esterase inhibitor" RELATED [ChEBI] synonym: "butyrylcholine esterase inhibitors" RELATED [ChEBI] synonym: "butyrylcholinesterase inhibitor" RELATED [ChEBI] synonym: "butyrylcholinesterase inhibitors" RELATED [ChEBI] synonym: "choline esterase II (unspecific) inhibitor" RELATED [ChEBI] synonym: "choline esterase II (unspecific) inhibitors" RELATED [ChEBI] synonym: "choline esterase inhibitor" RELATED [ChEBI] synonym: "choline esterase inhibitors" RELATED [ChEBI] synonym: "cholinesterase (EC 3.1.1.8) inhibitor" RELATED [ChEBI] synonym: "cholinesterase (EC 3.1.1.8) inhibitors" RELATED [ChEBI] synonym: "cholinesterase inhibitor" RELATED [ChEBI] synonym: "EC 3.1.1.8 (cholinesterase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.1.8 inhibitor" RELATED [ChEBI] synonym: "EC 3.1.1.8 inhibitors" RELATED [ChEBI] synonym: "non-specific cholinesterase inhibitor" RELATED [ChEBI] synonym: "non-specific cholinesterase inhibitors" RELATED [ChEBI] synonym: "propionylcholinesterase inhibitor" RELATED [ChEBI] synonym: "propionylcholinesterase inhibitors" RELATED [ChEBI] synonym: "pseudocholinesterase inhibitor" RELATED [ChEBI] synonym: "pseudocholinesterase inhibitors" RELATED [ChEBI] is_a: CHEBI:76773 ! EC 3.1.1.* (carboxylic ester hydrolase) inhibitor [Term] id: CHEBI:37734 name: phosphoric ester namespace: chebi_ontology alt_id: CHEBI:26019 subset: 1_STAR is_a: CHEBI:26079 ! phosphoric acid derivative is_a: CHEBI:35701 ! ester [Term] id: CHEBI:37838 name: carboacyl group namespace: chebi_ontology def: "A carboacyl group is a group formed by loss of at least one OH from the carboxy group of a carboxylic acid." [] subset: 3_STAR synonym: "carboacyl groups" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acyl group" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acyl groups" RELATED [IUPAC] is_a: CHEBI:22221 ! acyl group relationship: is_substituent_group_from CHEBI:33575 ! carboxylic acid [Term] id: CHEBI:37868 name: octanol namespace: chebi_ontology def: "A fatty alcohol consisting of a hydroxy function at any position of an unbranched saturated chain of eight carbon atoms." [] subset: 3_STAR synonym: "n-octanol" RELATED [ChEBI] synonym: "octanol" EXACT IUPAC_NAME [IUPAC] synonym: "octyl alcohol" RELATED [ChEBI] synonym: "Oktanol" RELATED [ChEBI] synonym: "Oktylalkohol" RELATED [ChEBI] xref: CAS:29063-28-3 "ChemIDplus" is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:24026 ! fatty alcohol is_a: CHEBI:2571 ! aliphatic alcohol relationship: has_parent_hydride CHEBI:17590 ! octane property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H18O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "130.228" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "130.13577" xsd:string [Term] id: CHEBI:37886 name: adrenergic agonist namespace: chebi_ontology def: "An agent that selectively binds to and activates adrenergic receptors." [] subset: 3_STAR synonym: "adrenergic agonists" RELATED [ChEBI] synonym: "adrenergic receptor agonist" RELATED [ChEBI] synonym: "adrenoceptor agonists" RELATED [IUPHAR] synonym: "adrenomimetic" RELATED [ChEBI] synonym: "adrenomimetics" RELATED [ChEBI] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:37887 name: adrenergic antagonist namespace: chebi_ontology def: "An agent that binds to but does not activate adrenergic receptors thereby blocking the actions of endogenous or exogenous adrenergic agonists." [] subset: 3_STAR synonym: "adrenergic antagonists" RELATED [ChEBI] synonym: "adrenergic blockaders" RELATED [ChEBI] synonym: "adrenergic blocker" RELATED [ChEBI] synonym: "adrenergic blockers" RELATED [ChEBI] synonym: "adrenergic receptor blockaders" RELATED [ChEBI] synonym: "adrenoceptor antagonists" RELATED [IUPHAR] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:37890 name: alpha-adrenergic antagonist namespace: chebi_ontology def: "An agent that binds to but does not activate alpha-adrenergic receptors thereby blocking the actions of endogenous or exogenous alpha-adrenergic agonists. alpha-Adrenergic antagonists are used in the treatment of hypertension, vasospasm, peripheral vascular disease, shock, and pheochromocytoma." [] subset: 3_STAR synonym: "alpha-adrenergic antagonists" RELATED [ChEBI] synonym: "alpha-adrenergic blocker" RELATED [ChEBI] synonym: "alpha-adrenergic blockers" RELATED [ChEBI] synonym: "alpha-adrenergic receptor blockaders" RELATED [ChEBI] synonym: "alpha-adrenoceptor antagonists" RELATED [IUPHAR] is_a: CHEBI:37887 ! adrenergic antagonist is_a: CHEBI:48539 ! alpha-adrenergic drug [Term] id: CHEBI:37955 name: H1-receptor antagonist namespace: chebi_ontology def: "H1-receptor antagonists are the drugs that selectively bind to but do not activate histamine H1 receptors, thereby blocking the actions of endogenous histamine." [] subset: 3_STAR synonym: "classical antihistamines" RELATED [ChEBI] synonym: "classical antihistaminics" RELATED [ChEBI] synonym: "H1 antihistaminics" RELATED [ChEBI] synonym: "H1 receptor antagonists" RELATED [IUPHAR] synonym: "H1 receptor blockaders" RELATED [ChEBI] synonym: "H1-receptor antagonists" RELATED [ChEBI] synonym: "H1-receptor blocker" RELATED [ChEBI] synonym: "H1-receptor blockers" RELATED [ChEBI] xref: PMID:22035879 "Europe PMC" is_a: CHEBI:37956 ! histamine antagonist [Term] id: CHEBI:37956 name: histamine antagonist namespace: chebi_ontology def: "Histamine antagonists are the drugs that bind to but do not activate histamine receptors, thereby blocking the actions of histamine or histamine agonists." [] subset: 3_STAR synonym: "antihistamine" RELATED [ChEBI] synonym: "antihistamines" RELATED [ChEBI] synonym: "antihistaminico" RELATED [ChEBI] synonym: "antihistaminics" RELATED [ChEBI] synonym: "histamine receptor blocker" RELATED [ChEBI] synonym: "histamine receptor blockers" RELATED [ChEBI] xref: PMID:22035879 "Europe PMC" xref: Wikipedia:Antihistamines is_a: CHEBI:37957 ! histaminergic drug is_a: CHEBI:48706 ! antagonist [Term] id: CHEBI:37957 name: histaminergic drug namespace: chebi_ontology def: "Drugs used for their actions on histaminergic systems." [] subset: 3_STAR synonym: "histamine agents" RELATED [ChEBI] synonym: "histamine drugs" RELATED [ChEBI] synonym: "histaminergic agent" RELATED [ChEBI] synonym: "histaminergic agents" RELATED [ChEBI] synonym: "histaminergic drugs" RELATED [ChEBI] is_a: CHEBI:35942 ! neurotransmitter agent [Term] id: CHEBI:37962 name: adrenergic agent namespace: chebi_ontology def: "Any agent that acts on an adrenergic receptor or affects the life cycle of an adrenergic transmitter." [] subset: 3_STAR synonym: "adrenergic agents" RELATED [ChEBI] synonym: "adrenergic drug" RELATED [ChEBI] synonym: "adrenergic drugs" RELATED [ChEBI] synonym: "adrenergic neuron agents" RELATED [ChEBI] synonym: "adrenergics" RELATED [ChEBI] is_a: CHEBI:35942 ! neurotransmitter agent [Term] id: CHEBI:38032 name: carbotricyclic compound namespace: chebi_ontology def: "A carbopolyclic compound comprising of three carbocyclic rings." [] subset: 3_STAR synonym: "carbotricyclic compounds" RELATED [ChEBI] is_a: CHEBI:35294 ! carbopolycyclic compound is_a: CHEBI:51959 ! organic tricyclic compound [Term] id: CHEBI:38068 name: antimalarial namespace: chebi_ontology def: "A drug used in the treatment of malaria. Antimalarials are usually classified on the basis of their action against Plasmodia at different stages in their life cycle in the human." [] subset: 3_STAR synonym: "antimalarials" RELATED [ChEBI] is_a: CHEBI:64915 ! antiplasmodial drug [Term] id: CHEBI:38070 name: anti-arrhythmia drug namespace: chebi_ontology def: "A drug used for the treatment or prevention of cardiac arrhythmias. Anti-arrhythmia drugs may affect the polarisation-repolarisation phase of the action potential, its excitability or refractoriness, or impulse conduction or membrane responsiveness within cardiac fibres." [] subset: 3_STAR synonym: "antiarrhythmic agent" RELATED [ChEBI] is_a: CHEBI:35554 ! cardiovascular drug [Term] id: CHEBI:38092 name: cardenolide glycoside namespace: chebi_ontology alt_id: CHEBI:23035 alt_id: CHEBI:38080 alt_id: CHEBI:38082 def: "Any member of the class of cardenolides with glycosyl residues attached to position 3." [] subset: 3_STAR synonym: "5alpha-cardenolide glycoside" RELATED [ChEBI] synonym: "5beta-cardenolide glycoside" RELATED [ChEBI] is_a: CHEBI:74634 ! cardenolides is_a: CHEBI:83970 ! cardiac glycoside [Term] id: CHEBI:38101 name: organonitrogen heterocyclic compound namespace: chebi_ontology def: "Any organonitrogen compound containing a cyclic component with nitrogen and at least one other element as ring member atoms." [] subset: 3_STAR synonym: "heterocyclic organonitrogen compounds" RELATED [ChEBI] synonym: "organonitrogen heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:35352 ! organonitrogen compound [Term] id: CHEBI:38104 name: oxacycle namespace: chebi_ontology def: "Any organic heterocyclic compound containing at least one ring oxygen atom." [] subset: 3_STAR synonym: "heterocyclic organooxygen compounds" RELATED [ChEBI] synonym: "organooxygen heterocyclic compounds" RELATED [ChEBI] synonym: "oxacycles" RELATED [ChEBI] xref: PMID:17134300 "Europe PMC" is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:38147 name: cardiotonic drug namespace: chebi_ontology def: "A drug that has a strengthening effect on the heart or that can increase cardiac output." [] subset: 3_STAR synonym: "cardiotonic drugs" RELATED [ChEBI] is_a: CHEBI:35554 ! cardiovascular drug [Term] id: CHEBI:38166 name: organic heteropolycyclic compound namespace: chebi_ontology alt_id: CHEBI:25429 alt_id: CHEBI:38075 subset: 3_STAR synonym: "organic heteropolycyclic compounds" RELATED [ChEBI] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:33671 ! heteropolycyclic compound [Term] id: CHEBI:38179 name: monocyclic heteroarene namespace: chebi_ontology subset: 3_STAR synonym: "monocyclic heteroarenes" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene [Term] id: CHEBI:38180 name: polycyclic heteroarene namespace: chebi_ontology subset: 3_STAR synonym: "polycyclic heteroarenes" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene [Term] id: CHEBI:38195 name: 5beta-hydroxy steroid namespace: chebi_ontology subset: 3_STAR synonym: "5beta-hydroxy steroids" RELATED [ChEBI] is_a: CHEBI:136889 ! 5beta steroid is_a: CHEBI:36848 ! 5-hydroxy steroid [Term] id: CHEBI:38222 name: hydrocarbyl anion namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:25696 ! organic anion [Term] id: CHEBI:38260 name: pyrrolidines namespace: chebi_ontology alt_id: CHEBI:26922 alt_id: CHEBI:38191 def: "Any of a class of heterocyclic amines having a saturated five-membered ring." [] subset: 3_STAR is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:38313 name: diazines namespace: chebi_ontology def: "Any organic heterocyclic compound containing a benzene ring in which two of the C-H fragments have been replaced by isolobal nitrogens (the diazine parent structure)." [] subset: 3_STAR is_a: CHEBI:25693 ! organic heteromonocyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:38314 name: pyrazines namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:38313 ! diazines [Term] id: CHEBI:38323 name: cholinergic drug namespace: chebi_ontology def: "Any drug used for its actions on cholinergic systems. Included here are agonists and antagonists, drugs that affect the life cycle of acetylcholine, and drugs that affect the survival of cholinergic neurons." [] subset: 3_STAR synonym: "cholinergic agent" RELATED [ChEBI] synonym: "cholinergic drugs" RELATED [ChEBI] synonym: "cholinomimetic" RELATED [ChEBI] is_a: CHEBI:35942 ! neurotransmitter agent [Term] id: CHEBI:38324 name: cholinergic agonist namespace: chebi_ontology def: "Any drug that binds to and activates cholinergic receptors." [] subset: 3_STAR synonym: "acetylcholine agonist" RELATED [ChEBI] synonym: "acetylcholine agonists" RELATED [ChEBI] synonym: "acetylcholine receptor agonist" RELATED [IUPHAR] synonym: "cholinergic agonists" RELATED [ChEBI] synonym: "cholinomimetic" RELATED [ChEBI] synonym: "cholinomimetics" RELATED [ChEBI] is_a: CHEBI:38323 ! cholinergic drug [Term] id: CHEBI:38325 name: muscarinic agonist namespace: chebi_ontology def: "Any drug that binds to and activates a muscarinic cholinergic receptor." [] subset: 3_STAR synonym: "muscarinic acetylcholine receptor agonist" RELATED [ChEBI] synonym: "muscarinic agonists" RELATED [ChEBI] synonym: "muscarinic cholinergic agonist" RELATED [ChEBI] synonym: "muscarinic cholinergic agonists" RELATED [ChEBI] is_a: CHEBI:38324 ! cholinergic agonist [Term] id: CHEBI:38337 name: pyrimidone namespace: chebi_ontology def: "A pyrimidine carrying one or more oxo substituents." [] subset: 3_STAR synonym: "pyrimidones" RELATED [ChEBI] is_a: CHEBI:39447 ! pyrimidines [Term] id: CHEBI:38366 name: trans-pent-2-enoic acid namespace: chebi_ontology def: "A pent-3-enoic acid in trans- configuration." [] subset: 3_STAR synonym: "(2E)-2-pentenoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "(2E)-pent-2-enoic acid" EXACT IUPAC_NAME [IUPAC] synonym: "(E)-2-pentenic acid" RELATED [ChEBI] synonym: "(E)-2-pentenoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "(E)-pent-2-en-1-oic acid" RELATED [ChemIDplus] synonym: "5:1, n-3 trans" RELATED [ChEBI] synonym: "C5:1, n-3 trans" RELATED [ChEBI] synonym: "E-2-Pentencarbonsaeure" RELATED [ChEBI] synonym: "Pent-2t-ensaeure" RELATED [ChEBI] synonym: "trans-2-pentenic acid" RELATED [ChemIDplus] synonym: "trans-2-pentenoic acid" RELATED [ChEBI] synonym: "trans-alpha,beta-penteneoic acid" RELATED [NIST_Chemistry_WebBook] synonym: "trans-Pent-2-ensaeure" RELATED [ChEBI] xref: CAS:13991-37-2 "ChemIDplus" xref: LIPID_MAPS_instance:LMFA01030005 "LIPID MAPS" xref: Reaxys:1720312 "Reaxys" is_a: CHEBI:35939 ! pent-2-enoic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H8O2/c1-2-3-4-5(6)7/h3-4H,2H2,1H3,(H,6,7)/b4-3+" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "YIYBQIKDCADOSF-ONEGZZNKSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "100.11582" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "100.05243" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC\\C=C\\C(O)=O" xsd:string [Term] id: CHEBI:38461 name: carbamate insecticide namespace: chebi_ontology def: "Derivatives of carbamic acid with insecticidal properties of general formula ROC(=O)NR(1)R(2), where ROH is an alcohol, oxime, or phenol and R(1) is hydrogen or methyl. Like organophosphate insecticides, they are cholinesterase inhibitors, but carbamate insecticides differ in action from the organophosphates in that the inhibitory effect on cholinesterase is generally brief." [] subset: 3_STAR synonym: "carbamate insecticides" RELATED [ChEBI] is_a: CHEBI:24852 ! insecticide is_a: CHEBI:38462 ! EC 3.1.1.7 (acetylcholinesterase) inhibitor [Term] id: CHEBI:38462 name: EC 3.1.1.7 (acetylcholinesterase) inhibitor namespace: chebi_ontology def: "An EC 3.1.1.* (carboxylic ester hydrolase) inhibitor that interferes with the action of enzyme acetylcholinesterase (EC 3.1.1.7), which helps breaking down of acetylcholine into choline and acetic acid." [] subset: 3_STAR synonym: "AcCholE inhibitor" RELATED [ChEBI] synonym: "AcCholE inhibitors" RELATED [ChEBI] synonym: "acetyl.beta-methylcholinesterase inhibitor" RELATED [ChEBI] synonym: "acetyl.beta-methylcholinesterase inhibitors" RELATED [ChEBI] synonym: "acetylcholine acetylhydrolase inhibitor" RELATED [ChEBI] synonym: "acetylcholine acetylhydrolase inhibitors" RELATED [ChEBI] synonym: "acetylcholine esterase inhibitor" RELATED [ChEBI] synonym: "acetylcholine hydrolase inhibitor" RELATED [ChEBI] synonym: "acetylcholine hydrolase inhibitors" RELATED [ChEBI] synonym: "acetylcholinesterase (EC 3.1.1.7) inhibitor" RELATED [ChEBI] synonym: "acetylcholinesterase (EC 3.1.1.7) inhibitors" RELATED [ChEBI] synonym: "acetylcholinesterase inhibitor" RELATED [ChEBI] synonym: "acetylcholinesterase inhibitors" RELATED [ChEBI] synonym: "acetylthiocholinesterase inhibitor" RELATED [ChEBI] synonym: "acetylthiocholinesterase inhibitors" RELATED [ChEBI] synonym: "AChEI" RELATED [ChEBI] synonym: "choline esterase I inhibitor" RELATED [ChEBI] synonym: "choline esterase I inhibitors" RELATED [ChEBI] synonym: "cholinesterase inhibitor" RELATED [ChEBI] synonym: "cholinesterase inhibitors" RELATED [ChEBI] synonym: "EC 3.1.1.7 (acetylcholinesterase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.1.7 inhibitor" RELATED [ChEBI] synonym: "EC 3.1.1.7 inhibitors" RELATED [ChEBI] synonym: "true cholinesterase inhibitor" RELATED [ChEBI] synonym: "true cholinesterase inhibitors" RELATED [ChEBI] xref: Wikipedia:Acetylcholinesterase_inhibitor is_a: CHEBI:76773 ! EC 3.1.1.* (carboxylic ester hydrolase) inhibitor [Term] id: CHEBI:38515 name: isoquinoline alkaloid fundamental parent namespace: chebi_ontology subset: 3_STAR synonym: "isoquinoline alkaloid fundamental parents" RELATED [ChEBI] is_a: CHEBI:35506 ! alkaloid fundamental parent [Term] id: CHEBI:38534 name: 1-(methylsulfanyl)acetaldoxime namespace: chebi_ontology subset: 3_STAR synonym: "1-(Methylthio)acetaldehyde oxime" RELATED [ChemIDplus] synonym: "1-(Methylthio)acetaldoxime" RELATED [ChemIDplus] synonym: "Methomyl oxime" RELATED [ChemIDplus] synonym: "Methyl N-hydroxyacetimidothioate" RELATED [ChemIDplus] synonym: "Methyl N-hydroxyethanimidothioate" RELATED [ChemIDplus] synonym: "methyl N-hydroxyethanimidothioate" EXACT IUPAC_NAME [IUPAC] synonym: "Methyl thioacetohydroxamate" RELATED [ChemIDplus] xref: Beilstein:1901214 "Beilstein" xref: CAS:13749-94-5 "ChemIDplus" is_a: CHEBI:86315 ! methyl sulfide relationship: has_functional_parent CHEBI:51280 ! S-methyl thioacetate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H7NOS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H7NOS/c1-3(4-5)6-2/h5H,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "TYEVWCPZVQACAE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "105.15982" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "105.02484" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CSC(C)=NO" xsd:string [Term] id: CHEBI:38627 name: diazine namespace: chebi_ontology def: "The parent structure of the diazines." [] subset: 3_STAR synonym: "Diazin" RELATED [ChEBI] is_a: CHEBI:35555 ! mancude organic heteromonocyclic parent is_a: CHEBI:38179 ! monocyclic heteroarene is_a: CHEBI:38313 ! diazines is_a: CHEBI:50893 ! azaarene property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H4N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.088" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.03745" xsd:string [Term] id: CHEBI:38631 name: aminoalkylindole namespace: chebi_ontology alt_id: CHEBI:22503 alt_id: CHEBI:24792 subset: 3_STAR synonym: "aminoalkylindoles" RELATED [ChEBI] is_a: CHEBI:24828 ! indoles [Term] id: CHEBI:38632 name: membrane transport modulator namespace: chebi_ontology def: "Any agent that affects the transport of molecular entities across a biological membrane." [] subset: 3_STAR synonym: "membrane transport modulators" RELATED [ChEBI] is_a: CHEBI:52208 ! biophysical role [Term] id: CHEBI:38700 name: organic sodium salt namespace: chebi_ontology subset: 3_STAR synonym: "organic sodium salt" EXACT [ChEBI] synonym: "organic sodium salts" RELATED [ChEBI] is_a: CHEBI:24868 ! organic salt is_a: CHEBI:26714 ! sodium salt [Term] id: CHEBI:38702 name: inorganic sodium salt namespace: chebi_ontology subset: 3_STAR synonym: "inorganic sodium salts" RELATED [ChEBI] is_a: CHEBI:24839 ! inorganic salt is_a: CHEBI:26714 ! sodium salt [Term] id: CHEBI:38808 name: calcium channel modulator namespace: chebi_ontology def: "A membrane transport modulator that is able to regulate intracellular calcium levels." [] subset: 3_STAR synonym: "calcium channel modulators" RELATED [ChEBI] is_a: CHEBI:38632 ! membrane transport modulator [Term] id: CHEBI:38809 name: ryanodine receptor modulator namespace: chebi_ontology subset: 3_STAR synonym: "ryanodine receptor modulators" RELATED [ChEBI] synonym: "ryanodine-sensitive calcium channel modulator" RELATED [ChEBI] synonym: "ryanodine-sensitive calcium-release channel modulator" RELATED [ChEBI] synonym: "RyR modulator" RELATED [ChEBI] is_a: CHEBI:38808 ! calcium channel modulator [Term] id: CHEBI:38824 name: fluorocarbon namespace: chebi_ontology def: "Compounds consisting wholly of fluorine and carbon." [] subset: 3_STAR synonym: "fluorocarbon" EXACT [ChEBI] synonym: "fluorocarbons" EXACT IUPAC_NAME [IUPAC] synonym: "fluorocarbons" RELATED [ChEBI] is_a: CHEBI:37143 ! organofluorine compound [Term] id: CHEBI:38825 name: tetrafluoromethane namespace: chebi_ontology subset: 3_STAR synonym: "carbon tetrafluoride" RELATED [ChemIDplus] synonym: "CF4" RELATED [IUPAC] synonym: "Freon 14" RELATED [NIST_Chemistry_WebBook] synonym: "Halon 14" RELATED [NIST_Chemistry_WebBook] synonym: "perfluoromethane" RELATED [NIST_Chemistry_WebBook] synonym: "tetrafluoridocarbon" RELATED [IUPAC] synonym: "Tetrafluorkohlenstoff" RELATED [ChEBI] synonym: "Tetrafluormethan" RELATED [ChEBI] synonym: "tetrafluorocarbon" RELATED [ChemIDplus] synonym: "tetrafluoromethane" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1697288 "Beilstein" xref: CAS:75-73-0 "NIST Chemistry WebBook" xref: Gmelin:2016 "Gmelin" is_a: CHEBI:38824 ! fluorocarbon is_a: CHEBI:39281 ! fluoromethanes relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CF4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CF4/c2-1(3,4)5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "TXEYQDLBPFQVAA-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "88.00431" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "87.99361" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "FC(F)(F)F" xsd:string [Term] id: CHEBI:38867 name: anaesthetic namespace: chebi_ontology def: "Substance which produces loss of feeling or sensation." [] subset: 3_STAR synonym: "anaesthetic" EXACT IUPAC_NAME [IUPAC] synonym: "anaesthetics" RELATED [ChEBI] synonym: "Anaesthetika" RELATED [ChEBI] synonym: "Anaesthetikum" RELATED [ChEBI] synonym: "anesthetic agent" RELATED [ChEBI] synonym: "anesthetic drug" RELATED [ChEBI] synonym: "anesthetics" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:38869 name: general anaesthetic namespace: chebi_ontology def: "Substance that produces loss of consciousness." [] subset: 3_STAR synonym: "Allgemeinanaesthetika" RELATED [ChEBI] synonym: "Allgemeinanaesthetikum" RELATED [ChEBI] synonym: "general anaesthetic" EXACT IUPAC_NAME [IUPAC] synonym: "general anaesthetics" RELATED [ChEBI] synonym: "general anesthetics" RELATED [ChEBI] is_a: CHEBI:38867 ! anaesthetic [Term] id: CHEBI:38870 name: inhalation anaesthetic namespace: chebi_ontology subset: 3_STAR synonym: "anesthetic gases" RELATED [ChEBI] synonym: "inhalation anesthetics" RELATED [ChEBI] synonym: "Inhalationsanaesthetika" RELATED [ChEBI] synonym: "Inhalationsanaesthetikum" RELATED [ChEBI] synonym: "Inhalationsnarkotika" RELATED [ChEBI] synonym: "Inhalationsnarkotikum" RELATED [ChEBI] is_a: CHEBI:38869 ! general anaesthetic [Term] id: CHEBI:38958 name: indole alkaloid namespace: chebi_ontology alt_id: CHEBI:24795 alt_id: CHEBI:5901 def: "An alkaloid containing an indole skeleton." [] subset: 3_STAR synonym: "Indole alkaloid" EXACT [KEGG_COMPOUND] synonym: "indole alkaloids" RELATED [ChEBI] xref: KEGG:C06073 xref: Wikipedia:Indole_alkaloid is_a: CHEBI:22315 ! alkaloid relationship: has_part CHEBI:73398 ! indole skeleton [Term] id: CHEBI:39141 name: Bronsted acid namespace: chebi_ontology def: "A molecular entity capable of donating a hydron to an acceptor (Bronsted base)." [] subset: 3_STAR synonym: "acide de Bronsted" RELATED [IUPAC] synonym: "Bronsted acid" EXACT IUPAC_NAME [IUPAC] synonym: "Bronsted-Saeure" RELATED [ChEBI] synonym: "donneur d'hydron" RELATED [IUPAC] synonym: "hydron donor" RELATED [IUPAC] is_a: CHEBI:17891 ! donor is_a: CHEBI:37527 ! acid [Term] id: CHEBI:39142 name: Bronsted base namespace: chebi_ontology def: "A molecular entity capable of accepting a hydron from a donor (Bronsted acid)." [] subset: 3_STAR synonym: "accepteur d'hydron" RELATED [IUPAC] synonym: "base de Bronsted" RELATED [IUPAC] synonym: "Bronsted base" EXACT IUPAC_NAME [IUPAC] synonym: "Bronsted-Base" RELATED [ChEBI] synonym: "hydron acceptor" RELATED [IUPAC] is_a: CHEBI:15339 ! acceptor is_a: CHEBI:22695 ! base [Term] id: CHEBI:39144 name: Lewis base namespace: chebi_ontology def: "A molecular entity able to provide a pair of electrons and thus capable of forming a covalent bond with an electron-pair acceptor (Lewis acid), thereby producing a Lewis adduct." [] subset: 3_STAR synonym: "base de Lewis" RELATED [IUPAC] synonym: "donneur d'une paire d'electrons" RELATED [ChEBI] synonym: "electron donor" RELATED [ChEBI] synonym: "Lewis base" EXACT IUPAC_NAME [IUPAC] synonym: "Lewis-Base" RELATED [ChEBI] is_a: CHEBI:17891 ! donor is_a: CHEBI:22695 ! base [Term] id: CHEBI:39162 name: (R)-nicotine namespace: chebi_ontology def: "A 3-(1-methylpyrrolidin-2-yl)pyridine in which the chiral centre has R-configuration." [] subset: 3_STAR synonym: "(+)-nicotine" RELATED [ChemIDplus] synonym: "(R)-3-(1-methyl-2-pyrrolidinyl)pyridine" RELATED [ChemIDplus] synonym: "3-[(2R)-1-methylpyrrolidin-2-yl]pyridine" EXACT IUPAC_NAME [IUPAC] synonym: "d-nicotine" RELATED [ChemIDplus] synonym: "pseudonicotine" RELATED [ChemIDplus] xref: Beilstein:4666243 "ChemIDplus" xref: Beilstein:82110 "Beilstein" xref: CAS:25162-00-9 "ChemIDplus" xref: KEGG:C16386 is_a: CHEBI:138000 ! 3-(1-methylpyrrolidin-2-yl)pyridine relationship: is_conjugate_base_of CHEBI:79008 ! (R)-nicotinium(1+) relationship: is_enantiomer_of CHEBI:17688 ! (S)-nicotine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H14N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H14N2/c1-12-7-3-5-10(12)9-4-2-6-11-8-9/h2,4,6,8,10H,3,5,7H2,1H3/t10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SNICXCGAKADSCV-SNVBAGLBSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "162.23160" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "162.11570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CN1CCC[C@@H]1c1cccnc1" xsd:string [Term] id: CHEBI:39279 name: halomethane namespace: chebi_ontology def: "A haloalkane that is methane in which one (or more) of the hydrogens have been replaced by a halogen atom/halogen atoms." [] subset: 3_STAR synonym: "halomethane" EXACT [ChEBI] synonym: "halomethanes" RELATED [ChEBI] is_a: CHEBI:24469 ! haloalkane is_a: CHEBI:64708 ! one-carbon compound relationship: has_parent_hydride CHEBI:16183 ! methane [Term] id: CHEBI:39281 name: fluoromethanes namespace: chebi_ontology def: "A halomethane that is methane in which one or more hydrogens has been replaced by fluorine." [] subset: 3_STAR is_a: CHEBI:24067 ! fluoroalkane is_a: CHEBI:39279 ! halomethane [Term] id: CHEBI:39418 name: straight-chain saturated fatty acid namespace: chebi_ontology def: "Any saturated fatty acid lacking a side-chain." [] subset: 3_STAR synonym: "straight-chain saturated fatty acid" EXACT [ChEBI] synonym: "straight-chain saturated fatty acids" RELATED [ChEBI] xref: PMID:15644336 "Europe PMC" is_a: CHEBI:26607 ! saturated fatty acid is_a: CHEBI:59202 ! straight-chain fatty acid relationship: is_conjugate_acid_of CHEBI:58954 ! straight-chain saturated fatty acid anion [Term] id: CHEBI:39447 name: pyrimidines namespace: chebi_ontology alt_id: CHEBI:13681 alt_id: CHEBI:26448 def: "Any compound having a pyrimidine as part of its structure." [] subset: 3_STAR is_a: CHEBI:38313 ! diazines [Term] id: CHEBI:39745 name: dihydrogenphosphate namespace: chebi_ontology alt_id: CHEBI:29137 alt_id: CHEBI:39739 def: "A monovalent inorganic anion that consists of phosphoric acid in which one of the three OH groups has been deprotonated." [] subset: 3_STAR synonym: "[PO2(OH)2](-)" RELATED [IUPAC] synonym: "dihydrogen(tetraoxidophosphate)(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydrogenphosphate" EXACT IUPAC_NAME [IUPAC] synonym: "DIHYDROGENPHOSPHATE ION" RELATED [PDBeChem] synonym: "dihydrogentetraoxophosphate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydrogentetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydroxidodioxidophosphate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "H2PO4(-)" RELATED [IUPAC] xref: DrugBank:DB02831 xref: Gmelin:1999 "Gmelin" xref: PDBeChem:2HP is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:43474 ! hydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.98724" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "96.96962" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OP([O-])(=O)O[H]" xsd:string [Term] id: CHEBI:39832 name: methoxyethane namespace: chebi_ontology def: "An ether that is the methyl ether derivative of ethanol." [] subset: 3_STAR synonym: "1-methoxyethane" RELATED [NIST_Chemistry_WebBook] synonym: "Aethylmethylaether" RELATED [ChEBI] synonym: "C2H5OCH3" RELATED [NIST_Chemistry_WebBook] synonym: "Methoxyethan" RELATED [ChEBI] synonym: "METHOXYETHANE" EXACT [PDBeChem] synonym: "methoxyethane" EXACT IUPAC_NAME [IUPAC] synonym: "methyl ethyl ether" RELATED [ChemIDplus] synonym: "Methylaethylaether" RELATED [ChEBI] xref: Beilstein:1730785 "Beilstein" xref: CAS:540-67-0 "NIST Chemistry WebBook" xref: Gmelin:163978 "Gmelin" xref: Patent:KR20080019002 xref: PDBeChem:2ME xref: PMID:12662033 "Europe PMC" xref: Reaxys:1730785 "Reaxys" xref: Wikipedia:Methoxyethane is_a: CHEBI:25698 ! ether relationship: has_functional_parent CHEBI:16236 ! ethanol relationship: has_role CHEBI:39144 ! Lewis base property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H8O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H8O/c1-3-4-2/h3H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XOBKSJJDNFUZPF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "60.09500" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "60.05751" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCOC" xsd:string [Term] id: CHEBI:41550 name: fluoroform namespace: chebi_ontology alt_id: CHEBI:24073 alt_id: CHEBI:41543 subset: 3_STAR synonym: "carbon trifluoride" RELATED [UM-BBD] synonym: "CHF3" RELATED [IUPAC] synonym: "fluoroform" EXACT IUPAC_NAME [IUPAC] synonym: "Freon 23" RELATED [ChemIDplus] synonym: "Freon F-23" RELATED [NIST_Chemistry_WebBook] synonym: "methyl trifluoride" RELATED [NIST_Chemistry_WebBook] synonym: "TRIFLUOROMETHANE" RELATED [PDBeChem] xref: Beilstein:1731035 "Beilstein" xref: CAS:75-46-7 "NIST Chemistry WebBook" xref: Gmelin:1543 "Gmelin" xref: PDBeChem:CFT xref: UM-BBD_compID:c0802 "UM-BBD" is_a: CHEBI:39281 ! fluoromethanes relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHF3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CHF3/c2-1(3)4/h1H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XPDWGBQVDMORPB-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "70.01385" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "70.00303" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(F)(F)F" xsd:string [Term] id: CHEBI:42485 name: formyl group namespace: chebi_ontology alt_id: CHEBI:24089 alt_id: CHEBI:42480 subset: 3_STAR synonym: "-CH(O)" RELATED [IUPAC] synonym: "-CHO" RELATED [IUPAC] synonym: "aldehyde group" EXACT IUPAC_NAME [IUPAC] synonym: "carbaldehyde" EXACT IUPAC_NAME [IUPAC] synonym: "Fo" RELATED [CBN] synonym: "formyl" EXACT IUPAC_NAME [IUPAC] synonym: "FORMYL GROUP" EXACT [PDBeChem] synonym: "H-CO-" RELATED [IUPAC] synonym: "methanoyl" RELATED [IUPAC] xref: PDBeChem:FOR is_a: CHEBI:27207 ! univalent carboacyl group relationship: is_substituent_group_from CHEBI:30751 ! formic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "29.01804" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "29.00274" xsd:string [Term] id: CHEBI:4290 name: 1,1-dimethyl-4-phenylpiperazinium iodide namespace: chebi_ontology subset: 3_STAR synonym: "1,1-Dimethyl-4-phenylpiperazine iodide" RELATED [ChemIDplus] synonym: "1,1-Dimethyl-4-phenylpiperazinium Iodide" EXACT [KEGG_COMPOUND] synonym: "1,1-dimethyl-4-phenylpiperazinium iodide" EXACT IUPAC_NAME [IUPAC] synonym: "Dimethylphenylpiperazinium iodide" RELATED [KEGG_COMPOUND] synonym: "DMPP" RELATED [KEGG_COMPOUND] synonym: "DMPP iodide" RELATED [ChemIDplus] synonym: "N,N-Dimethyl-N'-phenylpiperazinium iodide" RELATED [ChemIDplus] xref: Beilstein:3746109 "Beilstein" xref: CAS:54-77-3 "ChemIDplus" xref: KEGG:C07488 is_a: CHEBI:35273 ! quaternary ammonium salt is_a: CHEBI:46848 ! N-arylpiperazine is_a: CHEBI:46849 ! piperazinium salt is_a: CHEBI:50356 ! organic iodide salt relationship: has_role CHEBI:47958 ! nicotinic acetylcholine receptor agonist property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C12H19N2.I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C12H19N2.HI/c1-14(2)10-8-13(9-11-14)12-6-4-3-5-7-12;/h3-7H,8-11H2,1-2H3;1H/q+1;/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XFZJGFIKQCCLGK-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "318.19721" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "318.05929" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[I-].C[N+]1(C)CCN(CC1)c1ccccc1" xsd:string [Term] id: CHEBI:43176 name: hydroxy group namespace: chebi_ontology alt_id: CHEBI:24706 alt_id: CHEBI:43171 subset: 3_STAR synonym: "-OH" RELATED [IUPAC] synonym: "hydroxy" EXACT IUPAC_NAME [IUPAC] synonym: "HYDROXY GROUP" EXACT [PDBeChem] synonym: "hydroxy group" EXACT [UniProt] synonym: "hydroxyl" RELATED [ChEBI] synonym: "hydroxyl group" RELATED [ChEBI] synonym: "oxidanyl" EXACT IUPAC_NAME [IUPAC] xref: PDBeChem:HYD is_a: CHEBI:33246 ! inorganic group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.00734" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string [Term] id: CHEBI:43254 name: (4S)-4-hydroxy-3,4-dihydropyrimidin-2(1H)-one namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:38337 ! pyrimidone relationship: is_tautomer_of CHEBI:17568 ! uracil [Term] id: CHEBI:43451 name: hydrogen iodide namespace: chebi_ontology alt_id: CHEBI:5591 def: "A diatomic molecule containing covalently bonded hydrogen and iodine atoms." [] subset: 3_STAR synonym: "[HI]" RELATED [IUPAC] synonym: "HI" RELATED [IUPAC] synonym: "HI" RELATED [KEGG_COMPOUND] synonym: "hydriodic acid" RELATED [NIST_Chemistry_WebBook] synonym: "Hydrogen iodide" EXACT [KEGG_COMPOUND] synonym: "hydrogen iodide" EXACT IUPAC_NAME [IUPAC] synonym: "Hydrogeniodid" RELATED [ChEBI] synonym: "Hydroiodic acid" RELATED [KEGG_COMPOUND] synonym: "hydroiodic acid" RELATED [ChemIDplus] synonym: "iodane" EXACT IUPAC_NAME [IUPAC] synonym: "iodidohydrogen" EXACT IUPAC_NAME [IUPAC] synonym: "iodure d'hydrogene" RELATED [ChEBI] synonym: "Iodwasserstoff" RELATED [ChEBI] synonym: "Jodwasserstoff" RELATED [ChEBI] synonym: "Wasserstoffiodid" RELATED [ChEBI] xref: CAS:10034-85-2 "ChemIDplus" xref: Gmelin:814 "Gmelin" xref: KEGG:C05590 is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:18140 ! hydrogen halide is_a: CHEBI:37176 ! mononuclear parent hydride relationship: has_role CHEBI:75771 ! mouse metabolite relationship: is_conjugate_acid_of CHEBI:16382 ! iodide relationship: is_conjugate_base_of CHEBI:50317 ! iodonium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HI" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/HI/h1H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XMBWDFGMSWQBCA-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "127.91241" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "127.91230" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "I[H]" xsd:string [Term] id: CHEBI:43474 name: hydrogenphosphate namespace: chebi_ontology alt_id: CHEBI:29139 alt_id: CHEBI:43470 def: "A phosphate ion that is the conjugate base of dihydrogenphosphate." [] subset: 3_STAR synonym: "[P(OH)O3](2-)" RELATED [MolBase] synonym: "[PO3(OH)](2-)" RELATED [IUPAC] synonym: "HPO4(2-)" RELATED [IUPAC] synonym: "hydrogen phosphate" RELATED [ChEBI] synonym: "hydrogen(tetraoxidophosphate)(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogenphosphate" EXACT IUPAC_NAME [IUPAC] synonym: "HYDROGENPHOSPHATE ION" RELATED [PDBeChem] synonym: "hydrogentetraoxophosphate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxidotrioxidophosphate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "INORGANIC PHOSPHATE GROUP" RELATED [PDBeChem] synonym: "phosphate" RELATED [UniProt] xref: Gmelin:1998 "Gmelin" xref: MolBase:1628 xref: PDBeChem:IPS xref: PDBeChem:PI is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79388 ! divalent inorganic anion relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: is_conjugate_acid_of CHEBI:18367 ! phosphate(3-) relationship: is_conjugate_base_of CHEBI:39745 ! dihydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-L" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "95.97930" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.96234" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OP([O-])([O-])=O" xsd:string [Term] id: CHEBI:43799 name: butan-1-amine namespace: chebi_ontology def: "A primary aliphatic amine that is butane substituted by an amino group at position 1." [] subset: 3_STAR synonym: "1-Aminobutan" RELATED [ChemIDplus] synonym: "1-aminobutane" RELATED [ChemIDplus] synonym: "1-butanamine" RELATED [NIST_Chemistry_WebBook] synonym: "1-butylamine" RELATED [NIST_Chemistry_WebBook] synonym: "butan-1-amine" EXACT IUPAC_NAME [IUPAC] synonym: "butanamine" RELATED [NIST_Chemistry_WebBook] synonym: "BUTYLAMINE" RELATED [PDBeChem] synonym: "butylamine" RELATED [ChemIDplus] synonym: "mono-n-butylamine" RELATED [ChemIDplus] synonym: "monobutylamine" RELATED [NIST_Chemistry_WebBook] synonym: "n-Butylamin" RELATED [ChemIDplus] synonym: "n-butylamine" RELATED [ChemIDplus] synonym: "n-C4H9NH2" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:605269 "Beilstein" xref: CAS:109-73-9 "NIST Chemistry WebBook" xref: DrugBank:DB03659 xref: Gmelin:1784 "Gmelin" xref: MetaCyc:BUTYLAMINE xref: PDBeChem:LYT xref: PMID:16387436 "Europe PMC" xref: PMID:23470444 "Europe PMC" xref: PMID:23734590 "Europe PMC" xref: Reaxys:605269 "Reaxys" xref: Wikipedia:N-Butylamine is_a: CHEBI:17062 ! primary aliphatic amine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H11N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H11N/c1-2-3-4-5/h2-5H2,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HQABUPZFAYXKJW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "73.13680" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "73.08915" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCCCN" xsd:string [Term] id: CHEBI:45379 name: methylcarbamic acid namespace: chebi_ontology alt_id: CHEBI:38464 alt_id: CHEBI:45374 def: "An amino acid consisting of carbamic acid having an N-methyl substituent." [] subset: 3_STAR synonym: "methylcarbamic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Methylcarbamidsaeure" RELATED [ChEBI] synonym: "Monomethyl carbamate" RELATED [ChemIDplus] synonym: "N-Methylcarbamate" RELATED [ChemIDplus] synonym: "N-methylcarbamic acid" RELATED [ChEBI] xref: Beilstein:1738994 "Beilstein" xref: CAS:6414-57-9 "ChemIDplus" xref: PDBeChem:RGI xref: Reaxys:1738994 "Reaxys" is_a: CHEBI:33709 ! amino acid relationship: has_functional_parent CHEBI:28616 ! carbamic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H5NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H5NO2/c1-3-2(4)5/h3H,1H3,(H,4,5)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UFEJKYYYVXYMMS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "75.06664" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "75.03203" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CNC(O)=O" xsd:string [Term] id: CHEBI:46345 name: 5-fluorouracil namespace: chebi_ontology alt_id: CHEBI:2054 alt_id: CHEBI:46343 def: "A nucleobase analogue that is uracil in which the hydrogen at position 5 is replaced by fluorine. It is an antineoplastic agent which acts as an antimetabolite - following conversion to the active deoxynucleotide, it inhibits DNA synthesis (by blocking the conversion of deoxyuridylic acid to thymidylic acid by the cellular enzyme thymidylate synthetase) and so slows tumour growth." [] subset: 3_STAR synonym: "5-Fluoracil" RELATED [ChemIDplus] synonym: "5-fluoropyrimidine-2,4(1H,3H)-dione" EXACT IUPAC_NAME [IUPAC] synonym: "5-Fluoropyrimidine-2,4-dione" RELATED [ChemIDplus] synonym: "5-Fluorouracil" EXACT [KEGG_COMPOUND] synonym: "5-fluorouracil" EXACT IUPAC_NAME [IUPAC] synonym: "5-FU" RELATED [KEGG_COMPOUND] synonym: "Fluorouracil" RELATED [KEGG_COMPOUND] synonym: "fluorouracil" RELATED INN [WHO_MedNet] synonym: "fluorouracil" RELATED INN [ChemIDplus] synonym: "fluorouracilo" RELATED INN [ChemIDplus] synonym: "fluorouracilum" RELATED INN [ChemIDplus] xref: Beilstein:127172 "Beilstein" xref: CAS:51-21-8 "KEGG COMPOUND" xref: Drug_Central:26 "DrugCentral" xref: DrugBank:DB00544 xref: HMDB:HMDB0014684 xref: KEGG:C07649 xref: KEGG:D00584 xref: LINCS:LSM-4261 xref: PDBeChem:URF xref: PMID:11356943 "Europe PMC" xref: PMID:12520460 "Europe PMC" xref: PMID:14769231 "Europe PMC" xref: PMID:19023200 "Europe PMC" xref: Reaxys:127172 "Reaxys" xref: Wikipedia:Fluorouracil is_a: CHEBI:37143 ! organofluorine compound is_a: CHEBI:67142 ! nucleobase analogue relationship: has_functional_parent CHEBI:17568 ! uracil relationship: has_role CHEBI:132992 ! radiosensitizing agent relationship: has_role CHEBI:35221 ! antimetabolite relationship: has_role CHEBI:35610 ! antineoplastic agent relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:35705 ! immunosuppressive agent relationship: has_role CHEBI:78298 ! environmental contaminant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H3FN2O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H3FN2O2/c5-2-1-6-4(9)7-3(2)8/h1H,(H2,6,7,8,9)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "GHASVSINZRGABV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "130.07730" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "130.01786" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Fc1c[nH]c(=O)[nH]c1=O" xsd:string [Term] id: CHEBI:46629 name: oxo group namespace: chebi_ontology alt_id: CHEBI:29353 alt_id: CHEBI:44607 subset: 3_STAR synonym: "=O" RELATED [IUPAC] synonym: "oxo" EXACT IUPAC_NAME [IUPAC] synonym: "OXO GROUP" EXACT [PDBeChem] xref: PDBeChem:OXO is_a: CHEBI:33246 ! inorganic group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.99940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.99491" xsd:string [Term] id: CHEBI:46640 name: diketone namespace: chebi_ontology def: "A compound that contains two ketone functionalities." [] subset: 3_STAR synonym: "diketones" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Diketone is_a: CHEBI:17087 ! ketone [Term] id: CHEBI:46695 name: fluorohydrocarbon namespace: chebi_ontology def: "A compound derived from a hydrocarbon by replacing one or more hydrogen atoms with fluorine atoms." [] subset: 3_STAR synonym: "FKW" RELATED [ChEBI] synonym: "Fluorkohlenwasserstoffe" RELATED [ChEBI] synonym: "fluorohydrocarbons" RELATED [ChEBI] synonym: "HFC" RELATED [ChEBI] is_a: CHEBI:24472 ! halohydrocarbon is_a: CHEBI:37143 ! organofluorine compound [Term] id: CHEBI:46775 name: N-alkylpyrrolidine namespace: chebi_ontology subset: 3_STAR synonym: "N-alkylpyrrolidines" RELATED [ChEBI] is_a: CHEBI:38260 ! pyrrolidines is_a: CHEBI:50996 ! tertiary amino compound [Term] id: CHEBI:46787 name: solvent namespace: chebi_ontology def: "A liquid that can dissolve other substances (solutes) without any change in their chemical composition." [] subset: 3_STAR synonym: "Loesungsmittel" RELATED [ChEBI] synonym: "solvant" RELATED [ChEBI] synonym: "solvents" RELATED [ChEBI] xref: Wikipedia:Solvent is_a: CHEBI:33232 ! application is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:46800 name: ethanethioic O-acid namespace: chebi_ontology subset: 3_STAR synonym: "ethanethioic O-acid" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1733298 "Beilstein" xref: Gmelin:1216872 "Gmelin" is_a: CHEBI:26952 ! thioacetic acid relationship: is_tautomer_of CHEBI:16555 ! ethanethioic S-acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4OS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H4OS/c1-2(3)4/h1H3,(H,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DUYAAUVXQSMXQP-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "76.11856" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "75.99829" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(O)=S" xsd:string [Term] id: CHEBI:46848 name: N-arylpiperazine namespace: chebi_ontology subset: 3_STAR synonym: "N-arylpiperazines" RELATED [ChEBI] is_a: CHEBI:26144 ! piperazines is_a: CHEBI:33860 ! aromatic amine is_a: CHEBI:50996 ! tertiary amino compound [Term] id: CHEBI:46849 name: piperazinium salt namespace: chebi_ontology subset: 3_STAR synonym: "piperazinium salts" RELATED [ChEBI] is_a: CHEBI:46850 ! organoammonium salt [Term] id: CHEBI:46850 name: organoammonium salt namespace: chebi_ontology subset: 3_STAR synonym: "organoammonium salts" RELATED [ChEBI] is_a: CHEBI:35276 ! ammonium compound [Term] id: CHEBI:46883 name: carboxy group namespace: chebi_ontology alt_id: CHEBI:23025 alt_id: CHEBI:41420 subset: 3_STAR synonym: "-C(O)OH" RELATED [IUPAC] synonym: "-CO2H" RELATED [ChEBI] synonym: "-COOH" RELATED [IUPAC] synonym: "carboxy" EXACT IUPAC_NAME [IUPAC] synonym: "CARBOXY GROUP" EXACT [PDBeChem] synonym: "carboxyl group" RELATED [ChEBI] xref: PDBeChem:CBX is_a: CHEBI:33249 ! organyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01744" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string [Term] id: CHEBI:46997 name: L-ribose namespace: chebi_ontology def: "A ribose in which the chiral carbon atom furthest away from the aldehyde group (C4') has the same configuration as in L-glyceraldehyde." [] subset: 3_STAR synonym: "L-Rib" RELATED [JCBN] synonym: "L-ribo-pentose" EXACT IUPAC_NAME [IUPAC] synonym: "L-ribose" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33942 ! ribose relationship: is_enantiomer_of CHEBI:16988 ! D-ribose property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "150.130" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "150.05282" xsd:string [Term] id: CHEBI:46998 name: ribofuranose namespace: chebi_ontology def: "A cyclic ribose having a 5-membered tetrahydrofuran ring; the predominant (C3'-endo) form of the two cyclic structures (the other is the \"C2'-endo\" form, having a 6-membered ring) adopted by ribose in aqueous solution." [] subset: 3_STAR synonym: "rel-(3R,4S,5R)-5-(hydroxymethyl)tetrahydrofuran-2,3,4-triol" RELATED [IUPAC] synonym: "ribofuranose" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33942 ! ribose relationship: has_role CHEBI:84735 ! algal metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "150.12990" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "150.05282" xsd:string [Term] id: CHEBI:47013 name: D-ribofuranose namespace: chebi_ontology alt_id: CHEBI:4233 alt_id: CHEBI:46999 def: "A ribofuranose having D-configuration." [] subset: 3_STAR synonym: "(3R,4S,5R)-5-(hydroxymethyl)tetrahydrofuran-2,3,4-triol" RELATED [IUPAC] synonym: "D-ribofuranose" EXACT IUPAC_NAME [IUPAC] synonym: "D-Ribose" RELATED [KEGG_COMPOUND] synonym: "D-ribose" RELATED [UniProt] synonym: "ribose" RELATED [ChemIDplus] xref: Beilstein:1904878 "Beilstein" xref: CAS:50-69-1 "KEGG COMPOUND" xref: Gmelin:364108 "Gmelin" xref: KEGG:C00121 xref: Patent:US2152662 xref: PMID:9506998 "Europe PMC" xref: Reaxys:1904878 "Reaxys" is_a: CHEBI:16988 ! D-ribose is_a: CHEBI:46998 ! ribofuranose property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H10O5/c6-1-2-3(7)4(8)5(9)10-2/h2-9H,1H2/t2-,3-,4-,5?/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HMFHBZSHGGEWLO-SOOFDHNKSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "150.12990" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "150.05282" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC[C@H]1OC(O)[C@H](O)[C@@H]1O" xsd:string [Term] id: CHEBI:47017 name: tetrahydrofuranol namespace: chebi_ontology subset: 3_STAR synonym: "tetrahydrofuranols" RELATED [ChEBI] is_a: CHEBI:26912 ! oxolanes [Term] id: CHEBI:47019 name: dihydroxytetrahydrofuran namespace: chebi_ontology subset: 3_STAR synonym: "dihydroxytetrahydrofurans" RELATED [ChEBI] is_a: CHEBI:47017 ! tetrahydrofuranol [Term] id: CHEBI:47266 name: hydrogen bromide namespace: chebi_ontology alt_id: CHEBI:29134 alt_id: CHEBI:31673 def: "A diatomic molecule containing covalently bonded hydrogen and bromine atoms." [] subset: 3_STAR synonym: "[HBr]" RELATED [IUPAC] synonym: "bromane" EXACT IUPAC_NAME [IUPAC] synonym: "bromidohydrogen" EXACT IUPAC_NAME [IUPAC] synonym: "bromure d'hydrogene" RELATED [ChEBI] synonym: "Bromwasserstoff" RELATED [NIST_Chemistry_WebBook] synonym: "HBr" RELATED [KEGG_COMPOUND] synonym: "Hydrobromic acid" RELATED [KEGG_COMPOUND] synonym: "hydrogen bromide" EXACT [NIST_Chemistry_WebBook] synonym: "hydrogen bromide" EXACT IUPAC_NAME [IUPAC] synonym: "Hydrogenbromid" RELATED [ChEBI] xref: CAS:10035-10-6 "KEGG COMPOUND" xref: Gmelin:620 "Gmelin" xref: KEGG:C13645 is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:18140 ! hydrogen halide is_a: CHEBI:37176 ! mononuclear parent hydride relationship: has_role CHEBI:75771 ! mouse metabolite relationship: is_conjugate_acid_of CHEBI:15858 ! bromide relationship: is_conjugate_base_of CHEBI:50316 ! bromonium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "BrH" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HBr" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/BrH/h1H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CPELXLSAUQHCOX-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.91194" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "79.92616" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Br[H]" xsd:string [Term] id: CHEBI:472805 name: ouabain namespace: chebi_ontology alt_id: CHEBI:44461 alt_id: CHEBI:7805 def: "A steroid hormone that is a multi-hydroxylated alpha-L-rhamnosyl cardenoloide. It binds to and inhibits the plasma membrane Na(+)/K(+)-ATPase (sodium pump). It has been isolated naturally from Strophanthus gratus." [] subset: 3_STAR synonym: "3-(6-deoxy-alpha-L-mannopyranosyloxy)-1beta,5beta,11alpha,14,19-pentahydroxy-5beta-card-20(22)-enolide" EXACT IUPAC_NAME [IUPAC] synonym: "3-(alpha-L-rhamnopyranosyloxy)-1beta,5beta,11alpha,14,19-pentahydroxy-5beta-card-20(22)-enolide" RELATED [IUPAC] synonym: "G-Strophanthin" RELATED [KEGG_COMPOUND] synonym: "Ouabagenin L-Rhamnoside" RELATED [DrugBank] synonym: "Ouabagenin-L-rhamnosid" RELATED [ChemIDplus] synonym: "Ouabain" EXACT [KEGG_COMPOUND] synonym: "Ouabain anhydrous" RELATED [ChemIDplus] synonym: "Ouabaine" RELATED [ChemIDplus] synonym: "Oubain" RELATED [ChemIDplus] synonym: "Strodival" RELATED BRAND_NAME [ChemIDplus] xref: Beilstein:101712 "Beilstein" xref: CAS:630-60-4 "ChemIDplus" xref: Drug_Central:2004 "DrugCentral" xref: DrugBank:DB01092 xref: HMDB:HMDB0015224 xref: KEGG:C01443 xref: KEGG:D00112 xref: KNApSAcK:C00003633 xref: LINCS:LSM-2781 xref: LIPID_MAPS_instance:LMST01120022 "LIPID MAPS" xref: PDBeChem:OBN xref: PMID:10438974 "Europe PMC" xref: PMID:1316269 "Europe PMC" xref: PMID:16529963 "Europe PMC" xref: PMID:20372980 "Europe PMC" xref: PMID:9872395 "Europe PMC" xref: Reaxys:101712 "Reaxys" xref: Wikipedia:Ouabain is_a: CHEBI:19129 ! 11alpha-hydroxy steroid is_a: CHEBI:26764 ! steroid hormone is_a: CHEBI:27848 ! alpha-L-rhamnoside is_a: CHEBI:36862 ! 14beta-hydroxy steroid is_a: CHEBI:38092 ! cardenolide glycoside is_a: CHEBI:38195 ! 5beta-hydroxy steroid relationship: has_role CHEBI:38070 ! anti-arrhythmia drug relationship: has_role CHEBI:38147 ! cardiotonic drug relationship: has_role CHEBI:49200 ! EC 3.6.3.10 (H(+)/K(+)-exchanging ATPase) inhibitor relationship: has_role CHEBI:50184 ! ion transport inhibitor relationship: has_role CHEBI:63510 ! EC 3.6.3.9 (Na(+)/K(+)-transporting ATPase) inhibitor relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77023 ! EC 2.3.3.1 [citrate (Si)-synthase] inhibitor relationship: has_role CHEBI:77024 ! EC 3.1.3.41 (4-nitrophenylphosphatase) inhibitor property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C29H44O12" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C29H44O12/c1-13-22(34)23(35)24(36)25(40-13)41-15-8-19(32)28(12-30)21-17(3-5-27(28,37)9-15)29(38)6-4-16(14-7-20(33)39-11-14)26(29,2)10-18(21)31/h7,13,15-19,21-25,30-32,34-38H,3-6,8-12H2,1-2H3/t13-,15-,16+,17+,18+,19+,21+,22-,23+,24+,25-,26+,27-,28+,29-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LPMXVESGRSUGHW-HBYQJFLCSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "584.65250" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "584.28328" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@@]12CC[C@]3(O)C[C@H](C[C@@H](O)[C@]3(CO)[C@@]1([H])[C@H](O)C[C@]1(C)[C@H](CC[C@]21O)C1=CC(=O)OC1)O[C@@H]1O[C@@H](C)[C@H](O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:47499 name: imipramine namespace: chebi_ontology alt_id: CHEBI:47498 alt_id: CHEBI:5881 def: "A dibenzoazepine that is 5H-dibenzo[b,f]azepine substituted by a 3-(dimethylamino)propyl group at the nitrogen atom." [] subset: 3_STAR synonym: "10,11-dihydro-N,N-dimethyl-5H-dibenz[b,f]azepine-5-propanamine" RELATED [NIST_Chemistry_WebBook] synonym: "3-(10,11-dihydro-5H-dibenzo[b,f]azepin-5-yl)-N,N-dimethylpropan-1-amine" EXACT IUPAC_NAME [IUPAC] synonym: "3-(5H-DIBENZO[B,F]AZEPIN-5-YL)-N,N-DIMETHYLPROPAN-1-AMINE" RELATED [PDBeChem] synonym: "5-[3-(dimethylamino)propyl]-10,11-dihydro-5H-dibenz[b,f]azepine" RELATED [NIST_Chemistry_WebBook] synonym: "Antideprin" RELATED BRAND_NAME [DrugBank] synonym: "Imipramin" RELATED [ChEBI] synonym: "Imipramine" EXACT [KEGG_COMPOUND] synonym: "imipramine" RELATED INN [ChemIDplus] synonym: "imipraminum" RELATED INN [ChemIDplus] synonym: "imizine" RELATED [NIST_Chemistry_WebBook] synonym: "Irmin" RELATED BRAND_NAME [ChemIDplus] synonym: "Melipramine" RELATED BRAND_NAME [ChemIDplus] synonym: "N-(gamma-dimethylaminopropyl)iminodibenzyl" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:256892 "Beilstein" xref: CAS:50-49-7 "KEGG COMPOUND" xref: Drug_Central:1427 "DrugCentral" xref: DrugBank:DB00458 xref: Gmelin:1572523 "Gmelin" xref: HMDB:HMDB0001848 xref: KEGG:C07049 xref: KEGG:D08070 xref: LINCS:LSM-2852 xref: Patent:US2554736 xref: PDBeChem:IXX xref: PMID:20825390 "Europe PMC" xref: Reaxys:256892 "Reaxys" xref: Wikipedia:Imipramine is_a: CHEBI:47804 ! dibenzoazepine relationship: has_parent_hydride CHEBI:47802 ! 5H-dibenzo[b,f]azepine relationship: has_role CHEBI:35469 ! antidepressant relationship: has_role CHEBI:35640 ! adrenergic uptake inhibitor relationship: has_role CHEBI:76779 ! EC 3.4.21.26 (prolyl oligopeptidase) inhibitor property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C19H24N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C19H24N2/c1-20(2)14-7-15-21-18-10-5-3-8-16(18)12-13-17-9-4-6-11-19(17)21/h3-6,8-11H,7,12-15H2,1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BCGWQEUPMDMJNV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "280.40734" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "280.19395" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CN(C)CCCN1c2ccccc2CCc2ccccc12" xsd:string [Term] id: CHEBI:47622 name: acetate ester namespace: chebi_ontology alt_id: CHEBI:13244 alt_id: CHEBI:13799 alt_id: CHEBI:22189 alt_id: CHEBI:2406 def: "Any carboxylic ester where the carboxylic acid component is acetic acid." [] subset: 3_STAR synonym: "acetate" RELATED [ChEBI] synonym: "acetate esters" RELATED [ChEBI] synonym: "acetates" RELATED [ChEBI] synonym: "Acetic ester" RELATED [KEGG_COMPOUND] synonym: "Acetyl ester" RELATED [KEGG_COMPOUND] synonym: "acetyl esters" RELATED [ChEBI] synonym: "an acetyl ester" RELATED [UniProt] xref: KEGG:C01883 xref: Wikipedia:Acetate#Esters is_a: CHEBI:33308 ! carboxylic ester relationship: has_functional_parent CHEBI:15366 ! acetic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3O2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "59.04400" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "59.01330" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC(=O)O[*]" xsd:string [Term] id: CHEBI:47704 name: ammonium salt namespace: chebi_ontology subset: 3_STAR synonym: "ammonium salt" EXACT [ChEBI] synonym: "ammonium salts" RELATED [ChEBI] synonym: "Ammoniumsalz" RELATED [ChEBI] synonym: "Ammoniumsalze" RELATED [ChEBI] is_a: CHEBI:35276 ! ammonium compound relationship: has_part CHEBI:28938 ! ammonium [Term] id: CHEBI:47802 name: 5H-dibenzo[b,f]azepine namespace: chebi_ontology def: "A mancude organic heterotricyclic parent that consists of a seven-membered nitrogen hetrocycle fused with two benzene rings." [] subset: 3_STAR synonym: "2,2'-iminostilbene" RELATED [ChemIDplus] synonym: "2,3,6,7-dibenzazepine" RELATED [NIST_Chemistry_WebBook] synonym: "5H-Dibenz[b,f]azepin" RELATED [NIST_Chemistry_WebBook] synonym: "5H-dibenz[b,f]azepine" RELATED [NIST_Chemistry_WebBook] synonym: "5H-dibenzazepine" RELATED [ChEBI] synonym: "5H-dibenzo[b,f]azepine" EXACT IUPAC_NAME [IUPAC] synonym: "dibenz(b,f)azepine" RELATED [NIST_Chemistry_WebBook] synonym: "dibenzazepine" RELATED [ChEBI] synonym: "iminostilbene" RELATED [ChemIDplus] synonym: "o,o'-iminostilbene" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1343358 "Beilstein" xref: CAS:256-96-2 "ChemIDplus" xref: PMID:22322005 "Europe PMC" xref: PMID:24358274 "Europe PMC" xref: Reaxys:1343358 "Reaxys" xref: Wikipedia:Dibenzazepine is_a: CHEBI:36416 ! mancude organic heterotricyclic parent is_a: CHEBI:47804 ! dibenzoazepine relationship: has_role CHEBI:83399 ! marine xenobiotic metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C14H11N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C14H11N/c1-3-7-13-11(5-1)9-10-12-6-2-4-8-14(12)15-13/h1-10,15H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LCGTWRLJTMHIQZ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "193.24388" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "193.08915" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "N1c2ccccc2C=Cc2ccccc12" xsd:string [Term] id: CHEBI:47804 name: dibenzoazepine namespace: chebi_ontology subset: 3_STAR synonym: "dibenzazepine" RELATED [ChEBI] synonym: "dibenzoazepine" EXACT [ChEBI] synonym: "dibenzoazepines" RELATED [ChEBI] is_a: CHEBI:26979 ! organic heterotricyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:4781 name: emetine namespace: chebi_ontology def: "A pyridoisoquinoline comprising emetam having methoxy substituents at the 6'-, 7'-, 10- and 11-positions." [] subset: 3_STAR synonym: "6',7',10,11-tetramethoxyemetan" EXACT IUPAC_NAME [IUPAC] synonym: "cephaeline methyl ether" RELATED [ChemIDplus] synonym: "Emetan" RELATED [NIST_Chemistry_WebBook] synonym: "Emetin" RELATED [ChemIDplus] synonym: "Emetine" EXACT [KEGG_COMPOUND] synonym: "methyl cephaeline" RELATED [ChemIDplus] xref: Beilstein:100834 "Beilstein" xref: Beilstein:6253162 "Beilstein" xref: CAS:483-18-1 "KEGG COMPOUND" xref: Drug_Central:1001 "DrugCentral" xref: KEGG:C09421 xref: KNApSAcK:C00001849 xref: LINCS:LSM-2041 xref: MetaCyc:CPD-14817 xref: PMID:16109351 "Europe PMC" xref: PMID:17094176 "Europe PMC" xref: Reaxys:100834 "Reaxys" xref: Wikipedia:Emetine is_a: CHEBI:24921 ! isoquinoline alkaloid is_a: CHEBI:61692 ! pyridoisoquinoline relationship: has_functional_parent CHEBI:3533 ! cephaeline relationship: has_parent_hydride CHEBI:36380 ! emetan relationship: has_role CHEBI:35820 ! antiprotozoal drug relationship: has_role CHEBI:76924 ! plant metabolite property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C29H40N2O4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "AUVVAXYIELKVAI-CKBKHPSWSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "480.63898" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "480.29881" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@]2([H])NCCc3cc(OC)c(OC)cc23)C[C@]2([H])N(CCc3cc(OC)c(OC)cc23)C[C@@H]1CC" xsd:string [Term] id: CHEBI:47867 name: indicator namespace: chebi_ontology def: "Anything used in a scientific experiment to indicate the presence of a substance or quality, change in a body, etc." [] subset: 3_STAR synonym: "Indikator" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:47901 name: alkanesulfonic acid namespace: chebi_ontology alt_id: CHEBI:13809 alt_id: CHEBI:33553 def: "Organic derivatives of sulfonic acid in which the sulfo group is linked directly to carbon of an alkyl group." [] subset: 3_STAR synonym: "alkanesulfonic acids" RELATED [ChEBI] synonym: "alkylsulfonic acids" RELATED [ChEBI] is_a: CHEBI:33551 ! organosulfonic acid relationship: has_part CHEBI:22323 ! alkyl group [Term] id: CHEBI:4792 name: enflurane namespace: chebi_ontology def: "An ether in which the oxygen atom is connected to 2-chloro-1,1,2-trifluoroethyl and difluoromethyl groups." [] subset: 3_STAR synonym: "2-chloro-1,1,2-trifluoroethyl difluoromethyl ether" RELATED [ChEBI] synonym: "2-chloro-1-(difluoromethoxy)-1,1,2-trifluoroethane" EXACT IUPAC_NAME [IUPAC] synonym: "Alyrane" RELATED [NIST_Chemistry_WebBook] synonym: "Efrane" RELATED [ChemIDplus] synonym: "Enflurane" EXACT [KEGG_COMPOUND] synonym: "Ethrane" RELATED [ChemIDplus] synonym: "Methylflurether" RELATED [ChemIDplus] xref: Beilstein:1903921 "Beilstein" xref: CAS:13838-16-9 "ChemIDplus" xref: Drug_Central:1009 "DrugCentral" xref: DrugBank:DB00228 xref: HMDB:HMDB0014373 xref: KEGG:C07516 xref: KEGG:D00543 xref: Patent:AU2014277860 xref: Patent:US5783199 xref: PMID:23934553 "Europe PMC" xref: PMID:25386744 "Europe PMC" xref: PMID:7457058 "Europe PMC" xref: Reaxys:1903921 "Reaxys" xref: Wikipedia:Enflurane is_a: CHEBI:25698 ! ether is_a: CHEBI:36683 ! organochlorine compound is_a: CHEBI:37143 ! organofluorine compound relationship: has_functional_parent CHEBI:39832 ! methoxyethane relationship: has_role CHEBI:38867 ! anaesthetic property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H2ClF5O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H2ClF5O/c4-1(5)3(8,9)10-2(6)7/h1-2H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "JPGQOUSTVILISH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "184.49210" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "183.97143" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "FC(F)OC(F)(F)C(F)Cl" xsd:string [Term] id: CHEBI:47958 name: nicotinic acetylcholine receptor agonist namespace: chebi_ontology alt_id: CHEBI:82738 def: "An agonist that selectively binds to and activates a nicotinic acetylcholine receptor." [] subset: 3_STAR synonym: "muscarinic agonists" RELATED [ChEBI] synonym: "nicotinic acetylcholine receptor agonists" RELATED [ChEBI] synonym: "nicotinic agonist" RELATED [ChEBI] synonym: "nicotinic agonists" RELATED [ChEBI] xref: Wikipedia:Nicotinic_acetylcholine_receptor is_a: CHEBI:38324 ! cholinergic agonist [Term] id: CHEBI:48154 name: sulfur oxide namespace: chebi_ontology subset: 3_STAR synonym: "oxides of sulfur" RELATED [ChEBI] synonym: "Schwefeloxide" RELATED [ChEBI] synonym: "sulfur oxides" RELATED [ChEBI] is_a: CHEBI:24836 ! inorganic oxide is_a: CHEBI:26835 ! sulfur molecular entity [Term] id: CHEBI:48218 name: antiseptic drug namespace: chebi_ontology def: "A substance used locally on humans and other animals to destroy harmful microorganisms or to inhibit their activity (cf. disinfectants, which destroy microorganisms found on non-living objects, and antibiotics, which can be transported through the lymphatic system to destroy bacteria within the body)." [] subset: 3_STAR synonym: "antiseptic" RELATED [ChEBI] synonym: "antiseptic agent" RELATED [ChEBI] synonym: "antiseptic agents" RELATED [ChEBI] synonym: "antiseptics" RELATED [ChEBI] synonym: "local antiinfective agents" RELATED [ChEBI] synonym: "local microbicides" RELATED [ChEBI] synonym: "topical antiinfective agents" RELATED [ChEBI] synonym: "topical microbicides" RELATED [ChEBI] xref: Wikipedia:Antiseptic is_a: CHEBI:35441 ! antiinfective agent [Term] id: CHEBI:48219 name: disinfectant namespace: chebi_ontology def: "An antimicrobial agent that is applied to non-living objects to destroy harmful microorganisms or to inhibit their activity." [] subset: 3_STAR synonym: "desinfectant" RELATED [ChEBI] synonym: "Desinfektionsmittel" RELATED [ChEBI] synonym: "disinfectants" RELATED [ChEBI] synonym: "disinfecting agent" RELATED [ChEBI] is_a: CHEBI:33281 ! antimicrobial agent [Term] id: CHEBI:48278 name: serotonergic drug namespace: chebi_ontology subset: 3_STAR synonym: "serotonergic agents" RELATED [ChEBI] synonym: "serotonergic drugs" RELATED [ChEBI] synonym: "serotonin drugs" RELATED [ChEBI] is_a: CHEBI:35942 ! neurotransmitter agent [Term] id: CHEBI:48279 name: serotonergic antagonist namespace: chebi_ontology def: "Drugs that bind to but do not activate serotonin receptors, thereby blocking the actions of serotonin or serotonergic agonists." [] subset: 3_STAR synonym: "5-HT antagonists" RELATED [ChEBI] synonym: "5-hydroxytryptamine antagonists" RELATED [ChEBI] synonym: "antiserotonergic agents" RELATED [ChEBI] synonym: "serotonin antagonists" RELATED [ChEBI] synonym: "serotonin blockaders" RELATED [ChEBI] is_a: CHEBI:48278 ! serotonergic drug [Term] id: CHEBI:48354 name: polar solvent namespace: chebi_ontology def: "A solvent that is composed of polar molecules. Polar solvents can dissolve ionic compounds or ionisable covalent compounds." [] subset: 3_STAR synonym: "polar solvent" EXACT IUPAC_NAME [IUPAC] synonym: "polar solvents" RELATED [ChEBI] is_a: CHEBI:46787 ! solvent [Term] id: CHEBI:48355 name: non-polar solvent namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:46787 ! solvent [Term] id: CHEBI:48356 name: protic solvent namespace: chebi_ontology def: "A polar solvent that is capable of acting as a hydron (proton) donor." [] subset: 3_STAR synonym: "protogenic solvent" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:39141 ! Bronsted acid is_a: CHEBI:48354 ! polar solvent [Term] id: CHEBI:48357 name: aprotic solvent namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:46787 ! solvent [Term] id: CHEBI:48358 name: polar aprotic solvent namespace: chebi_ontology def: "A solvent with a comparatively high relative permittivity (or dielectric constant), greater than ca. 15, and a sizable permanent dipole moment, that cannot donate suitably labile hydrogen atoms to form strong hydrogen bonds." [] subset: 3_STAR synonym: "dipolar aprotic solvent" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:48354 ! polar solvent is_a: CHEBI:48357 ! aprotic solvent [Term] id: CHEBI:48539 name: alpha-adrenergic drug namespace: chebi_ontology def: "Any drug that acts on an alpha-adrenergic receptor." [] subset: 3_STAR synonym: "alpha-adrenergic drugs" RELATED [ChEBI] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:48540 name: beta-adrenergic drug namespace: chebi_ontology def: "Any of the drugs that act on beta-adrenergic receptors." [] subset: 3_STAR synonym: "beta-adrenergic drugs" RELATED [ChEBI] is_a: CHEBI:37962 ! adrenergic agent [Term] id: CHEBI:48544 name: methanesulfonates namespace: chebi_ontology def: "Esters or salts of methanesulfonic acid." [] subset: 3_STAR is_a: CHEBI:33261 ! organosulfur compound relationship: has_functional_parent CHEBI:27376 ! methanesulfonic acid [Term] id: CHEBI:48560 name: dopaminergic agent namespace: chebi_ontology def: "A drug used for its effects on dopamine receptors, on the life cycle of dopamine, or on the survival of dopaminergic neurons." [] subset: 3_STAR synonym: "dopamine agent" RELATED [ChEBI] synonym: "dopamine agents" RELATED [ChEBI] synonym: "dopamine drug" RELATED [ChEBI] synonym: "dopamine drugs" RELATED [ChEBI] synonym: "dopaminergic agents" RELATED [ChEBI] is_a: CHEBI:35942 ! neurotransmitter agent [Term] id: CHEBI:48705 name: agonist namespace: chebi_ontology def: "Substance which binds to cell receptors normally responding to naturally occurring substances and which produces a response of its own." [] subset: 3_STAR synonym: "agonist" EXACT IUPAC_NAME [IUPAC] synonym: "agonista" RELATED [ChEBI] synonym: "agoniste" RELATED [ChEBI] synonym: "agonists" RELATED [ChEBI] is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:48706 name: antagonist namespace: chebi_ontology def: "Substance that attaches to and blocks cell receptors that normally bind naturally occurring substances." [] subset: 3_STAR synonym: "antagonist" EXACT IUPAC_NAME [IUPAC] synonym: "antagonista" RELATED [ChEBI] synonym: "antagoniste" RELATED [ChEBI] synonym: "antagonists" RELATED [ChEBI] is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:48854 name: sulfurous acid namespace: chebi_ontology alt_id: CHEBI:26837 alt_id: CHEBI:9344 subset: 3_STAR synonym: "[SO(OH)2]" RELATED [IUPAC] synonym: "acide sulfureux" RELATED [ChEBI] synonym: "acido sulfuroso" RELATED [ChEBI] synonym: "dihydrogen trioxosulfate" EXACT IUPAC_NAME [IUPAC] synonym: "dihydroxidooxidosulfur" EXACT IUPAC_NAME [IUPAC] synonym: "H2SO3" RELATED [IUPAC] synonym: "S(O)(OH)2" RELATED [IUPAC] synonym: "schweflige Saeure" RELATED [ChemIDplus] synonym: "Sulfite" RELATED [KEGG_COMPOUND] synonym: "Sulfurous acid" EXACT [KEGG_COMPOUND] synonym: "sulfurous acid" EXACT IUPAC_NAME [IUPAC] synonym: "sulphurous acid" RELATED [ChemIDplus] synonym: "trioxosulfuric acid" EXACT IUPAC_NAME [IUPAC] xref: CAS:7782-99-2 "ChemIDplus" xref: Gmelin:1458 "Gmelin" xref: KEGG:C00094 xref: KNApSAcK:C00019662 xref: PDBeChem:SO3 xref: UM-BBD_compID:c0348 "UM-BBD" is_a: CHEBI:33402 ! sulfur oxoacid relationship: is_conjugate_acid_of CHEBI:17137 ! hydrogensulfite relationship: is_tautomer_of CHEBI:29214 ! sulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2O3S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O3S/c1-4(2)3/h(H2,1,2,3)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LSNNMFCWUKXFEE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "82.08008" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "81.97247" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OS(O)=O" xsd:string [Term] id: CHEBI:49110 name: peripheral nervous system drug namespace: chebi_ontology def: "A drug that acts principally at one or more sites within the peripheral neuroeffector systems, the autonomic system, and motor nerve-skeletal system." [] subset: 3_STAR synonym: "peripheral nervous system agent" RELATED [ChEBI] synonym: "peripheral nervous system drugs" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:49200 name: EC 3.6.3.10 (H(+)/K(+)-exchanging ATPase) inhibitor namespace: chebi_ontology def: "An EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitor that inhibits H(+)/K(+)-exchanging ATPase, EC 3.6.3.10. Such compounds are also known as proton pump inhibitors." [] subset: 3_STAR synonym: "(K(+) + H(+))-ATPase inhibitor" RELATED [ChEBI] synonym: "(K(+) + H(+))-ATPase inhibitors" RELATED [ChEBI] synonym: "ATP phosphohydrolase (H(+)/K(+)-exchanging) inhibitor" RELATED [ChEBI] synonym: "ATP phosphohydrolase (H(+)/K(+)-exchanging) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.3.10 (H(+)/K(+)-exchanging ATPase) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.3.10 inhibitor" RELATED [ChEBI] synonym: "EC 3.6.3.10 inhibitors" RELATED [ChEBI] synonym: "H(+)-K(+)-ATPase inhibitor" RELATED [ChEBI] synonym: "H(+)-K(+)-ATPase inhibitors" RELATED [ChEBI] synonym: "H(+)/K(+)-ATPase inhibitor" RELATED [ChEBI] synonym: "H(+)/K(+)-ATPase inhibitors" RELATED [ChEBI] synonym: "H(+)/K(+)-exchanging ATPase inhibitor" RELATED [ChEBI] synonym: "H(+)/K(+)-exchanging ATPase inhibitors" RELATED [ChEBI] synonym: "H,K-ATPase inhibitor" RELATED [ChEBI] synonym: "H,K-ATPase inhibitors" RELATED [ChEBI] synonym: "proton pump inhibitor" RELATED [ChEBI] synonym: "proton pump inhibitors" RELATED [ChEBI] xref: Wikipedia:Proton_pump_inhibitor is_a: CHEBI:76895 ! EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitor [Term] id: CHEBI:49637 name: hydrogen atom namespace: chebi_ontology alt_id: CHEBI:24634 alt_id: CHEBI:49636 subset: 3_STAR synonym: "1H" RELATED [IUPAC] synonym: "H" RELATED [IUPAC] synonym: "hidrogeno" RELATED [ChEBI] synonym: "hydrogen" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogen" RELATED [ChEBI] synonym: "hydrogene" RELATED [ChEBI] synonym: "Wasserstoff" RELATED [ChEBI] xref: WebElements:H is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33559 ! s-block element atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "YZCKVEUIGOORGS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "1.00794" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "1.00783" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]" xsd:string [Term] id: CHEBI:50047 name: organic amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing one, two or three hydrogen atoms by organyl groups." [] subset: 3_STAR synonym: "organic amino compounds" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound relationship: has_parent_hydride CHEBI:16134 ! ammonia relationship: has_role CHEBI:39142 ! Bronsted base [Term] id: CHEBI:50112 name: sex hormone namespace: chebi_ontology def: "Any hormone that is responsible for controlling sexual characteristics and reproductive function." [] subset: 3_STAR synonym: "Geschlechtshormon" RELATED [ChEBI] synonym: "Geschlechtshormone" RELATED [ChEBI] synonym: "hormone sexuelle" RELATED [ChEBI] synonym: "hormones sexuelles" RELATED [ChEBI] synonym: "sex hormones" RELATED [ChEBI] synonym: "Sexualhormon" RELATED [ChEBI] synonym: "Sexualhormone" RELATED [ChEBI] is_a: CHEBI:24621 ! hormone [Term] id: CHEBI:50114 name: estrogen namespace: chebi_ontology def: "A hormone that stimulates or controls the development and maintenance of female sex characteristics in mammals by binding to oestrogen receptors. The oestrogens are named for their importance in the oestrous cycle. The oestrogens that occur naturally in the body, notably estrone, estradiol, estriol, and estetrol are steroids. Other compounds with oestrogenic activity are produced by plants (phytoestrogens) and fungi (mycoestrogens); synthetic compounds with oestrogenic activity are known as xenoestrogens." [] subset: 3_STAR synonym: "Estrogene" RELATED [ChEBI] synonym: "estrogene" RELATED [ChEBI] synonym: "estrogenes" RELATED [ChEBI] synonym: "estrogenes Hormon" RELATED [ChEBI] synonym: "estrogeno" RELATED [ChEBI] synonym: "estrogenos" RELATED [ChEBI] synonym: "estrogens" RELATED [ChEBI] synonym: "Oestrogen" RELATED [ChEBI] synonym: "oestrogen" RELATED [ChEBI] synonym: "Oestrogene" RELATED [ChEBI] synonym: "oestrogene" RELATED [ChEBI] synonym: "oestrogenes" RELATED [ChEBI] synonym: "oestrogens" RELATED [ChEBI] xref: Wikipedia:Estrogen is_a: CHEBI:50112 ! sex hormone [Term] id: CHEBI:50127 name: trifluoromethyl group namespace: chebi_ontology subset: 3_STAR synonym: "-CF3" RELATED [IUPAC] synonym: "trifluoromethyl" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:50491 ! haloalkyl group relationship: is_substituent_group_from CHEBI:38825 ! tetrafluoromethane relationship: is_substituent_group_from CHEBI:41550 ! fluoroform property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CF3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "69.00591" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "68.99521" xsd:string [Term] id: CHEBI:50184 name: ion transport inhibitor namespace: chebi_ontology def: "A compound which inhibits the movement of an ion across an energy-transducing cell membrane." [] subset: 3_STAR synonym: "ion transport inhibitors" RELATED [ChEBI] synonym: "ion-transport inhibitor" RELATED [ChEBI] synonym: "ion-transport inhibitors" RELATED [ChEBI] is_a: CHEBI:38632 ! membrane transport modulator [Term] id: CHEBI:50218 name: EC 3.1.4.* (phosphoric diester hydrolase) inhibitor namespace: chebi_ontology alt_id: CHEBI:76774 def: "An EC 3.1.* (ester hydrolase) inhibitor that interferes with the action of a phosphoric diester hydrolase (EC 3.1.4.*)." [] subset: 3_STAR synonym: "EC 3.1.4.* (phosphoric diester hydrolase) inhibitors" RELATED [ChEBI] synonym: "phosphodiesterase inhibitor" RELATED [ChEBI] synonym: "phosphodiesterase inhibitors" RELATED [ChEBI] synonym: "phosphoric diester hydrolase (EC 3.1.4.*) inhibitor" RELATED [ChEBI] synonym: "phosphoric diester hydrolase (EC 3.1.4.*) inhibitors" RELATED [ChEBI] synonym: "phosphoric diester hydrolase inhibitor" RELATED [ChEBI] synonym: "phosphoric diester hydrolase inhibitors" RELATED [ChEBI] is_a: CHEBI:76760 ! EC 3.1.* (ester hydrolase) inhibitor [Term] id: CHEBI:50266 name: prodrug namespace: chebi_ontology def: "A compound that, on administration, must undergo chemical conversion by metabolic processes before becoming the pharmacologically active drug for which it is a prodrug." [] subset: 3_STAR synonym: "Prodrugs" RELATED [ChEBI] xref: PMID:23993918 "Europe PMC" xref: PMID:23998799 "Europe PMC" xref: PMID:24329110 "Europe PMC" xref: PMID:24628402 "Europe PMC" xref: PMID:24709544 "Europe PMC" xref: PMID:25144792 "Europe PMC" xref: PMID:25157234 "Europe PMC" xref: PMID:25269430 "Europe PMC" xref: PMID:25391982 "Europe PMC" xref: PMID:25591121 "Europe PMC" xref: PMID:25620096 "Europe PMC" xref: PMID:25795057 "Europe PMC" xref: PMID:26028253 "Europe PMC" xref: PMID:26184144 "Europe PMC" xref: PMID:28070577 "Europe PMC" xref: PMID:28215138 "Europe PMC" xref: PMID:28219047 "Europe PMC" xref: PMID:28259775 "Europe PMC" xref: PMID:28319647 "Europe PMC" xref: PMID:28329729 "Europe PMC" xref: PMID:28334528 "Europe PMC" xref: Wikipedia:Prodrug is_a: CHEBI:136859 ! pro-agent is_a: CHEBI:23888 ! drug [Term] id: CHEBI:50267 name: protective agent namespace: chebi_ontology def: "Synthetic or natural substance which is given to prevent a disease or disorder or are used in the process of treating a disease or injury due to a poisonous agent." [] subset: 3_STAR synonym: "chemoprotectant" RELATED [ChEBI] synonym: "chemoprotectants" RELATED [ChEBI] synonym: "chemoprotective agent" RELATED [ChEBI] synonym: "chemoprotective agents" RELATED [ChEBI] synonym: "protective agents" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:50297 name: canonical nucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical nucleotide residues" RELATED [ChEBI] is_a: CHEBI:50319 ! nucleotide residue [Term] id: CHEBI:50299 name: canonical ribonucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical ribonucleotide residues" RELATED [ChEBI] is_a: CHEBI:50297 ! canonical nucleotide residue [Term] id: CHEBI:50312 name: onium compound namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:50313 name: onium cation namespace: chebi_ontology def: "Mononuclear cations derived by addition of a hydron to a mononuclear parent hydride of the pnictogen, chalcogen and halogen families." [] subset: 3_STAR synonym: "onium cations" EXACT IUPAC_NAME [IUPAC] synonym: "onium cations" RELATED [ChEBI] synonym: "onium ion" RELATED [ChEBI] synonym: "onium ions" RELATED [ChEBI] is_a: CHEBI:50312 ! onium compound [Term] id: CHEBI:50315 name: chloronium namespace: chebi_ontology subset: 3_STAR synonym: "[ClH2](+)" RELATED [IUPAC] synonym: "chloranium" EXACT IUPAC_NAME [IUPAC] synonym: "chloronium" EXACT IUPAC_NAME [IUPAC] synonym: "H2Cl(+)" RELATED [IUPAC] xref: Gmelin:331 "Gmelin" is_a: CHEBI:50313 ! onium cation relationship: is_conjugate_acid_of CHEBI:17883 ! hydrogen chloride property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "ClH2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/ClH2/h1H2/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IGJWHVUMEJASKV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "37.46858" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "36.98395" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][Cl+][H]" xsd:string [Term] id: CHEBI:50316 name: bromonium namespace: chebi_ontology subset: 3_STAR synonym: "[BrH2](+)" RELATED [ChEBI] synonym: "bromanium" EXACT IUPAC_NAME [IUPAC] synonym: "bromonium" EXACT IUPAC_NAME [IUPAC] synonym: "H2Br(+)" RELATED [IUPAC] xref: Gmelin:719134 "Gmelin" is_a: CHEBI:50313 ! onium cation relationship: is_conjugate_acid_of CHEBI:47266 ! hydrogen bromide property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "BrH2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/BrH2/h1H2/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IWNNBBVLEFUBNE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "81.91988" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "80.93344" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][Br+][H]" xsd:string [Term] id: CHEBI:50317 name: iodonium namespace: chebi_ontology subset: 3_STAR synonym: "[IH2](+)" RELATED [IUPAC] synonym: "H2I(+)" RELATED [IUPAC] synonym: "iodanium" EXACT IUPAC_NAME [IUPAC] synonym: "iodonium" EXACT IUPAC_NAME [IUPAC] xref: Gmelin:1425841 "Gmelin" is_a: CHEBI:50313 ! onium cation relationship: is_conjugate_acid_of CHEBI:43451 ! hydrogen iodide property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2I" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2I/h1H2/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MGFYSGNNHQQTJW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "128.92035" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "128.91957" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][I+][H]" xsd:string [Term] id: CHEBI:50319 name: nucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "nucleotide residues" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:50320 name: nucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "nucleoside residues" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:50325 name: proteinogenic amino-acid side-chain group namespace: chebi_ontology def: "A univalent organyl group obtained by cleaving the bond from C-2 to the side chain of a proteinogenic amino-acid." [] subset: 3_STAR synonym: "canonical amino-acid side-chain" RELATED [ChEBI] synonym: "canonical amino-acid side-chains" RELATED [ChEBI] synonym: "proteinogenic amino-acid side-chain" RELATED [ChEBI] synonym: "proteinogenic amino-acid side-chain groups" RELATED [ChEBI] synonym: "proteinogenic amino-acid side-chains" RELATED [ChEBI] is_a: CHEBI:33249 ! organyl group [Term] id: CHEBI:50339 name: 4-aminobutyl group namespace: chebi_ontology subset: 3_STAR synonym: "4-aminobutyl" EXACT IUPAC_NAME [IUPAC] synonym: "lysine side-chain" RELATED [ChEBI] is_a: CHEBI:50325 ! proteinogenic amino-acid side-chain group relationship: is_substituent_group_from CHEBI:43799 ! butan-1-amine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H10N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "72.12894" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "72.08132" xsd:string [Term] id: CHEBI:50356 name: organic iodide salt namespace: chebi_ontology subset: 3_STAR synonym: "organic iodide salts" RELATED [ChEBI] is_a: CHEBI:24858 ! iodide salt is_a: CHEBI:51069 ! organic halide salt [Term] id: CHEBI:50491 name: haloalkyl group namespace: chebi_ontology def: "A group derived from a haloalkane by removal of a hydrogen atom." [] subset: 3_STAR synonym: "haloalkyl groups" RELATED [ChEBI] is_a: CHEBI:33249 ! organyl group [Term] id: CHEBI:50511 name: bipyridines namespace: chebi_ontology def: "Compounds containing a bipyridine group." [] subset: 3_STAR synonym: "bipyridyls" RELATED [ChEBI] is_a: CHEBI:36820 ! ring assembly is_a: CHEBI:38101 ! organonitrogen heterocyclic compound is_a: CHEBI:64459 ! biaryl [Term] id: CHEBI:50523 name: butenolide namespace: chebi_ontology alt_id: CHEBI:22960 alt_id: CHEBI:38121 def: "A gamma-lactone that consists of a 2-furanone skeleton and its substituted derivatives." [] subset: 3_STAR synonym: "2-furanone" RELATED [ChEBI] synonym: "butenolides" RELATED [ChEBI] synonym: "furan-2-one" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Butenolide is_a: CHEBI:24129 ! furans is_a: CHEBI:37581 ! gamma-lactone property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H4O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "84.074" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "84.02113" xsd:string [Term] id: CHEBI:50584 name: alkyl alcohol namespace: chebi_ontology alt_id: CHEBI:22937 alt_id: CHEBI:50581 def: "An aliphatic alcohol in which the aliphatic alkane chain is substituted by a hydroxy group at unspecified position." [] subset: 3_STAR synonym: "alkyl alcohols" RELATED [ChEBI] synonym: "hydroxyalkane" RELATED [ChEBI] synonym: "hydroxyalkanes" RELATED [ChEBI] is_a: CHEBI:2571 ! aliphatic alcohol [Term] id: CHEBI:50733 name: nutraceutical namespace: chebi_ontology def: "A product in capsule, tablet or liquid form that provide essential nutrients, such as a vitamin, an essential mineral, a protein, an herb, or similar nutritional substance." [] subset: 3_STAR synonym: "Dietary Supplement" RELATED [ChEBI] synonym: "Food Supplementation" RELATED [ChEBI] synonym: "Nutritional supplement" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:50846 name: immunomodulator namespace: chebi_ontology def: "Biologically active substance whose activity affects or plays a role in the functioning of the immune system." [] subset: 3_STAR synonym: "Biomodulator" RELATED [ChEBI] synonym: "Immune factor" RELATED [ChEBI] synonym: "Immunologic factor" RELATED [ChEBI] synonym: "Immunological factor" RELATED [ChEBI] synonym: "immunomodulators" RELATED [ChEBI] xref: Wikipedia:Immunotherapy is_a: CHEBI:23888 ! drug is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:50860 name: organic molecular entity namespace: chebi_ontology alt_id: CHEBI:25700 alt_id: CHEBI:33244 def: "Any molecular entity that contains carbon." [] subset: 3_STAR synonym: "organic compounds" RELATED [ChEBI] synonym: "organic entity" RELATED [ChEBI] synonym: "organic molecular entities" RELATED [ChEBI] is_a: CHEBI:33582 ! carbon group molecular entity relationship: has_part CHEBI:27594 ! carbon atom [Term] id: CHEBI:50893 name: azaarene namespace: chebi_ontology subset: 3_STAR synonym: "azaarenes" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:50902 name: genotoxin namespace: chebi_ontology def: "A role played by a chemical compound to induce direct or indirect DNA damage. Such damage can potentially lead to the formation of a malignant tumour, but DNA damage does not lead inevitably to the creation of cancerous cells." [] subset: 3_STAR synonym: "genotoxic agent" RELATED [ChEBI] synonym: "genotoxic agents" RELATED [ChEBI] synonym: "genotoxins" RELATED [ChEBI] xref: Wikipedia:Genotoxicity is_a: CHEBI:52209 ! aetiopathogenetic role [Term] id: CHEBI:50903 name: carcinogenic agent namespace: chebi_ontology def: "A role played by a chemical compound which is known to induce a process of carcinogenesis by corrupting normal cellular pathways, leading to the acquistion of tumoral capabilities." [] subset: 3_STAR synonym: "agente carcinogeno" RELATED [ChEBI] synonym: "cancerigene" RELATED [ChEBI] synonym: "cancerogene" RELATED [ChEBI] synonym: "carcinogen" RELATED [ChEBI] synonym: "carcinogene" RELATED [ChEBI] synonym: "carcinogenic agents" RELATED [ChEBI] synonym: "carcinogeno" RELATED [ChEBI] synonym: "carcinogens" RELATED [ChEBI] is_a: CHEBI:52209 ! aetiopathogenetic role [Term] id: CHEBI:50904 name: allergen namespace: chebi_ontology def: "A chemical compound, or part thereof, which causes the onset of an allergic reaction by interacting with any of the molecular pathways involved in an allergy." [] subset: 3_STAR synonym: "alergeno" RELATED [ChEBI] synonym: "allergene" RELATED [ChEBI] synonym: "allergenic agent" RELATED [ChEBI] xref: Wikipedia:Allergen is_a: CHEBI:52209 ! aetiopathogenetic role [Term] id: CHEBI:50905 name: teratogenic agent namespace: chebi_ontology def: "A role played by a chemical compound in biological systems with adverse consequences in embryo developments, leading to birth defects, embryo death or altered development, growth retardation and functional defect." [] subset: 3_STAR synonym: "agent teratogene" RELATED [ChEBI] synonym: "teratogen" RELATED [ChEBI] synonym: "teratogeno" RELATED [ChEBI] is_a: CHEBI:52209 ! aetiopathogenetic role [Term] id: CHEBI:50906 name: role namespace: chebi_ontology def: "A role is particular behaviour which a material entity may exhibit." [] subset: 3_STAR [Term] id: CHEBI:50910 name: neurotoxin namespace: chebi_ontology alt_id: CHEBI:50911 def: "A poison that interferes with the functions of the nervous system." [] subset: 3_STAR synonym: "agente neurotoxico" RELATED [ChEBI] synonym: "nerve poison" RELATED [ChEBI] synonym: "nerve poisons" RELATED [ChEBI] synonym: "neurotoxic agent" RELATED [ChEBI] synonym: "neurotoxic agents" RELATED [ChEBI] synonym: "neurotoxicant" RELATED [ChEBI] synonym: "neurotoxins" RELATED [ChEBI] xref: Wikipedia:Neurotoxin is_a: CHEBI:52209 ! aetiopathogenetic role is_a: CHEBI:64909 ! poison [Term] id: CHEBI:50925 name: EC 2.7.11.1 (non-specific serine/threonine protein kinase) inhibitor namespace: chebi_ontology alt_id: CHEBI:75764 def: "An EC 2.7.11.* (protein-serine/threonine kinase) inhibitor that interferes with the action of non-specific serine/threonine protein kinase (EC 2.7.11.1), a kinase enzyme involved in phosphorylation of hydroxy group of serine or threonine." [] subset: 3_STAR synonym: "A-kinase inhibitor" RELATED [ChEBI] synonym: "A-kinase inhibitors" RELATED [ChEBI] synonym: "AP50 kinase inhibitor" RELATED [ChEBI] synonym: "AP50 kinase inhibitors" RELATED [ChEBI] synonym: "ATP-protein transphosphorylase inhibitor" RELATED [ChEBI] synonym: "ATP-protein transphosphorylase inhibitors" RELATED [ChEBI] synonym: "ATP:protein phosphotransferase (non-specific) inhibitor" RELATED [ChEBI] synonym: "ATP:protein phosphotransferase (non-specific) inhibitors" RELATED [ChEBI] synonym: "betaIIPKC inhibitor" RELATED [ChEBI] synonym: "betaIIPKC inhibitors" RELATED [ChEBI] synonym: "BR serine/threonine-protein kinase 2 inhibitor" RELATED [ChEBI] synonym: "BR serine/threonine-protein kinase 2 inhibitors" RELATED [ChEBI] synonym: "calcium-dependent protein kinase C inhibitor" RELATED [ChEBI] synonym: "calcium-dependent protein kinase C inhibitors" RELATED [ChEBI] synonym: "calcium/phospholipid-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "calcium/phospholipid-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "cAMP-dependent protein kinase A inhibitor" RELATED [ChEBI] synonym: "cAMP-dependent protein kinase A inhibitors" RELATED [ChEBI] synonym: "cAMP-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "cAMP-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "casein kinase (phosphorylating) inhibitor" RELATED [ChEBI] synonym: "casein kinase (phosphorylating) inhibitors" RELATED [ChEBI] synonym: "casein kinase 2 inhibitor" RELATED [ChEBI] synonym: "casein kinase 2 inhibitors" RELATED [ChEBI] synonym: "casein kinase I inhibitor" RELATED [ChEBI] synonym: "casein kinase I inhibitors" RELATED [ChEBI] synonym: "casein kinase II inhibitor" RELATED [ChEBI] synonym: "casein kinase II inhibitors" RELATED [ChEBI] synonym: "casein kinase inhibitor" RELATED [ChEBI] synonym: "casein kinase inhibitors" RELATED [ChEBI] synonym: "cGMP-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "cGMP-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "CK-2 inhibitor" RELATED [ChEBI] synonym: "CK-2 inhibitors" RELATED [ChEBI] synonym: "CKI inhibitor" RELATED [ChEBI] synonym: "CKI inhibitors" RELATED [ChEBI] synonym: "CKII inhibitor" RELATED [ChEBI] synonym: "CKII inhibitors" RELATED [ChEBI] synonym: "cyclic AMP-dependent protein kinase A inhibitor" RELATED [ChEBI] synonym: "cyclic AMP-dependent protein kinase A inhibitors" RELATED [ChEBI] synonym: "cyclic AMP-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "cyclic AMP-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "cyclic monophosphate-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "cyclic monophosphate-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "cyclic nucleotide-dependent protein kinase inhibitor" RELATED [ChEBI] synonym: "cyclic nucleotide-dependent protein kinase inhibitors" RELATED [ChEBI] synonym: "cyclin-dependent kinase inhibitor" RELATED [ChEBI] synonym: "cyclin-dependent kinase inhibitors" RELATED [ChEBI] synonym: "dsk1 inhibitor" RELATED [ChEBI] synonym: "dsk1 inhibitors" RELATED [ChEBI] synonym: "EC 2.7.11.1 (non-specific serine/threonine protein kinase) inhibitors" RELATED [ChEBI] synonym: "EC 2.7.11.1 inhibitor" RELATED [ChEBI] synonym: "EC 2.7.11.1 inhibitors" RELATED [ChEBI] synonym: "epsilon PKC inhibitor" RELATED [ChEBI] synonym: "epsilon PKC inhibitors" RELATED [ChEBI] synonym: "glycogen synthase a kinase inhibitor" RELATED [ChEBI] synonym: "glycogen synthase a kinase inhibitors" RELATED [ChEBI] synonym: "glycogen synthase kinase inhibitor" RELATED [ChEBI] synonym: "glycogen synthase kinase inhibitors" RELATED [ChEBI] synonym: "HIPK2 inhibitor" RELATED [ChEBI] synonym: "HIPK2 inhibitors" RELATED [ChEBI] synonym: "Hpr kinase inhibitor" RELATED [ChEBI] synonym: "Hpr kinase inhibitors" RELATED [ChEBI] synonym: "hydroxyalkyl-protein kinase inhibitor" RELATED [ChEBI] synonym: "hydroxyalkyl-protein kinase inhibitors" RELATED [ChEBI] synonym: "M phase-specific cdc2 kinase inhibitor" RELATED [ChEBI] synonym: "M phase-specific cdc2 kinase inhibitors" RELATED [ChEBI] synonym: "mitogen-activated S6 kinase inhibitor" RELATED [ChEBI] synonym: "mitogen-activated S6 kinase inhibitors" RELATED [ChEBI] synonym: "MKNK2 inhibitor" RELATED [ChEBI] synonym: "MKNK2 inhibitors" RELATED [ChEBI] synonym: "non-specific serine/threonine protein kinase (EC 2.7.11.1) inhibitor" RELATED [ChEBI] synonym: "non-specific serine/threonine protein kinase (EC 2.7.11.1) inhibitors" RELATED [ChEBI] synonym: "non-specific serine/threonine protein kinase inhibitor" RELATED [ChEBI] synonym: "non-specific serine/threonine protein kinase inhibitors" RELATED [ChEBI] synonym: "p21 activated kinase-1 inhibitor" RELATED [ChEBI] synonym: "p21 activated kinase-1 inhibitors" RELATED [ChEBI] synonym: "p82 kinase inhibitor" RELATED [ChEBI] synonym: "p82 kinase inhibitors" RELATED [ChEBI] synonym: "PAK-1 inhibitor" RELATED [ChEBI] synonym: "PAK-1 inhibitors" RELATED [ChEBI] synonym: "PAK1 inhibitor" RELATED [ChEBI] synonym: "PAK1 inhibitors" RELATED [ChEBI] synonym: "phosphorylase b kinase kinase inhibitor" RELATED [ChEBI] synonym: "phosphorylase b kinase kinase inhibitors" RELATED [ChEBI] synonym: "PKA inhibitor" RELATED [ChEBI] synonym: "PKA inhibitors" RELATED [ChEBI] synonym: "protein glutamyl kinase inhibitor" RELATED [ChEBI] synonym: "protein glutamyl kinase inhibitors" RELATED [ChEBI] synonym: "protein kinase (phosphorylating) inhibitor" RELATED [ChEBI] synonym: "protein kinase (phosphorylating) inhibitors" RELATED [ChEBI] synonym: "protein kinase A inhibitor" RELATED [ChEBI] synonym: "protein kinase A inhibitors" RELATED [ChEBI] synonym: "protein kinase CK2 inhibitor" RELATED [ChEBI] synonym: "protein kinase CK2 inhibitors" RELATED [ChEBI] synonym: "protein kinase p58 inhibitor" RELATED [ChEBI] synonym: "protein kinase p58 inhibitors" RELATED [ChEBI] synonym: "protein phosphokinase inhibitor" RELATED [ChEBI] synonym: "protein phosphokinase inhibitors" RELATED [ChEBI] synonym: "protein serine kinase inhibitor" RELATED [ChEBI] synonym: "protein serine kinase inhibitors" RELATED [ChEBI] synonym: "protein serine-threonine kinase inhibitor" RELATED [ChEBI] synonym: "protein serine-threonine kinase inhibitors" RELATED [ChEBI] synonym: "protein-aspartyl kinase inhibitor" RELATED [ChEBI] synonym: "protein-aspartyl kinase inhibitors" RELATED [ChEBI] synonym: "protein-cysteine kinase inhibitor" RELATED [ChEBI] synonym: "protein-cysteine kinase inhibitors" RELATED [ChEBI] synonym: "protein-serine kinase inhibitor" RELATED [ChEBI] synonym: "protein-serine kinase inhibitors" RELATED [ChEBI] synonym: "protein-serine/threonine kinase inhibitors" RELATED [ChEBI] synonym: "Prp4 protein kinase inhibitor" RELATED [ChEBI] synonym: "Prp4 protein kinase inhibitors" RELATED [ChEBI] synonym: "Raf kinase inhibitor" RELATED [ChEBI] synonym: "Raf kinase inhibitors" RELATED [ChEBI] synonym: "Raf-1 inhibitor" RELATED [ChEBI] synonym: "Raf-1 inhibitors" RELATED [ChEBI] synonym: "ribosomal protein S6 kinase II inhibitor" RELATED [ChEBI] synonym: "ribosomal protein S6 kinase II inhibitors" RELATED [ChEBI] synonym: "ribosomal S6 protein kinase inhibitor" RELATED [ChEBI] synonym: "ribosomal S6 protein kinase inhibitors" RELATED [ChEBI] synonym: "serine kinase inhibitor" RELATED [ChEBI] synonym: "serine kinase inhibitors" RELATED [ChEBI] synonym: "serine protein kinase inhibitor" RELATED [ChEBI] synonym: "serine protein kinase inhibitors" RELATED [ChEBI] synonym: "serine(threonine) protein kinase inhibitor" RELATED [ChEBI] synonym: "serine(threonine) protein kinase inhibitors" RELATED [ChEBI] synonym: "serine-specific protein kinase inhibitor" RELATED [ChEBI] synonym: "serine-specific protein kinase inhibitors" RELATED [ChEBI] synonym: "serine/threonine protein kinase inhibitor" RELATED [ChEBI] synonym: "serine/threonine protein kinase inhibitors" RELATED [ChEBI] synonym: "STK32 inhibitor" RELATED [ChEBI] synonym: "STK32 inhibitors" RELATED [ChEBI] synonym: "T-antigen kinase inhibitor" RELATED [ChEBI] synonym: "T-antigen kinase inhibitors" RELATED [ChEBI] synonym: "threonine-specific protein kinase inhibitor" RELATED [ChEBI] synonym: "threonine-specific protein kinase inhibitors" RELATED [ChEBI] synonym: "twitchin kinase inhibitor" RELATED [ChEBI] synonym: "twitchin kinase inhibitors" RELATED [ChEBI] synonym: "type-2 casein kinase inhibitor" RELATED [ChEBI] synonym: "type-2 casein kinase inhibitors" RELATED [ChEBI] synonym: "Wee 1-like kinase inhibitor" RELATED [ChEBI] synonym: "Wee 1-like kinase inhibitors" RELATED [ChEBI] synonym: "Wee-kinase inhibitor" RELATED [ChEBI] synonym: "Wee-kinase inhibitors" RELATED [ChEBI] synonym: "WEE1Hu inhibitor" RELATED [ChEBI] synonym: "WEE1Hu inhibitors" RELATED [ChEBI] is_a: CHEBI:76812 ! EC 2.7.11.* (protein-serine/threonine kinase) inhibitor [Term] id: CHEBI:50949 name: serotonin uptake inhibitor namespace: chebi_ontology def: "A compound that specifically inhibits the reuptake of serotonin in the brain. This increases the serotonin concentration in the synaptic cleft which then activates serotonin receptors to a greater extent." [] subset: 3_STAR synonym: "serotonin reuptake inhibitor" RELATED [ChEBI] synonym: "SSRI" RELATED [ChEBI] xref: Wikipedia:Selective_serotonin_reuptake_inhibitor is_a: CHEBI:48278 ! serotonergic drug [Term] id: CHEBI:50994 name: primary amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing one hydrogen atom by an organyl group." [] subset: 3_STAR synonym: "primary amino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:50995 name: secondary amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing two hydrogen atoms by organyl groups." [] subset: 3_STAR synonym: "secondary amino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:50996 name: tertiary amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing three hydrogen atoms by organyl groups." [] subset: 3_STAR synonym: "tertiary amino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:51061 name: hormone receptor modulator namespace: chebi_ontology def: "A drug that modulates the function of the endocrine glands, the biosynthesis of their secreted hormones, or the action of hormones upon their specific sites." [] subset: 3_STAR synonym: "hormone receptor modulators" RELATED [ChEBI] is_a: CHEBI:90710 ! receptor modulator [Term] id: CHEBI:51069 name: organic halide salt namespace: chebi_ontology subset: 3_STAR synonym: "organic halide salts" RELATED [ChEBI] is_a: CHEBI:24868 ! organic salt [Term] id: CHEBI:51074 name: (R)-colchicine namespace: chebi_ontology subset: 3_STAR synonym: "N-[(7R)-1,2,3,10-tetramethoxy-9-oxo-5,6,7,9-tetrahydrobenzo[a]heptalen-7-yl]acetamide" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:3226657 "Beilstein" is_a: CHEBI:23359 ! colchicine relationship: is_enantiomer_of CHEBI:27882 ! (S)-colchicine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C22H25NO6" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C22H25NO6/c1-12(24)23-16-8-6-13-10-19(27-3)21(28-4)22(29-5)20(13)14-7-9-18(26-2)17(25)11-15(14)16/h7,9-11,16H,6,8H2,1-5H3,(H,23,24)/t16-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IAKHMKGGTNLKSZ-MRXNPFEDSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "399.43704" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "399.16819" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "COc1cc2CC[C@@H](NC(C)=O)c3cc(=O)c(OC)ccc3-c2c(OC)c1OC" xsd:string [Term] id: CHEBI:51086 name: chemical role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof within a chemical context." [] subset: 3_STAR is_a: CHEBI:50906 ! role [Term] id: CHEBI:51137 name: mianserin namespace: chebi_ontology def: "A dibenzoazepine (specifically 1,2,3,4,10,14b-hexahydrodibenzo[c,f]pyrazino[1,2-a]azepine) methyl-substituted on N-2. Closely related to (and now mostly superseded by) the tetracyclic antidepressant mirtazapinean, it is an atypical antidepressant used in the treatment of depression throughout Europe and elsewhere." [] subset: 3_STAR synonym: "1,2,3,4,10,14b-Hexahydro-2-methyldibenzo(c,f)pyrazino(1,2-a)azepine" RELATED [ChemIDplus] synonym: "2-methyl-1,2,3,4,10,14b-hexahydrodibenzo[c,f]pyrazino[1,2-a]azepine" EXACT IUPAC_NAME [IUPAC] synonym: "mianserin" RELATED INN [WHO_MedNet] synonym: "mianserina" RELATED INN [WHO_MedNet] synonym: "mianserine" RELATED INN [WHO_MedNet] synonym: "mianserinum" RELATED INN [WHO_MedNet] xref: Beilstein:755346 "Beilstein" xref: CAS:24219-97-4 "ChemIDplus" xref: Drug_Central:1796 "DrugCentral" xref: DrugBank:DB06148 xref: LINCS:LSM-1374 xref: Patent:NL6603256 xref: Patent:US3534041 xref: PMID:20825390 "Europe PMC" xref: Wikipedia:Mianserin is_a: CHEBI:47804 ! dibenzoazepine relationship: has_role CHEBI:35469 ! antidepressant relationship: has_role CHEBI:35640 ! adrenergic uptake inhibitor relationship: has_role CHEBI:35678 ! histamine agonist relationship: has_role CHEBI:35717 ! sedative relationship: has_role CHEBI:37890 ! alpha-adrenergic antagonist relationship: has_role CHEBI:37955 ! H1-receptor antagonist relationship: has_role CHEBI:48279 ! serotonergic antagonist relationship: has_role CHEBI:76779 ! EC 3.4.21.26 (prolyl oligopeptidase) inhibitor property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C18H20N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C18H20N2/c1-19-10-11-20-17-9-5-3-7-15(17)12-14-6-2-4-8-16(14)18(20)13-19/h2-9,18H,10-13H2,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UEQUQVLFIPOEMF-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "264.36480" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "264.16265" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CN1CCN2C(C1)c1ccccc1Cc1ccccc21" xsd:string [Term] id: CHEBI:51143 name: nitrogen molecular entity namespace: chebi_ontology alt_id: CHEBI:25556 alt_id: CHEBI:7594 subset: 3_STAR synonym: "nitrogen compounds" RELATED [ChEBI] synonym: "nitrogen molecular entities" RELATED [ChEBI] synonym: "Nitrogenous compounds" RELATED [KEGG_COMPOUND] xref: KEGG:C06061 is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_part CHEBI:25555 ! nitrogen atom [Term] id: CHEBI:51151 name: dipolar compound namespace: chebi_ontology def: "An organic molecule that is electrically neutral carrying a positive and a negative charge in one of its major canonical descriptions. In most dipolar compounds the charges are delocalized; however the term is also applied to species where this is not the case." [] subset: 3_STAR synonym: "dipolar compounds" RELATED [ChEBI] is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:5118 name: fluoxetine namespace: chebi_ontology def: "A racemate comprising equimolar amounts of (R)- and (S)-fluoxetine. A selective serotonin reuptake inhibitor (SSRI), it is used (generally as the hydrochloride salt) for the treatment of depression (and the depressive phase of bipolar disorder), bullimia nervosa, and obsessive-compulsive disorder." [] subset: 3_STAR synonym: "(+-)-N-methyl-3-phenyl-3-((alpha,alpha,alpha-trifluoro-p-tolyl)oxy)propylamine" RELATED [ChemIDplus] synonym: "(+-)-N-methyl-gamma-(4-(trifluoromethyl)phenoxy)benzenepropanamine" RELATED [ChemIDplus] synonym: "fluoxetina" RELATED INN [ChemIDplus] synonym: "fluoxetine" RELATED INN [WHO_MedNet] synonym: "fluoxetine" RELATED INN [KEGG_DRUG] synonym: "fluoxetinum" RELATED INN [ChemIDplus] synonym: "Prozac" RELATED BRAND_NAME [DrugBank] synonym: "rac-N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:39914106 "Beilstein" xref: CAS:54910-89-3 "ChemIDplus" xref: DrugBank:DB00472 xref: HMDB:HMDB0014615 xref: KEGG:D00326 xref: Patent:DE2500110 xref: Patent:US4314081 xref: PMID:19144769 "Europe PMC" xref: PMID:22903652 "Europe PMC" xref: PMID:22923967 "Europe PMC" xref: PMID:23885544 "Europe PMC" xref: PMID:24184049 "Europe PMC" xref: PMID:24399719 "Europe PMC" xref: PMID:24464553 "Europe PMC" xref: PMID:24997906 "Europe PMC" xref: PMID:25448156 "Europe PMC" xref: PMID:25639887 "Europe PMC" xref: PMID:25671301 "Europe PMC" xref: PMID:8694321 "Europe PMC" xref: Reaxys:3991406 "Reaxys" xref: Wikipedia:Fluoxetine is_a: CHEBI:60911 ! racemate relationship: has_functional_parent CHEBI:36810 ! (trifluoromethyl)benzene relationship: has_part CHEBI:86991 ! (R)-fluoxetine relationship: has_part CHEBI:86992 ! (S)-fluoxetine relationship: has_role CHEBI:35469 ! antidepressant relationship: has_role CHEBI:35480 ! analgesic relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:50949 ! serotonin uptake inhibitor relationship: has_role CHEBI:78298 ! environmental contaminant relationship: has_role CHEBI:88188 ! drug allergen property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H18F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "309.32610" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "309.13405" xsd:string [Term] id: CHEBI:51277 name: thioester namespace: chebi_ontology def: "A compound of general formula RC(=O)SR'. Compare with thionoester, RC(=S)OR'." [] subset: 3_STAR synonym: "thio ester" RELATED [ChEBI] synonym: "thioesters" RELATED [ChEBI] synonym: "thiol ester" RELATED [ChEBI] is_a: CHEBI:26959 ! thiocarboxylic ester is_a: CHEBI:36586 ! carbonyl compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "COSR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "60.07500" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "59.96699" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C(=O)S[*]" xsd:string [Term] id: CHEBI:51280 name: S-methyl thioacetate namespace: chebi_ontology alt_id: CHEBI:38533 alt_id: CHEBI:51279 subset: 3_STAR synonym: "CH3C(O)SCH3" RELATED [NIST_Chemistry_WebBook] synonym: "ethanethioic acid, S-methyl ester" RELATED [ChemIDplus] synonym: "methanethiol acetate" RELATED [ChemIDplus] synonym: "methyl ethanethioate" RELATED [NIST_Chemistry_WebBook] synonym: "methyl thioacetate" RELATED [ChemIDplus] synonym: "methylthioacetate" RELATED [ChemIDplus] synonym: "S-methyl ethanethioate" EXACT IUPAC_NAME [IUPAC] synonym: "thioacetic acid S-methyl ester" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1736664 "Beilstein" xref: CAS:1534-08-3 "ChemIDplus" xref: Gmelin:1316927 "Gmelin" is_a: CHEBI:51277 ! thioester relationship: has_functional_parent CHEBI:16555 ! ethanethioic S-acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H6OS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H6OS/c1-3(4)5-2/h1-2H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OATSQCXMYKYFQO-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "90.14514" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "90.01394" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CSC(C)=O" xsd:string [Term] id: CHEBI:51323 name: cinchona alkaloid namespace: chebi_ontology def: "An alkaloid based on a cinchonan skeleton." [] subset: 3_STAR synonym: "cinchona alkaloids" RELATED [ChEBI] is_a: CHEBI:26509 ! quinoline alkaloid [Term] id: CHEBI:51371 name: muscle relaxant namespace: chebi_ontology def: "A drug used to produce muscle relaxation (excepting neuromuscular blocking agents). Its primary clinical and therapeutic use is the treatment of muscle spasm and immobility associated with strains, sprains, and injuries of the back and, to a lesser degree, injuries to the neck. Also used for the treatment of a variety of clinical conditions that have in common only the presence of skeletal muscle hyperactivity, for example, the muscle spasms that can occur in multiple sclerosis." [] subset: 3_STAR synonym: "muscle relaxants" RELATED [ChEBI] is_a: CHEBI:51372 ! neuromuscular agent [Term] id: CHEBI:51372 name: neuromuscular agent namespace: chebi_ontology def: "A drug used for its actions on skeletal muscle." [] subset: 3_STAR is_a: CHEBI:23888 ! drug [Term] id: CHEBI:51422 name: organodiyl group namespace: chebi_ontology def: "Any organic substituent group, regardless of functional type, having two free valences at carbon atom(s)." [] subset: 3_STAR synonym: "organodiyl groups" RELATED [ChEBI] is_a: CHEBI:51446 ! organic divalent group [Term] id: CHEBI:51446 name: organic divalent group namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:51447 name: organic univalent group namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:51867 name: methyl ketone namespace: chebi_ontology def: "A ketone of formula RC(=O)CH3 (R =/= H)." [] subset: 3_STAR synonym: "methyl ketones" RELATED [ChEBI] is_a: CHEBI:17087 ! ketone [Term] id: CHEBI:51869 name: alpha-diketone namespace: chebi_ontology def: "A diketone that has its two ketone functionalities on adjacent atoms." [] subset: 3_STAR synonym: "alpha-diketones" RELATED [ChEBI] is_a: CHEBI:46640 ! diketone [Term] id: CHEBI:51958 name: organic polycyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic polycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33635 ! polycyclic compound is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:51959 name: organic tricyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic tricyclic compounds" RELATED [ChEBI] is_a: CHEBI:51958 ! organic polycyclic compound [Term] id: CHEBI:52092 name: ethoxide namespace: chebi_ontology def: "An organic anion that is the conjugate base of ethanol." [] subset: 3_STAR synonym: "ethoxy anion" RELATED [ChEBI] xref: Beilstein:1839415 "Beilstein" xref: Reaxys:1839415 "Reaxys" is_a: CHEBI:25696 ! organic anion relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:16236 ! ethanol property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H5O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H5O/c1-2-3/h2H2,1H3/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HHFAWKCIHAUFRX-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.06050" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "45.03459" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC[O-]" xsd:string [Term] id: CHEBI:52206 name: biochemical role namespace: chebi_ontology def: "A biological role played by the molecular entity or part thereof within a biochemical context." [] subset: 3_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52208 name: biophysical role namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52209 name: aetiopathogenetic role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof which causes the development of a pathological process." [] subset: 3_STAR synonym: "etiopathogenetic agent" RELATED [ChEBI] synonym: "etiopathogenetic role" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52210 name: pharmacological role namespace: chebi_ontology def: "A biological role which describes how a drug interacts within a biological system and how the interactions affect its medicinal properties." [] subset: 3_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52211 name: physiological role namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52217 name: pharmaceutical namespace: chebi_ontology alt_id: CHEBI:33293 alt_id: CHEBI:33294 def: "Any substance introduced into a living organism with therapeutic or diagnostic purpose." [] subset: 3_STAR synonym: "farmaco" RELATED [ChEBI] synonym: "medicament" RELATED [ChEBI] synonym: "pharmaceuticals" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:52290 name: mitogen namespace: chebi_ontology def: "A chemical substance that encourages a cell to commence cell division, triggering mitosis." [] subset: 3_STAR synonym: "mitogens" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52845 name: cyclic organic group namespace: chebi_ontology def: "An organic group that consists of a closed ring. It may be a substituent or a skeleton." [] subset: 3_STAR synonym: "cyclic organic groups" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:53121 name: adenosine A2A receptor antagonist namespace: chebi_ontology def: "An antagonist at the A2A receptor." [] subset: 3_STAR synonym: "adenosine A2A receptor antagonists" RELATED [ChEBI] xref: Wikipedia:Adenosine_A2A_receptor is_a: CHEBI:71232 ! adenosine receptor antagonist [Term] id: CHEBI:53212 name: isocyanates namespace: chebi_ontology def: "Organonitrogen compounds that are derivatives of isocyanic acid; compounds containing the isocyanate functional group -N=C=O (as opposed to the cyanate group, -O-C#N)." [] subset: 3_STAR synonym: "iso-cyanates" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:36963 ! organooxygen compound relationship: has_functional_parent CHEBI:29202 ! isocyanic acid [Term] id: CHEBI:5615 name: halothane namespace: chebi_ontology def: "A haloalkane comprising ethane having three flouro substituents at the 1-position as well as bromo- and chloro substituents at the 2-position." [] subset: 3_STAR synonym: "1,1,1-trifluoro-2-bromo-2-chloroethane" RELATED [NIST_Chemistry_WebBook] synonym: "1,1,1-trifluoro-2-chloro-2-bromoethane" RELATED [NIST_Chemistry_WebBook] synonym: "1-bromo-1-chloro-2,2,2-trifluoroethane" RELATED [NIST_Chemistry_WebBook] synonym: "2,2,2-trifluoro-1-chloro-1-bromoethane" RELATED [NIST_Chemistry_WebBook] synonym: "2-bromo-2-chloro-1,1,1-trifluoroethane" EXACT IUPAC_NAME [IUPAC] synonym: "2-bromo-2-chloro-1,1,1-trifluoroethane" RELATED [NIST_Chemistry_WebBook] synonym: "bromochlorotrifluoroethane" RELATED [NIST_Chemistry_WebBook] synonym: "Fluothane" RELATED [NIST_Chemistry_WebBook] synonym: "Halothane" EXACT [KEGG_COMPOUND] synonym: "Narcotane" RELATED [ChemIDplus] synonym: "Phthorothanum" RELATED [ChemIDplus] synonym: "Rhodialothan" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1736947 "Beilstein" xref: CAS:151-67-7 "ChemIDplus" xref: Drug_Central:1356 "DrugCentral" xref: DrugBank:DB01159 xref: Gmelin:793752 "Gmelin" xref: KEGG:C07515 xref: KEGG:D00542 xref: PMID:7519986 "Europe PMC" xref: VSDB:1806 xref: Wikipedia:Halothane is_a: CHEBI:24469 ! haloalkane is_a: CHEBI:36683 ! organochlorine compound is_a: CHEBI:37141 ! organobromine compound is_a: CHEBI:37143 ! organofluorine compound relationship: has_role CHEBI:38870 ! inhalation anaesthetic property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2HBrClF3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2HBrClF3/c3-1(4)2(5,6)7/h1H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BCQZXOMGPXTTIC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "197.38125" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "195.89022" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(Cl)(Br)C(F)(F)F" xsd:string [Term] id: CHEBI:5686 name: heterocyclic compound namespace: chebi_ontology def: "A cyclic compound having as ring members atoms of at least two different elements." [] subset: 3_STAR synonym: "compuesto heterociclico" RELATED [IUPAC] synonym: "compuestos heterociclicos" RELATED [IUPAC] synonym: "heterocycle" RELATED [ChEBI] synonym: "Heterocyclic compound" EXACT [KEGG_COMPOUND] synonym: "heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:57299 name: ATP(3-) namespace: chebi_ontology def: "A ribonucleoside triphosphate oxoanion that is the trianion of adenosine 5'-triphosphate arising from deprotonation of three of the four free triphosphate OH groups." [] subset: 3_STAR synonym: "ATP(3-)" EXACT [UniProt] xref: Beilstein:9535056 "Beilstein" is_a: CHEBI:59724 ! ribonucleoside triphosphate oxoanion relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:78675 ! fundamental metabolite relationship: is_conjugate_acid_of CHEBI:30616 ! ATP(4-) relationship: is_conjugate_base_of CHEBI:15422 ! ATP relationship: is_conjugate_base_of CHEBI:237958 ! ({[(2R,3S,4R,5R)-3,4-dihydroxy-5-(9H-purin-9-yl)oxolan-2-yl]methyl phosphonato}oxy)(phosphonatooxy)phosphinate property_value: http://purl.obolibrary.org/obo/chebi/charge "-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N5O13P3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/p-3/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZKHQWZAMYRWXGA-KQYNXXCUSA-K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "504.15720" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "503.97392" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@H](COP([O-])(=O)OP([O-])(=O)OP(O)([O-])=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:57867 name: nucleoside 5'-phosphate dianion namespace: chebi_ontology def: "The conjugate base of a nucleoside 5'-phosphate." [] subset: 3_STAR synonym: "a nucleoside 5'-phosphate" RELATED [UniProt] synonym: "nucleoside 5'-phosphate dianions" RELATED [ChEBI] is_a: CHEBI:58945 ! organophosphate oxoanion relationship: is_conjugate_base_of CHEBI:16701 ! nucleoside 5'-phosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H7O6PR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "194.07920" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "193.99802" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[C@H]1[C@@H]([*])[C@H]([*])O[C@@H]1COP([O-])([O-])=O" xsd:string [Term] id: CHEBI:57887 name: tryptaminium namespace: chebi_ontology def: "An ammonium ion that is the conjugate acid of tryptamine arising from protonation of the primary amino group; major species at pH 7.3." [] subset: 3_STAR synonym: "2-(1H-indol-3-yl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "tryptamine" RELATED [UniProt] synonym: "tryptaminium cation" RELATED [ChEBI] synonym: "tryptaminium(1+)" RELATED [ChEBI] xref: Gmelin:533978 "Gmelin" is_a: CHEBI:35274 ! ammonium ion relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:16765 ! tryptamine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2/c11-6-5-8-7-12-10-4-2-1-3-9(8)10/h1-4,7,12H,5-6,11H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "APJYDQYYACXCRM-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "161.22310" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "161.10732" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCc1c[nH]c2ccccc12" xsd:string [Term] id: CHEBI:58001 name: primary aliphatic ammonium ion namespace: chebi_ontology def: "The conjugate acid of a primary aliphatic amine." [] subset: 3_STAR synonym: "an aliphatic amine" RELATED [UniProt] synonym: "primary aliphatic ammonium cation" RELATED [ChEBI] synonym: "primary aliphatic ammonium cations" RELATED [ChEBI] synonym: "primary aliphatic ammonium ions" RELATED [ChEBI] is_a: CHEBI:65296 ! primary ammonium ion relationship: is_conjugate_acid_of CHEBI:17062 ! primary aliphatic amine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH5NR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.05710" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.04220" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]C[*]" xsd:string [Term] id: CHEBI:58025 name: octopaminium namespace: chebi_ontology def: "The conjugate acid of octopamine; major species at pH 7.3." [] subset: 3_STAR synonym: "1-(4-hydroxyphenyl)-2-aminoethanol" RELATED [UniProt] synonym: "2-hydroxy-2-(4-hydroxyphenyl)ethan-1-aminium" RELATED [ChEBI] synonym: "2-hydroxy-2-(4-hydroxyphenyl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "4-(2-ammonio-1-hydroxyethyl)phenol" RELATED [ChEBI] synonym: "4-(2-azaniumyl-1-hydroxyethyl)phenol" RELATED [ChEBI] synonym: "octopaminium cation" RELATED [ChEBI] synonym: "octopaminium(1+)" RELATED [ChEBI] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: is_conjugate_acid_of CHEBI:17134 ! octopamine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H12NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO2/c9-5-8(11)6-1-3-7(10)4-2-6/h1-4,8,10-11H,5,9H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QHGUCRYDKWKLMG-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "154.18640" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "154.08626" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CC(O)c1ccc(O)cc1" xsd:string [Term] id: CHEBI:58043 name: nucleoside 5'-monophosphate(2-) namespace: chebi_ontology alt_id: CHEBI:85513 def: "The dianion of a nucleoside monophosphate: major species at pH 7.3." [] subset: 3_STAR synonym: "5'-ribonucleotide(2-)" RELATED [ChEBI] synonym: "a ribonucleoside 5'-phosphate" RELATED [UniProt] synonym: "nucleoside monophosphate anion" RELATED [ChEBI] synonym: "nucleoside monophosphate anions" RELATED [ChEBI] synonym: "nucleoside monophosphate dianion" RELATED [ChEBI] synonym: "nucleoside monophosphate dianions" RELATED [ChEBI] is_a: CHEBI:58945 ! organophosphate oxoanion relationship: is_conjugate_base_of CHEBI:17188 ! nucleoside 5'-monophosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O7PR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "211.08660" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "211.00076" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[C@@H]1[C@H](O)[C@@H](COP([O-])([O-])=O)O[C@H]1[*]" xsd:string [Term] id: CHEBI:58104 name: nucleoside triphosphate(3-) namespace: chebi_ontology def: "Trianion of nucleoside triphosphate arising from deprotonation of three of the four free triphosphate OH groups; major species at pH 7.3." [] subset: 3_STAR synonym: "NTP trianion" RELATED [ChEBI] synonym: "NTP(3-)" RELATED [ChEBI] synonym: "nucleoside triphosphate trianion" RELATED [ChEBI] synonym: "ribonucleoside triphosphate trianion" RELATED [ChEBI] synonym: "ribonucleoside triphosphate(3-)" RELATED [ChEBI] is_a: CHEBI:59724 ! ribonucleoside triphosphate oxoanion relationship: is_conjugate_acid_of CHEBI:61557 ! nucleoside triphosphate(4-) relationship: is_conjugate_base_of CHEBI:17326 ! nucleoside triphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9O13P3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "385.07300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "369.92560" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[C@@H]1O[C@H](COP([O-])(=O)OP([O-])(=O)OP(O)([O-])=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:58165 name: 3',5'-cyclic AMP(1-) namespace: chebi_ontology def: "An organophosphate oxoanion that is the conjugate base of 3',5'-cyclic AMP arising from deprotonation of the free phosphate OH group; major species at pH 7.3." [] subset: 3_STAR synonym: "3',5'-cyclic AMP" RELATED [UniProt] synonym: "3',5'-cyclic AMP anion" RELATED [ChEBI] synonym: "adenosine 3',5'-cyclic monophosphate" RELATED [ChEBI] synonym: "adenosine 3',5'-cyclic monophosphate anion" RELATED [ChEBI] synonym: "adenosine 3',5'-cyclic monophosphate(1-)" RELATED [ChEBI] synonym: "adenosine 3',5'-phosphate" EXACT IUPAC_NAME [IUPAC] xref: PMID:7870041 "Europe PMC" xref: PMID:7870042 "Europe PMC" xref: Reaxys:3720459 "Reaxys" is_a: CHEBI:58945 ! organophosphate oxoanion relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:17489 ! 3',5'-cyclic AMP property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H11N5O6P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N5O6P/c11-8-5-9(13-2-12-8)15(3-14-5)10-6(16)7-4(20-10)1-19-22(17,18)21-7/h2-4,6-7,10,16H,1H2,(H,17,18)(H2,11,12,13)/p-1/t4-,6-,7-,10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IVOMOUWHDPKRLL-KQYNXXCUSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "328.19800" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "328.04524" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "Nc1ncnc2n(cnc12)[C@@H]1O[C@@H]2COP([O-])(=O)O[C@H]2[C@H]1O" xsd:string [Term] id: CHEBI:58464 name: nucleoside 3',5'-cyclic phosphate anion namespace: chebi_ontology def: "The conjugate base of a nucleoside 3',5'-cyclic phosphate." [] subset: 3_STAR synonym: "a nucleoside 3',5'-cyclic phosphate" RELATED [UniProt] synonym: "nucleoside 3',5'-cyclic phosphate anions" RELATED [ChEBI] is_a: CHEBI:58945 ! organophosphate oxoanion relationship: is_conjugate_base_of CHEBI:18375 ! nucleoside 3',5'-cyclic phosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H6O5PR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "177.07190" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "176.99528" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]P1(=O)OC[C@H]2O[C@@H]([*])[C@H]([*])[C@@H]2O1" xsd:string [Term] id: CHEBI:58945 name: organophosphate oxoanion namespace: chebi_ontology def: "An organic phosphoric acid derivative in which one or more oxygen atoms of the phosphate group(s) has been deprotonated." [] subset: 3_STAR synonym: "organophosphate oxoanions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:26079 ! phosphoric acid derivative [Term] id: CHEBI:58951 name: short-chain fatty acid anion namespace: chebi_ontology def: "Any fatty acid anion obtained by removal of a proton from the carboxy group of a short-chain fatty acid (chain length of less than C6)." [] subset: 3_STAR synonym: "a short-chain fatty acid" RELATED [UniProt] synonym: "short-chain fatty acid anions" RELATED [ChEBI] is_a: CHEBI:28868 ! fatty acid anion relationship: is_conjugate_base_of CHEBI:26666 ! short-chain fatty acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:58953 name: saturated fatty acid anion namespace: chebi_ontology def: "Any fatty acid anion in which there is no C-C unsaturation." [] subset: 3_STAR synonym: "saturated fatty acid anions" RELATED [ChEBI] is_a: CHEBI:28868 ! fatty acid anion [Term] id: CHEBI:58954 name: straight-chain saturated fatty acid anion namespace: chebi_ontology def: "Any saturated fatty acid anion lacking a carbon side-chain." [] subset: 3_STAR synonym: "straight-chain saturated fatty acid anions" RELATED [ChEBI] is_a: CHEBI:58953 ! saturated fatty acid anion relationship: is_conjugate_base_of CHEBI:39418 ! straight-chain saturated fatty acid [Term] id: CHEBI:59059 name: methyl isocyanate namespace: chebi_ontology def: "The isocyanate that is methane modified by a single isocyanato substituent." [] subset: 3_STAR synonym: "Iso-cyanatomethane" RELATED [ChemIDplus] synonym: "Isocyanate de methyle" RELATED [ChemIDplus] synonym: "isocyanatomethane" EXACT IUPAC_NAME [IUPAC] synonym: "isocyanatomethane" RELATED [ChEBI] synonym: "Methyl carbonimide" RELATED [ChemIDplus] synonym: "Methyl isocyanide" RELATED [ChemIDplus] synonym: "Methylcarbylamine" RELATED [ChemIDplus] synonym: "MIC" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:605318 "ChemIDplus" xref: CAS:624-83-9 "NIST Chemistry WebBook" xref: DrugBank:DB04337 xref: Gmelin:100500 "Gmelin" xref: PMID:16091349 "Europe PMC" xref: PMID:19494520 "Europe PMC" xref: PMID:24081639 "Europe PMC" xref: PMID:3622432 "Europe PMC" xref: PMID:6821040 "Europe PMC" xref: Reaxys:605318 "Reaxys" is_a: CHEBI:53212 ! isocyanates relationship: has_role CHEBI:50904 ! allergen relationship: has_role CHEBI:68495 ! apoptosis inducer property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C2H3NO/c1-3-2-4/h1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HAMGRBXTJNITHG-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "57.05130" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "57.02146" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CN=C=O" xsd:string [Term] id: CHEBI:59137 name: (8xi)-cinchonan namespace: chebi_ontology def: "Cinchonan or its (8S)-epimer." [] subset: 3_STAR synonym: "(8xi)-cinchonan" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:26513 ! quinolines property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C19H22N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C19H22N2/c1-2-14-13-21-10-8-15(14)11-17(21)12-16-7-9-20-19-6-4-3-5-18(16)19/h2-7,9,14-15,17H,1,8,10-13H2/t14-,15-,17?/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UFJOYVQIDSNLHC-GIIGEWEBSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "278.39140" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "278.17830" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C=C[C@H]1C[N@@]2CC[C@H]1CC2Cc1ccnc2ccccc12" xsd:string [Term] id: CHEBI:59138 name: (8S)-cinchonan namespace: chebi_ontology def: "The (8S)-epimer of cinchonan." [] subset: 3_STAR synonym: "(8alpha)-cinchonan" EXACT IUPAC_NAME [IUPAC] synonym: "(8S)-cinchonan" EXACT [ChEBI] synonym: "4-((1S,2S,4S,5R)-5-vinyl-1-azabicyclo[2.2.2]oct-2-ylmethyl)quinoline" RELATED [ChEBI] xref: Beilstein:88419 "Beilstein" is_a: CHEBI:59137 ! (8xi)-cinchonan property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C19H22N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C19H22N2/c1-2-14-13-21-10-8-15(14)11-17(21)12-16-7-9-20-19-6-4-3-5-18(16)19/h2-7,9,14-15,17H,1,8,10-13H2/t14-,15-,17-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UFJOYVQIDSNLHC-ZOBUZTSGSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "278.39140" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "278.17830" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C@]1(C[C@@H]2CC[N@]1C[C@@H]2C=C)Cc1ccnc2ccccc12" xsd:string [Term] id: CHEBI:59163 name: biomarker namespace: chebi_ontology def: "A substance used as an indicator of a biological state." [] subset: 3_STAR synonym: "biological marker" RELATED [ChEBI] is_a: CHEBI:47867 ! indicator [Term] id: CHEBI:59202 name: straight-chain fatty acid namespace: chebi_ontology def: "Any fatty acid whose skeletal carbon atoms form an unbranched open chain." [] subset: 3_STAR synonym: "straight-chain fatty acids" RELATED [ChEBI] is_a: CHEBI:35366 ! fatty acid relationship: is_conjugate_acid_of CHEBI:59203 ! straight-chain fatty acid anion [Term] id: CHEBI:59203 name: straight-chain fatty acid anion namespace: chebi_ontology def: "A fatty acid anion formed by deprotonation of the carboxylic acid functional group of a straight-chain fatty acid." [] subset: 3_STAR synonym: "straight-chain FA anion" RELATED [ChEBI] synonym: "straight-chain FA anions" RELATED [ChEBI] synonym: "straight-chain fatty acid anions" RELATED [ChEBI] is_a: CHEBI:28868 ! fatty acid anion relationship: is_conjugate_base_of CHEBI:59202 ! straight-chain fatty acid [Term] id: CHEBI:5924 name: EC 3.4.21.* (serine endopeptidase) inhibitor namespace: chebi_ontology def: "Any EC 3.4.* (hydrolases acting on peptide bond) inhibitor that inhibits the activity of a serine endopeptidase (EC 3.4.21.*)." [] subset: 3_STAR synonym: "EC 3.4.21.* (serine endopeptidase) inhibitors" RELATED [ChEBI] synonym: "EC 3.4.21.* inhibitor" RELATED [ChEBI] synonym: "EC 3.4.21.* inhibitors" RELATED [ChEBI] synonym: "inhibitor of serine endopeptidase (EC 3.4.21.*)" RELATED [ChEBI] synonym: "inhibitor of serine endopeptidase (EC 3.4.21.*)s" RELATED [ChEBI] synonym: "serine endopeptidase inhibitor" RELATED [ChEBI] synonym: "serine endopeptidase inhibitors" RELATED [ChEBI] is_a: CHEBI:60258 ! EC 3.4.* (hydrolases acting on peptide bond) inhibitor [Term] id: CHEBI:59554 name: medium-chain fatty acid namespace: chebi_ontology def: "Any fatty acid with a chain length of between C6 and C12." [] subset: 3_STAR synonym: "MCFA" RELATED [ChEBI] synonym: "MCFAs" RELATED [ChEBI] synonym: "medium-chain fatty acids" RELATED [ChEBI] is_a: CHEBI:35366 ! fatty acid relationship: is_conjugate_acid_of CHEBI:59558 ! medium-chain fatty acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01740" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])=O" xsd:string [Term] id: CHEBI:59558 name: medium-chain fatty acid anion namespace: chebi_ontology def: "A fatty acid anion resulting from the deprotonation of the carboxylic acid moiety of a medium-chain fatty acid." [] subset: 3_STAR synonym: "a medium chain fatty acid" RELATED [UniProt] synonym: "MCFA anion" RELATED [ChEBI] synonym: "MCFA anions" RELATED [ChEBI] synonym: "medium-chain FA anion" RELATED [ChEBI] synonym: "medium-chain FA anions" RELATED [ChEBI] synonym: "medium-chain fatty acid anions" RELATED [ChEBI] is_a: CHEBI:28868 ! fatty acid anion relationship: is_conjugate_base_of CHEBI:59554 ! medium-chain fatty acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:59561 name: diamino acid anion namespace: chebi_ontology def: "An organic anion that is the conjugate base of diamino acid." [] subset: 3_STAR synonym: "diamino acid anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion relationship: is_conjugate_base_of CHEBI:35987 ! diamino acid [Term] id: CHEBI:59698 name: phosphoric acids namespace: chebi_ontology def: "Compounds containing one or more phosphoric acid units." [] subset: 3_STAR is_a: CHEBI:33457 ! phosphorus oxoacid [Term] id: CHEBI:59724 name: ribonucleoside triphosphate oxoanion namespace: chebi_ontology def: "An organophosphate anion resulting from deprotonation of at least one of the acidic hydroxy groups from the triphosphate moiety of a nucleoside triphosphate." [] subset: 3_STAR synonym: "ribonucleoside triphosphate anion" RELATED [ChEBI] synonym: "ribonucleoside triphosphate anions" RELATED [ChEBI] synonym: "ribonucleoside triphosphate oxoanions" RELATED [ChEBI] is_a: CHEBI:58945 ! organophosphate oxoanion [Term] id: CHEBI:59740 name: nucleophilic reagent namespace: chebi_ontology def: "A reagent that forms a bond to its reaction partner (the electrophile) by donating both bonding electrons." [] subset: 3_STAR synonym: "nucleophile" RELATED [ChEBI] synonym: "nucleophiles" RELATED [ChEBI] synonym: "nucleophilic reagents" RELATED [ChEBI] is_a: CHEBI:33893 ! reagent is_a: CHEBI:39144 ! Lewis base [Term] id: CHEBI:59806 name: (S)-nicotinium(1+) namespace: chebi_ontology def: "The conjugate acid of (S)-nicotine arising from selective protonation of the tertiary amino group; major species at pH 7.3." [] subset: 3_STAR synonym: "(2S)-1-methyl-2-(pyridin-3-yl)pyrrolidinium" EXACT IUPAC_NAME [IUPAC] synonym: "(S)-nicotine" RELATED [UniProt] synonym: "(S)-nicotinium cation" RELATED [ChEBI] xref: Gmelin:329042 "Gmelin" xref: MetaCyc:NICOTINE is_a: CHEBI:35274 ! ammonium ion relationship: has_role CHEBI:76924 ! plant metabolite relationship: is_conjugate_acid_of CHEBI:17688 ! (S)-nicotine relationship: is_enantiomer_of CHEBI:79008 ! (R)-nicotinium(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H15N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H14N2/c1-12-7-3-5-10(12)9-4-2-6-11-8-9/h2,4,6,8,10H,3,5,7H2,1H3/p+1/t10-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SNICXCGAKADSCV-JTQLQIEISA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "163.23900" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "163.12297" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[NH+]1CCC[C@H]1c1cccnc1" xsd:string [Term] id: CHEBI:59888 name: gamma-aminobutyric acid zwitterion namespace: chebi_ontology def: "Zwitterionic form of gamma-aminobutyric acid having an anionic carboxy group and a protonated amino group." [] subset: 3_STAR synonym: "4-aminobutanoate" RELATED [UniProt] synonym: "4-ammoniobutanoate" RELATED [ChEBI] synonym: "4-azaniumylbutanoate" EXACT IUPAC_NAME [IUPAC] xref: Gmelin:1041559 "Gmelin" is_a: CHEBI:35238 ! amino acid zwitterion relationship: is_tautomer_of CHEBI:16865 ! gamma-aminobutyric acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H9NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C4H9NO2/c5-3-1-2-4(6)7/h1-3,5H2,(H,6,7)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "BTCSSZJGUNDROE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "103.11980" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "103.06333" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCCC([O-])=O" xsd:string [Term] id: CHEBI:59905 name: dopaminium(1+) namespace: chebi_ontology def: "An ammonium ion that is the conjugate acid of dopamine; major species at pH 7.3." [] subset: 3_STAR synonym: "2-(3,4-dihydroxyphenyl)ethan-1-aminium" RELATED [ChEBI] synonym: "2-(3,4-dihydroxyphenyl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "dopamine" RELATED [UniProt] synonym: "dopaminium cation" RELATED [ChEBI] xref: Gmelin:328863 "Gmelin" is_a: CHEBI:35274 ! ammonium ion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:18243 ! dopamine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H12NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO2/c9-4-3-6-1-2-7(10)8(11)5-6/h1-2,5,10-11H,3-4,9H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VYFYYTLLBUKUHU-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "154.18640" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "154.08626" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCc1ccc(O)c(O)c1" xsd:string [Term] id: CHEBI:59999 name: chemical substance namespace: chebi_ontology def: "A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types." [] subset: 3_STAR synonym: "Chemische Substanz" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity [Term] id: CHEBI:60004 name: mixture namespace: chebi_ontology def: "A mixture is a chemical substance composed of multiple molecules, at least two of which are of a different kind." [] subset: 3_STAR synonym: "Mischung" RELATED [ChEBI] is_a: CHEBI:59999 ! chemical substance [Term] id: CHEBI:6015 name: isoflurane namespace: chebi_ontology subset: 3_STAR synonym: "1-chloro-2,2,2-trifluoroethyl difluoromethyl ether" RELATED [NIST_Chemistry_WebBook] synonym: "2-chloro-2-difluoromethoxy-1,1,1-trifluoroethane" EXACT IUPAC_NAME [IUPAC] synonym: "Aerrane" RELATED BRAND_NAME [DrugBank] synonym: "Ethane" RELATED BRAND_NAME [DrugBank] synonym: "Forane" RELATED BRAND_NAME [DrugBank] synonym: "Forene" RELATED BRAND_NAME [DrugBank] synonym: "Isoflurane" EXACT [KEGG_COMPOUND] synonym: "isoflurane" RELATED INN [ChemIDplus] synonym: "isoflurano" RELATED INN [ChemIDplus] synonym: "isofluranum" RELATED INN [ChemIDplus] xref: CAS:26675-46-7 "NIST Chemistry WebBook" xref: Drug_Central:1493 "DrugCentral" xref: DrugBank:DB00753 xref: KEGG:C07518 xref: KEGG:D00545 xref: VSDB:1804 xref: Wikipedia:Isoflurane is_a: CHEBI:37143 ! organofluorine compound relationship: has_functional_parent CHEBI:39832 ! methoxyethane relationship: has_role CHEBI:38870 ! inhalation anaesthetic property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C3H2ClF5O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C3H2ClF5O/c4-1(3(7,8)9)10-2(5)6/h1-2H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "PIWKPBJCKXDKJR-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "184.49210" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "183.97143" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "FC(F)OC(Cl)C(F)(F)F" xsd:string [Term] id: CHEBI:60242 name: monovalent inorganic cation namespace: chebi_ontology def: "An atom or small molecule with a positive charge that does not contain carbon in covalent linkage, with a valency of one." [] subset: 3_STAR synonym: "a monovalent cation" RELATED [UniProt] is_a: CHEBI:36915 ! inorganic cation [Term] id: CHEBI:60258 name: EC 3.4.* (hydrolases acting on peptide bond) inhibitor namespace: chebi_ontology alt_id: CHEBI:76763 def: "A hydrolase inhibitor that interferes with the action of any hydrolase acting on peptide bonds (peptidase), EC 3.4.*.*)." [] subset: 3_STAR synonym: "EC 3.4.* (hydrolase acting on peptide bond) inhibitor" RELATED [ChEBI] synonym: "EC 3.4.* (hydrolase acting on peptide bonds) inhibitors" RELATED [ChEBI] synonym: "EC 3.4.* (hydrolases acting on peptide bond) inhibitors" RELATED [ChEBI] synonym: "EC 3.4.* (peptidase) inhibitor" RELATED [ChEBI] synonym: "EC 3.4.* (peptidase) inhibitors" RELATED [ChEBI] synonym: "EC 3.4.* inhibitor" RELATED [ChEBI] synonym: "EC 3.4.* inhibitors" RELATED [ChEBI] synonym: "inhibitor of hydrolases acting on peptide bond (EC 3.4.*)" RELATED [ChEBI] synonym: "inhibitors of hydrolases acting on peptide bond (EC 3.4.*)" RELATED [ChEBI] synonym: "peptidase inhibitors" RELATED [ChEBI] synonym: "protease inhibitor" RELATED [ChEBI] synonym: "protease inhibitors" RELATED [ChEBI] is_a: CHEBI:76759 ! EC 3.* (hydrolase) inhibitor [Term] id: CHEBI:60330 name: 2-methyl-2-(methylsulfanyl)propanal oxime namespace: chebi_ontology def: "The oxime resulting from the formal condensation of 2-methyl-2-(methylsulfanyl)propanal with hydroxylamine. Addition of the oxime group to methyl isocyanate forms the final step in the synthesis of the systemic insecticide aldicarb." [] subset: 3_STAR synonym: "2-(methylthio)-2-methylpropionaldehyde oxime" RELATED [ChemIDplus] synonym: "2-(methylthio)isobutyraldehyde oxime" RELATED [ChemIDplus] synonym: "2-methyl-2-(methylsulfanyl)propanaldoxime" RELATED [ChEBI] synonym: "2-methyl-2-(methylthio)propanal oxime" RELATED [ChemIDplus] synonym: "2-methyl-2-(methylthio)propionaldehyde oxime" RELATED [ChemIDplus] synonym: "2-methyl-2-(methylthio)propionaldoxime" RELATED [ChemIDplus] synonym: "ADO" RELATED [ChEBI] synonym: "aldicarb oxime" RELATED [ChemIDplus] synonym: "N-hydroxy-2-methyl-2-(methylsulfanyl)propan-1-imine" EXACT IUPAC_NAME [IUPAC] synonym: "Temik oxime" RELATED [ChemIDplus] xref: Beilstein:2038299 "Beilstein" xref: CAS:1646-75-9 "ChemIDplus" xref: Patent:US3217037 xref: Reaxys:2038299 "Reaxys" is_a: CHEBI:82744 ! aliphatic aldoxime is_a: CHEBI:86315 ! methyl sulfide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H11NOS" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H11NOS/c1-5(2,8-3)4-6-7/h4,7H,1-3H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ZFGMCJAXIZTVJA-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "133.21200" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "133.05614" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C(=NO)C(C)(C)SC" xsd:string [Term] id: CHEBI:60466 name: peptide zwitterion namespace: chebi_ontology def: "Zwitterionic form of any peptide where the amino terminus is positively charged and the carboxy terminus is negatively charged." [] subset: 3_STAR synonym: "peptide zwitterions" RELATED [ChEBI] is_a: CHEBI:27369 ! zwitterion relationship: is_tautomer_of CHEBI:16670 ! peptide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R(C2H2NOR)n" xsd:string [Term] id: CHEBI:60643 name: NMDA receptor antagonist namespace: chebi_ontology alt_id: CHEBI:60797 def: "Any substance that inhibits the action of N-methyl-D-aspartate (NMDA) receptors. They tend to induce a state known as dissociative anesthesia, marked by catalepsy, amnesia, and analgesia, while side effects can include hallucinations, nightmares, and confusion. Due to their psychotomimetic effects, many NMDA receptor antagonists are used as recreational drugs." [] subset: 3_STAR synonym: "N-methyl-D-aspartate receptor antagonist" RELATED [ChEBI] synonym: "N-methyl-D-aspartate receptor antagonists" RELATED [ChEBI] synonym: "NMDA receptor antagonists" RELATED [ChEBI] synonym: "NMDAR antagonist" RELATED [ChEBI] synonym: "NMDAR antagonists" RELATED [ChEBI] is_a: CHEBI:60798 ! excitatory amino acid antagonist [Term] id: CHEBI:60798 name: excitatory amino acid antagonist namespace: chebi_ontology def: "Any substance which inhibits the action of receptors for excitatory amino acids." [] subset: 3_STAR synonym: "EAA receptor antagonist" RELATED [ChEBI] synonym: "EAA receptor antagonists" RELATED [ChEBI] synonym: "excitatory amino acid antagonists" RELATED [ChEBI] synonym: "excitatory amino acid receptor antagonist" RELATED [ChEBI] synonym: "excitatory amino acid receptor antagonists" RELATED [ChEBI] is_a: CHEBI:48706 ! antagonist [Term] id: CHEBI:60809 name: adjuvant namespace: chebi_ontology def: "Any pharmacological or immunological agent that modifies the effect of other agents such as drugs or vaccines while having few if any direct effects when given by itself." [] subset: 3_STAR synonym: "adjuvants" RELATED [ChEBI] is_a: CHEBI:52217 ! pharmaceutical [Term] id: CHEBI:60832 name: tubulin modulator namespace: chebi_ontology def: "Any substance that interacts with tubulin to inhibit or promote polymerisation of microtubules." [] subset: 3_STAR synonym: "tubulin modulators" RELATED [ChEBI] is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:60911 name: racemate namespace: chebi_ontology def: "A racemate is an equimolar mixture of a pair of enantiomers." [] subset: 3_STAR synonym: "melange racemique" RELATED [ChEBI] synonym: "racemates" RELATED [ChEBI] synonym: "racemic mixture" RELATED [ChEBI] is_a: CHEBI:60004 ! mixture [Term] id: CHEBI:61115 name: EC 3.5.1.98 (histone deacetylase) inhibitor namespace: chebi_ontology def: "An EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor that interferes with the function of histone deacetylase (EC 3.5.1.98)." [] subset: 3_STAR synonym: "EC 3.5.1.98 (histone deacetylase) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.98 inhibitor" RELATED [ChEBI] synonym: "EC 3.5.1.98 inhibitors" RELATED [ChEBI] synonym: "HDAC inhibitor" RELATED [ChEBI] synonym: "HDAC inhibitors" RELATED [ChEBI] synonym: "HDACi" RELATED [ChEBI] synonym: "HDACis" RELATED [ChEBI] synonym: "HDI" RELATED [ChEBI] synonym: "HDIs" RELATED [ChEBI] synonym: "histone amidohydrolase inhibitor" RELATED [ChEBI] synonym: "histone amidohydrolase inhibitors" RELATED [ChEBI] synonym: "histone deacetylase (EC 3.5.1.98) inhibitor" RELATED [ChEBI] synonym: "histone deacetylase (EC 3.5.1.98) inhibitors" RELATED [ChEBI] synonym: "histone deacetylase inhibitor" RELATED [ChEBI] synonym: "histone deacetylase inhibitors" RELATED [ChEBI] xref: Wikipedia:Histone_deacetylase_inhibitor is_a: CHEBI:76807 ! EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor [Term] id: CHEBI:61120 name: nucleobase-containing molecular entity namespace: chebi_ontology def: "Any compound that has a nucleobase as a part." [] subset: 3_STAR synonym: "nucleobase-containing compound" RELATED [SUBMITTER] synonym: "nucleobase-containing compounds" RELATED [ChEBI] synonym: "nucleobase-containing molecular entities" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_functional_parent CHEBI:18282 ! nucleobase [Term] id: CHEBI:61293 name: adenyl nucleotide namespace: chebi_ontology def: "A nucleotide having adenine as the base." [] subset: 3_STAR synonym: "adenine nucleotide" RELATED [SUBMITTER] is_a: CHEBI:26395 ! purine nucleotide [Term] id: CHEBI:61296 name: adenyl ribonucleotide namespace: chebi_ontology def: "A purine riboncleotide where adenine is the purine." [] subset: 3_STAR synonym: "adenine ribonucleotide" RELATED [SUBMITTER] is_a: CHEBI:26400 ! purine ribonucleotide is_a: CHEBI:61293 ! adenyl nucleotide [Term] id: CHEBI:61557 name: nucleoside triphosphate(4-) namespace: chebi_ontology def: "A ribonucleoside triphosphate oxoanion arising from global deprotonation of the triphosphate group of any nucleoside triphosphate." [] subset: 3_STAR synonym: "a ribonucleoside 5'-triphosphate" RELATED [UniProt] synonym: "NTP tetraanion" RELATED [ChEBI] synonym: "NTP(4-)" RELATED [SUBMITTER] synonym: "nucleoside 5'-triphosphate tetraanion" RELATED [ChEBI] synonym: "nucleoside triphosphate(4-)" EXACT [ChEBI] is_a: CHEBI:59724 ! ribonucleoside triphosphate oxoanion relationship: is_conjugate_base_of CHEBI:58104 ! nucleoside triphosphate(3-) property_value: http://purl.obolibrary.org/obo/chebi/charge "-4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8O13P3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "384.06500" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "368.91778" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[C@@H]1O[C@H](COP([O-])(=O)OP([O-])(=O)OP([O-])([O-])=O)[C@@H](O)[C@H]1O" xsd:string [Term] id: CHEBI:61692 name: pyridoisoquinoline namespace: chebi_ontology def: "An organic heterotricyclic compound with a skeleton derived from a pyridine ring fused to an isoquinoline." [] subset: 3_STAR synonym: "pyridoisoquinolines" RELATED [ChEBI] is_a: CHEBI:26979 ! organic heterotricyclic compound [Term] id: CHEBI:61697 name: fatty acid derivative namespace: chebi_ontology def: "Any organic molecular entity derived from a fatty acid." [] subset: 3_STAR synonym: "FA derivative" RELATED [ChEBI] synonym: "FA derivatives" RELATED [ChEBI] synonym: "fatty acid derivatives" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity relationship: has_functional_parent CHEBI:35366 ! fatty acid [Term] id: CHEBI:61951 name: microtubule-destabilising agent namespace: chebi_ontology def: "Any substance that interacts with tubulin to inhibit polymerisation of microtubules." [] subset: 3_STAR synonym: "microtubule destabilising agent" RELATED [ChEBI] synonym: "microtubule destabilising agents" RELATED [ChEBI] synonym: "microtubule destabilising role" RELATED [ChEBI] synonym: "microtubule destabilizing role" RELATED [SUBMITTER] synonym: "microtubule-destabilising agents" RELATED [ChEBI] synonym: "microtubule-destabilizing agent" RELATED [ChEBI] synonym: "microtubule-destabilizing agents" RELATED [ChEBI] xref: PMID:17099073 "Europe PMC" is_a: CHEBI:60832 ! tubulin modulator is_a: CHEBI:64911 ! antimitotic [Term] id: CHEBI:62081 name: 1,1-diunsubstituted alkanesulfonate namespace: chebi_ontology def: "An alkanesulfonate in which the carbon at position 1 is attached to at least two hydrogens." [] subset: 3_STAR synonym: "1,1-di-unsubstituted alkanesulfonate" RELATED [ChEBI] synonym: "1,1-di-unsubstituted alkanesulfonates" RELATED [ChEBI] synonym: "1,1-diunsubstituted alkanesulfonates" RELATED [ChEBI] xref: KEGG:C15521 xref: MetaCyc:Alkanesulfonates is_a: CHEBI:134249 ! alkanesulfonate oxoanion relationship: has_role CHEBI:35703 ! xenobiotic property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2O3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "94.09000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "93.97246" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([H])([*])S([O-])(=O)=O" xsd:string [Term] id: CHEBI:62488 name: signalling molecule namespace: chebi_ontology def: "A molecular messenger in which the molecule is specifically involved in transmitting information between cells. Such molecules are released from the cell sending the signal, cross over the gap between cells by diffusion, and interact with specific receptors in another cell, triggering a response in that cell by activating a series of enzyme controlled reactions which lead to changes inside the cell." [] subset: 3_STAR synonym: "signal molecule" RELATED [ChEBI] synonym: "signal molecules" RELATED [ChEBI] synonym: "signaling molecule" RELATED [ChEBI] synonym: "signaling molecules" RELATED [ChEBI] synonym: "signalling molecules" RELATED [ChEBI] is_a: CHEBI:33280 ! molecular messenger [Term] id: CHEBI:63161 name: glycosyl compound namespace: chebi_ontology def: "A carbohydrate derivative arising formally from the elimination of water from a glycosidic hydroxy group and an H atom bound to an oxygen, carbon, nitrogen or sulfur atom of a separate entity." [] subset: 3_STAR synonym: "glycosyl compounds" RELATED [ChEBI] is_a: CHEBI:63299 ! carbohydrate derivative [Term] id: CHEBI:63165 name: ribonucleoside monophosphate oxoanion namespace: chebi_ontology def: "An organophosphate oxoanion resulting from deprotonation of at least one of the acidic hydroxy groups from the phosphate moiety of a ribonucleoside monophosphate." [] subset: 3_STAR synonym: "ribonucleoside monophosphate oxoanions" RELATED [ChEBI] is_a: CHEBI:58945 ! organophosphate oxoanion relationship: is_conjugate_base_of CHEBI:26558 ! ribonucleoside monophosphate [Term] id: CHEBI:63299 name: carbohydrate derivative namespace: chebi_ontology def: "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds." [] subset: 3_STAR synonym: "carbohydrate derivatives" RELATED [ChEBI] synonym: "derivatised carbohydrate" RELATED [ChEBI] synonym: "derivatised carbohydrates" RELATED [ChEBI] synonym: "derivatized carbohydrate" RELATED [ChEBI] synonym: "derivatized carbohydrates" RELATED [ChEBI] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives relationship: has_functional_parent CHEBI:16646 ! carbohydrate [Term] id: CHEBI:63367 name: monosaccharide derivative namespace: chebi_ontology def: "A carbohydrate derivative that is formally obtained from a monosaccharide." [] subset: 3_STAR synonym: "monosaccharide derivatives" RELATED [ChEBI] is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:35381 ! monosaccharide [Term] id: CHEBI:63409 name: pentose derivative namespace: chebi_ontology def: "A monosaccharide derivative that is formally obtained from a pentose." [] subset: 3_STAR synonym: "pentose derivatives" RELATED [ChEBI] is_a: CHEBI:63367 ! monosaccharide derivative relationship: has_functional_parent CHEBI:25901 ! pentose [Term] id: CHEBI:63510 name: EC 3.6.3.9 (Na(+)/K(+)-transporting ATPase) inhibitor namespace: chebi_ontology def: "An EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitor that interferes with the action of Na(+)/K(+)-transporting ATPase (EC 3.6.3.9)." [] subset: 3_STAR synonym: "EC 3.6.3.9 (Na(+)/K(+)-transporting ATPase) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.3.9 inhibitor" RELATED [ChEBI] synonym: "EC 3.6.3.9 inhibitors" RELATED [ChEBI] synonym: "Na(+)/K(+)-ATPase inhibitor" RELATED [ChEBI] synonym: "Na(+)/K(+)-ATPase inhibitors" RELATED [ChEBI] synonym: "Na(+)/K(+)-pump inhibitor" RELATED [ChEBI] synonym: "Na(+)/K(+)-pump inhibitors" RELATED [ChEBI] synonym: "Na(+)/K(+)-transporting ATPase (EC 3.6.3.9) inhibitor" RELATED [ChEBI] synonym: "Na(+)/K(+)-transporting ATPase (EC 3.6.3.9) inhibitors" RELATED [ChEBI] synonym: "Na(+)/K(+)-transporting ATPase inhibitor" RELATED [ChEBI] synonym: "Na(+)/K(+)-transporting ATPase inhibitors" RELATED [ChEBI] synonym: "sodium pump inhibitor" RELATED [ChEBI] synonym: "sodium pump inhibitors" RELATED [ChEBI] synonym: "sodium-potassium adenosine triphosphatase inhibitor" RELATED [ChEBI] synonym: "sodium-potassium adenosine triphosphatase inhibitors" RELATED [ChEBI] synonym: "sodium-potassium pump inhibitor" RELATED [ChEBI] synonym: "sodium-potassium pump inhibitors" RELATED [ChEBI] xref: Wikipedia:Sodium-potassium_ATPase is_a: CHEBI:76895 ! EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitor [Term] id: CHEBI:63534 name: monoamine namespace: chebi_ontology def: "An aralylamino compound which contains one amino group connected to an aromatic ring by a two-carbon chain. Monoamines are derived from aromatic amino acids like phenylalanine, tyrosine, tryptophan, and the thyroid hormones by the action of aromatic amino acid decarboxylase enzymes." [] subset: 3_STAR synonym: "monoamines" RELATED [ChEBI] synonym: "naturally occurring monoamine" RELATED [ChEBI] synonym: "naturally occurring monoamines" RELATED [ChEBI] xref: PMID:21822758 "Europe PMC" xref: PMID:21993877 "Europe PMC" xref: PMID:22005599 "Europe PMC" xref: PMID:22082101 "Europe PMC" xref: PMID:22153577 "Europe PMC" xref: PMID:22213370 "Europe PMC" xref: PMID:22218931 "Europe PMC" xref: PMID:22342987 "Europe PMC" xref: PMID:22371656 "Europe PMC" is_a: CHEBI:64365 ! aralkylamino compound [Term] id: CHEBI:63726 name: neuroprotective agent namespace: chebi_ontology def: "Any compound that can be used for the treatment of neurodegenerative disorders." [] subset: 3_STAR synonym: "neuroprotectant" RELATED [ChEBI] synonym: "neuroprotectants" RELATED [ChEBI] synonym: "neuroprotective agents" RELATED [ChEBI] is_a: CHEBI:50267 ! protective agent [Term] id: CHEBI:64018 name: protein kinase C agonist namespace: chebi_ontology def: "An agonist that selectively binds to and activates a protein kinase C receptor" [] subset: 3_STAR synonym: "protein kinase C agonists" RELATED [ChEBI] is_a: CHEBI:64106 ! protein kinase agonist [Term] id: CHEBI:64047 name: food additive namespace: chebi_ontology def: "Any substance which is added to food to preserve or enhance its flavour and/or appearance." [] subset: 3_STAR synonym: "food additives" RELATED [ChEBI] xref: Wikipedia:Food_additive is_a: CHEBI:33232 ! application is_a: CHEBI:78295 ! food component [Term] id: CHEBI:64049 name: food acidity regulator namespace: chebi_ontology def: "A food additive that is used to change or otherwise control the acidity or alkalinity of foods. They may be acids, bases, neutralising agents or buffering agents." [] subset: 3_STAR synonym: "acidity regulator" RELATED [ChEBI] synonym: "acidity regulators" RELATED [ChEBI] synonym: "food acidity regulators" RELATED [ChEBI] synonym: "pH control agent" RELATED [ChEBI] synonym: "pH control agents" RELATED [ChEBI] xref: Wikipedia:Acidity_regulator is_a: CHEBI:64047 ! food additive [Term] id: CHEBI:64106 name: protein kinase agonist namespace: chebi_ontology def: "An agonist that selectively binds to and activates a protein kinase receptor." [] subset: 3_STAR synonym: "protein kinase agonists" RELATED [ChEBI] is_a: CHEBI:48705 ! agonist [Term] id: CHEBI:64365 name: aralkylamino compound namespace: chebi_ontology def: "An organic amino compound in which an aminoalkyl group is linked to an arene." [] subset: 3_STAR synonym: "aralkylamino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:64459 name: biaryl namespace: chebi_ontology def: "An organic aromatic compound whose structure contains two aromatic rings or ring systems, joined to each other by a single bond." [] subset: 3_STAR synonym: "biaryls" RELATED [ChEBI] is_a: CHEBI:33659 ! organic aromatic compound [Term] id: CHEBI:64708 name: one-carbon compound namespace: chebi_ontology def: "An organic molecular entity containing a single carbon atom (C1)." [] subset: 3_STAR synonym: "one-carbon compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:64709 name: organic acid namespace: chebi_ontology def: "Any organic molecular entity that is acidic and contains carbon in covalent linkage." [] subset: 3_STAR synonym: "organic acids" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:64909 name: poison namespace: chebi_ontology def: "Any substance that causes disturbance to organisms by chemical reaction or other activity on the molecular scale, when a sufficient quantity is absorbed by the organism." [] subset: 3_STAR synonym: "poisonous agent" RELATED [ChEBI] synonym: "poisonous agents" RELATED [ChEBI] synonym: "poisonous substance" RELATED [ChEBI] synonym: "poisonous substances" RELATED [ChEBI] synonym: "poisons" RELATED [ChEBI] synonym: "toxic agent" RELATED [ChEBI] synonym: "toxic agents" RELATED [ChEBI] synonym: "toxic substance" RELATED [ChEBI] synonym: "toxic substances" RELATED [ChEBI] xref: Wikipedia:Poison is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:64911 name: antimitotic namespace: chebi_ontology def: "Any compound that inhibits cell division (mitosis)." [] subset: 3_STAR synonym: "antimitotics" RELATED [ChEBI] synonym: "mitosis inhibitor" RELATED [ChEBI] synonym: "mitosis inhibitors" RELATED [ChEBI] synonym: "mitotic inhibitor" RELATED [ChEBI] synonym: "mitotic inhibitors" RELATED [ChEBI] xref: Wikipedia:Mitotic_inhibitor is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:64915 name: antiplasmodial drug namespace: chebi_ontology def: "An antiparasitic drug which is effective against Apicomplexan parasites in the genus Plasmodium. The genus contains over 200 species and includes those responsible for malaria." [] subset: 3_STAR synonym: "antiplasmodial agent" RELATED [ChEBI] synonym: "antiplasmodial agents" RELATED [ChEBI] synonym: "antiplasmodial drugs" RELATED [ChEBI] synonym: "antiplasmodium agent" RELATED [ChEBI] synonym: "antiplasmodium agents" RELATED [ChEBI] synonym: "antiplasmodium drug" RELATED [ChEBI] synonym: "antiplasmodium drugs" RELATED [ChEBI] is_a: CHEBI:35820 ! antiprotozoal drug [Term] id: CHEBI:65255 name: food preservative namespace: chebi_ontology def: "Substances which are added to food in order to prevent decomposition caused by microbial growth or by undesirable chemical changes." [] subset: 3_STAR synonym: "food preservatives" RELATED [ChEBI] is_a: CHEBI:64047 ! food additive [Term] id: CHEBI:65256 name: antimicrobial food preservative namespace: chebi_ontology def: "A food preservative which prevents decomposition of food by preventing the growth of fungi or bacteria. In European countries, E-numbers for permitted food preservatives are from E200 to E299, divided into sorbates (E200-209), benzoates (E210-219), sulfites (E220-229), phenols and formates (E230-239), nitrates (E240-259), acetates (E260-269), lactates (E270-279), propionates (E280-289) and others (E290-299)." [] subset: 3_STAR synonym: "antimicrobial food preservatives" RELATED [ChEBI] synonym: "antimicrobial preservative" RELATED [ChEBI] synonym: "antimicrobial preservatives" RELATED [ChEBI] is_a: CHEBI:33281 ! antimicrobial agent is_a: CHEBI:65255 ! food preservative [Term] id: CHEBI:65296 name: primary ammonium ion namespace: chebi_ontology def: "An ammonium ion resulting from the protonation of the nitrogen atom of a primary amine. Major species at pH 7.3." [] subset: 3_STAR synonym: "a primary amine" RELATED [UniProt] synonym: "substituted ammonium" RELATED [ChEBI] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: is_conjugate_acid_of CHEBI:32877 ! primary amine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3NR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.031" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.02655" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][*]" xsd:string [Term] id: CHEBI:67114 name: ryanodine receptor agonist namespace: chebi_ontology def: "A ryanodine receptor modulator which activates the receptor. Ryanodine receptors (RyRs) act as selective ion channels, modulating the release of calcium. Activating the receptors causes the release of calcium, so depleting internal calcium and ultimately preventing further muscle contraction." [] subset: 3_STAR synonym: "ryanodine receptor activator" RELATED [ChEBI] synonym: "ryanodine receptor activators" RELATED [ChEBI] synonym: "RyR activator" RELATED [ChEBI] synonym: "RyR activators" RELATED [ChEBI] synonym: "RyR agonist" RELATED [ChEBI] synonym: "RyR agonists" RELATED [ChEBI] synonym: "RyRs activator" RELATED [ChEBI] synonym: "RyRs agonist" RELATED [ChEBI] xref: PMID:8597061 "Europe PMC" xref: Wikipedia:Ryanodine_receptor is_a: CHEBI:38809 ! ryanodine receptor modulator [Term] id: CHEBI:67142 name: nucleobase analogue namespace: chebi_ontology def: "A molecule that can substitute for a normal nucleobase in nucleic acids." [] subset: 3_STAR synonym: "base analog" RELATED [ChEBI] synonym: "base analogs" RELATED [ChEBI] synonym: "base analogue" RELATED [ChEBI] synonym: "base analogues" RELATED [ChEBI] synonym: "nucleobase analog" RELATED [ChEBI] synonym: "nucleobase analogs" RELATED [ChEBI] synonym: "nucleobase analogues" RELATED [ChEBI] xref: Wikipedia:Base_analog is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:6835 name: methomyl namespace: chebi_ontology def: "A carbamate ester obtained by the formal condensation of methylcarbamic acid with the hydroxy group of 1-(methylsulfanyl)acetaldoxime." [] subset: 3_STAR synonym: "1-(Methylthio)acetaldehyde O-methylcarbamoyloxime" RELATED [ChemIDplus] synonym: "1-(Methylthio)ethylideneamino methylcarbamate" RELATED [ChemIDplus] synonym: "Lannate" RELATED [ChemIDplus] synonym: "Methomyl" EXACT [KEGG_COMPOUND] synonym: "Methomyl lannate" RELATED [NIST_Chemistry_WebBook] synonym: "methyl N-(methylcarbamoyloxy)ethanimidothioate" EXACT IUPAC_NAME [IUPAC] synonym: "N-(((methylamino)carbonyl)oxy)ethanimidothioic acid methyl ester" RELATED [ChemIDplus] synonym: "S-Methyl N-(methylcarbamoyloxy)thioacetimidate" RELATED [ChemIDplus] xref: Beilstein:2042050 "Beilstein" xref: CAS:16752-77-5 "KEGG COMPOUND" xref: HMDB:HMDB0031804 xref: KEGG:C11196 xref: LINCS:LSM-24991 xref: Pesticides:methomyl "Alan Wood's Pesticides" xref: PMID:11327381 "Europe PMC" xref: PMID:11758270 "Europe PMC" xref: PPDB:458 xref: Reaxys:2042050 "Reaxys" xref: Wikipedia:Methomyl is_a: CHEBI:22327 ! aliphatic sulfide is_a: CHEBI:23003 ! carbamate ester relationship: has_functional_parent CHEBI:38534 ! 1-(methylsulfanyl)acetaldoxime relationship: has_functional_parent CHEBI:45379 ! methylcarbamic acid relationship: has_role CHEBI:22153 ! acaricide relationship: has_role CHEBI:24852 ! insecticide relationship: has_role CHEBI:25491 ! nematicide relationship: has_role CHEBI:33286 ! agrochemical relationship: has_role CHEBI:35703 ! xenobiotic relationship: has_role CHEBI:37733 ! EC 3.1.1.8 (cholinesterase) inhibitor relationship: has_role CHEBI:38462 ! EC 3.1.1.7 (acetylcholinesterase) inhibitor relationship: has_role CHEBI:78298 ! environmental contaminant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H10N2O2S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H10N2O2S/c1-4(10-3)7-9-5(8)6-2/h1-3H3,(H,6,8)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UHXUZOCRWCRNSJ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "162.21118" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "162.04630" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CNC(=O)ON=C(C)SC" xsd:string [Term] id: CHEBI:68495 name: apoptosis inducer namespace: chebi_ontology def: "Any substance that induces the process of apoptosis (programmed cell death) in multi-celled organisms." [] subset: 3_STAR synonym: "apoptosis inducers" RELATED [ChEBI] synonym: "Type I cell-death inducer" RELATED [ChEBI] synonym: "Type I cell-death inducers" RELATED [ChEBI] synonym: "Type I programmed cell-death inducer" RELATED [ChEBI] synonym: "Type I programmed cell-death inducers" RELATED [ChEBI] is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:71232 name: adenosine receptor antagonist namespace: chebi_ontology def: "An antagonist at any adenosine receptor." [] subset: 3_STAR synonym: "adenosine receptor antagonists" RELATED [ChEBI] xref: Wikipedia:Adenosine_receptor is_a: CHEBI:48706 ! antagonist [Term] id: CHEBI:71300 name: EC 2.* (transferase) inhibitor namespace: chebi_ontology def: "An enzyme inhibitor that inhibits the action of a transferase (EC 2.*)" [] subset: 3_STAR synonym: "EC 2 inhibitor" RELATED [ChEBI] synonym: "EC 2 inhibitors" RELATED [ChEBI] synonym: "EC 2.* (transferase) inhibitors" RELATED [ChEBI] synonym: "EC 2.* inhibitor" RELATED [ChEBI] synonym: "EC 2.* inhibitors" RELATED [ChEBI] synonym: "transferase inhibitor" RELATED [ChEBI] synonym: "transferase inhibitors" RELATED [ChEBI] xref: Wikipedia:Transferase is_a: CHEBI:23924 ! enzyme inhibitor [Term] id: CHEBI:71666 name: gamma-amino acid anion namespace: chebi_ontology def: "An amino-acid anion in which the amino group is situated gamma- to the carboxylate group." [] subset: 3_STAR synonym: "gamma-amino acid anions" RELATED [ChEBI] is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33707 ! gamma-amino acid [Term] id: CHEBI:72695 name: organic molecule namespace: chebi_ontology def: "Any molecule that consists of at least one carbon atom as part of the electrically neutral entity." [] subset: 3_STAR synonym: "organic compound" RELATED [ChEBI] synonym: "organic compounds" RELATED [ChEBI] synonym: "organic molecules" RELATED [ChEBI] is_a: CHEBI:25367 ! molecule is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:73216 name: EC 3.6.* (hydrolases acting on acid anhydrides) inhibitor namespace: chebi_ontology alt_id: CHEBI:76765 def: "Any hydrolase inhibitor that interferes with the action of a hydrolase which acts on acid anhydrides (EC 3.6.*.*)." [] subset: 3_STAR synonym: "acid anhydride hydrolase inhibitor" RELATED [ChEBI] synonym: "acid anhydride hydrolase inhibitors" RELATED [ChEBI] synonym: "EC 3.6 inhibitor" RELATED [ChEBI] synonym: "EC 3.6 inhibitors" RELATED [ChEBI] synonym: "EC 3.6.* (hydrolases acting on acid anhydrides) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.* inhibitor" RELATED [ChEBI] synonym: "EC 3.6.* inhibitors" RELATED [ChEBI] synonym: "EC 3.6.*.* inhibitor" RELATED [ChEBI] synonym: "EC 3.6.*.* inhibitors" RELATED [ChEBI] synonym: "inhibitor of hydrolase acting on acid anhydride (EC 3.6.*)" RELATED [ChEBI] synonym: "inhibitors of hydrolase acting on acid anhydride (EC 3.6.*)" RELATED [ChEBI] is_a: CHEBI:76759 ! EC 3.* (hydrolase) inhibitor [Term] id: CHEBI:73398 name: indole skeleton namespace: chebi_ontology def: "A mancude heterobicyclic organic group consisting of a benzene ring fused to a pyrrole ring." [] subset: 3_STAR is_a: CHEBI:73541 ! organic heterobicyclic ring property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "110.09230" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "110.00307" xsd:string [Term] id: CHEBI:73541 name: organic heterobicyclic ring namespace: chebi_ontology def: "A bicyclic organic group that contains both carbon and hetero atoms." [] subset: 3_STAR synonym: "organic heterobicyclic rings" RELATED [ChEBI] is_a: CHEBI:52845 ! cyclic organic group [Term] id: CHEBI:73693 name: ketone body namespace: chebi_ontology def: "A carbonyl compound produced as a water-soluble byproduct when fatty acids are broken down for energy in the liver. There are three endogenous ketone bodies: acetone, acetoacetic acid, and (R)-3-hydroxybutyric acid; others may be produced as a result of the metabolism of synthetic triglycerides." [] subset: 3_STAR synonym: "ketone bodies" RELATED [ChEBI] xref: PMID:10634967 "Europe PMC" xref: PMID:19159745 "Europe PMC" xref: PMID:22259088 "Europe PMC" xref: PMID:22268909 "Europe PMC" xref: PMID:22524563 "Europe PMC" xref: PMID:22879057 "Europe PMC" xref: PMID:23082721 "Europe PMC" xref: PMID:23148246 "Europe PMC" xref: PMID:23396451 "Europe PMC" xref: PMID:23466063 "Europe PMC" xref: PMID:23557707 "Europe PMC" xref: Wikipedia:Ketone_body is_a: CHEBI:36586 ! carbonyl compound is_a: CHEBI:61697 ! fatty acid derivative relationship: has_role CHEBI:25212 ! metabolite relationship: has_role CHEBI:63726 ! neuroprotective agent [Term] id: CHEBI:74634 name: cardenolides namespace: chebi_ontology def: "Any steroid lactone that is a C23 steroid with a five-membered lactone ring at C-17 and its substituted derivatives. They form the aglycone constituents of cardiac glycosides." [] subset: 3_STAR is_a: CHEBI:26766 ! steroid lactone is_a: CHEBI:50523 ! butenolide [Term] id: CHEBI:74783 name: astringent namespace: chebi_ontology def: "A compound that causes the contraction of body tissues, typically used to reduce bleeding from minor abrasions." [] subset: 3_STAR synonym: "adstringent" RELATED [ChEBI] synonym: "adstringents" RELATED [ChEBI] synonym: "astringents" RELATED [ChEBI] xref: Wikipedia:Astringent is_a: CHEBI:23888 ! drug [Term] id: CHEBI:75763 name: eukaryotic metabolite namespace: chebi_ontology def: "Any metabolite produced during a metabolic reaction in eukaryotes, the taxon that include members of the fungi, plantae and animalia kingdoms." [] subset: 3_STAR synonym: "eukaryotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:75767 name: animal metabolite namespace: chebi_ontology alt_id: CHEBI:77721 alt_id: CHEBI:77743 def: "Any eukaryotic metabolite produced during a metabolic reaction in animals that include diverse creatures from sponges, insects to mammals." [] subset: 3_STAR synonym: "animal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:75768 name: mammalian metabolite namespace: chebi_ontology alt_id: CHEBI:77464 alt_id: CHEBI:77744 def: "Any animal metabolite produced during a metabolic reaction in mammals." [] subset: 3_STAR synonym: "mammalian metabolites" RELATED [ChEBI] is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:75771 name: mouse metabolite namespace: chebi_ontology def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] subset: 3_STAR synonym: "mouse metabolites" RELATED [ChEBI] synonym: "Mus musculus metabolite" RELATED [ChEBI] synonym: "Mus musculus metabolites" RELATED [ChEBI] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:75772 name: Saccharomyces cerevisiae metabolite namespace: chebi_ontology alt_id: CHEBI:76949 alt_id: CHEBI:76951 def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae)." [] subset: 3_STAR synonym: "baker's yeast metabolite" RELATED [ChEBI] synonym: "baker's yeast metabolites" RELATED [ChEBI] synonym: "baker's yeast secondary metabolite" RELATED [ChEBI] synonym: "baker's yeast secondary metabolites" RELATED [ChEBI] synonym: "S. cerevisiae metabolite" RELATED [ChEBI] synonym: "S. cerevisiae metabolites" RELATED [ChEBI] synonym: "S. cerevisiae secondary metabolite" RELATED [ChEBI] synonym: "S. cerevisiae secondary metabolites" RELATED [ChEBI] synonym: "Saccharomyces cerevisiae metabolites" RELATED [ChEBI] synonym: "Saccharomyces cerevisiae secondary metabolites" RELATED [ChEBI] is_a: CHEBI:76946 ! fungal metabolite [Term] id: CHEBI:75787 name: prokaryotic metabolite namespace: chebi_ontology def: "Any metabolite produced during a metabolic reaction in prokaryotes, the taxon that include members of domains such as the bacteria and archaea." [] subset: 3_STAR synonym: "prokaryotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:76206 name: xenobiotic metabolite namespace: chebi_ontology def: "Any metabolite produced by metabolism of a xenobiotic compound." [] subset: 3_STAR synonym: "xenobiotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:76413 name: greenhouse gas namespace: chebi_ontology def: "A gas in an atmosphere that absorbs and emits radiation within the thermal infrared range, so contributing to the 'greenhouse effect'." [] subset: 3_STAR synonym: "greenhouse gases" RELATED [ChEBI] xref: Wikipedia:Greenhouse_gas is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:76414 name: propellant namespace: chebi_ontology def: "A compressed gas or liquid with a boiling point lower than room temperature which to used to propel and dispense liquids such as deodorants, insecticides, paints, etc. from aerosol cans." [] subset: 3_STAR synonym: "propellants" RELATED [ChEBI] xref: PMID:22519407 "Europe PMC" xref: PMID:24001847 "Europe PMC" is_a: CHEBI:33232 ! application [Term] id: CHEBI:76507 name: marine metabolite namespace: chebi_ontology alt_id: CHEBI:77078 def: "Any metabolite produced during a metabolic reaction in marine macro- and microorganisms." [] subset: 3_STAR synonym: "marine metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:76661 name: EC 2.3.* (acyltransferase) inhibitor namespace: chebi_ontology def: "A transferase inhibitor that interferes with the action of an acyltransferase (EC 2.3.*.*)." [] subset: 3_STAR synonym: "acyltransferase inhibitor" RELATED [ChEBI] synonym: "acyltransferase inhibitors" RELATED [ChEBI] synonym: "EC 2.3.* (acyltransferase) inhibitors" RELATED [ChEBI] synonym: "EC 2.3.* inhibitor" RELATED [ChEBI] synonym: "EC 2.3.* inhibitors" RELATED [ChEBI] is_a: CHEBI:71300 ! EC 2.* (transferase) inhibitor [Term] id: CHEBI:76668 name: EC 2.7.* (P-containing group transferase) inhibitor namespace: chebi_ontology def: "A transferase inhibitor that inhibits the action of a phosphorus-containing group transferase (EC 2.7.*.*)." [] subset: 3_STAR synonym: "EC 2.7.* (P-containing group transferase) inhibitors" RELATED [ChEBI] synonym: "EC 2.7.* (phosphorus-containing group transferase) inhibitor" RELATED [ChEBI] synonym: "EC 2.7.* (phosphorus-containing group transferase) inhibitors" RELATED [ChEBI] synonym: "EC 2.7.* inhibitor" RELATED [ChEBI] synonym: "EC 2.7.* inhibitors" RELATED [ChEBI] synonym: "phosphorus-containing group transferase (EC 2.7.*) inhibitor" RELATED [ChEBI] synonym: "phosphorus-containing group transferase (EC 2.7.*) inhibitors" RELATED [ChEBI] synonym: "phosphorus-containing group transferase inhibitor" RELATED [ChEBI] synonym: "phosphorus-containing group transferase inhibitors" RELATED [ChEBI] is_a: CHEBI:71300 ! EC 2.* (transferase) inhibitor [Term] id: CHEBI:76759 name: EC 3.* (hydrolase) inhibitor namespace: chebi_ontology def: "Any enzyme inhibitor that interferes with the action of a hydrolase (EC 3.*.*.*)." [] subset: 3_STAR synonym: "EC 3.* (hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.* inhibitor" RELATED [ChEBI] synonym: "EC 3.* inhibitors" RELATED [ChEBI] synonym: "EC 3.*.*.* inhibitor" RELATED [ChEBI] synonym: "EC 3.*.*.* inhibitors" RELATED [ChEBI] synonym: "hydrolase (EC 3.*) inhibitor" RELATED [ChEBI] synonym: "hydrolase (EC 3.*) inhibitors" RELATED [ChEBI] synonym: "hydrolase inhibitor" RELATED [ChEBI] synonym: "hydrolase inhibitors" RELATED [ChEBI] xref: Wikipedia:Hydrolase is_a: CHEBI:23924 ! enzyme inhibitor [Term] id: CHEBI:76760 name: EC 3.1.* (ester hydrolase) inhibitor namespace: chebi_ontology def: "A hydrolase inhibitor that interferes with the action of any ester hydrolase (EC 3.1.*.*)." [] subset: 3_STAR synonym: "EC 3.1.* (ester hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.* inhibitor" RELATED [ChEBI] synonym: "EC 3.1.* inhibitors" RELATED [ChEBI] synonym: "ester hydrolase (EC 3.1.*) inhibitor" RELATED [ChEBI] synonym: "ester hydrolase (EC 3.1.*) inhibitors" RELATED [ChEBI] synonym: "ester hydrolase inhibitor" RELATED [ChEBI] synonym: "ester hydrolase inhibitors" RELATED [ChEBI] is_a: CHEBI:76759 ! EC 3.* (hydrolase) inhibitor [Term] id: CHEBI:76764 name: EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor namespace: chebi_ontology def: "Any hydrolase inhibitor that interferes with the action of a hydrolase acting on C-N bonds, other than peptide bonds (EC 3.5.*.*)." [] subset: 3_STAR synonym: "EC 3.5.* (hydrolase acting on non-peptide C-N bond) inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolase acting on non-peptide C-N bond) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on C-N bonds, other than peptide bonds) inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on C-N bonds, other than peptide bonds) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* inhibitors" RELATED [ChEBI] is_a: CHEBI:76759 ! EC 3.* (hydrolase) inhibitor [Term] id: CHEBI:76773 name: EC 3.1.1.* (carboxylic ester hydrolase) inhibitor namespace: chebi_ontology def: "An EC 3.1.* (ester hydrolase) inhibitor that interferes with the action of a carboxylic ester hydrolase (EC 3.1.1.*)." [] subset: 3_STAR synonym: "carboxylic ester hydrolase (EC 3.1.1.*) inhibitor" RELATED [ChEBI] synonym: "carboxylic ester hydrolase (EC 3.1.1.*) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.1.* (carboxylic ester hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.1.* inhibitor" RELATED [ChEBI] synonym: "EC 3.1.1.* inhibitors" RELATED [ChEBI] is_a: CHEBI:76760 ! EC 3.1.* (ester hydrolase) inhibitor [Term] id: CHEBI:76775 name: EC 3.1.3.* (phosphoric monoester hydrolase) inhibitor namespace: chebi_ontology def: "An EC 3.1.* (ester hydrolase) inhibitor that interferes with the action of any phosphoric monoester hydrolase (EC 3.1.3.*)." [] subset: 3_STAR synonym: "EC 3.1.3.* (phosphoric monoester hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.3.* inhibitor" RELATED [ChEBI] synonym: "EC 3.1.3.* inhibitors" RELATED [ChEBI] synonym: "inhibitor of phosphoric monoester hydrolase" RELATED [ChEBI] synonym: "inhibitor of phosphoric monoester hydrolase (EC 3.1.3.*)" RELATED [ChEBI] synonym: "inhibitors of phosphoric monoester hydrolase" RELATED [ChEBI] synonym: "inhibitors of phosphoric monoester hydrolase (EC 3.1.3.*)" RELATED [ChEBI] synonym: "phosphoric monoester hydrolase (EC 3.1.3.*) inhibitor" RELATED [ChEBI] synonym: "phosphoric monoester hydrolase (EC 3.1.3.*) inhibitors" RELATED [ChEBI] synonym: "phosphoric monoester hydrolase inhibitor" RELATED [ChEBI] synonym: "phosphoric monoester hydrolase inhibitors" RELATED [ChEBI] is_a: CHEBI:76760 ! EC 3.1.* (ester hydrolase) inhibitor [Term] id: CHEBI:76779 name: EC 3.4.21.26 (prolyl oligopeptidase) inhibitor namespace: chebi_ontology def: "Any EC 3.4.21.* (serine endopeptidase) inhibitor that interferes with the action of prolyl oligopeptidase (EC 3.4.21.26)." [] subset: 3_STAR synonym: "EC 3.4.21.26 (prolyl oligopeptidase) inhibitors" RELATED [ChEBI] synonym: "EC 3.4.21.26 inhibitor" RELATED [ChEBI] synonym: "EC 3.4.21.26 inhibitors" RELATED [ChEBI] synonym: "endoprolylpeptidase inhibitor" RELATED [ChEBI] synonym: "endoprolylpeptidase inhibitors" RELATED [ChEBI] synonym: "post-proline cleaving enzyme inhibitor" RELATED [ChEBI] synonym: "post-proline cleaving enzyme inhibitors" RELATED [ChEBI] synonym: "post-proline endopeptidase inhibitor" RELATED [ChEBI] synonym: "post-proline endopeptidase inhibitors" RELATED [ChEBI] synonym: "proline endopeptidase inhibitor" RELATED [ChEBI] synonym: "proline endopeptidase inhibitors" RELATED [ChEBI] synonym: "proline-specific endopeptidase inhibitor" RELATED [ChEBI] synonym: "proline-specific endopeptidase inhibitors" RELATED [ChEBI] synonym: "prolyl endopeptidase inhibitor" RELATED [ChEBI] synonym: "prolyl endopeptidase inhibitors" RELATED [ChEBI] synonym: "prolyl oligopeptidase (EC 3.4.21.26) inhibitor" RELATED [ChEBI] synonym: "prolyl oligopeptidase (EC 3.4.21.26) inhibitors" RELATED [ChEBI] synonym: "prolyl oligopeptidase inhibitor" RELATED [ChEBI] is_a: CHEBI:5924 ! EC 3.4.21.* (serine endopeptidase) inhibitor [Term] id: CHEBI:76807 name: EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor namespace: chebi_ontology def: "An EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor that interferes with the action of any non-peptide linear amide C-N hydrolase (EC 3.5.1.*)." [] subset: 3_STAR synonym: "EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.* inhibitor" RELATED [ChEBI] synonym: "EC 3.5.1.* inhibitors" RELATED [ChEBI] synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitor" RELATED [ChEBI] synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76764 ! EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor [Term] id: CHEBI:76812 name: EC 2.7.11.* (protein-serine/threonine kinase) inhibitor namespace: chebi_ontology def: "An EC 2.7.* (P-containing group transferase) inhibitor that interferes with the action of any protein-serine/threonine kinase (EC 2.7.11.*)." [] subset: 3_STAR synonym: "EC 2.7.11.* (protein-serine/threonine kinase) inhibitors" RELATED [ChEBI] synonym: "EC 2.7.11.* inhibitor" RELATED [ChEBI] synonym: "EC 2.7.11.* inhibitors" RELATED [ChEBI] synonym: "protein-serine/threonine kinase (EC 2.7.11.*) inhibitor" RELATED [ChEBI] synonym: "protein-serine/threonine kinase (EC 2.7.11.*) inhibitors" RELATED [ChEBI] synonym: "protein-serine/threonine kinase inhibitor" RELATED [ChEBI] synonym: "protein-serine/threonine kinase inhibitors" RELATED [ChEBI] is_a: CHEBI:37699 ! protein kinase inhibitor [Term] id: CHEBI:76815 name: EC 2.7.7.* (nucleotidyltransferase) inhibitor namespace: chebi_ontology def: "An EC 2.7.* (P-containing group transferase) inhibitor that interferes with the action of any nucleotidyltransferase (EC 2.7.7.*)." [] subset: 3_STAR synonym: "EC 2.7.7.* (nucleotidyltransferase) inhibitors" RELATED [ChEBI] synonym: "inhibitor of nucleotidyltransferases" RELATED [ChEBI] synonym: "inhibitor of nucleotidyltransferases (EC 2.7.7.*)" RELATED [ChEBI] synonym: "inhibitors of nucleotidyltransferases" RELATED [ChEBI] synonym: "inhibitors of nucleotidyltransferases (EC 2.7.7.*)" RELATED [ChEBI] synonym: "nucleotidyltransferase (EC 2.7.7.*) inhibitor" RELATED [ChEBI] synonym: "nucleotidyltransferase (EC 2.7.7.*) inhibitors" RELATED [ChEBI] synonym: "nucleotidyltransferase inhibitor" RELATED [ChEBI] synonym: "nucleotidyltransferase inhibitors" RELATED [ChEBI] is_a: CHEBI:76668 ! EC 2.7.* (P-containing group transferase) inhibitor [Term] id: CHEBI:76895 name: EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitor namespace: chebi_ontology def: "An EC 3.6.* (hydrolases acting on acid anhydrides) inhibitor that interferes with the action of any such enzyme that catalyses transmembrane movement of substances (EC 3.6.3.*)." [] subset: 3_STAR synonym: "acid anhydride hydrolase catalysing transmembrane movement of substances (EC 3.6.3.*) inhibitor" RELATED [ChEBI] synonym: "acid anhydride hydrolase catalysing transmembrane movement of substances (EC 3.6.3.*) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.3.* (acid anhydride hydrolase catalysing transmembrane movement of substances) inhibitors" RELATED [ChEBI] synonym: "EC 3.6.3.* inhibitor" RELATED [ChEBI] synonym: "EC 3.6.3.* inhibitors" RELATED [ChEBI] is_a: CHEBI:73216 ! EC 3.6.* (hydrolases acting on acid anhydrides) inhibitor [Term] id: CHEBI:76924 name: plant metabolite namespace: chebi_ontology alt_id: CHEBI:75766 alt_id: CHEBI:76925 def: "Any eukaryotic metabolite produced during a metabolic reaction in plants, the kingdom that include flowering plants, conifers and other gymnosperms." [] subset: 3_STAR synonym: "plant metabolites" RELATED [ChEBI] synonym: "plant secondary metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:76946 name: fungal metabolite namespace: chebi_ontology alt_id: CHEBI:75765 alt_id: CHEBI:76947 def: "Any eukaryotic metabolite produced during a metabolic reaction in fungi, the kingdom that includes microorganisms such as the yeasts and moulds." [] subset: 3_STAR synonym: "fungal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:76969 name: bacterial metabolite namespace: chebi_ontology alt_id: CHEBI:75760 alt_id: CHEBI:76970 def: "Any prokaryotic metabolite produced during a metabolic reaction in bacteria." [] subset: 3_STAR is_a: CHEBI:75787 ! prokaryotic metabolite [Term] id: CHEBI:76971 name: Escherichia coli metabolite namespace: chebi_ontology def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] subset: 3_STAR synonym: "E.coli metabolite" RELATED [ChEBI] synonym: "E.coli metabolites" RELATED [ChEBI] synonym: "Escherichia coli metabolites" RELATED [ChEBI] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:76988 name: xenoestrogen namespace: chebi_ontology def: "A synthetic or semi-synthetic compound that has oestrogenic activity." [] subset: 3_STAR synonym: "xenoestrogens" RELATED [ChEBI] xref: Wikipedia:Xenoestrogen is_a: CHEBI:138015 ! endocrine disruptor is_a: CHEBI:50114 ! estrogen [Term] id: CHEBI:77022 name: EC 2.3.3.* (acyltransferase converting acyl to alkyl group on transfer) inhibitor namespace: chebi_ontology def: "An EC 2.3.* (acyltransferase) inhibitor that interferes with the action of an acyltransferase which converts the acyl group to an alkyl group on transfer (EC 2.3.3.*)." [] subset: 3_STAR synonym: "acyltransferase converting acyl to alkyl group on transfer (EC 2.3.3.*) inhibitor" RELATED [ChEBI] synonym: "acyltransferase converting acyl to alkyl group on transfer (EC 2.3.3.*) inhibitors" RELATED [ChEBI] synonym: "EC 2.3.3.* (acyltransferase converting acyl to alkyl group on transfer) inhibitors" RELATED [ChEBI] synonym: "EC 2.3.3.* inhibitor" RELATED [ChEBI] synonym: "EC 2.3.3.* inhibitors" RELATED [ChEBI] is_a: CHEBI:76661 ! EC 2.3.* (acyltransferase) inhibitor [Term] id: CHEBI:77023 name: EC 2.3.3.1 [citrate (Si)-synthase] inhibitor namespace: chebi_ontology def: "An EC 2.3.3.* (acyltransferase converting acyl to alkyl group on transfer) inhibitor that interferes with the action of citrate (Si)-synthase, EC 2.3.3.1." [] subset: 3_STAR synonym: "(R)-citrate synthase inhibitor" RELATED [ChEBI] synonym: "(R)-citrate synthase inhibitors" RELATED [ChEBI] synonym: "acetyl-CoA:oxaloacetate C-acetyltransferase [thioester-hydrolysing, (pro-S)-carboxymethyl forming] inhibitor" RELATED [ChEBI] synonym: "acetyl-CoA:oxaloacetate C-acetyltransferase [thioester-hydrolysing, (pro-S)-carboxymethyl forming] inhibitors" RELATED [ChEBI] synonym: "citrate (Si)-synthase (EC 2.3.3.1) inhibitor" RELATED [ChEBI] synonym: "citrate (Si)-synthase (EC 2.3.3.1) inhibitors" RELATED [ChEBI] synonym: "citrate condensing enzyme inhibitor" RELATED [ChEBI] synonym: "citrate condensing enzyme inhibitors" RELATED [ChEBI] synonym: "citrate oxaloacetate-lyase [(pro-3S)-CH2COO->acetyl-CoA] inhibitor" RELATED [ChEBI] synonym: "citrate oxaloacetate-lyase [(pro-3S)-CH2COO->acetyl-CoA] inhibitors" RELATED [ChEBI] synonym: "citrate oxaloacetate-lyase, CoA-acetylating inhibitor" RELATED [ChEBI] synonym: "citrate oxaloacetate-lyase, CoA-acetylating inhibitors" RELATED [ChEBI] synonym: "citrate synthase inhibitor" RELATED [ChEBI] synonym: "citrate synthase inhibitors" RELATED [ChEBI] synonym: "citrate synthetase inhibitor" RELATED [ChEBI] synonym: "citrate synthetase inhibitors" RELATED [ChEBI] synonym: "citric synthase inhibitor" RELATED [ChEBI] synonym: "citric synthase inhibitors" RELATED [ChEBI] synonym: "citric-condensing enzyme inhibitor" RELATED [ChEBI] synonym: "citric-condensing enzyme inhibitors" RELATED [ChEBI] synonym: "citrogenase inhibitor" RELATED [ChEBI] synonym: "citrogenase inhibitors" RELATED [ChEBI] synonym: "condensing enzyme inhibitor" RELATED [ChEBI] synonym: "condensing enzyme inhibitors" RELATED [ChEBI] synonym: "EC 2.3.3.1 (citrate (Si)-synthase) inhibitor" RELATED [ChEBI] synonym: "EC 2.3.3.1 (citrate (Si)-synthase) inhibitors" RELATED [ChEBI] synonym: "EC 2.3.3.1 [citrate (Si)-synthase] inhibitors" RELATED [ChEBI] synonym: "EC 2.3.3.1 inhibitor" RELATED [ChEBI] synonym: "EC 2.3.3.1 inhibitors" RELATED [ChEBI] synonym: "oxalacetic transacetase inhibitor" RELATED [ChEBI] synonym: "oxalacetic transacetase inhibitors" RELATED [ChEBI] synonym: "oxaloacetate transacetase inhibitor" RELATED [ChEBI] synonym: "oxaloacetate transacetase inhibitors" RELATED [ChEBI] xref: Wikipedia:Citrate_synthase is_a: CHEBI:77022 ! EC 2.3.3.* (acyltransferase converting acyl to alkyl group on transfer) inhibitor [Term] id: CHEBI:77024 name: EC 3.1.3.41 (4-nitrophenylphosphatase) inhibitor namespace: chebi_ontology def: "An EC 3.1.3.* (phosphoric monoester hydrolase) inhibitor that interferes with the action of 4-nitrophenylphosphatase (EC 3.1.3.41)." [] subset: 3_STAR synonym: "4-nitrophenylphosphatase (EC 3.1.3.41) inhibitor" RELATED [ChEBI] synonym: "4-nitrophenylphosphatase (EC 3.1.3.41) inhibitors" RELATED [ChEBI] synonym: "4-nitrophenylphosphate phosphohydrolase inhibitor" RELATED [ChEBI] synonym: "4-nitrophenylphosphate phosphohydrolase inhibitors" RELATED [ChEBI] synonym: "EC 3.1.3.41 (4-nitrophenylphosphatase) inhibitors" RELATED [ChEBI] synonym: "EC 3.1.3.41 inhibitor" RELATED [ChEBI] synonym: "EC 3.1.3.41 inhibitors" RELATED [ChEBI] synonym: "Ecto-p-nitrophenyl phosphatase inhibitor" RELATED [ChEBI] synonym: "Ecto-p-nitrophenyl phosphatase inhibitors" RELATED [ChEBI] synonym: "K-pNPPase inhibitor" RELATED [ChEBI] synonym: "K-pNPPase inhibitors" RELATED [ChEBI] synonym: "nitrophenyl phosphatase inhibitor" RELATED [ChEBI] synonym: "nitrophenyl phosphatase inhibitors" RELATED [ChEBI] synonym: "NPPase inhibitor" RELATED [ChEBI] synonym: "NPPase inhibitors" RELATED [ChEBI] synonym: "p-nitrophenylphosphatase inhibitor" RELATED [ChEBI] synonym: "p-nitrophenylphosphatase inhibitors" RELATED [ChEBI] synonym: "p-nitrophenylphosphate phosphohydrolase inhibitor" RELATED [ChEBI] synonym: "p-nitrophenylphosphate phosphohydrolase inhibitors" RELATED [ChEBI] synonym: "para-nitrophenyl phosphatase inhibitor" RELATED [ChEBI] synonym: "para-nitrophenyl phosphatase inhibitors" RELATED [ChEBI] synonym: "PNPPase inhibitor" RELATED [ChEBI] synonym: "PNPPase inhibitors" RELATED [ChEBI] synonym: "xK-pNPPase inhibitors" RELATED [ChEBI] xref: Wikipedia:4-nitrophenylphosphatase is_a: CHEBI:76775 ! EC 3.1.3.* (phosphoric monoester hydrolase) inhibitor [Term] id: CHEBI:77307 name: cardioprotective agent namespace: chebi_ontology def: "Any protective agent that is able to prevent damage to the heart." [] subset: 3_STAR synonym: "cardioprotective agents" RELATED [ChEBI] is_a: CHEBI:50267 ! protective agent [Term] id: CHEBI:77746 name: human metabolite namespace: chebi_ontology alt_id: CHEBI:75770 alt_id: CHEBI:77123 def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] subset: 3_STAR synonym: "H. sapiens metabolite" RELATED [ChEBI] synonym: "H. sapiens metabolites" RELATED [ChEBI] synonym: "Homo sapiens metabolite" RELATED [ChEBI] synonym: "Homo sapiens metabolites" RELATED [ChEBI] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:77941 name: EC 3.5.1.4 (amidase) inhibitor namespace: chebi_ontology def: "An EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor that interferes with the action of amidase (EC 3.5.1.4)." [] subset: 3_STAR synonym: "acylamidase inhibitor" RELATED [ChEBI] synonym: "acylamidase inhibitors" RELATED [ChEBI] synonym: "acylamide amidohydrolase inhibitor" RELATED [ChEBI] synonym: "acylamide amidohydrolase inhibitors" RELATED [ChEBI] synonym: "amidase (EC 3.5.1.4) inhibitor" RELATED [ChEBI] synonym: "amidase (EC 3.5.1.4) inhibitors" RELATED [ChEBI] synonym: "amidase inhibitor" RELATED [ChEBI] synonym: "amidase inhibitors" RELATED [ChEBI] synonym: "amidohydrolase inhibitor" RELATED [ChEBI] synonym: "amidohydrolase inhibitors" RELATED [ChEBI] synonym: "deaminase inhibitor" RELATED [ChEBI] synonym: "deaminase inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.4 (amidase) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.4 inhibitor" RELATED [ChEBI] synonym: "EC 3.5.1.4 inhibitors" RELATED [ChEBI] synonym: "fatty acylamidase inhibitor" RELATED [ChEBI] synonym: "fatty acylamidase inhibitors" RELATED [ChEBI] synonym: "N-acetylaminohydrolase inhibitor" RELATED [ChEBI] synonym: "N-acetylaminohydrolase inhibitors" RELATED [ChEBI] xref: Wikipedia:Amidase is_a: CHEBI:76807 ! EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor [Term] id: CHEBI:77974 name: food packaging gas namespace: chebi_ontology def: "A food additive that is a (generally inert) gas which is used to envelop foodstuffs during packing and so protect them from unwanted chemical reactions such as food spoilage or oxidation during subsequent transport and storage. The term includes propellant gases, used to expel foods from a container." [] subset: 3_STAR synonym: "food packaging gases" RELATED [ChEBI] xref: Wikipedia:Packaging_gas is_a: CHEBI:64047 ! food additive [Term] id: CHEBI:78017 name: food propellant namespace: chebi_ontology def: "A propellant that is used to expel foods from an aerosol container." [] subset: 3_STAR synonym: "food propellants" RELATED [ChEBI] is_a: CHEBI:64047 ! food additive is_a: CHEBI:76414 ! propellant [Term] id: CHEBI:78115 name: fatty acid anion 4:0 namespace: chebi_ontology def: "Any saturated fatty acid anion containing 4 carbons. Formed by deprotonation of the carboxylic acid moiety. Major species at pH 7.3." [] subset: 3_STAR synonym: "fatty acid 4:0" RELATED [UniProt] is_a: CHEBI:58951 ! short-chain fatty acid anion is_a: CHEBI:58953 ! saturated fatty acid anion relationship: is_conjugate_base_of CHEBI:140601 ! fatty acid 4:0 property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H7O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "87.09718" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "87.04460" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:78116 name: fatty acid anion 6:0 namespace: chebi_ontology def: "Any saturated fatty acid anion containing 6 carbons. Formed by deprotonation of the carboxylic acid moiety. Major species at pH 7.3." [] subset: 3_STAR synonym: "fatty acid 6:0" RELATED [UniProt] is_a: CHEBI:58953 ! saturated fatty acid anion is_a: CHEBI:59558 ! medium-chain fatty acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H11O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "115.15034" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "115.07590" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:78295 name: food component namespace: chebi_ontology def: "Any substance that is distributed in foodstuffs. It includes materials derived from plants or animals, such as vitamins or minerals, as well as environmental contaminants." [] subset: 3_STAR synonym: "dietary component" RELATED [ChEBI] synonym: "dietary components" RELATED [ChEBI] synonym: "food components" RELATED [ChEBI] is_a: CHEBI:52211 ! physiological role [Term] id: CHEBI:78298 name: environmental contaminant namespace: chebi_ontology def: "Any minor or unwanted substance introduced into the environment that can have undesired effects." [] subset: 3_STAR synonym: "environmental contaminants" RELATED [ChEBI] is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:78433 name: refrigerant namespace: chebi_ontology def: "A substance used in a thermodynamic heat pump cycle or refrigeration cycle that undergoes a phase change from a gas to a liquid and back. Refrigerants are used in air-conditioning systems and freezers or refrigerators and are assigned a \"R\" number (by ASHRAE - formerly the American Society of Heating, Refrigerating and Air Conditioning Engineers), which is determined systematically according to their molecular structure." [] subset: 3_STAR synonym: "refrigerants" RELATED [ChEBI] xref: Wikipedia:Refrigerant is_a: CHEBI:33232 ! application [Term] id: CHEBI:78608 name: alpha-amino acid zwitterion namespace: chebi_ontology alt_id: CHEBI:83409 def: "An amino acid zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." [] subset: 3_STAR synonym: "an alpha-amino acid" RELATED [UniProt] xref: MetaCyc:Alpha-Amino-Acids "SUBMITTER" is_a: CHEBI:35238 ! amino acid zwitterion relationship: is_tautomer_of CHEBI:33704 ! alpha-amino acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "74.059" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]C([*])C([O-])=O" xsd:string [Term] id: CHEBI:78616 name: carbohydrates and carbohydrate derivatives namespace: chebi_ontology def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] subset: 3_STAR synonym: "carbohydrates and derivatives" RELATED [ChEBI] synonym: "carbohydrates and their derivatives" RELATED [ChEBI] is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:78675 name: fundamental metabolite namespace: chebi_ontology def: "Any metabolite produced by all living cells." [] subset: 3_STAR synonym: "essential metabolite" RELATED [ChEBI] synonym: "essential metabolites" RELATED [ChEBI] synonym: "fundamental metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:79008 name: (R)-nicotinium(1+) namespace: chebi_ontology def: "The conjugate acid of (R)-nicotine arising from selective protonation of the tertiary amino group; major species at pH 7.3." [] subset: 3_STAR synonym: "(2R)-1-methyl-2-(pyridin-3-yl)pyrrolidinium" EXACT IUPAC_NAME [IUPAC] synonym: "(R)-nicotine" RELATED [UniProt] xref: MetaCyc:R-NICOTINE "SUBMITTER" is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: is_conjugate_acid_of CHEBI:39162 ! (R)-nicotine relationship: is_enantiomer_of CHEBI:59806 ! (S)-nicotinium(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H15N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H14N2/c1-12-7-3-5-10(12)9-4-2-6-11-8-9/h2,4,6,8,10H,3,5,7H2,1H3/p+1/t10-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SNICXCGAKADSCV-SNVBAGLBSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "163.23900" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "163.12297" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[NH+]1CCC[C@@H]1c1cccnc1" xsd:string [Term] id: CHEBI:79020 name: alpha,beta-unsaturated monocarboxylic acid namespace: chebi_ontology def: "A monocarboxylic acid in which the carbon of the carboxy group is directly attached to a C=C or C#C bond." [] subset: 3_STAR synonym: "2,3-unsaturated monocarboxylic acid" RELATED [ChEBI] synonym: "2,3-unsaturated monocarboxylic acids" RELATED [ChEBI] synonym: "alpha,beta-unsaturated monocarboxylic acids" RELATED [ChEBI] is_a: CHEBI:25384 ! monocarboxylic acid [Term] id: CHEBI:79387 name: trivalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of three." [] subset: 3_STAR synonym: "trivalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:79388 name: divalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of two." [] subset: 3_STAR synonym: "divalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:79389 name: monovalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of one." [] subset: 3_STAR synonym: "monovalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:82680 name: monounsaturated fatty acid anion namespace: chebi_ontology def: "Any unsaturated fatty acid anion with one double or triple bond in the fatty acid chain." [] subset: 3_STAR synonym: "monounsaturated fatty acid anions" RELATED [ChEBI] is_a: CHEBI:2580 ! unsaturated fatty acid anion relationship: is_conjugate_base_of CHEBI:25413 ! monounsaturated fatty acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:82744 name: aliphatic aldoxime namespace: chebi_ontology def: "Any aldoxime derived from an aliphatic aldehyde." [] subset: 3_STAR synonym: "an aliphatic aldoxime" RELATED [UniProt] xref: MetaCyc:Aliphatic-Aldoximes "SUBMITTER" is_a: CHEBI:22307 ! aldoxime property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.03270" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.01364" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "ON=C[*]" xsd:string [Term] id: CHEBI:83039 name: crustacean metabolite namespace: chebi_ontology def: "An animal metabolite produced by arthropods such as crabs, lobsters, crayfish, shrimps and krill." [] subset: 3_STAR synonym: "crustacean metabolites" RELATED [ChEBI] is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:83056 name: Daphnia magna metabolite namespace: chebi_ontology def: "A Daphnia metabolite produced by the species Daphnia magna." [] subset: 3_STAR synonym: "Daphnia magna metabolites" RELATED [ChEBI] is_a: CHEBI:83057 ! Daphnia metabolite [Term] id: CHEBI:83057 name: Daphnia metabolite namespace: chebi_ontology def: "A crustacean metabolite produced by the genus of small planktonic arthropods, Daphnia" [] subset: 3_STAR synonym: "Daphnia metabolites" RELATED [ChEBI] xref: Wikipedia:Daphnia is_a: CHEBI:83039 ! crustacean metabolite [Term] id: CHEBI:83347 name: organosulfonic ester namespace: chebi_ontology def: "An ester resulting from the formal condensation of the hydroxy group of an alcohol, phenol, heteroarenol, or enol with an organosulfonic acid." [] subset: 3_STAR synonym: "organosulfonate ester" RELATED [ChEBI] synonym: "organosulfonate esters" RELATED [ChEBI] synonym: "organosulfonic esters" RELATED [ChEBI] is_a: CHEBI:33424 ! sulfur oxoacid derivative is_a: CHEBI:35701 ! ester relationship: has_functional_parent CHEBI:33551 ! organosulfonic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O3SR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "80.06300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "79.95681" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]S(=O)(=O)O[*]" xsd:string [Term] id: CHEBI:83399 name: marine xenobiotic metabolite namespace: chebi_ontology def: "Any metabolite produced by metabolism of a xenobiotic compound in marine macro- and microorganisms." [] subset: 3_STAR synonym: "marine xenobiotic metabolites" RELATED [ChEBI] is_a: CHEBI:76206 ! xenobiotic metabolite is_a: CHEBI:76507 ! marine metabolite [Term] id: CHEBI:83565 name: (trifluoromethyl)benzenes namespace: chebi_ontology def: "An organofluorine compound that is (trifluoromethyl)benzene and derivatives arising from substitution of one or more of the phenyl hydrogens." [] subset: 3_STAR is_a: CHEBI:22712 ! benzenes is_a: CHEBI:37143 ! organofluorine compound relationship: has_part CHEBI:50127 ! trifluoromethyl group [Term] id: CHEBI:83820 name: non-proteinogenic amino acid namespace: chebi_ontology def: "Any amino-acid that is not naturally encoded in the genetic code of any organism." [] subset: 3_STAR synonym: "non-canonical amino acid" RELATED [ChEBI] synonym: "non-canonical amino acids" RELATED [ChEBI] synonym: "non-canonical amino-acid" RELATED [ChEBI] synonym: "non-canonical amino-acids" RELATED [ChEBI] synonym: "non-coded amino acid" RELATED [ChEBI] synonym: "non-coded amino acids" RELATED [ChEBI] synonym: "non-coded amino-acid" RELATED [ChEBI] synonym: "non-coded amino-acids" RELATED [ChEBI] synonym: "non-proteinogenic amino acids" RELATED [ChEBI] synonym: "non-proteinogenic amino-acid" RELATED [ChEBI] synonym: "non-proteinogenic amino-acids" RELATED [ChEBI] xref: Wikipedia:Non-proteinogenic_amino_acids is_a: CHEBI:33709 ! amino acid [Term] id: CHEBI:83970 name: cardiac glycoside namespace: chebi_ontology def: "Steroid lactones containing sugar residues that act on the contractile force of the cardiac muscles." [] subset: 3_STAR synonym: "cardiac glycosides" RELATED [ChEBI] xref: Wikipedia:Cardiac_glycoside is_a: CHEBI:24400 ! glycoside is_a: CHEBI:26766 ! steroid lactone relationship: has_role CHEBI:77307 ! cardioprotective agent [Term] id: CHEBI:84055 name: pentose phosphate namespace: chebi_ontology def: "Any phospho sugar that is the phosphate derivative of pentose." [] subset: 3_STAR synonym: "pentose phosphates" RELATED [ChEBI] is_a: CHEBI:33447 ! phospho sugar is_a: CHEBI:63409 ! pentose derivative [Term] id: CHEBI:84087 name: human urinary metabolite namespace: chebi_ontology def: "Any metabolite (endogenous or exogenous) found in human urine samples." [] subset: 3_STAR synonym: "human urinary metabolites" RELATED [ChEBI] is_a: CHEBI:77746 ! human metabolite [Term] id: CHEBI:84729 name: hydroxyindoles namespace: chebi_ontology def: "Any member of the class of indoles carrying at least one hydroxy group." [] subset: 3_STAR is_a: CHEBI:24828 ! indoles is_a: CHEBI:33822 ! organic hydroxy compound [Term] id: CHEBI:84735 name: algal metabolite namespace: chebi_ontology def: "Any eukaryotic metabolite produced during a metabolic reaction in algae including unicellular organisms like chlorella and diatoms to multicellular organisms like giant kelps and brown algae." [] subset: 3_STAR synonym: "algal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:85234 name: human blood serum metabolite namespace: chebi_ontology def: "Any metabolite (endogenous or exogenous) found in human blood serum samples." [] subset: 3_STAR synonym: "human blood serum metabolites" RELATED [ChEBI] is_a: CHEBI:77746 ! human metabolite [Term] id: CHEBI:86315 name: methyl sulfide namespace: chebi_ontology alt_id: CHEBI:25260 def: "Any aliphatic sulfide in which at least one of the organyl groups attached to the sulfur is a methyl group." [] subset: 3_STAR synonym: "a methyl thioether" RELATED [UniProt] synonym: "methyl sulfides" RELATED [ChEBI] synonym: "methyl thioether" RELATED [ChEBI] synonym: "methyl thioethers" RELATED [ChEBI] xref: MetaCyc:Methyl-thioethers "SUBMITTER" is_a: CHEBI:16385 ! organic sulfide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "47.101" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "46.99555" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CS[*]" xsd:string [Term] id: CHEBI:86990 name: N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine namespace: chebi_ontology def: "An aromatic ether consisting of 4-trifluoromethylphenol in which the hydrogen of the phenolic hydroxy group is replaced by a 3-(methylamino)-1-phenylpropyl group." [] subset: 3_STAR synonym: "N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine" EXACT IUPAC_NAME [IUPAC] xref: LINCS:LSM-1449 xref: VSDB:1851 is_a: CHEBI:35618 ! aromatic ether is_a: CHEBI:50995 ! secondary amino compound is_a: CHEBI:83565 ! (trifluoromethyl)benzenes property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H18F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C17H18F3NO/c1-21-12-11-16(13-5-3-2-4-6-13)22-15-9-7-14(8-10-15)17(18,19)20/h2-10,16,21H,11-12H2,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTHCYVBBDHJXIQ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "309.32610" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "309.13405" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CNCCC(Oc1ccc(cc1)C(F)(F)F)c1ccccc1" xsd:string [Term] id: CHEBI:86991 name: (R)-fluoxetine namespace: chebi_ontology def: "An N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine that has R configuration. [The antidepressant drug fluoxetine is a racemate comprising equimolar amounts of (R)- and (S)-fluoxetine]." [] subset: 3_STAR synonym: "(+)-fluoxetine" RELATED [ChEBI] synonym: "(3R)-N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine" EXACT IUPAC_NAME [IUPAC] synonym: "(R)-(+)-fluoxetine" RELATED [ChEBI] synonym: "(R)-N-methyl-3-(4-trifluoromethylphenoxy)-3-phenylpropylamine" RELATED [ChemIDplus] synonym: "(R)-N-methyl-3-(4-trifluoromethylphenyloxy)-3-(phenyl)propylamine" RELATED [ChEBI] synonym: "(R)-N-methyl-3-phenyl-3-[(alpha,alpha,alpha-trifluoro-p-tolyl)oxy]propylamine" RELATED [ChEBI] synonym: "(R)-N-methyl-gamma-(4-trifluoromethylphenoxy)-3-phenylpropylamine" RELATED [ChEBI] synonym: "(R)-Prozac" RELATED [ChEBI] xref: CAS:100568-03-4 "ChemIDplus" xref: PMID:19144769 "Europe PMC" xref: PMID:19788198 "Europe PMC" xref: PMID:20663810 "Europe PMC" xref: PMID:22903652 "Europe PMC" xref: PMID:22923967 "Europe PMC" xref: PMID:23885544 "Europe PMC" xref: PMID:24464553 "Europe PMC" xref: PMID:24997906 "Europe PMC" xref: Reaxys:4356432 "Reaxys" is_a: CHEBI:86990 ! N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine relationship: has_role CHEBI:35469 ! antidepressant relationship: has_role CHEBI:50949 ! serotonin uptake inhibitor relationship: is_conjugate_base_of CHEBI:86993 ! (R)-fluoxetine(1+) relationship: is_enantiomer_of CHEBI:86992 ! (S)-fluoxetine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H18F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C17H18F3NO/c1-21-12-11-16(13-5-3-2-4-6-13)22-15-9-7-14(8-10-15)17(18,19)20/h2-10,16,21H,11-12H2,1H3/t16-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTHCYVBBDHJXIQ-MRXNPFEDSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "309.32610" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "309.13405" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CNCC[C@@H](Oc1ccc(cc1)C(F)(F)F)c1ccccc1" xsd:string [Term] id: CHEBI:86992 name: (S)-fluoxetine namespace: chebi_ontology def: "An N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine that has S configuration. [The antidepressant drug fluoxetine is a racemate comprising equimolar amounts of (R)- and (S)-fluoxetine]." [] subset: 3_STAR synonym: "(-)-fluoxetine" RELATED [ChEBI] synonym: "(3S)-N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine" EXACT IUPAC_NAME [IUPAC] synonym: "(S)-(-)-fluoxetine" RELATED [ChEBI] synonym: "(S)-N-methyl-3-(4-trifluoromethylphenoxy)-3-phenylpropylamine" RELATED [ChEBI] synonym: "(S)-N-methyl-3-(4-trifluoromethylphenyloxy)-3-(phenyl)propylamine" RELATED [ChEBI] synonym: "(S)-N-methyl-3-phenyl-3-[(alpha,alpha,alpha-trifluoro-p-tolyl)oxy]propylamine" RELATED [ChEBI] synonym: "(S)-N-methyl-gamma-(4-trifluoromethylphenoxy)-3-phenylpropylamine" RELATED [ChEBI] synonym: "(S)-Prozac" RELATED [ChEBI] xref: PMID:19144769 "Europe PMC" xref: PMID:19788198 "Europe PMC" xref: PMID:20663810 "Europe PMC" xref: PMID:22903652 "Europe PMC" xref: PMID:22923967 "Europe PMC" xref: PMID:23885544 "Europe PMC" xref: PMID:24464553 "Europe PMC" xref: PMID:24997906 "Europe PMC" xref: Reaxys:4356433 "Reaxys" is_a: CHEBI:86990 ! N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-amine relationship: has_role CHEBI:35469 ! antidepressant relationship: has_role CHEBI:50949 ! serotonin uptake inhibitor relationship: is_conjugate_base_of CHEBI:86995 ! (S)-fluoxetine(1+) relationship: is_enantiomer_of CHEBI:86991 ! (R)-fluoxetine property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H18F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C17H18F3NO/c1-21-12-11-16(13-5-3-2-4-6-13)22-15-9-7-14(8-10-15)17(18,19)20/h2-10,16,21H,11-12H2,1H3/t16-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTHCYVBBDHJXIQ-INIZCTEOSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "309.32610" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "309.13405" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CNCC[C@H](Oc1ccc(cc1)C(F)(F)F)c1ccccc1" xsd:string [Term] id: CHEBI:86993 name: (R)-fluoxetine(1+) namespace: chebi_ontology def: "An organic cation resulting from the protonation of the amino group of (R)-fluoxetine." [] subset: 3_STAR synonym: "(+)-fluoxetine(1+)" RELATED [ChEBI] synonym: "(3R)-N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-aminium" EXACT IUPAC_NAME [IUPAC] xref: Reaxys:25263171 "Reaxys" is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: is_conjugate_acid_of CHEBI:86991 ! (R)-fluoxetine relationship: is_enantiomer_of CHEBI:86995 ! (S)-fluoxetine(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H19F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C17H18F3NO/c1-21-12-11-16(13-5-3-2-4-6-13)22-15-9-7-14(8-10-15)17(18,19)20/h2-10,16,21H,11-12H2,1H3/p+1/t16-/m1/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTHCYVBBDHJXIQ-MRXNPFEDSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "310.33350" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "310.14133" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[NH2+]CC[C@@H](Oc1ccc(cc1)C(F)(F)F)c1ccccc1" xsd:string [Term] id: CHEBI:86995 name: (S)-fluoxetine(1+) namespace: chebi_ontology def: "An organic cation resulting from the protonation of the amino group of (S)-fluoxetine." [] subset: 3_STAR synonym: "(-)-fluoxetine(1+)" RELATED [ChEBI] synonym: "(3S)-N-methyl-3-phenyl-3-[4-(trifluoromethyl)phenoxy]propan-1-aminium" EXACT IUPAC_NAME [IUPAC] xref: Reaxys:25263174 "Reaxys" is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion relationship: is_conjugate_acid_of CHEBI:86992 ! (S)-fluoxetine relationship: is_enantiomer_of CHEBI:86993 ! (R)-fluoxetine(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C17H19F3NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C17H18F3NO/c1-21-12-11-16(13-5-3-2-4-6-13)22-15-9-7-14(8-10-15)17(18,19)20/h2-10,16,21H,11-12H2,1H3/p+1/t16-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "RTHCYVBBDHJXIQ-INIZCTEOSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "310.33350" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "310.14133" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[NH2+]CC[C@H](Oc1ccc(cc1)C(F)(F)F)c1ccccc1" xsd:string [Term] id: CHEBI:88184 name: metal allergen namespace: chebi_ontology def: "Any metal which causes the onset of an allergic reaction." [] subset: 3_STAR synonym: "allergenic metal" RELATED [ChEBI] synonym: "allergenic metals" RELATED [ChEBI] synonym: "metal allergens" RELATED [ChEBI] is_a: CHEBI:33521 ! metal atom relationship: has_role CHEBI:50904 ! allergen [Term] id: CHEBI:88188 name: drug allergen namespace: chebi_ontology def: "Any drug which causes the onset of an allergic reaction." [] subset: 3_STAR synonym: "allergenic drug" RELATED [ChEBI] is_a: CHEBI:23888 ! drug is_a: CHEBI:50904 ! allergen [Term] id: CHEBI:90710 name: receptor modulator namespace: chebi_ontology def: "A drug that acts as an antagonist, agonist, reverse agonist, or in some other fashion when interacting with cellular receptors." [] subset: 3_STAR synonym: "receptor modulators" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CL:0000000 name: cell namespace: cell def: "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." [CARO:mah] comment: The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). subset: ubprop:upper_level xref: CALOHA:TS-2035 xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 is_a: GO:0005623 ! cell equivalent_to: GO:0005623 ! cell relationship: directly_develops_from CL:0000000 ! cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl [Term] id: CL:0000003 name: native cell namespace: cell def: "A cell that is found in a natural setting, which includes multicellular organism cells 'in vivo' (i.e. part of an organism), and unicellular organisms 'in environment' (i.e. part of a natural environment)." [CARO:mah] comment: To accommodate unicellular organisms better, 'cell in vivo' has been re-labeled 'native cell' to better represent its intended meaning - that is, that it is a cell in the context of a multicellular organism or in a natural environment. 'Native' is intended to contrast with 'in vitro', which refers to cells or other biological entities that have been intentionally placed in a controlled, non-natural setting for the purpose of study or manipulation. (MAH 1.12.12). subset: ubprop:upper_level synonym: "cell in vivo" NARROW [] xref: CARO:0000013 is_a: CL:0000000 ! cell is_a: GO:0005623 ! cell [Term] id: CL:0000007 name: early embryonic cell namespace: cell def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] is_a: CL:0002321 ! embryonic cell [Term] id: CL:0000014 name: germ line stem cell namespace: cell synonym: "germline stem cell" EXACT [] is_a: CL:0000034 {is_inferred="true"} ! stem cell is_a: CL:0000039 {is_inferred="true"} ! germ line cell intersection_of: CL:0000039 ! germ line cell intersection_of: capable_of GO:0017145 ! stem cell division [Term] id: CL:0000015 name: male germ cell namespace: cell xref: FMA:72290 xref: MA:0002765 xref: ncithesaurus:Spermatogenic_Cell xref: VHOG:0001531 is_a: CL:0000586 {is_inferred="true"} ! germ cell intersection_of: CL:0000586 ! germ cell intersection_of: capable_of GO:0007283 ! spermatogenesis relationship: capable_of GO:0007283 ! spermatogenesis [Term] id: CL:0000021 name: female germ cell namespace: cell def: "Female germ cell is a germ cell that supports female gamete production." [GOC:tfm, PMID:11023867, PMID:20454446] xref: MA:0000388 xref: ncithesaurus:Egg xref: VHOG:0001530 is_a: CL:0000586 {is_inferred="true"} ! germ cell intersection_of: CL:0000586 ! germ cell intersection_of: capable_of GO:0048477 ! oogenesis relationship: capable_of GO:0048477 ! oogenesis [Term] id: CL:0000022 name: female germ line stem cell namespace: cell is_a: CL:0000014 {is_inferred="true"} ! germ line stem cell is_a: CL:0000021 {is_inferred="true"} ! female germ cell intersection_of: CL:0000021 ! female germ cell intersection_of: capable_of GO:0017145 ! stem cell division [Term] id: CL:0000023 name: oocyte namespace: cell def: "A female germ cell that has entered meiosis." [GOC:tfm, ISBN:0721662544] synonym: "oogonium" RELATED [] xref: BTO:0000964 xref: CALOHA:TS-0711 xref: FBbt:00004886 xref: FMA:18644 xref: WBbt:0006797 is_a: CL:0000021 {is_inferred="true"} ! female germ cell relationship: participates_in GO:0007143 ! female meiotic nuclear division [Term] id: CL:0000024 name: oogonial cell namespace: cell def: "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." [GOC:tfm, ISBN:0721662544] xref: FMA:83673 is_a: CL:0000021 {is_inferred="true"} ! female germ cell intersection_of: CL:0000021 ! female germ cell intersection_of: capable_of GO:0000278 ! mitotic cell cycle relationship: capable_of GO:0000278 ! mitotic cell cycle relationship: develops_from CL:0000670 ! primordial germ cell [Term] id: CL:0000025 name: egg cell namespace: cell def: "A female gamete where meiosis has progressed to metaphase II and is able to participate in fertilization." [GOC:tfm, ISBN:0721662544] synonym: "mature oocyte" EXACT [] synonym: "ovum" EXACT [] xref: BTO:0000369 xref: BTO:0003801 xref: CALOHA:TS-2191 xref: FBbt:00057012 xref: FMA:67343 xref: MA:0000388 is_a: CL:0000675 {is_inferred="true"} ! female gamete relationship: develops_from CL:0000023 ! oocyte relationship: participates_in GO:0007143 ! female meiotic nuclear division [Term] id: CL:0000031 name: neuroblast namespace: cell def: "A cell that will develop into a neuron often after a migration phase." [GOC:NV, http://en.wikipedia.org/wiki/Neuroblast] xref: BTO:0000930 xref: FBbt:00005146 xref: FMA:70563 is_a: CL:0000047 ! neuronal stem cell is_a: CL:0000055 ! non-terminally differentiated cell [Term] id: CL:0000034 name: stem cell namespace: cell def: "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:tfm, MESH:A11.872] xref: CALOHA:TS-2086 xref: FMA:63368 is_a: CL:0011115 ! precursor cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0017145 ! stem cell division relationship: capable_of GO:0017145 ! stem cell division [Term] id: CL:0000039 name: germ line cell namespace: cell def: "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." [GOC:tfm, ISBN:0721662544] comment: Originally this term had some plant germ line cell children. subset: ubprop:upper_level is_a: CL:0000548 ! animal cell disjoint_from: CL:0002371 ! somatic cell relationship: capable_of GO:0022414 ! reproductive process [Term] id: CL:0000047 name: neuronal stem cell namespace: cell def: "Neural stem cell is characterized as an undifferentiated cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple types of lineage-restricted progenitors." [GOC:tfm, http://en.wikipedia.org/wiki/Neural_stem_cell, MESH:D058953, PMID:15247488] synonym: "neural stem cell" EXACT [] synonym: "NSC" EXACT [] xref: BTO:0002881 xref: CALOHA:TS-2360 xref: FMA:86684 is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell intersection_of: CL:0000048 ! multi fate stem cell intersection_of: part_of UBERON:0001017 ! central nervous system relationship: develops_from CL:0000133 ! neurectodermal cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000048 name: multi fate stem cell namespace: cell def: "A stem cell that can give rise to multiple lineages of cells." [GOC:add] synonym: "multi-fate stem cell" EXACT [] synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 is_a: CL:0000034 ! stem cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: capable_of GO:0017145 ! stem cell division relationship: bearer_of PATO:0001402 ! multipotent [Term] id: CL:0000055 name: non-terminally differentiated cell namespace: cell def: "A precursor cell with a limited number of potential fates." [SANBI:mhl] comment: define using PATO mulit-potent or oligopotent? synonym: "blast cell" EXACT [] xref: BTO:0000125 xref: FMA:84782 is_a: CL:0011115 ! precursor cell [Term] id: CL:0000066 name: epithelial cell namespace: cell def: "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." [FB:ma, GOC:tfm, MESH:A11.436] synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 xref: FBbt:00000124 xref: FMA:66768 xref: WBbt:0003672 is_a: CL:0000548 ! animal cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0000483 ! epithelium relationship: part_of UBERON:0000483 ! epithelium [Term] id: CL:0000068 name: duct epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000058 ! duct relationship: part_of UBERON:0000058 ! duct [Term] id: CL:0000071 name: blood vessel endothelial cell namespace: cell def: "An endothelial cell that lines the vasculature." [GOC:tfm] synonym: "cuboidal endothelial cell of vascular tree" EXACT [] is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0004638 ! blood vessel endothelium relationship: develops_from CL:0002546 ! embryonic blood vessel endothelial progenitor cell relationship: part_of UBERON:0004638 ! blood vessel endothelium [Term] id: CL:0000075 name: columnar/cuboidal epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000076 name: squamous epithelial cell namespace: cell xref: CALOHA:TS-1249 is_a: CL:0000066 ! epithelial cell [Term] id: CL:0000080 name: circulating cell namespace: cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0000179 ! haemolymphatic fluid [Term] id: CL:0000082 name: epithelial cell of lung namespace: cell synonym: "lung epithelial cell" EXACT [] xref: BTO:0004299 is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0000115 ! lung epithelium [Term] id: CL:0000115 name: endothelial cell namespace: cell def: "An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm." [GOC:tfm, http://en.wikipedia.org/wiki/Endothelial_cell, https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855, MESH:D042783, PMID:21275341] comment: From FMA: 9.07.2001: Endothelial cell has always been classified as a kind of epithelial cell, specifically a squamous cell but that is not true. First, endothelial cell can either be squamous or cuboidal (e.g. high-endothelial cell) and secondly, it has different embryological derivation (mesodermal) than a true epithelial cell (ectodermal and endodermal). The basis for present classification is the fact that it comprises the outermost layer or lining of anatomical structures (location-based) but a better structural basis for the differentia is the cytoskeleton of the cell. Endothelial cell has vimentin filaments while an epithelial cell has keratin filaments. [Onard]. synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0000133 name: neurectodermal cell namespace: cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] is_a: CL:0000221 ! ectodermal cell [Term] id: CL:0000151 name: secretory cell namespace: cell def: "A cell that specializes in controlled release of one or more substances." [GOC:tfm, ISBN:0721662544] xref: BTO:0003659 xref: FMA:86916 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0032940 ! secretion by cell relationship: capable_of GO:0032940 ! secretion by cell [Term] id: CL:0000152 name: exocrine cell namespace: cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] xref: FMA:16014 is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland relationship: part_of UBERON:0002365 ! exocrine gland [Term] id: CL:0000154 name: protein secreting cell namespace: cell is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0009306 ! protein secretion relationship: capable_of GO:0009306 ! protein secretion [Term] id: CL:0000211 name: electrically active cell namespace: cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] is_a: CL:0000003 ! native cell [Term] id: CL:0000213 name: lining cell namespace: cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] is_a: CL:0000215 ! barrier cell [Term] id: CL:0000215 name: barrier cell namespace: cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] is_a: CL:0000003 ! native cell [Term] id: CL:0000219 name: motile cell namespace: cell def: "A cell that moves by its own activities." [FB:ma] is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0048870 ! cell motility relationship: capable_of GO:0048870 ! cell motility [Term] id: CL:0000221 name: ectodermal cell namespace: cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:A16.254.425.273] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000924 ! ectoderm [Term] id: CL:0000222 name: mesodermal cell namespace: cell def: "A cell of the middle germ layer of the embryo." [MESH:A16.254.425.660] synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000926 ! mesoderm [Term] id: CL:0000223 name: endodermal cell namespace: cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:A16.254.425.407] synonym: "endoderm cell" EXACT [] xref: FMA:72555 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000925 ! endoderm [Term] id: CL:0000225 name: anucleate cell namespace: cell def: "A cell that lacks a nucleus." [FB:ma] synonym: "non-nucleated cell" EXACT [] xref: FMA:68647 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001405 ! anucleate disjoint_from: CL:0002242 ! nucleate cell relationship: bearer_of PATO:0001405 ! anucleate [Term] id: CL:0000228 name: multinucleate cell namespace: cell def: "A cell with more than one nucleus." [FB:ma] synonym: "syncitium" EXACT [] synonym: "syncytial cell" EXACT [] synonym: "syncytium" EXACT [] xref: AEO:0000203 xref: WBbt:0008074 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001908 ! multinucleate relationship: bearer_of PATO:0001908 ! multinucleate [Term] id: CL:0000234 name: phagocyte namespace: cell def: "Any cell capable of ingesting particulate matter via phagocytosis." [GOC:add, ISBN:0721601464] xref: BTO:0001044 xref: FMA:83806 is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0006909 ! phagocytosis relationship: capable_of GO:0006909 ! phagocytosis [Term] id: CL:0000255 name: eukaryotic cell namespace: cell is_a: CL:0000003 ! native cell [Term] id: CL:0000300 name: gamete namespace: cell def: "A mature sexual reproductive cell having a single set of unpaired chromosomes." [GOC:tfm, ISBN:0721662544] synonym: "haploid germ cell" RELATED [] synonym: "haploid nucleated cell" EXACT [] xref: CALOHA:TS-0395 xref: FBbt:00005412 xref: FMA:18649 is_a: CL:0000413 ! haploid cell is_a: CL:0000586 {is_inferred="true"} ! germ cell intersection_of: CL:0000586 ! germ cell intersection_of: bearer_of PATO:0001375 ! haploid intersection_of: capable_of GO:0009566 ! fertilization relationship: capable_of GO:0009566 ! fertilization [Term] id: CL:0000306 name: crystallin accumulating cell namespace: cell synonym: "lens cell" EXACT [] xref: FBbt:00004193 is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000325 name: stuff accumulating cell namespace: cell def: "A cell that is specialised to accumulate a particular substance(s)." [FB:ma] subset: ubprop:upper_level is_a: CL:0000003 ! native cell [Term] id: CL:0000349 name: extraembryonic cell namespace: cell is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: CL:0000362 name: epidermal cell namespace: cell alt_id: CL:1000396 def: "An epithelial cell of the integument (the outer layer of an organism)." [Flybase:dsj, MA:ma] synonym: "cell of epidermis" EXACT [FMA:62411] synonym: "epithelial cell of skin" NARROW [FMA:62411] xref: BTO:0001470 xref: CALOHA:TS-0283 xref: FMA:62411 is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0007376 ! outer epithelium relationship: part_of UBERON:0007376 ! outer epithelium [Term] id: CL:0000365 name: animal zygote namespace: cell def: "Diploid cell produced by the fusion of sperm cell nucleus and egg cell." [ISBN:0471245208] synonym: "zygote" BROAD [] xref: BTO:0000854 xref: EHDAA2:0004546 xref: FMA:72395 is_a: CL:0000007 ! early embryonic cell [Term] id: CL:0000393 name: electrically responsive cell namespace: cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000404 name: electrically signaling cell namespace: cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000408 name: male gamete namespace: cell xref: BTO:0001277 xref: CALOHA:TS-0949 is_a: CL:0000015 {is_inferred="true"} ! male germ cell is_a: CL:0000300 {is_inferred="true"} ! gamete intersection_of: CL:0000015 ! male germ cell intersection_of: bearer_of PATO:0001375 ! haploid intersection_of: capable_of GO:0009566 ! fertilization [Term] id: CL:0000411 name: flatworm hypodermal cell namespace: cell def: "An epithelial cell of the hypodermis of flatworms." [GOC:tfm, http://www.wormatlas.org/hermaphrodite/hypodermis/mainframe.htm] xref: WBbt:0007846 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000228 ! multinucleate cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000413 name: haploid cell namespace: cell def: "A cell whose nucleus contains a single haploid genome." [FB:ma, GOC:tfm] is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001375 ! haploid relationship: bearer_of PATO:0001375 ! haploid [Term] id: CL:0000473 name: defensive cell namespace: cell def: "A cell whose primary function is to protect the organism." [JB:jb] is_a: CL:0000003 ! native cell [Term] id: CL:0000540 name: neuron namespace: cell def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [http://en.wikipedia.org/wiki/Neuron, MESH:A08.663, MESH:D009474] comment: These cells are also reportedly CD4-negative and CD200-positive. They are also capable of producing CD40L and IFN-gamma. synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 xref: FBbt:00005106 xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell relationship: capable_of GO:0019226 ! transmission of nerve impulse relationship: develops_from CL:0000031 ! neuroblast property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl [Term] id: CL:0000548 name: animal cell namespace: cell subset: ubprop:upper_level is_a: CL:0000255 ! eukaryotic cell [Term] id: CL:0000575 name: corneal epithelial cell namespace: cell alt_id: CL:1000431 def: "An epithelial cell of the cornea." [GOC:tfm] synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: CALOHA:TS-0173 xref: FMA:70551 is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea [Term] id: CL:0000586 name: germ cell namespace: cell def: "The reproductive cell in multicellular organisms." [MESH:A05.360.490] xref: BTO:0000535 xref: VHOG:0001534 xref: WBbt:0006796 is_a: CL:0000039 {is_inferred="true"} ! germ line cell relationship: capable_of GO:0048609 ! multicellular organismal reproductive process [Term] id: CL:0000618 name: sheath cell namespace: cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000630 name: supportive cell namespace: cell def: "A cell whose primary function is to support other cell types." [FB:ma, GOC:tfm] xref: BTO:0002315 is_a: CL:0000003 ! native cell [Term] id: CL:0000670 name: primordial germ cell namespace: cell def: "A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells." [GOC:tfm, PMID:1381289] synonym: "gonocyte" EXACT [] synonym: "primitive germ cell" EXACT [] xref: FMA:70567 is_a: CL:0000039 {is_inferred="true"} ! germ line cell is_a: CL:0000219 {is_inferred="true"} ! motile cell intersection_of: CL:0000039 ! germ line cell intersection_of: capable_of GO:0048870 ! cell motility intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo [Term] id: CL:0000675 name: female gamete namespace: cell def: "A mature sexual reproductive cell of the female germline." [GOC:tfm] is_a: CL:0000021 {is_inferred="true"} ! female germ cell is_a: CL:0000300 ! gamete [Term] id: CL:0000710 name: neurecto-epithelial cell namespace: cell def: "Epithelial cells derived from neural plate and neural crest." [GOC:tfm] comment: The term "neuroepithelial cell" is used to describe both this cell type and sensory epithelial cell (CL:0000098). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 xref: FMA:70557 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002077 ! ecto-epithelial cell intersection_of: CL:0002077 ! ecto-epithelial cell intersection_of: develops_from CL:0000133 ! neurectodermal cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0001061 name: abnormal cell namespace: cell def: "A cell found in an organism or derived from an organism exhibiting a phenotype that deviates from the expected phenotype of any native cell type of that organism. Abnormal cells are typically found in disease states or disease models." [GOC:add, GOC:cg, GOC:wdd] comment: https://github.com/obophenotype/cell-ontology/issues/448 xref: https://ncit.nci.nih.gov/ncitbrowser/ConceptReport.jsp?dictionary=NCI_Thesaurus&code=C12913 is_a: CL:0000000 ! cell is_a: GO:0005623 ! cell intersection_of: GO:0005623 ! cell intersection_of: bearer_of PATO:0000460 ! abnormal relationship: bearer_of PATO:0000460 ! abnormal relationship: dc-creator http://orcid.org/0000-0001-9990-8331 property_value: http://purl.org/dc/elements/1.1/date 2017-01-30T18:53:32Z xsd:dateTime [Term] id: CL:0002076 name: endo-epithelial cell namespace: cell def: "An epithelial cell derived from endoderm." [FMA:69075, GOC:tfm] xref: FMA:69075 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000223 ! endodermal cell created_by: tmeehan creation_date: 2010-06-29T03:38:14Z [Term] id: CL:0002077 name: ecto-epithelial cell namespace: cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: develops_from CL:0000221 ! ectodermal cell relationship: develops_from CL:0000221 ! ectodermal cell created_by: tmeehan creation_date: 2010-06-29T03:38:22Z [Term] id: CL:0002078 name: meso-epithelial cell namespace: cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: develops_from CL:0000222 ! mesodermal cell relationship: develops_from CL:0000222 ! mesodermal cell created_by: tmeehan creation_date: 2010-06-29T03:49:14Z [Term] id: CL:0002139 name: endothelial cell of vascular tree namespace: cell def: "An endothelial cell of the vascular tree, which includes blood vessels and lymphatic vessels." [GOC:dsd, GOC:tfm, PMID:12768659] comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, TAL1-positive. synonym: "cubodial endothelial cell of vascular tree" NARROW [] synonym: "vascular endothelial cell" EXACT [] xref: BTO:0001854 xref: CALOHA:TS-1106 xref: FMA:67755 is_a: CL:0000115 ! endothelial cell created_by: tmeehan creation_date: 2010-08-24T02:06:40Z [Term] id: CL:0002144 name: capillary endothelial cell namespace: cell def: "An endothelial cell found in capillaries." [GOC:tfm] xref: BTO:0004956 xref: CALOHA:TS-0112 xref: FMA:67756 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0001915 ! endothelium of capillary relationship: part_of UBERON:0001915 ! endothelium of capillary created_by: tmeehan creation_date: 2010-08-24T10:15:00Z [Term] id: CL:0002159 name: general ecto-epithelial cell namespace: cell def: "Epithelial cells derived from general body ectoderm and ectoderm placodes." [GOC:tfm] xref: FMA:70556 is_a: CL:0002077 ! ecto-epithelial cell created_by: tmeehan creation_date: 2010-08-26T08:31:08Z [Term] id: CL:0002222 name: vertebrate lens cell namespace: cell def: "A cell comprising the transparent, biconvex body separating the posterior chamber and vitreous body, and constituting part of the refracting mechanism of the mammalian eye." [GOC:tfm, ISBN:0721662544] xref: FMA:70950 is_a: CL:0000066 ! epithelial cell is_a: CL:0000306 ! crystallin accumulating cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000965 ! lens of camera-type eye created_by: tmeehan creation_date: 2010-09-07T10:38:03Z [Term] id: CL:0002224 name: lens epithelial cell namespace: cell def: "A cell of the cuboidal epithelium that covers the lens. The cells of the lens epithelium regulate most of the homeostatic functions of the lens. As ions, nutrients, and liquid enter the lens from the aqueous humor, Na+/K+ ATPase pumps in the lens epithelial cells pump ions out of the lens to maintain appropriate lens osmolarity and volume, with equatorially positioned lens epithelium cells contributing most to this current. The activity of the Na+/K+ ATPases keeps water and current flowing through the lens from the poles and exiting through the equatorial regions. The cells of the lens epithelium also serve as the progenitors for new lens fibers. It constantly lays down fibers in the embryo, fetus, infant, and adult, and continues to lay down fibers for lifelong growth." [GOC:tfm, http://en.wikipedia.org/wiki/Lens_%28anatomy%29#Lens_epithelium, ISBN:0721662544] xref: FMA:67559 is_a: CL:0000075 {is_inferred="true"} ! columnar/cuboidal epithelial cell is_a: CL:0002222 ! vertebrate lens cell intersection_of: CL:0000075 ! columnar/cuboidal epithelial cell intersection_of: part_of UBERON:0001803 ! epithelium of lens relationship: part_of UBERON:0001803 ! epithelium of lens created_by: tmeehan creation_date: 2010-09-07T10:45:47Z [Term] id: CL:0002242 name: nucleate cell namespace: cell def: "A cell containing at least one nucleus." [GOC:tfm] xref: FMA:67513 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: has_part GO:0005634 ! nucleus relationship: has_part GO:0005634 ! nucleus created_by: tmeehan creation_date: 2010-09-07T03:32:33Z [Term] id: CL:0002251 name: epithelial cell of alimentary canal namespace: cell def: "An epithelial cell of the musculomembranous digestive tube extending from the mouth to the anus." [GOC:tfm, ISBN:0721662544] is_a: CL:0002076 ! endo-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract created_by: tmeehan creation_date: 2010-09-08T09:26:53Z [Term] id: CL:0002308 name: epithelial cell of skin gland namespace: cell def: "An epithelial cell of a skin gland." [GOC:tfm] synonym: "epithelial cell of gland of skin" EXACT [] xref: FMA:70657 is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0002419 ! skin gland relationship: part_of UBERON:0002419 ! skin gland created_by: tmeehan creation_date: 2010-09-14T12:00:07Z [Term] id: CL:0002319 name: neural cell namespace: cell def: "A cell that is part of the nervous system." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2040 xref: FMA:70333 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system created_by: tmeehan creation_date: 2010-09-15T01:34:57Z [Term] id: CL:0002320 name: connective tissue cell namespace: cell alt_id: CL:1000406 def: "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2096 xref: FMA:63875 is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0002384 ! connective tissue relationship: part_of UBERON:0002384 ! connective tissue created_by: tmeehan creation_date: 2010-09-15T03:01:54Z [Term] id: CL:0002321 name: embryonic cell namespace: cell def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: FMA:82841 xref: WBbt:0007028 is_a: CL:0000548 ! animal cell created_by: tmeehan creation_date: 2010-09-15T03:39:21Z [Term] id: CL:0002350 name: endocardial cell namespace: cell alt_id: CL:1000475 def: "An endothelial cell that lines the intracavitary lumen of the heart, separating the circulating blood from the underlying myocardium. This cell type releases a number of vasoactive substances including prostacyclin, nitrous oxide and endothelin." [GOC:tfm, ISSN:0452-3458] synonym: "endocardial endothelial cell" EXACT [] synonym: "endothelial cell of endocardium" EXACT [FMA:75621] xref: FMA:75621 is_a: CL:0010008 ! cardiac endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0002165 ! endocardium created_by: tmeehan creation_date: 2010-09-21T04:33:05Z [Term] id: CL:0002368 name: respiratory epithelial cell namespace: cell def: "An endo-epithelial cell of the respiratory tract." [GOC:tfm] synonym: "airway epithelial cell" EXACT [] xref: BTO:0004533 is_a: CL:0002076 {is_inferred="true"} ! endo-epithelial cell intersection_of: CL:0002076 ! endo-epithelial cell intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: part_of UBERON:0000065 ! respiratory tract created_by: tmeehan creation_date: 2010-09-23T04:38:49Z [Term] id: CL:0002371 name: somatic cell namespace: cell def: "A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell)." [GOC:tfm, ISBN:0721662544] subset: ubprop:upper_level xref: BTO:0001268 xref: FMA:72300 xref: WBbt:0008378 is_a: CL:0000003 ! native cell created_by: tmeehan creation_date: 2010-09-24T09:44:42Z [Term] id: CL:0002494 name: cardiocyte namespace: cell def: "A cell located in the heart, including both muscle and non muscle cells." [GOC:tfm] comment: From Onard of the FMA: Cardiac muscle cell or cardiac myocyte is a striated muscle cell. Cardiocyte on the other hand is any cell in the heart which includes cells other than muscle cells (e.g. endothelial cell of endocardium). Unless there is a consensus among anatomists that cardiocytes refer only to muscle cells, we will treat them as a general class of cells in the heart. synonym: "heart cell" EXACT [] xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:83808 xref: FMA:84791 is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0007100 ! primary circulatory organ relationship: part_of UBERON:0007100 ! primary circulatory organ created_by: tmeehan creation_date: 2010-12-07T09:37:22Z [Term] id: CL:0002503 name: adventitial cell namespace: cell def: "A cell of the adventitial layer of ductal structures such as the uterer, defent duct, biliary duct, etc" [GOC:tfm] xref: BTO:0002441 xref: FMA:84639 is_a: CL:0000630 ! supportive cell is_a: CL:0002320 ! connective tissue cell intersection_of: CL:0002320 ! connective tissue cell intersection_of: part_of UBERON:0005742 ! adventitia relationship: part_of UBERON:0005742 ! adventitia created_by: tmeehan creation_date: 2010-12-07T04:03:56Z [Term] id: CL:0002543 name: vein endothelial cell namespace: cell alt_id: CL:1000393 def: "An endothelial cell that is part of the vein." [GOC:tfm] synonym: "endothelial cell of vein" EXACT [] synonym: "venous endothelial cell" EXACT [] xref: FMA:62104 xref: KUPO:0001099 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein created_by: tmeehan creation_date: 2011-02-28T03:48:11Z [Term] id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell namespace: cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. is_a: CL:0000222 ! mesodermal cell is_a: CL:0002371 ! somatic cell created_by: tmeehan creation_date: 2011-02-28T04:20:39Z [Term] id: CL:0002585 name: retinal blood vessel endothelial cell namespace: cell def: "A blood vessel endothelial cell that is part of the retina." [GOC:tfm] is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell is_a: CL:0009004 ! retinal cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina created_by: tmeehan creation_date: 2011-03-06T03:28:27Z [Term] id: CL:0002632 name: epithelial cell of lower respiratory tract namespace: cell is_a: CL:0002368 {is_inferred="true"} ! respiratory epithelial cell intersection_of: CL:0002368 ! respiratory epithelial cell intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract created_by: tmeehan creation_date: 2011-06-21T12:29:31Z [Term] id: CL:0009004 name: retinal cell namespace: cell def: "Any cell in the retina, the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [GOC:pr] xref: PMID:10702418 is_a: CL:0002319 ! neural cell intersection_of: CL:0002319 ! neural cell intersection_of: part_of UBERON:0005388 ! photoreceptor array relationship: part_of UBERON:0005388 ! photoreceptor array [Term] id: CL:0010006 name: cardiac blood vessel endothelial cell is_a: CL:0000071 ! blood vessel endothelial cell is_a: CL:0010008 ! cardiac endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0000948 ! heart [Term] id: CL:0010008 name: cardiac endothelial cell is_a: CL:0000115 ! endothelial cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0010022 name: cardiac neuron is_a: CL:0000540 ! neuron is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000540 ! neuron intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0011007 name: paraxial cell def: "A cell in the area of mesoderm in the neurulating embryo that flanks and forms simultaneously with the neural tube. The cells of this region give rise to somites." [GOC:NV, PMID:11687492] synonym: "paraxial mesoderm cell" EXACT [] synonym: "presomitic mesoderm cell" NARROW [] synonym: "somitic mesoderm cell" EXACT [] is_a: CL:0000222 ! mesodermal cell intersection_of: CL:0000222 ! mesodermal cell intersection_of: part_of UBERON:0003059 ! presomitic mesoderm relationship: part_of UBERON:0003059 ! presomitic mesoderm [Term] id: CL:0011115 name: precursor cell def: "A cell that, by division or terminal differentiation, can give rise to other cell types." [GOC:dos] comment: Work is needed on GO 'cell differentiation' before it is clear whether the equivalent class definition 'native cell' that capable_of some 'cell differentiation' works. Also, may want to consider merging this with non-terminally differentiated cell. is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0030154 ! cell differentiation relationship: capable_of GO:0030154 ! cell differentiation [Term] id: CL:1000272 name: lung secretory cell is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: CL:1000412 name: endothelial cell of arteriole namespace: cell def: "An endothelial cell that is part of the arteriole." [GOC:tfm] xref: FMA:67760 xref: KUPO:0001097 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: CL:1000413 name: endothelial cell of artery namespace: cell alt_id: CL:0002542 def: "A blood vessel endothelial cell that is part of an arterial endothelium." [GOC:tfm] synonym: "arterial endothelial cell" EXACT [] xref: BTO:0004758 xref: FMA:67761 xref: KUPO:0001095 is_a: CL:0000071 ! blood vessel endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001917 ! endothelium of artery [Term] id: CL:1000414 name: endothelial cell of venule namespace: cell def: "An endothelial cell that is part of the venule." [GOC:tfm] xref: FMA:67762 is_a: CL:0002139 {is_inferred="true"} ! endothelial cell of vascular tree intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0001979 ! venule relationship: part_of UBERON:0001979 ! venule [Term] id: CL:1001567 name: lung endothelial cell namespace: cl synonym: "endothelial cell of lung" RELATED [] synonym: "pulmonary vessel endothelial cell" RELATED [] is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0000102 ! lung vasculature [Term] id: CL:1001568 name: pulmonary artery endothelial cell namespace: cl synonym: "PAEC cell" RELATED [BTO:0001141] xref: BTO:0001141 is_a: CL:1000413 ! endothelial cell of artery intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0005317 ! pulmonary artery endothelium [Term] id: CL:1001576 name: oral mucosa squamous cell def: "Squamous cell of oral epithelium." [NPX:PDR] synonym: "oral cavity mucosa squamous cell" RELATED [CALOHA:TS-1252] synonym: "oral cavity mucosa squamous epithelial cell" RELATED [CALOHA:TS-1252] synonym: "oral mucosa squamous epithelial cell" RELATED [CALOHA:TS-1252] synonym: "oral mucosa squamous epithelial cells" RELATED [CALOHA:TS-1252] xref: CALOHA:TS-1252 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002251 ! epithelial cell of alimentary canal intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0002424 ! oral epithelium relationship: part_of UBERON:0002424 ! oral epithelium [Term] id: CL:2000010 name: dermis blood vessel endothelial cell namespace: cell def: "Any blood vessel endothelial cell that is part of a dermis." [GOC:TermGenie] is_a: CL:0000071 ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0002067 ! dermis relationship: part_of UBERON:0002067 ! dermis created_by: TermGenie creation_date: 2014-06-04T15:12:06Z [Term] id: CL:2000022 name: cardiac septum native cell namespace: cell def: "Any native cell that is part of a cardiac septum." [GOC:TermGenie] is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0002099 ! cardiac septum relationship: part_of UBERON:0002099 ! cardiac septum created_by: TermGenie creation_date: 2014-06-24T23:17:07Z [Term] id: CL:2000029 name: central nervous system neuron namespace: cell def: "Any neuron that is part of a central nervous system." [GOC:TermGenie] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system created_by: TermGenie creation_date: 2014-06-25T01:17:43Z [Term] id: CL:2000032 name: peripheral nervous system neuron namespace: cell def: "Any neuron that is part of a peripheral nervous system." [GOC:TermGenie] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: part_of UBERON:0000010 ! peripheral nervous system relationship: part_of UBERON:0000010 ! peripheral nervous system created_by: TermGenie creation_date: 2014-06-25T02:28:17Z [Term] id: CP:0000037 name: increased nucleus size namespace: cell def: "A nucleus size quality which is relatively high compared to the amount of cytoplasm present in the same cell." [GOC:tfm] is_a: GO:0005634 ! nucleus intersection_of: GO:0005634 ! nucleus intersection_of: bearer_of PATO:0000586 ! increased size relationship: bearer_of PATO:0000586 ! increased size created_by: tmeehan creation_date: 2009-12-23T10:53:24Z [Term] id: GO:0000002 name: mitochondrial genome maintenance namespace: biological_process def: "The maintenance of the structure and integrity of the mitochondrial genome; includes replication and segregation of the mitochondrial chromosome." [GOC:ai, GOC:vw] is_a: GO:0007005 ! mitochondrion organization [Term] id: GO:0000003 name: reproduction namespace: biological_process alt_id: GO:0019952 alt_id: GO:0050876 def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "reproductive physiological process" EXACT [] xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase [Term] id: GO:0000018 name: regulation of DNA recombination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA recombination, a DNA metabolic process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents." [GOC:go_curators, ISBN:0198506732] is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006310 ! DNA recombination relationship: regulates GO:0006310 ! DNA recombination [Term] id: GO:0000022 name: mitotic spindle elongation namespace: biological_process def: "The cell cycle process in which the distance is lengthened between poles of the mitotic spindle. Mitotic spindle elongation begins during mitotic prophase and ends during mitotic anaphase B." [GOC:mtg_cell_cycle, GOC:vw] synonym: "spindle elongation during mitosis" EXACT [] is_a: GO:0051231 ! spindle elongation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0051231 ! spindle elongation intersection_of: part_of GO:0000278 ! mitotic cell cycle relationship: part_of GO:0000070 ! mitotic sister chromatid segregation relationship: part_of GO:0007052 ! mitotic spindle organization [Term] id: GO:0000045 name: autophagosome assembly namespace: biological_process def: "The formation of a double membrane-bounded structure, the autophagosome, that occurs when a specialized membrane sac, called the isolation membrane, starts to enclose a portion of the cytoplasm." [GOC:autophagy, PMID:9412464] synonym: "autophagic vacuole assembly" EXACT [GOC:autophagy] synonym: "autophagic vacuole formation" RELATED [GOC:mah] synonym: "autophagosome biosynthesis" EXACT [] synonym: "autophagosome formation" EXACT [] synonym: "PAS formation" NARROW [] is_a: GO:0070925 ! organelle assembly is_a: GO:1905037 ! autophagosome organization relationship: has_part GO:0019778 ! Atg12 activating enzyme activity relationship: has_part GO:0019786 ! Atg8-specific protease activity relationship: has_part GO:0061651 ! Atg12 conjugating enzyme activity relationship: has_part GO:0061660 ! Atg12 ligase activity [Term] id: GO:0000070 name: mitotic sister chromatid segregation namespace: biological_process alt_id: GO:0016359 def: "The cell cycle process in which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets." [GOC:ai, GOC:jl] subset: goslim_pombe synonym: "mitotic chromosome segregation" EXACT [] synonym: "mitotic sister-chromatid adhesion release" NARROW [] is_a: GO:0000819 ! sister chromatid segregation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0140014 ! mitotic nuclear division relationship: part_of GO:0140014 ! mitotic nuclear division [Term] id: GO:0000075 name: cell cycle checkpoint namespace: biological_process alt_id: GO:0031576 alt_id: GO:0071779 def: "A cell cycle process that controls cell cycle progression by monitoring the integrity of specific cell cycle events. A cell cycle checkpoint begins with detection of deficiencies or defects and ends with signal transduction." [GOC:mtg_cell_cycle] comment: This term should not be used in direct manual annotation as it should always be possible to minimally designate mitotic or meiotic checkpoint, and usually to additionally specify the checkpoint (i.e mitotic spindle assembly checkpoint, mitotic DNA damage checkpoint etc). Note also that the effector processes are not part of the checkpoint but are positively regulated by the checkpoint signaling and should not be annotated here. subset: gocheck_do_not_manually_annotate synonym: "G1/S checkpoint" NARROW [] synonym: "G1/S transition checkpoint" NARROW [] synonym: "G2/M checkpoint" NARROW [] synonym: "G2/M transition checkpoint" NARROW [] xref: MIPS_funcat:10.03.01.03 xref: Wikipedia:Cell_cycle_checkpoint is_a: GO:0009987 ! cellular process is_a: GO:0045786 ! negative regulation of cell cycle [Term] id: GO:0000077 name: DNA damage checkpoint namespace: biological_process def: "A cell cycle checkpoint that regulates progression through the cell cycle in response to DNA damage. A DNA damage checkpoint may blocks cell cycle progression (in G1, G2 or metaphase) or slow the rate at which S phase proceeds." [GOC:mtg_cell_cycle] synonym: "DNA damage response, signal transduction resulting in cell cycle arrest" NARROW [] xref: Wikipedia:DNA_damage_checkpoint xref: Wikipedia:Postreplication_checkpoint is_a: GO:0006974 ! cellular response to DNA damage stimulus is_a: GO:0031570 ! DNA integrity checkpoint [Term] id: GO:0000082 name: G1/S transition of mitotic cell cycle namespace: biological_process def: "The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated." [GOC:mtg_cell_cycle] xref: MIPS_funcat:10.03.01.01.03 is_a: GO:0044772 ! mitotic cell cycle phase transition is_a: GO:0044843 ! cell cycle G1/S phase transition intersection_of: GO:0044843 ! cell cycle G1/S phase transition intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0000083 name: regulation of transcription involved in G1/S transition of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are involved in the transition between G1 and S phase of the mitotic cell cycle." [GOC:mtg_cell_cycle] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0006355 ! regulation of transcription, DNA-templated intersection_of: part_of GO:0000082 ! G1/S transition of mitotic cell cycle relationship: part_of GO:0000082 ! G1/S transition of mitotic cell cycle [Term] id: GO:0000086 name: G2/M transition of mitotic cell cycle namespace: biological_process def: "The mitotic cell cycle transition by which a cell in G2 commits to M phase. The process begins when the kinase activity of M cyclin/CDK complex reaches a threshold high enough for the cell cycle to proceed. This is accomplished by activating a positive feedback loop that results in the accumulation of unphosphorylated and active M cyclin/CDK complex." [GOC:mtg_cell_cycle] synonym: "mitotic G2/M transition" EXACT [] xref: MIPS_funcat:10.03.01.01.09 is_a: GO:0044772 ! mitotic cell cycle phase transition is_a: GO:0044839 ! cell cycle G2/M phase transition intersection_of: GO:0044839 ! cell cycle G2/M phase transition intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0000087 name: mitotic M phase namespace: biological_process def: "A cell cycle phase during which nuclear division occurs, and which is comprises the phases: prophase, metaphase, anaphase and telophase and occurs as part of a mitotic cell cycle." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "M phase of mitotic cell cycle" EXACT [] synonym: "M-phase of mitotic cell cycle" EXACT [] is_a: GO:0000279 ! M phase is_a: GO:0098763 ! mitotic cell cycle phase intersection_of: GO:0000279 ! M phase intersection_of: happens_during GO:0000278 ! mitotic cell cycle [Term] id: GO:0000117 name: regulation of transcription involved in G2/M transition of mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed as part of the G2/M transition of the mitotic cell cycle." [GOC:mtg_cell_cycle] synonym: "G2/M-specific transcription in mitotic cell cycle" RELATED [] synonym: "regulation of transcription from RNA polymerase II promoter during G2/M transition of mitotic cell cycle" RELATED [] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0006355 ! regulation of transcription, DNA-templated intersection_of: part_of GO:0000086 ! G2/M transition of mitotic cell cycle relationship: part_of GO:0000086 ! G2/M transition of mitotic cell cycle [Term] id: GO:0000122 name: negative regulation of transcription by RNA polymerase II namespace: biological_process alt_id: GO:0010553 alt_id: GO:0045816 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II." [GOC:go_curators, GOC:txnOH] synonym: "down regulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "down regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "down-regulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "down-regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "downregulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "downregulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "inhibition of global transcription from RNA polymerase II promoter" RELATED [] synonym: "inhibition of transcription from RNA polymerase II promoter" EXACT [] synonym: "negative regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] synonym: "negative regulation of global transcription from Pol II promoter" RELATED [] synonym: "negative regulation of transcription from Pol II promoter" EXACT [] synonym: "negative regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "negative regulation of transcription from RNA polymerase II promoter, global" RELATED [] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II is_a: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006366 ! transcription by RNA polymerase II relationship: negatively_regulates GO:0006366 ! transcription by RNA polymerase II [Term] id: GO:0000184 name: nuclear-transcribed mRNA catabolic process, nonsense-mediated decay namespace: biological_process def: "The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins." [GOC:krc, GOC:ma, PMID:10025395] synonym: "mRNA breakdown, nonsense-mediated decay" EXACT [] synonym: "mRNA catabolic process, nonsense-mediated" EXACT [] synonym: "mRNA catabolism, nonsense-mediated" EXACT [] synonym: "mRNA degradation, nonsense-mediated decay" EXACT [] synonym: "nonsense-mediated mRNA decay" EXACT [] synonym: "nuclear mRNA catabolic process, nonsense-mediated decay" EXACT [] xref: Wikipedia:Nonsense-mediated_decay xref: Wikipedia:Nonsense-mediated_mRNA_decay is_a: GO:0000956 ! nuclear-transcribed mRNA catabolic process [Term] id: GO:0000212 name: meiotic spindle organization namespace: biological_process alt_id: GO:0043147 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a meiotic cell cycle." [GOC:go_curators, GOC:mah] synonym: "meiotic spindle organisation" EXACT [GOC:curators] synonym: "meiotic spindle organization and biogenesis" RELATED [GOC:mah] synonym: "meiotic spindle stabilization" RELATED [] synonym: "spindle organization during meiosis" EXACT [GOC:mah] is_a: GO:0007051 ! spindle organization is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0007051 ! spindle organization intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0000226 name: microtubule cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] subset: goslim_pombe synonym: "microtubule cytoskeleton organisation" EXACT [GOC:mah] synonym: "microtubule cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "microtubule dynamics" EXACT [GOC:dph, GOC:tb] xref: MIPS_funcat:42.04.05 is_a: GO:0007010 ! cytoskeleton organization is_a: GO:0007017 ! microtubule-based process [Term] id: GO:0000228 name: nuclear chromosome namespace: cellular_component def: "A chromosome that encodes the nuclear genome and is found in the nucleus of a eukaryotic cell during the cell cycle phases when the nucleus is intact." [GOC:dph, GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "nuclear interphase chromosome" NARROW [] is_a: GO:0005694 ! chromosome is_a: GO:0044428 ! nuclear part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0000229 name: cytoplasmic chromosome namespace: cellular_component def: "A chromosome found in the cytoplasm." [GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "cytoplasmic interphase chromosome" NARROW [] is_a: GO:0005694 ! chromosome is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0000235 name: astral microtubule namespace: cellular_component def: "Any of the spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell." [ISBN:0815316194] is_a: GO:0005876 ! spindle microtubule is_a: GO:0005881 ! cytoplasmic microtubule intersection_of: GO:0005876 ! spindle microtubule intersection_of: part_of GO:0005818 ! aster relationship: part_of GO:0005818 ! aster [Term] id: GO:0000262 name: mitochondrial chromosome namespace: cellular_component def: "A chromosome found in the mitochondrion of a eukaryotic cell." [GOC:mah] synonym: "mitochondrial DNA" NARROW [] synonym: "mitochondrial genome" RELATED [] synonym: "mtDNA" NARROW [] xref: NIF_Subcellular:sao1186327184 is_a: GO:0000229 ! cytoplasmic chromosome is_a: GO:0044429 ! mitochondrial part intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0042645 ! mitochondrial nucleoid [Term] id: GO:0000278 name: mitotic cell cycle namespace: biological_process alt_id: GO:0007067 def: "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent." [GOC:mah, ISBN:0815316194, Reactome:69278] subset: goslim_chembl subset: goslim_generic subset: goslim_yeast synonym: "mitosis" RELATED [] xref: MIPS_funcat:10.03.01 xref: MIPS_funcat:10.03.01.01 xref: Wikipedia:Mitosis is_a: GO:0007049 ! cell cycle intersection_of: GO:0007049 ! cell cycle intersection_of: has_part GO:0140014 ! mitotic nuclear division relationship: has_part GO:0140014 ! mitotic nuclear division [Term] id: GO:0000279 name: M phase namespace: biological_process def: "A cell cycle phase during which nuclear division occurs, and which is comprises the phases: prophase, metaphase, anaphase and telophase." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "M-phase" EXACT [] xref: Wikipedia:M_phase is_a: GO:0022403 ! cell cycle phase [Term] id: GO:0000280 name: nuclear division namespace: biological_process def: "The division of a cell nucleus into two nuclei, with DNA and other nuclear contents distributed between the daughter nuclei." [GOC:mah] subset: goslim_pir synonym: "karyokinesis" RELATED [] xref: MIPS_funcat:10.03.04 xref: MIPS_funcat:10.03.04.07 is_a: GO:0048285 ! organelle fission [Term] id: GO:0000281 name: mitotic cytokinesis namespace: biological_process def: "A cell cycle process that results in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle] subset: goslim_pombe synonym: "cytokinesis after mitosis" EXACT [] is_a: GO:0061640 ! cytoskeleton-dependent cytokinesis is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0061640 ! cytoskeleton-dependent cytokinesis intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0000323 name: lytic vacuole namespace: cellular_component def: "A vacuole that is maintained at an acidic pH and which contains degradative enzymes, including a wide variety of acid hydrolases." [GOC:krc] is_a: GO:0005773 ! vacuole [Term] id: GO:0000374 name: Group III intron splicing namespace: biological_process def: "The splicing of Group III introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group III introns, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions begun by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat. Though very similar in structure and mechanism to Group II introns, Group III introns are smaller and more streamlined and the splice site consensus sequences are not as well conserved." [GOC:krc, PMID:11377794] comment: Note that Group III introns are known to be found in mRNA of plastids of euglenoid protists. synonym: "mRNA splicing" RELATED [] is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile [Term] id: GO:0000375 name: RNA splicing, via transesterification reactions namespace: biological_process alt_id: GO:0000385 alt_id: GO:0031202 def: "Splicing of RNA via a series of two transesterification reactions." [GOC:krc] comment: Note that nuclear mRNA, Group I, Group II, and Group III introns are all spliced by a series of two transesterification reactions that occur within the RNA itself, or between two RNAs in trans splicing. Some of these require one or more proteins to stabilize the catalytic conformation, while others are autocatalytic. Note that tRNA introns are spliced by a different catalytic mechanism. subset: goslim_pir synonym: "pre-mRNA splicing factor activity" RELATED [GOC:krc, GOC:mah] synonym: "RNA splicing factor activity, transesterification mechanism" RELATED [GOC:krc, GOC:mah] synonym: "spliceosomal catalysis" RELATED [] is_a: GO:0008380 ! RNA splicing [Term] id: GO:0000377 name: RNA splicing, via transesterification reactions with bulged adenosine as nucleophile namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions with a bulged adenosine residue from the intron branch point as the initiating nucleophile. When the initial RNA for the splicing reaction is a single molecule (cis splicing), the excised intron is released in a lariat structure." [GOC:krc, PMID:11377794] synonym: "lariat RNA biosynthesis" RELATED [] synonym: "lariat RNA formation" RELATED [] is_a: GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000723 name: telomere maintenance namespace: biological_process def: "Any process that contributes to the maintenance of proper telomeric length and structure by affecting and monitoring the activity of telomeric proteins, the length of telomeric DNA and the replication and repair of the DNA. These processes includes those that shorten, lengthen, replicate and repair the telomeric DNA sequences." [GOC:BHF, GOC:BHF_telomere, GOC:elh, GOC:rl, PMID:11092831] synonym: "regulation of telomere length" RELATED [GOC:dph, GOC:tb] is_a: GO:0006259 ! DNA metabolic process is_a: GO:0032200 ! telomere organization is_a: GO:0060249 ! anatomical structure homeostasis [Term] id: GO:0000768 name: syncytium formation by plasma membrane fusion namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mtg_muscle, GOC:tb] synonym: "cell fusion" BROAD [] is_a: GO:0006949 ! syncytium formation is_a: GO:0140253 ! cell-cell fusion intersection_of: GO:0006949 ! syncytium formation intersection_of: has_part GO:0045026 ! plasma membrane fusion [Term] id: GO:0000781 name: chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear chromosome that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "telomere" RELATED [] xref: SO:0000624 is_a: GO:0098687 ! chromosomal region [Term] id: GO:0000784 name: nuclear chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear nuclear chromosome that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsolete cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. synonym: "nuclear chromosome, telomere" EXACT [] is_a: GO:0000781 ! chromosome, telomeric region is_a: GO:0044454 ! nuclear chromosome part intersection_of: GO:0000781 ! chromosome, telomeric region intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000793 name: condensed chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure." [GOC:elh] comment: Note that this term can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes an 'open mitosis' in which the nuclear envelope breaks down during mitosis. synonym: "cytoplasmic mitotic chromosome" RELATED [] synonym: "metaphase chromosome" RELATED [] synonym: "mitotic chromosome" RELATED [] is_a: GO:0005694 ! chromosome [Term] id: GO:0000794 name: condensed nuclear chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct nuclear chromosome." [GOC:elh] comment: Note that this term and its children can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes a 'closed mitosis' in which the nuclear envelope does not break down during mitosis and for gene products that localize to a meiotic chromosome. synonym: "meiotic chromosome" RELATED [] synonym: "nuclear mitotic chromosome" RELATED [] is_a: GO:0000228 ! nuclear chromosome is_a: GO:0000793 ! condensed chromosome intersection_of: GO:0000793 ! condensed chromosome intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0000819 name: sister chromatid segregation namespace: biological_process def: "The cell cycle process in which sister chromatids are organized and then physically separated and apportioned to two or more sets." [GOC:ai, GOC:elh] is_a: GO:0051276 ! chromosome organization is_a: GO:0098813 ! nuclear chromosome segregation [Term] id: GO:0000902 name: cell morphogenesis namespace: biological_process alt_id: GO:0007148 alt_id: GO:0045790 alt_id: GO:0045791 def: "The developmental process in which the size or shape of a cell is generated and organized." [GOC:clt, GOC:dph, GOC:go_curators, GOC:tb] subset: goslim_chembl subset: goslim_generic subset: goslim_yeast synonym: "cellular morphogenesis" EXACT [] xref: MIPS_funcat:40.01 is_a: GO:0032989 ! cellular component morphogenesis [Term] id: GO:0000904 name: cell morphogenesis involved in differentiation namespace: biological_process def: "The change in form (cell shape and size) that occurs when relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:go_curators] is_a: GO:0000902 ! cell morphogenesis intersection_of: GO:0000902 ! cell morphogenesis intersection_of: part_of GO:0048468 ! cell development relationship: part_of GO:0048468 ! cell development [Term] id: GO:0000910 name: cytokinesis namespace: biological_process alt_id: GO:0007104 alt_id: GO:0016288 alt_id: GO:0033205 def: "The division of the cytoplasm and the plasma membrane of a cell and its partitioning into two daughter cells." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. When annotating eukaryotic species, mitotic or meiotic cytokinesis should always be specified for manual annotation and for prokaryotic species use 'FtsZ-dependent cytokinesis ; GO:0043093' or Cdv-dependent cytokinesis ; GO:0061639. Also, note that cytokinesis does not necessarily result in physical separation and detachment of the two daughter cells from each other. subset: gocheck_do_not_manually_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_yeast synonym: "cell cycle cytokinesis" EXACT [] synonym: "cytokinesis involved in cell cycle" EXACT [GOC:dph, GOC:tb] xref: MIPS_funcat:10.03.03 xref: Wikipedia:Cytokinesis is_a: GO:0022402 ! cell cycle process relationship: has_part GO:0090148 ! membrane fission relationship: part_of GO:0051301 ! cell division [Term] id: GO:0000932 name: P-body namespace: cellular_component def: "A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. Protein and RNA localized to these foci are involved in mRNA degradation, nonsense-mediated mRNA decay (NMD), translational repression, and RNA-mediated gene silencing." [GOC:clt, PMID:12730603] synonym: "cytoplasmic foci" RELATED [] synonym: "cytoplasmic mRNA processing body" EXACT [] synonym: "P body" EXACT [] xref: Wikipedia:P_body is_a: GO:0036464 ! cytoplasmic ribonucleoprotein granule [Term] id: GO:0000956 name: nuclear-transcribed mRNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of nuclear-transcribed mRNAs in eukaryotic cells." [GOC:krc] synonym: "nuclear mRNA breakdown" EXACT [] synonym: "nuclear mRNA catabolism" EXACT [] synonym: "nuclear mRNA degradation" EXACT [] is_a: GO:0006402 ! mRNA catabolic process [Term] id: GO:0000957 name: mitochondrial RNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of RNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000959 ! mitochondrial RNA metabolic process is_a: GO:0006401 ! RNA catabolic process intersection_of: GO:0006401 ! RNA catabolic process intersection_of: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0000958 name: mitochondrial mRNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mRNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000957 ! mitochondrial RNA catabolic process is_a: GO:0006402 ! mRNA catabolic process intersection_of: GO:0006402 ! mRNA catabolic process intersection_of: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0000959 name: mitochondrial RNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving RNA transcribed from the mitochondrial genome and occurring in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0016070 ! RNA metabolic process intersection_of: GO:0016070 ! RNA metabolic process intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0000960 name: regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0031329 ! regulation of cellular catabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000961 name: negative regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0000960 ! regulation of mitochondrial RNA catabolic process is_a: GO:1902369 ! negative regulation of RNA catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: negatively_regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000962 name: positive regulation of mitochondrial RNA catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome." [GOC:krc, GOC:mah] is_a: GO:0000960 ! regulation of mitochondrial RNA catabolic process is_a: GO:0031331 ! positive regulation of cellular catabolic process is_a: GO:0051254 ! positive regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000957 ! mitochondrial RNA catabolic process relationship: positively_regulates GO:0000957 ! mitochondrial RNA catabolic process [Term] id: GO:0000963 name: mitochondrial RNA processing namespace: biological_process def: "The conversion of a primary RNA molecule transcribed from a mitochondrial genome into one or more mature RNA molecules; occurs in the mitochondrion." [GOC:krc, GOC:mah] is_a: GO:0000959 ! mitochondrial RNA metabolic process is_a: GO:0006396 ! RNA processing is_a: GO:0140053 ! mitochondrial gene expression intersection_of: GO:0006396 ! RNA processing intersection_of: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0001505 name: regulation of neurotransmitter levels namespace: biological_process def: "Any process that modulates levels of neurotransmitter." [GOC:jl] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0001508 name: action potential namespace: biological_process def: "A process in which membrane potential cycles through a depolarizing spike, triggered in response to depolarization above some threshold, followed by repolarization. This cycle is driven by the flow of ions through various voltage gated channels with different thresholds and ion specificities." [GOC:dph, GOC:go_curators, GOC:tb, ISBN:978-0-07-139011-8] comment: Action potentials typically propagate across excitable membranes. This class covers both action potentials that propagate and those that fail to do so. xref: MIPS_funcat:34.03.03 is_a: GO:0042391 ! regulation of membrane potential [Term] id: GO:0001558 name: regulation of cell growth namespace: biological_process def: "Any process that modulates the frequency, rate, extent or direction of cell growth." [GOC:go_curators] is_a: GO:0040008 ! regulation of growth is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016049 ! cell growth relationship: regulates GO:0016049 ! cell growth [Term] id: GO:0001667 name: ameboidal-type cell migration namespace: biological_process def: "Cell migration that is accomplished by extension and retraction of a pseudopodium." [GOC:dph] comment: Note that this term refers to a mode of migration rather than to any particular cell type. synonym: "ameboid cell migration" EXACT [] synonym: "amoeboid cell migration" EXACT [] synonym: "amoeboidal cell migration" EXACT [] is_a: GO:0016477 ! cell migration [Term] id: GO:0001677 name: formation of translation initiation ternary complex namespace: biological_process def: "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:hjd] synonym: "translation initiation ternary complex assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001704 name: formation of primary germ layer namespace: biological_process def: "The formation of the ectoderm, mesoderm and endoderm during gastrulation." [GOC:go_curators] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0007369 ! gastrulation [Term] id: GO:0001705 name: ectoderm formation namespace: biological_process def: "The formation of ectoderm during gastrulation." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007398 ! ectoderm development [Term] id: GO:0001706 name: endoderm formation namespace: biological_process def: "The formation of the endoderm during gastrulation." [GOC:go_curators] synonym: "endoblast formation" NARROW [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007492 ! endoderm development [Term] id: GO:0001707 name: mesoderm formation namespace: biological_process def: "The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0048332 ! mesoderm morphogenesis [Term] id: GO:0001708 name: cell fate specification namespace: biological_process def: "The process involved in the specification of cell identity. Once specification has taken place, a cell will be committed to differentiate down a specific pathway if left in its normal environment." [GOC:go_curators] is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0001764 name: neuron migration namespace: biological_process def: "The characteristic movement of an immature neuron from germinal zones to specific positions where they will reside as they mature." [CL:0000540, GOC:go_curators] synonym: "neuron chemotaxis" EXACT [GOC:curators] synonym: "neuron guidance" RELATED [GOC:curators] synonym: "neuronal migration" EXACT [] xref: Wikipedia:Neural_development#Neuron_migration xref: Wikipedia:Neuron_migration is_a: GO:0016477 ! cell migration relationship: part_of GO:0048699 ! generation of neurons [Term] id: GO:0001932 name: regulation of protein phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein." [GOC:hjd] synonym: "regulation of protein amino acid phosphorylation" EXACT [GOC:bf] is_a: GO:0031399 ! regulation of protein modification process is_a: GO:0042325 ! regulation of phosphorylation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006468 ! protein phosphorylation relationship: regulates GO:0006468 ! protein phosphorylation [Term] id: GO:0001933 name: negative regulation of protein phosphorylation namespace: biological_process def: "Any process that stops, prevents or reduces the rate of addition of phosphate groups to amino acids within a protein." [GOC:hjd] synonym: "down regulation of protein amino acid phosphorylation" EXACT [] synonym: "down-regulation of protein amino acid phosphorylation" EXACT [] synonym: "downregulation of protein amino acid phosphorylation" EXACT [] synonym: "inhibition of protein amino acid phosphorylation" NARROW [] synonym: "negative regulation of protein amino acid phosphorylation" EXACT [GOC:bf] is_a: GO:0001932 ! regulation of protein phosphorylation is_a: GO:0031400 ! negative regulation of protein modification process is_a: GO:0042326 ! negative regulation of phosphorylation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006468 ! protein phosphorylation relationship: negatively_regulates GO:0006468 ! protein phosphorylation [Term] id: GO:0001934 name: positive regulation of protein phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein." [GOC:hjd] synonym: "activation of protein amino acid phosphorylation" NARROW [] synonym: "positive regulation of protein amino acid phosphorylation" EXACT [GOC:bf] synonym: "stimulation of protein amino acid phosphorylation" NARROW [] synonym: "up regulation of protein amino acid phosphorylation" EXACT [] synonym: "up-regulation of protein amino acid phosphorylation" EXACT [] synonym: "upregulation of protein amino acid phosphorylation" EXACT [] is_a: GO:0001932 ! regulation of protein phosphorylation is_a: GO:0031401 ! positive regulation of protein modification process is_a: GO:0042327 ! positive regulation of phosphorylation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006468 ! protein phosphorylation relationship: positively_regulates GO:0006468 ! protein phosphorylation [Term] id: GO:0001939 name: female pronucleus namespace: cellular_component def: "The pronucleus originating from the ovum that is being fertilized." [GOC:hjd, ISBN:0198506732] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001940 name: male pronucleus namespace: cellular_component def: "The pronucleus originating from the spermatozoa that was involved in fertilization." [GOC:hjd, ISBN:0198506732] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001956 name: positive regulation of neurotransmitter secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of a neurotransmitter." [GOC:hjd] synonym: "activation of neurotransmitter secretion" NARROW [] synonym: "stimulation of neurotransmitter secretion" NARROW [] synonym: "up regulation of neurotransmitter secretion" EXACT [] synonym: "up-regulation of neurotransmitter secretion" EXACT [] synonym: "upregulation of neurotransmitter secretion" EXACT [] is_a: GO:0046928 ! regulation of neurotransmitter secretion is_a: GO:0050806 ! positive regulation of synaptic transmission is_a: GO:0051590 ! positive regulation of neurotransmitter transport is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007269 ! neurotransmitter secretion relationship: positively_regulates GO:0007269 ! neurotransmitter secretion [Term] id: GO:0001966 name: thigmotaxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to touch." [GOC:dph] synonym: "stereotaxis" EXACT [] synonym: "taxis in response to mechanical stimulus" BROAD [] synonym: "taxis in response to touch stimulus" EXACT [] is_a: GO:0042330 ! taxis [Term] id: GO:0002064 name: epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelial cell over time, from its formation to the mature structure. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0030855 ! epithelial cell differentiation [Term] id: GO:0002119 name: nematode larval development namespace: biological_process def: "The process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:ems, GOC:kmv] is_a: GO:0002164 ! larval development [Term] id: GO:0002164 name: larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. The larva is the early, immature form of an that at birth or hatching is fundamentally unlike its parent and must metamorphose before assuming the adult characters." [GOC:jid, ISBN:0877795088] is_a: GO:0007275 ! multicellular organism development is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002181 name: cytoplasmic translation namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a protein in the cytoplasm. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein." [GOC:hjd] comment: Note that this term applies to translation performed by cytoplasmic ribosomes, which is distinct from translation performed by organellar ribosomes. For mitochondrial translation, consider GO:0032543 'mitochondrial translation' or its child terms. subset: goslim_pombe subset: goslim_yeast is_a: GO:0006412 ! translation created_by: hjd creation_date: 2011-06-09T03:11:53Z [Term] id: GO:0002182 name: cytoplasmic translational elongation namespace: biological_process def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis in the cytoplasm." [GOC:hjd] is_a: GO:0006414 ! translational elongation intersection_of: GO:0006414 ! translational elongation intersection_of: part_of GO:0002181 ! cytoplasmic translation relationship: part_of GO:0002181 ! cytoplasmic translation created_by: hjd creation_date: 2011-06-09T03:14:42Z [Term] id: GO:0002183 name: cytoplasmic translational initiation namespace: biological_process def: "The process preceding formation of the peptide bond between the first two amino acids of a protein in the cytoplasm. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA." [GOC:hjd] is_a: GO:0006413 ! translational initiation intersection_of: GO:0006413 ! translational initiation intersection_of: part_of GO:0002181 ! cytoplasmic translation relationship: part_of GO:0002181 ! cytoplasmic translation created_by: hjd creation_date: 2011-06-09T03:15:48Z [Term] id: GO:0002184 name: cytoplasmic translational termination namespace: biological_process def: "The process resulting in the release of a polypeptide chain from the ribosome in the cytoplasm, usually in response to a termination codon." [GOC:hjd] is_a: GO:0006415 ! translational termination intersection_of: GO:0006415 ! translational termination intersection_of: occurs_in GO:0005829 ! cytosol relationship: occurs_in GO:0005829 ! cytosol relationship: part_of GO:0002181 ! cytoplasmic translation created_by: hjd creation_date: 2011-06-09T03:17:13Z [Term] id: GO:0002376 name: immune system process namespace: biological_process def: "Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats." [GO_REF:0000022, GOC:add, GOC:mtg_15nov05] comment: Note that this term is a direct child of 'biological_process ; GO:0008150' because some immune system processes are types of cellular process (GO:0009987), whereas others are types of multicellular organism process (GO:0032501). This term was added by GO_REF:0000022. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir xref: Wikipedia:Immune_system is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:add, GOC:dph] is_a: GO:0002376 ! immune system process is_a: GO:0048731 ! system development [Term] id: GO:0002682 name: regulation of immune system process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune system process." [GOC:add] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002376 ! immune system process relationship: regulates GO:0002376 ! immune system process [Term] id: GO:0002683 name: negative regulation of immune system process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune system process." [GOC:add] synonym: "down regulation of immune system process" EXACT [] synonym: "down-regulation of immune system process" EXACT [] synonym: "downregulation of immune system process" EXACT [] synonym: "inhibition of immune system process" NARROW [] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002376 ! immune system process relationship: negatively_regulates GO:0002376 ! immune system process [Term] id: GO:0002684 name: positive regulation of immune system process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune system process." [GOC:add] synonym: "activation of immune system process" NARROW [] synonym: "stimulation of immune system process" NARROW [] synonym: "up regulation of immune system process" EXACT [] synonym: "up-regulation of immune system process" EXACT [] synonym: "upregulation of immune system process" EXACT [] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002376 ! immune system process relationship: positively_regulates GO:0002376 ! immune system process [Term] id: GO:0002790 name: peptide secretion namespace: biological_process def: "The controlled release of a peptide from a cell or a tissue." [GOC:add] is_a: GO:0015833 ! peptide transport is_a: GO:0046903 ! secretion [Term] id: GO:0002791 name: regulation of peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peptide secretion." [GOC:add] is_a: GO:0051046 ! regulation of secretion is_a: GO:0090087 ! regulation of peptide transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002790 ! peptide secretion relationship: regulates GO:0002790 ! peptide secretion [Term] id: GO:0002792 name: negative regulation of peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peptide secretion." [GOC:add] synonym: "down regulation of peptide secretion" EXACT [] synonym: "down-regulation of peptide secretion" EXACT [] synonym: "downregulation of peptide secretion" EXACT [] synonym: "inhibition of peptide secretion" NARROW [] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051048 ! negative regulation of secretion intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002790 ! peptide secretion relationship: negatively_regulates GO:0002790 ! peptide secretion [Term] id: GO:0002793 name: positive regulation of peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peptide secretion." [GOC:add] synonym: "activation of peptide secretion" NARROW [] synonym: "stimulation of peptide secretion" NARROW [] synonym: "up regulation of peptide secretion" EXACT [] synonym: "up-regulation of peptide secretion" EXACT [] synonym: "upregulation of peptide secretion" EXACT [] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051047 ! positive regulation of secretion intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002790 ! peptide secretion relationship: positively_regulates GO:0002790 ! peptide secretion [Term] id: GO:0002831 name: regulation of response to biotic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009607 ! response to biotic stimulus relationship: regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0002832 name: negative regulation of response to biotic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to biotic stimulus" EXACT [] synonym: "down-regulation of response to biotic stimulus" EXACT [] synonym: "downregulation of response to biotic stimulus" EXACT [] synonym: "inhibition of response to biotic stimulus" NARROW [] is_a: GO:0002831 ! regulation of response to biotic stimulus is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009607 ! response to biotic stimulus relationship: negatively_regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0002833 name: positive regulation of response to biotic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to biotic stimulus" NARROW [] synonym: "stimulation of response to biotic stimulus" NARROW [] synonym: "up regulation of response to biotic stimulus" EXACT [] synonym: "up-regulation of response to biotic stimulus" EXACT [] synonym: "upregulation of response to biotic stimulus" EXACT [] is_a: GO:0002831 ! regulation of response to biotic stimulus is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009607 ! response to biotic stimulus relationship: positively_regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0003006 name: developmental process involved in reproduction namespace: biological_process def: "A developmental process in which a progressive change in the state of some part of an organism specifically contributes to its ability to form offspring." [GOC:dph, GOC:isa_complete] synonym: "puberty" NARROW [GOC:dph] synonym: "reproductive developmental process" RELATED [GOC:dph, GOC:tb] is_a: GO:0022414 ! reproductive process is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process intersection_of: part_of GO:0000003 ! reproduction [Term] id: GO:0003008 name: system process namespace: biological_process def: "A multicellular organismal process carried out by any of the organs or tissues in an organ system. An organ system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a biological objective." [GOC:mtg_cardio] synonym: "organ system process" EXACT [] is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0003674 name: molecular_function namespace: molecular_function alt_id: GO:0005554 def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] is_a: BFO:0000015 ! process property_value: IAO:0000589 "molecular process" xsd:string [Term] id: GO:0003676 name: nucleic acid binding namespace: molecular_function alt_id: GO:0000496 def: "Interacting selectively and non-covalently with any nucleic acid." [GOC:jl] subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "base pairing" NARROW [] xref: MIPS_funcat:16.03 is_a: GO:0097159 ! organic cyclic compound binding is_a: GO:1901363 ! heterocyclic compound binding [Term] id: GO:0003677 name: DNA binding namespace: molecular_function alt_id: GO:0043566 def: "Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb, GOC:vw] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "microtubule/chromatin interaction" RELATED [] synonym: "plasmid binding" NARROW [] synonym: "structure specific DNA binding" RELATED [] synonym: "structure-specific DNA binding" RELATED [] xref: MIPS_funcat:16.03.01 is_a: GO:0003676 ! nucleic acid binding [Term] id: GO:0003824 name: catalytic activity namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [GOC:vw, ISBN:0198506732] subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Enzyme is_a: GO:0003674 ! molecular_function [Term] id: GO:0003990 name: acetylcholinesterase activity namespace: molecular_function def: "Catalysis of the reaction: acetylcholine + H2O = choline + acetate." [EC:3.1.1.7] subset: goslim_chembl synonym: "AcCholE" RELATED [EC:3.1.1.7] synonym: "acetyl.beta-methylcholinesterase activity" EXACT [EC:3.1.1.7] synonym: "acetylcholine acetylhydrolase activity" EXACT [EC:3.1.1.7] synonym: "acetylcholine hydrolase activity" EXACT [EC:3.1.1.7] synonym: "acetylthiocholinesterase activity" EXACT [EC:3.1.1.7] synonym: "choline esterase I activity" EXACT [EC:3.1.1.7] synonym: "true cholinesterase activity" EXACT [EC:3.1.1.7] xref: EC:3.1.1.7 xref: MetaCyc:ACETYLCHOLINESTERASE-RXN xref: Reactome:R-HSA-372519 "AcCho is hydrolyzed to Cho and acetate by ACHE" xref: RHEA:17561 is_a: GO:0004104 ! cholinesterase activity [Term] id: GO:0004104 name: cholinesterase activity namespace: molecular_function def: "Catalysis of the reaction: an acylcholine + H2O = choline + a carboxylic acid anion." [EC:3.1.1.8] subset: goslim_chembl synonym: "acylcholine acylhydrolase activity" EXACT [EC:3.1.1.8] synonym: "anticholineesterase activity" EXACT [EC:3.1.1.8] synonym: "benzoylcholinesterase activity" EXACT [EC:3.1.1.8] synonym: "BtChoEase activity" EXACT [EC:3.1.1.8] synonym: "butyrylcholine esterase activity" EXACT [EC:3.1.1.8] synonym: "butyrylcholinesterase activity" EXACT [EC:3.1.1.8] synonym: "choline esterase activity" EXACT [EC:3.1.1.8] synonym: "choline esterase II (unspecific) activity" EXACT [EC:3.1.1.8] synonym: "non-specific cholinesterase activity" EXACT [EC:3.1.1.8] synonym: "propionylcholinesterase activity" EXACT [EC:3.1.1.8] synonym: "pseudocholinesterase activity" EXACT [EC:3.1.1.8] xref: EC:3.1.1.8 xref: MetaCyc:CHOLINESTERASE-RXN xref: RHEA:21964 is_a: GO:0052689 ! carboxylic ester hydrolase activity [Term] id: GO:0004871 name: obsolete signal transducer activity namespace: molecular_function alt_id: GO:0005062 alt_id: GO:0009369 alt_id: GO:0009370 def: "OBSOLETE. Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." [GOC:go_curators] comment: This term was obsoleted because it was not clearly defined and is not a useful grouping term, see https://github.com/geneontology/go-ontology/issues/14232. synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity" NARROW [] synonym: "quorum sensing response regulator activity" NARROW [] synonym: "quorum sensing signal generator activity" NARROW [] is_obsolete: true [Term] id: GO:0005102 name: signaling receptor binding namespace: molecular_function def: "Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:bf, GOC:ceb, ISBN:0198506732] comment: Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_plant synonym: "receptor binding" BROAD [] synonym: "receptor ligand" NARROW [] synonym: "receptor-associated protein activity" RELATED [] xref: Wikipedia:Ligand_(biochemistry) is_a: GO:0005515 ! protein binding [Term] id: GO:0005488 name: binding namespace: molecular_function def: "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732] comment: Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. subset: gocheck_do_not_manually_annotate subset: goslim_pir subset: goslim_plant synonym: "ligand" NARROW [] xref: Wikipedia:Binding_(molecular) is_a: GO:0003674 ! molecular_function [Term] id: GO:0005515 name: protein binding namespace: molecular_function alt_id: GO:0001948 alt_id: GO:0045308 def: "Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules)." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "glycoprotein binding" NARROW [] synonym: "protein amino acid binding" EXACT [] xref: MIPS_funcat:16.01 xref: MIPS_funcat:18.01.07 xref: Reactome:R-HSA-170835 "An anchoring protein, ZFYVE9 (SARA), recruits SMAD2/3" xref: reactome:R-HSA-170835 "An anchoring protein, ZFYVE9 (SARA), recruits SMAD2/3" xref: Reactome:R-HSA-170846 "TGFBR2 recruits TGFBR1" xref: reactome:R-HSA-170846 "TGFBR2 recruits TGFBR1" xref: reactome:R-HSA-3645786 "TGFBR2 mutant dimers recruit TGFBR1" xref: reactome:R-HSA-3656484 "TGFBR2 recruits TGFBR1 KD Mutants" xref: reactome:R-HSA-3702153 "An anchoring protein, ZFYVE9 (SARA), recruits SMAD2/3 MH2 domain mutants" xref: reactome:R-HSA-3713560 "An anchoring protein, ZFYVE9 (SARA), recruits SMAD2/3 phosphorylation motif mutants" is_a: GO:0005488 ! binding [Term] id: GO:0005575 name: cellular_component namespace: cellular_component alt_id: GO:0008372 def: "A location, relative to cellular compartments and structures, occupied by a macromolecular machine when it carries out a molecular function. There are two ways in which the gene ontology describes locations of gene products: (1) relative to cellular structures (e.g., cytoplasmic side of plasma membrane) or compartments (e.g., mitochondrion), and (2) the stable macromolecular complexes of which they are parts (e.g., the ribosome)." [GOC:pdt, NIF_Subcellular:sao-1337158144] def: "The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together." [GOC:go_curators] comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that when this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this. comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. When this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao-1337158144 xref: NIF_Subcellular:sao1337158144 is_a: BFO:0000030 ! object [Term] id: GO:0005576 name: extracellular region namespace: cellular_component def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators] comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "extracellular" EXACT [] xref: MIPS_funcat:70.27 xref: Wikipedia:Extracellular is_a: GO:0005575 ! cellular_component [Term] id: GO:0005604 name: basement membrane namespace: cellular_component alt_id: GO:0005605 alt_id: GO:0008003 def: "A collagen-containing extracellular matrix consisting of a thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers." [ISBN:0198547684, PMID:22505934] comment: Note that this term has no relationship to 'membrane ; GO:0016020' because the basement membrane is not a lipid bilayer. synonym: "basal lamina" RELATED [] synonym: "basement lamina" RELATED [] synonym: "lamina densa" RELATED [] xref: Wikipedia:Basement_membrane is_a: GO:0062023 ! collagen-containing extracellular matrix [Term] id: GO:0005622 name: intracellular namespace: cellular_component def: "The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732] subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant synonym: "internal to cell" EXACT [] synonym: "nucleocytoplasm" RELATED [GOC:mah] synonym: "protoplasm" EXACT [] synonym: "protoplast" RELATED [GOC:mah] xref: Wikipedia:Intracellular is_a: GO:0044464 ! cell part [Term] id: GO:0005623 name: cell namespace: cellular_component def: "The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:go_curators] subset: goslim_chembl subset: goslim_generic subset: goslim_plant xref: NIF_Subcellular:sao1813327414 xref: Wikipedia:Cell_(biology) is_a: CL:0000000 ! cell property_value: IAO:0000589 "cell and encapsulating structures" xsd:string [Term] id: GO:0005634 name: nucleus namespace: cellular_component def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] xref: MIPS_funcat:70.10 xref: NIF_Subcellular:sao1702920020 xref: Wikipedia:Cell_nucleus is_a: GO:0043231 ! intracellular membrane-bounded organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005635 name: nuclear envelope namespace: cellular_component alt_id: GO:0005636 def: "The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space)." [ISBN:0198547684] subset: goslim_chembl subset: goslim_generic subset: goslim_plant xref: MIPS_funcat:70.10.05 xref: Wikipedia:Nuclear_envelope is_a: GO:0031967 ! organelle envelope is_a: GO:0044428 ! nuclear part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005643 name: nuclear pore namespace: cellular_component alt_id: GO:0005644 def: "Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined." [ISBN:0198547684] subset: goslim_pir synonym: "NPC" EXACT [] synonym: "nuclear pore complex" EXACT [] synonym: "nuclear pore membrane protein" NARROW [] synonym: "nucleopore" EXACT [GOC:al, PMID:7603572] xref: NIF_Subcellular:sao220861693 xref: Wikipedia:Nuclear_pore is_a: GO:0032991 ! protein-containing complex is_a: GO:0044428 ! nuclear part relationship: part_of GO:0005635 ! nuclear envelope [Term] id: GO:0005694 name: chromosome namespace: cellular_component def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684] comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] synonym: "prophase chromosome" NARROW [] xref: MIPS_funcat:70.10.03 xref: Wikipedia:Chromosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle [Term] id: GO:0005712 name: chiasma namespace: cellular_component def: "A connection formed between chromatids, visible during meiosis, thought to be the point of the interchange involved in crossing-over." [ISBN:0198506732] xref: Wikipedia:Chiasma_(genetics) is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0005730 name: nucleolus namespace: cellular_component def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: MIPS_funcat:70.10.07 xref: NIF_Subcellular:sao1820400233 xref: Wikipedia:Nucleolus is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0044428 ! nuclear part relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0005737 name: cytoplasm namespace: cellular_component def: "All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684] subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: MIPS_funcat:70.03 xref: Wikipedia:Cytoplasm is_a: GO:0044424 ! intracellular part [Term] id: GO:0005739 name: mitochondrion namespace: cellular_component def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:giardia, ISBN:0198506732] comment: Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.) subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "mitochondria" EXACT [] xref: MIPS_funcat:70.16 xref: NIF_Subcellular:sao1860313010 xref: Wikipedia:Mitochondrion is_a: GO:0043231 ! intracellular membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005759 name: mitochondrial matrix namespace: cellular_component alt_id: GO:0031980 def: "The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and, in some organisms, the enzymes concerned with fatty acid oxidation." [GOC:as, ISBN:0198506732] synonym: "mitochondrial lumen" EXACT [] synonym: "mitochondrial stroma" NARROW [] xref: MIPS_funcat:70.16.07 xref: NIF_Subcellular:sao-1899375636 xref: NIF_Subcellular:sao1804523077 xref: Wikipedia:Mitochondrial_matrix is_a: GO:0044429 ! mitochondrial part is_a: GO:0070013 ! intracellular organelle lumen [Term] id: GO:0005764 name: lysosome namespace: cellular_component def: "A small lytic vacuole that has cell cycle-independent morphology and is found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions." [GOC:mah, ISBN:0198506732] subset: goslim_chembl subset: goslim_generic subset: goslim_plant xref: MIPS_funcat:70.25 xref: NIF_Subcellular:sao585356902 xref: Wikipedia:Lysosome is_a: GO:0000323 ! lytic vacuole [Term] id: GO:0005768 name: endosome namespace: cellular_component def: "A vacuole to which materials ingested by endocytosis are delivered." [ISBN:0198506732, PMID:19696797] subset: goslim_agr subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant xref: MIPS_funcat:70.22 xref: NIF_Subcellular:sao1720343330 xref: Wikipedia:Endosome is_a: GO:0031410 ! cytoplasmic vesicle relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005769 name: early endosome namespace: cellular_component def: "A membrane-bounded organelle that receives incoming material from primary endocytic vesicles that have been generated by clathrin-dependent and clathrin-independent endocytosis; vesicles fuse with the early endosome to deliver cargo for sorting into recycling or degradation pathways." [GOC:mah, NIF_Subcellular:nlx_subcell_20090701, PMID:19696797] xref: NIF_Subcellular:nlx_subcell_20090701 is_a: GO:0005768 ! endosome [Term] id: GO:0005770 name: late endosome namespace: cellular_component def: "A prelysosomal endocytic organelle differentiated from early endosomes by lower lumenal pH and different protein composition. Late endosomes are more spherical than early endosomes and are mostly juxtanuclear, being concentrated near the microtubule organizing center." [NIF_Subcellular:nlx_subcell_20090702, PMID:11964142, PMID:2557062] synonym: "prevacuolar compartment" EXACT [] synonym: "PVC" BROAD [] xref: NIF_Subcellular:nlx_subcell_20090702 is_a: GO:0005768 ! endosome [Term] id: GO:0005773 name: vacuole namespace: cellular_component def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." [GOC:mtg_sensu, ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: MIPS_funcat:70.25 xref: Wikipedia:Vacuole is_a: GO:0043231 ! intracellular membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005775 name: vacuolar lumen namespace: cellular_component def: "The volume enclosed within the vacuolar membrane." [ISBN:0198506732] is_a: GO:0044437 ! vacuolar part is_a: GO:0070013 ! intracellular organelle lumen intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0005773 ! vacuole [Term] id: GO:0005777 name: peroxisome namespace: cellular_component alt_id: GO:0019818 def: "A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism." [GOC:pm, PMID:9302272, UniProtKB-KW:KW-0576] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_plant subset: goslim_yeast synonym: "peroxisomal" RELATED [GOC:curators] synonym: "peroxisome vesicle" BROAD [] xref: MIPS_funcat:70.19 xref: NIF_Subcellular:sao499555322 xref: Wikipedia:Peroxisome is_a: GO:0042579 ! microbody [Term] id: GO:0005783 name: endoplasmic reticulum namespace: cellular_component def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "ER" EXACT [] xref: MIPS_funcat:70.07 xref: NIF_Subcellular:sao1036339110 xref: Wikipedia:Endoplasmic_reticulum is_a: GO:0043231 ! intracellular membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005788 name: endoplasmic reticulum lumen namespace: cellular_component alt_id: GO:0016022 def: "The volume enclosed by the membranes of the endoplasmic reticulum." [ISBN:0198547684] synonym: "cisternal lumen" EXACT [] synonym: "endoplasmic reticulum cisterna" EXACT [] synonym: "ER cisterna" EXACT [] synonym: "ER lumen" EXACT [] is_a: GO:0044432 ! endoplasmic reticulum part is_a: GO:0070013 ! intracellular organelle lumen intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0005783 ! endoplasmic reticulum [Term] id: GO:0005794 name: Golgi apparatus namespace: cellular_component def: "A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions." [ISBN:0198506732] comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] synonym: "Golgi ribbon" NARROW [] xref: MIPS_funcat:70.08 xref: NIF_Subcellular:sao451912436 xref: Wikipedia:Golgi_apparatus is_a: GO:0043231 ! intracellular membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005818 name: aster namespace: cellular_component def: "An array of microtubules emanating from a spindle pole MTOC that do not connect to kinetochores." [GOC:clt] is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0044430 ! cytoskeletal part is_a: GO:0099080 ! supramolecular complex relationship: part_of GO:0005819 ! spindle [Term] id: GO:0005819 name: spindle namespace: cellular_component def: "The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart." [ISBN:0198547684] xref: Wikipedia:Spindle_apparatus is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005829 name: cytosol namespace: cellular_component def: "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:hjd, GOC:jl] subset: goslim_agr subset: goslim_aspergillus subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant xref: NIF_Subcellular:sao101633890 xref: Wikipedia:Cytosol is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005856 name: cytoskeleton namespace: cellular_component def: "Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [GOC:mah, ISBN:0198547684, PMID:16959967] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: MIPS_funcat:70.04 xref: Wikipedia:Cytoskeleton is_a: GO:0043232 ! intracellular non-membrane-bounded organelle [Term] id: GO:0005859 name: muscle myosin complex namespace: cellular_component def: "A filament of myosin found in a muscle cell of any type." [GOC:mah] is_a: GO:0016460 ! myosin II complex is_a: GO:0044449 ! contractile fiber part intersection_of: GO:0016460 ! myosin II complex intersection_of: part_of GO:0043292 ! contractile fiber [Term] id: GO:0005863 name: striated muscle myosin thick filament namespace: cellular_component def: "Bipolar filaments formed of polymers of a muscle-specific myosin II isoform, found in the middle of sarcomeres in myofibrils." [GOC:mtg_muscle, ISBN:0815316194] is_a: GO:0005859 ! muscle myosin complex is_a: GO:0032982 ! myosin filament is_a: GO:0036379 ! myofilament relationship: part_of GO:0030017 ! sarcomere [Term] id: GO:0005874 name: microtubule namespace: cellular_component def: "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle." [ISBN:0879693568] subset: goslim_metagenomics synonym: "microtubuli" EXACT [] synonym: "microtubulus" EXACT [] synonym: "neurotubule" NARROW [NIF_Subcellular:sao248349196] xref: NIF_Subcellular:sao1846835077 xref: Wikipedia:Microtubule is_a: GO:0099513 ! polymeric cytoskeletal fiber relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005876 name: spindle microtubule namespace: cellular_component def: "Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole." [ISBN:0815316194] is_a: GO:0005874 ! microtubule intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005819 ! spindle relationship: part_of GO:0005819 ! spindle [Term] id: GO:0005879 name: axonemal microtubule namespace: cellular_component def: "A microtubule in the axoneme of a eukaryotic cilium or flagellum; an axoneme contains nine modified doublet microtubules, which may or may not surround a pair of single microtubules." [GOC:cilia, ISBN:0815316194] is_a: GO:0005881 ! cytoplasmic microtubule is_a: GO:0044447 ! axoneme part intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005930 ! axoneme [Term] id: GO:0005880 name: nuclear microtubule namespace: cellular_component def: "Any microtubule in the nucleus of a cell." [GOC:mah] is_a: GO:0005874 ! microtubule is_a: GO:0044428 ! nuclear part intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005634 ! nucleus [Term] id: GO:0005881 name: cytoplasmic microtubule namespace: cellular_component def: "Any microtubule in the cytoplasm of a cell." [GOC:mah] synonym: "non-spindle-associated astral microtubule" NARROW [] is_a: GO:0005874 ! microtubule is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0005884 name: actin filament namespace: cellular_component def: "A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane." [GOC:mah, ISBN:0198506732, PMID:10666339] synonym: "microfilament" EXACT [] xref: FMA:63850 xref: NIF_Subcellular:sao1588493326 xref: Wikipedia:Actin is_a: GO:0099513 ! polymeric cytoskeletal fiber relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0005886 name: plasma membrane namespace: cellular_component alt_id: GO:0005904 def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] synonym: "cellular membrane" EXACT [NIF_Subcellular:sao6433132645] synonym: "cytoplasmic membrane" EXACT [] synonym: "inner endospore membrane" NARROW [] synonym: "juxtamembrane" BROAD [] synonym: "plasma membrane lipid bilayer" NARROW [GOC:mah] synonym: "plasmalemma" EXACT [] xref: NIF_Subcellular:sao1663586795 xref: Wikipedia:Cell_membrane is_a: GO:0016020 ! membrane is_a: GO:0044464 ! cell part relationship: part_of GO:0071944 ! cell periphery [Term] id: GO:0005911 name: cell-cell junction namespace: cellular_component def: "A cell junction that forms a connection between two or more cells in a multicellular organism; excludes direct cytoplasmic junctions such as ring canals." [GOC:dgh, GOC:hb, GOC:mah] synonym: "intercellular junction" EXACT [NIF_Subcellular:sao1395777368] xref: MIPS_funcat:70.06.04 xref: NIF_Subcellular:sao1922892319 is_a: GO:0030054 ! cell junction [Term] id: GO:0005912 name: adherens junction namespace: cellular_component def: "A cell junction at which anchoring proteins (cadherins or integrins) extend through the plasma membrane and are attached to actin filaments." [GOC:mah, ISBN:0198506732] xref: Wikipedia:Adherens_junction is_a: GO:0070161 ! anchoring junction [Term] id: GO:0005923 name: bicellular tight junction namespace: cellular_component def: "An occluding cell-cell junction that is composed of a branching network of sealing strands that completely encircles the apical end of each cell in an epithelial sheet; the outer leaflets of the two interacting plasma membranes are seen to be tightly apposed where sealing strands are present. Each sealing strand is composed of a long row of transmembrane adhesion proteins embedded in each of the two interacting plasma membranes." [GOC:mah, ISBN:0815332181] synonym: "zonula occludens" EXACT [] xref: NIF_Subcellular:sao1939999134 xref: Wikipedia:Tight_junction is_a: GO:0070160 ! tight junction relationship: part_of GO:0043296 ! apical junction complex [Term] id: GO:0005929 name: cilium namespace: cellular_component alt_id: GO:0072372 def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body." [GOC:cilia, GOC:curators, GOC:kmv, GOC:vw, ISBN:0198547684, PMID:16824949, PMID:17009929, PMID:20144998] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. In most eukaryotic species, intracellular sub-components of the cilium, such as the ciliary base and rootlet, are located near the plasma membrane. In Diplomonads such as Giardia, instead, the same ciliary parts are located further intracellularly. Also, 'cilium' may be used when axonemal structure and/or motility are unknown, or when axonemal structure is unusual. For all other cases, please refer to children of 'cilium'. Finally, note that any role of ciliary proteins in sensory events should be captured by annotating to relevant biological process terms. subset: goslim_chembl subset: goslim_generic subset: goslim_pir synonym: "eukaryotic flagellum" EXACT [] synonym: "flagellum" RELATED [] synonym: "microtubule-based flagellum" EXACT [] synonym: "primary cilium" NARROW [] xref: FMA:67181 xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0043226 ! organelle is_a: GO:0120025 ! plasma membrane bounded cell projection relationship: has_part GO:0030990 ! intraciliary transport particle [Term] id: GO:0005930 name: axoneme namespace: cellular_component alt_id: GO:0035085 alt_id: GO:0035086 def: "The bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements." [GOC:bf, GOC:cilia, ISBN:0198547684] comment: Note that cilia and eukaryotic flagella are deemed to be equivalent. In diplomonad species, such as Giardia, the axoneme may extend intracellularly up to 5um away from the plane of the plasma membrane. subset: goslim_pir synonym: "ciliary axoneme" EXACT [] synonym: "cilium axoneme" EXACT [] synonym: "flagellar axoneme" EXACT [] synonym: "flagellum axoneme" EXACT [] xref: Wikipedia:Axoneme is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044441 ! ciliary part is_a: GO:0044444 ! cytoplasmic part relationship: has_part GO:0005874 ! microtubule relationship: part_of GO:0097014 ! ciliary plasm [Term] id: GO:0006066 name: alcohol metabolic process namespace: biological_process def: "The chemical reactions and pathways involving alcohols, any of a class of compounds containing one or more hydroxyl groups attached to a saturated carbon atom." [CHEBI:30879, ISBN:0198506732] subset: goslim_pir synonym: "alcohol metabolism" EXACT [] is_a: GO:0044281 ! small molecule metabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process [Term] id: GO:0006139 name: nucleobase-containing compound metabolic process namespace: biological_process alt_id: GO:0055134 def: "Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:ai] subset: goslim_pir subset: goslim_plant synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] synonym: "nucleobase, nucleoside and nucleotide metabolic process" RELATED [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process [Term] id: GO:0006259 name: DNA metabolic process namespace: biological_process alt_id: GO:0055132 def: "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] xref: MIPS_funcat:10 xref: MIPS_funcat:10.01 is_a: GO:0044260 ! cellular macromolecule metabolic process is_a: GO:0090304 ! nucleic acid metabolic process [Term] id: GO:0006260 name: DNA replication namespace: biological_process alt_id: GO:0055133 def: "The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA." [GOC:mah] comment: DNA biosynthesis is only part of this process. See also the biological process terms 'DNA-dependent DNA replication ; GO:0006261' and 'RNA-dependent DNA replication ; GO:0006278'. subset: goslim_pir subset: goslim_pombe subset: goslim_yeast xref: MIPS_funcat:10.01.03 xref: Wikipedia:DNA_replication is_a: GO:0034645 ! cellular macromolecule biosynthetic process relationship: has_part GO:0071897 ! DNA biosynthetic process [Term] id: GO:0006261 name: DNA-dependent DNA replication namespace: biological_process alt_id: GO:0006262 alt_id: GO:0006263 def: "A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands." [GOC:mah, ISBN:0198506732] is_a: GO:0006260 ! DNA replication [Term] id: GO:0006264 name: mitochondrial DNA replication namespace: biological_process def: "The process in which new strands of DNA are synthesized in the mitochondrion." [GOC:ai] synonym: "mitochondrial DNA synthesis" RELATED [] synonym: "mtDNA replication" EXACT [] synonym: "mtDNA synthesis" RELATED [] synonym: "replication of mitochondrial DNA" EXACT [] is_a: GO:0006261 ! DNA-dependent DNA replication intersection_of: GO:0006260 ! DNA replication intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0006270 name: DNA replication initiation namespace: biological_process alt_id: GO:0042024 def: "The process in which DNA-dependent DNA replication is started; this begins with the ATP dependent loading of an initiator complex onto the DNA, this is followed by DNA melting and helicase activity. In bacteria, the gene products that enable the helicase activity are loaded after the initial melting and in archaea and eukaryotes, the gene products that enable the helicase activity are inactive when they are loaded and subsequently activate." [ISBN:071673706X, ISBN:0815316194, PMID:28209641] synonym: "DNA endoreduplication initiation" NARROW [] synonym: "DNA re-replication initiation" NARROW [] synonym: "DNA-dependent DNA replication initiation" EXACT [GOC:vw] is_a: GO:0006259 ! DNA metabolic process relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006275 name: regulation of DNA replication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA replication." [GOC:go_curators] is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006260 ! DNA replication relationship: regulates GO:0006260 ! DNA replication [Term] id: GO:0006279 name: premeiotic DNA replication namespace: biological_process alt_id: GO:1902968 def: "The replication of DNA that precedes meiotic cell division." [GO_REF:0000060, GOC:ai, GOC:TermGenie] synonym: "DNA replication during S phase involved in meiotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA replication involved in S phase involved in meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA replication involved in S-phase involved in meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "meiotic cell cycle DNA replication" EXACT [] synonym: "meiotic DNA replication" RELATED [GOC:mah] synonym: "meiotic DNA synthesis" RELATED [GOC:mah] synonym: "meiotic nuclear cell cycle DNA replication" EXACT [] synonym: "nuclear cell cycle DNA replication involved in meiotic cell cycle" EXACT [] synonym: "premeiotic DNA synthesis" RELATED [GOC:mah] is_a: GO:0033260 ! nuclear DNA replication is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0033260 ! nuclear DNA replication intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0006310 name: DNA recombination namespace: biological_process def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: goslim_pombe subset: goslim_yeast xref: MIPS_funcat:10.01.05 xref: MIPS_funcat:10.01.05.03 is_a: GO:0006259 ! DNA metabolic process [Term] id: GO:0006323 name: DNA packaging namespace: biological_process def: "Any process in which DNA and associated proteins are formed into a compact, orderly structure." [GOC:mah, ISBN:0815316194] subset: goslim_pir synonym: "DNA condensation" EXACT [] synonym: "DNA organisation" EXACT [GOC:curators] synonym: "DNA organization" EXACT [GOC:curators] is_a: GO:0071103 ! DNA conformation change relationship: has_part GO:0008301 ! DNA binding, bending [Term] id: GO:0006351 name: transcription, DNA-templated namespace: biological_process alt_id: GO:0006350 alt_id: GO:0061018 alt_id: GO:0061022 def: "The cellular synthesis of RNA on a template of DNA." [GOC:jl, GOC:txnOH] subset: goslim_aspergillus subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe synonym: "cellular transcription" BROAD [] synonym: "cellular transcription, DNA-dependent" EXACT [] synonym: "DNA-dependent transcription" EXACT [] synonym: "transcription" BROAD [] synonym: "transcription regulator activity" RELATED [] synonym: "transcription, DNA-dependent" EXACT [GOC:txnOH] xref: MIPS_funcat:11.02 xref: Wikipedia:Transcription_(genetics) is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0097659 ! nucleic acid-templated transcription relationship: part_of GO:0010467 ! gene expression [Term] id: GO:0006355 name: regulation of transcription, DNA-templated namespace: biological_process alt_id: GO:0032583 alt_id: GO:0045449 alt_id: GO:0061019 def: "Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] synonym: "regulation of cellular transcription, DNA-dependent" EXACT [] synonym: "regulation of gene-specific transcription" RELATED [] synonym: "regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] synonym: "transcriptional control" BROAD [] is_a: GO:0010468 ! regulation of gene expression is_a: GO:1903506 ! regulation of nucleic acid-templated transcription is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006351 ! transcription, DNA-templated relationship: regulates GO:0006351 ! transcription, DNA-templated [Term] id: GO:0006357 name: regulation of transcription by RNA polymerase II namespace: biological_process alt_id: GO:0006358 alt_id: GO:0010551 def: "Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II." [GOC:go_curators, GOC:txnOH] synonym: "global transcription regulation from Pol II promoter" RELATED [] synonym: "regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] synonym: "regulation of global transcription from Pol II promoter" RELATED [] synonym: "regulation of transcription from Pol II promoter" EXACT [] synonym: "regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "regulation of transcription from RNA polymerase II promoter, global" RELATED [] is_a: GO:0006355 ! regulation of transcription, DNA-templated intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006366 ! transcription by RNA polymerase II relationship: regulates GO:0006366 ! transcription by RNA polymerase II [Term] id: GO:0006366 name: transcription by RNA polymerase II namespace: biological_process alt_id: GO:0032568 alt_id: GO:0032569 def: "The synthesis of RNA from a DNA template by RNA polymerase II (RNAP II), originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." [GOC:jl, GOC:txnOH, ISBN:0321000382] comment: Changed class label as requested in https://github.com/geneontology/go-ontology/issues/14854 subset: goslim_yeast synonym: "gene-specific transcription from RNA polymerase II promoter" RELATED [] synonym: "general transcription from RNA polymerase II promoter" RELATED [] synonym: "RNA polymerase II transcription factor activity" RELATED [] synonym: "specific transcription from RNA polymerase II promoter" RELATED [GOC:mah] synonym: "transcription from Pol II promoter" EXACT [] synonym: "transcription from RNA polymerase II promoter" EXACT [] is_a: GO:0006351 ! transcription, DNA-templated [Term] id: GO:0006390 name: mitochondrial transcription namespace: biological_process def: "The synthesis of RNA from a mitochondrial DNA template, usually by a specific mitochondrial RNA polymerase." [GOC:jl] comment: Changed class label as requested in https://github.com/geneontology/go-ontology/issues/14854 synonym: "transcription from mitochondrial promoter" EXACT [] is_a: GO:0000959 ! mitochondrial RNA metabolic process is_a: GO:0006351 ! transcription, DNA-templated intersection_of: GO:0006351 ! transcription, DNA-templated intersection_of: occurs_in GO:0005739 ! mitochondrion intersection_of: part_of GO:0140053 ! mitochondrial gene expression relationship: part_of GO:0140053 ! mitochondrial gene expression [Term] id: GO:0006396 name: RNA processing namespace: biological_process alt_id: GO:0006394 def: "Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules." [GOC:mah] subset: goslim_pir xref: MIPS_funcat:11.04 xref: Wikipedia:Post-transcriptional_modification is_a: GO:0016070 ! RNA metabolic process relationship: part_of GO:0010467 ! gene expression [Term] id: GO:0006401 name: RNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732] subset: goslim_yeast synonym: "RNA breakdown" EXACT [] synonym: "RNA catabolism" EXACT [] synonym: "RNA degradation" EXACT [] xref: MIPS_funcat:01.03.16 xref: MIPS_funcat:01.03.16.01 is_a: GO:0016070 ! RNA metabolic process is_a: GO:0034655 ! nucleobase-containing compound catabolic process is_a: GO:0044265 ! cellular macromolecule catabolic process [Term] id: GO:0006402 name: mRNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes." [ISBN:0198506732] synonym: "mRNA breakdown" EXACT [] synonym: "mRNA catabolism" EXACT [] synonym: "mRNA decay" RELATED [GOC:ascb_2010, GOC:dph, GOC:tb] synonym: "mRNA degradation" EXACT [] is_a: GO:0006401 ! RNA catabolic process is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:0016071 ! mRNA metabolic process [Term] id: GO:0006403 name: RNA localization namespace: biological_process def: "A process in which RNA is transported to, or maintained in, a specific location." [GOC:ai] synonym: "establishment and maintenance of RNA localization" EXACT [] synonym: "RNA localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization [Term] id: GO:0006405 name: RNA export from nucleus namespace: biological_process def: "The directed movement of RNA from the nucleus to the cytoplasm." [GOC:ma] synonym: "RNA export from cell nucleus" EXACT [] synonym: "RNA export out of nucleus" EXACT [] synonym: "RNA transport from nucleus to cytoplasm" EXACT [] synonym: "RNA-nucleus export" EXACT [] is_a: GO:0050658 ! RNA transport is_a: GO:0051168 ! nuclear export [Term] id: GO:0006406 name: mRNA export from nucleus namespace: biological_process def: "The directed movement of mRNA from the nucleus to the cytoplasm." [GOC:ma] synonym: "mRNA export from cell nucleus" EXACT [] synonym: "mRNA export out of nucleus" EXACT [] synonym: "mRNA transport from nucleus to cytoplasm" EXACT [] synonym: "mRNA-nucleus export" EXACT [] is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0051028 ! mRNA transport relationship: part_of GO:0010467 ! gene expression relationship: part_of GO:0071427 ! mRNA-containing ribonucleoprotein complex export from nucleus [Term] id: GO:0006412 name: translation namespace: biological_process alt_id: GO:0006416 alt_id: GO:0006453 alt_id: GO:0043037 def: "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [GOC:curators] synonym: "protein formation" EXACT [] synonym: "protein synthesis" EXACT [] synonym: "protein translation" EXACT [] xref: MIPS_funcat:12 xref: Wikipedia:Translation_(genetics) is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0043043 ! peptide biosynthetic process is_a: GO:0044267 ! cellular protein metabolic process relationship: has_part GO:0006414 ! translational elongation relationship: part_of GO:0010467 ! gene expression [Term] id: GO:0006413 name: translational initiation namespace: biological_process alt_id: GO:0006440 alt_id: GO:0006454 def: "The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA." [ISBN:019879276X] subset: goslim_yeast synonym: "biopolymerisation" BROAD [] synonym: "biopolymerization" BROAD [] synonym: "protein synthesis initiation" BROAD [] synonym: "translation initiation" EXACT [] xref: MIPS_funcat:12.04.01 is_a: GO:0044237 ! cellular metabolic process relationship: part_of GO:0006412 ! translation [Term] id: GO:0006414 name: translational elongation namespace: biological_process alt_id: GO:0006442 alt_id: GO:0006455 def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis." [GOC:ems] subset: goslim_yeast synonym: "protein synthesis elongation" BROAD [] synonym: "translation elongation" EXACT [] xref: MIPS_funcat:12.04.02 is_a: GO:0034645 ! cellular macromolecule biosynthetic process relationship: part_of GO:0006412 ! translation [Term] id: GO:0006415 name: translational termination namespace: biological_process alt_id: GO:0006443 alt_id: GO:0006456 def: "The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code)." [GOC:hjd, ISBN:019879276X] synonym: "protein synthesis termination" BROAD [] synonym: "translation termination" EXACT [] synonym: "translational complex disassembly" EXACT [] xref: MIPS_funcat:12.04.03 is_a: GO:0043624 ! cellular protein complex disassembly relationship: part_of GO:0006412 ! translation [Term] id: GO:0006417 name: regulation of translation namespace: biological_process alt_id: GO:0006445 def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:isa_complete] subset: goslim_yeast synonym: "regulation of protein anabolism" EXACT [] synonym: "regulation of protein biosynthesis" EXACT [] synonym: "regulation of protein formation" EXACT [] synonym: "regulation of protein synthesis" EXACT [] is_a: GO:0010608 ! posttranscriptional regulation of gene expression is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006412 ! translation relationship: regulates GO:0006412 ! translation [Term] id: GO:0006446 name: regulation of translational initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational initiation." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006413 ! translational initiation relationship: regulates GO:0006413 ! translational initiation [Term] id: GO:0006448 name: regulation of translational elongation namespace: biological_process def: "Any process that modulates the frequency, rate, extent or accuracy of translational elongation." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006414 ! translational elongation relationship: regulates GO:0006414 ! translational elongation [Term] id: GO:0006449 name: regulation of translational termination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational termination." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation is_a: GO:0043244 ! regulation of protein complex disassembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006415 ! translational termination relationship: regulates GO:0006415 ! translational termination [Term] id: GO:0006464 name: cellular protein modification process namespace: biological_process def: "The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification)." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "process resulting in protein modification" RELATED [] synonym: "protein modification process" BROAD [GOC:bf, GOC:jl] synonym: "protein tagging activity" RELATED [] xref: MIPS_funcat:14 xref: MIPS_funcat:14.07 xref: MIPS_funcat:18.01.01 is_a: GO:0036211 ! protein modification process is_a: GO:0044267 ! cellular protein metabolic process [Term] id: GO:0006468 name: protein phosphorylation namespace: biological_process def: "The process of introducing a phosphate group on to a protein." [GOC:hb] subset: goslim_yeast synonym: "protein amino acid phosphorylation" EXACT [GOC:bf] xref: MIPS_funcat:14.07.03 is_a: GO:0006464 ! cellular protein modification process is_a: GO:0016310 ! phosphorylation [Term] id: GO:0006479 name: protein methylation namespace: biological_process def: "The addition of a methyl group to a protein amino acid. A methyl group is derived from methane by the removal of a hydrogen atom." [GOC:ai] synonym: "protein amino acid methylation" EXACT [GOC:bf] xref: MIPS_funcat:14.07.09 is_a: GO:0008213 ! protein alkylation is_a: GO:0043414 ! macromolecule methylation [Term] id: GO:0006508 name: proteolysis namespace: biological_process def: "The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds." [GOC:bf, GOC:mah] comment: This term was intentionally placed under 'protein metabolic process ; GO:0019538' rather than 'protein catabolic process ; GO:0030163' to cover all processes centered on breaking peptide bonds, including those involved in protein processing. subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir synonym: "ATP-dependent proteolysis" NARROW [GOC:mah] synonym: "peptidolysis" EXACT [] xref: Wikipedia:Proteolysis is_a: GO:0019538 ! protein metabolic process [Term] id: GO:0006518 name: peptide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another." [CHEBI:16670, GOC:go_curators] subset: goslim_pir synonym: "peptide metabolism" EXACT [] is_a: GO:0043603 ! cellular amide metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process [Term] id: GO:0006576 name: cellular biogenic amine metabolic process namespace: biological_process def: "The chemical reactions and pathways occurring at the level of individual cells involving any of a group of naturally occurring, biologically active amines, such as norepinephrine, histamine, and serotonin, many of which act as neurotransmitters." [GOC:jl, ISBN:0395825172] synonym: "biogenic amine metabolism" EXACT [] is_a: GO:0044106 ! cellular amine metabolic process [Term] id: GO:0006584 name: catecholamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] synonym: "catecholamine metabolism" EXACT [] is_a: GO:0009712 ! catechol-containing compound metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process [Term] id: GO:0006611 name: protein export from nucleus namespace: biological_process alt_id: GO:0097349 def: "The directed movement of a protein from the nucleus into the cytoplasm." [GOC:jl] synonym: "copper-induced protein export from nucleus" RELATED [GOC:al] synonym: "protein export from cell nucleus" EXACT [] synonym: "protein export out of nucleus" EXACT [] synonym: "protein transport from nucleus to cytoplasm" EXACT [] synonym: "protein-nucleus export" EXACT [] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0051168 ! nuclear export [Term] id: GO:0006629 name: lipid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "lipid metabolism" EXACT [] xref: MIPS_funcat:01.06 xref: Wikipedia:Lipid_metabolism is_a: GO:0044238 ! primary metabolic process is_a: GO:0071704 ! organic substance metabolic process [Term] id: GO:0006725 name: cellular aromatic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." [GOC:ai, ISBN:0198506732] subset: goslim_pir synonym: "aromatic compound metabolism" EXACT [] synonym: "aromatic hydrocarbon metabolic process" NARROW [] synonym: "aromatic hydrocarbon metabolism" NARROW [] is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0006793 name: phosphorus metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4)." [GOC:ai] subset: goslim_pir synonym: "phosphorus metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0006796 name: phosphate-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai] synonym: "phosphate metabolic process" RELATED [] synonym: "phosphate metabolism" EXACT [] xref: MIPS_funcat:01.04 is_a: GO:0006793 ! phosphorus metabolic process [Term] id: GO:0006807 name: nitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen." [CHEBI:51143, GOC:go_curators, GOC:jl, ISBN:0198506732] subset: goslim_metagenomics subset: goslim_pir synonym: "nitrogen compound metabolism" EXACT [] xref: MIPS_funcat:01.02 is_a: GO:0008152 ! metabolic process [Term] id: GO:0006810 name: transport namespace: biological_process alt_id: GO:0015457 alt_id: GO:0015460 alt_id: GO:0044765 def: "The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein." [GOC:dos, GOC:dph, GOC:jl, GOC:mah] comment: Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. subset: gocheck_do_not_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "single-organism transport" RELATED [] synonym: "small molecule transport" NARROW [] synonym: "solute:solute exchange" NARROW [] xref: MIPS_funcat:20 is_a: GO:0051234 ! establishment of localization created_by: janelomax creation_date: 2012-12-13T16:25:32Z [Term] id: GO:0006836 name: neurotransmitter transport namespace: biological_process def: "The directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Neurotransmitters are any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell." [GOC:ai] subset: goslim_pir synonym: "sodium:neurotransmitter transport" NARROW [] xref: MIPS_funcat:20.01.26 is_a: GO:0006810 ! transport [Term] id: GO:0006858 name: extracellular transport namespace: biological_process def: "The transport of substances that occurs outside cells." [GOC:go_curators] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005576 ! extracellular region relationship: occurs_in GO:0005576 ! extracellular region [Term] id: GO:0006873 name: cellular ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of ions at the level of a cell." [GOC:mah] subset: goslim_yeast xref: MIPS_funcat:34.01 is_a: GO:0050801 ! ion homeostasis is_a: GO:0055082 ! cellular chemical homeostasis [Term] id: GO:0006885 name: regulation of pH namespace: biological_process def: "Any process involved in the maintenance of an internal equilibrium of hydrogen ions, thereby modulating the internal pH, within an organism or cell." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "hydrogen ion homeostasis" EXACT [GOC:dph, GOC:tb] is_a: GO:0055067 ! monovalent inorganic cation homeostasis [Term] id: GO:0006886 name: intracellular protein transport namespace: biological_process alt_id: GO:0032779 def: "The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell." [GOC:mah] synonym: "copper-induced intracellular protein transport" RELATED [GOC:al] is_a: GO:0015031 ! protein transport is_a: GO:0046907 ! intracellular transport relationship: part_of GO:0034613 ! cellular protein localization [Term] id: GO:0006887 name: exocytosis namespace: biological_process alt_id: GO:0016194 alt_id: GO:0016195 def: "A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for exemple of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell." [GOC:mah, ISBN:0716731363, PMID:22323285] subset: goslim_yeast synonym: "nonselective vesicle exocytosis" RELATED [] synonym: "vesicle exocytosis" EXACT [] xref: MIPS_funcat:20.09.16.09 xref: MIPS_funcat:20.09.16.09.03 xref: Wikipedia:Exocytosis is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0032940 ! secretion by cell relationship: has_part GO:0099500 ! vesicle fusion to plasma membrane [Term] id: GO:0006897 name: endocytosis namespace: biological_process alt_id: GO:0016193 alt_id: GO:0016196 alt_id: GO:0098701 def: "A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle." [GOC:mah, ISBN:0198506732, ISBN:0716731363] subset: goslim_yeast synonym: "endocytic import into cell" EXACT [] synonym: "nonselective vesicle endocytosis" RELATED [] synonym: "plasma membrane invagination" NARROW [] synonym: "vesicle endocytosis" EXACT [] xref: MIPS_funcat:20.09.18.09.01 xref: Wikipedia:Endocytosis is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0098657 ! import into cell relationship: has_part GO:0006900 ! vesicle budding from membrane relationship: has_part GO:0010324 ! membrane invagination [Term] id: GO:0006898 name: receptor-mediated endocytosis namespace: biological_process def: "An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles." [GOC:mah, ISBN:0716731363] synonym: "receptor mediated endocytosis" EXACT [] xref: MIPS_funcat:20.09.18.09.01.01 xref: Wikipedia:Receptor-mediated_endocytosis is_a: GO:0006897 ! endocytosis [Term] id: GO:0006900 name: vesicle budding from membrane namespace: biological_process alt_id: GO:0006902 alt_id: GO:1902591 def: "The evagination of a membrane, resulting in formation of a vesicle." [GOC:jid, GOC:tb] synonym: "membrane evagination" EXACT [] synonym: "nonselective vesicle assembly" RELATED [] synonym: "single organism membrane budding" RELATED [GOC:TermGenie] synonym: "single-organism membrane budding" RELATED [] synonym: "vesicle biosynthesis" EXACT [] synonym: "vesicle budding" RELATED [] synonym: "vesicle formation" EXACT [] xref: MIPS_funcat:20.09.07.25 is_a: GO:0016050 ! vesicle organization is_a: GO:0061024 ! membrane organization relationship: part_of GO:0016192 ! vesicle-mediated transport created_by: jl creation_date: 2013-12-19T15:26:17Z [Term] id: GO:0006906 name: vesicle fusion namespace: biological_process def: "Fusion of the membrane of a transport vesicle with its target membrane." [GOC:jid] xref: MIPS_funcat:20.09.07.27 is_a: GO:0016050 ! vesicle organization is_a: GO:0090174 ! organelle membrane fusion relationship: part_of GO:0016192 ! vesicle-mediated transport [Term] id: GO:0006909 name: phagocytosis namespace: biological_process def: "A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles." [ISBN:0198506732] xref: MIPS_funcat:36.25.16.01.03 xref: Wikipedia:Phagocytosis is_a: GO:0016192 ! vesicle-mediated transport [Term] id: GO:0006910 name: phagocytosis, recognition namespace: biological_process def: "The initial step in phagocytosis involving adhesion to bacteria, immune complexes and other particulate matter, or an apoptotic cell and based on recognition of factors such as bacterial cell wall components, opsonins like complement and antibody or protein receptors and lipids like phosphatidyl serine, and leading to intracellular signaling in the phagocytosing cell." [GOC:curators, ISBN:0781735149] comment: Note that cell surface molecules involved in the direct binding of bacteria may be also annotated to the molecular function term 'bacterial cell surface binding ; GO:0051635'. Note that cell surface molecules involved in the direct binding to opsonins such as complement components or antibodies may be also annotated to the term 'opsonin binding ; GO:0001846'. synonym: "recognition of phagocytosed substance by phagocytic cell" EXACT [] is_a: GO:0008037 ! cell recognition intersection_of: GO:0008037 ! cell recognition intersection_of: part_of GO:0006909 ! phagocytosis relationship: has_part GO:0038024 ! cargo receptor activity relationship: part_of GO:0006897 ! endocytosis relationship: part_of GO:0006909 ! phagocytosis [Term] id: GO:0006911 name: phagocytosis, engulfment namespace: biological_process def: "The internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis, including the membrane and cytoskeletal processes required, which involves one of three mechanisms: zippering of pseudopods around a target via repeated receptor-ligand interactions, sinking of the target directly into plasma membrane of the phagocytosing cell, or induced uptake via an enhanced membrane ruffling of the phagocytosing cell similar to macropinocytosis." [GOC:curators, ISBN:0781735149] synonym: "phagosome biosynthesis" RELATED [] synonym: "phagosome formation" RELATED [] is_a: GO:0099024 ! plasma membrane invagination intersection_of: GO:0099024 ! plasma membrane invagination intersection_of: part_of GO:0006909 ! phagocytosis relationship: part_of GO:0006897 ! endocytosis relationship: part_of GO:0006909 ! phagocytosis [Term] id: GO:0006913 name: nucleocytoplasmic transport namespace: biological_process alt_id: GO:0000063 def: "The directed movement of molecules between the nucleus and the cytoplasm." [GOC:go_curators] comment: Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane, and is not traversed. subset: goslim_chembl subset: goslim_generic subset: goslim_pombe synonym: "nucleocytoplasmic shuttling" NARROW [] is_a: GO:0051169 ! nuclear transport [Term] id: GO:0006914 name: autophagy namespace: biological_process alt_id: GO:0016238 def: "The cellular catabolic process in which cells digest parts of their own cytoplasm; allows for both recycling of macromolecular constituents under conditions of cellular stress and remodeling the intracellular structure for cell differentiation." [GOC:autophagy, ISBN:0198547684, PMID:11099404, PMID:9412464] subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_pombe xref: Wikipedia:Autophagy_(cellular) is_a: GO:0044248 ! cellular catabolic process is_a: GO:0061919 ! process utilizing autophagic mechanism [Term] id: GO:0006915 name: apoptotic process namespace: biological_process alt_id: GO:0006917 alt_id: GO:0008632 def: "A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." [GOC:cjm, GOC:dhl, GOC:ecd, GOC:go_curators, GOC:mtg_apoptosis, GOC:tb, ISBN:0198506732, PMID:18846107, PMID:21494263] subset: goslim_pombe synonym: "activation of apoptosis" NARROW [] synonym: "apoptosis" NARROW [] synonym: "apoptosis activator activity" RELATED [] synonym: "apoptosis signaling" NARROW [] synonym: "apoptotic cell death" EXACT [GOC:sl] synonym: "apoptotic program" NARROW [GOC:add] synonym: "apoptotic programmed cell death" EXACT [] synonym: "caspase-dependent programmed cell death" RELATED [] synonym: "cell suicide" BROAD [] synonym: "cellular suicide" BROAD [] synonym: "commitment to apoptosis" RELATED [] synonym: "induction of apoptosis" RELATED [] synonym: "induction of apoptosis by p53" RELATED [] synonym: "programmed cell death by apoptosis" EXACT [] synonym: "signaling (initiator) caspase activity" RELATED [] synonym: "type I programmed cell death" NARROW [] xref: MIPS_funcat:40.10.02 xref: Wikipedia:Apoptosis is_a: GO:0012501 ! programmed cell death [Term] id: GO:0006921 name: cellular component disassembly involved in execution phase of apoptosis namespace: biological_process def: "The breakdown of structures such as organelles, proteins, or other macromolecular structures during apoptosis." [GOC:dph, GOC:mah, GOC:mtg_apoptosis, GOC:tb] synonym: "cellular component disassembly involved in apoptosis" NARROW [] synonym: "cellular component disassembly involved in apoptotic process" BROAD [] synonym: "disassembly of cell structures" BROAD [] xref: MIPS_funcat:40.10.02.02.03 is_a: GO:0022411 ! cellular component disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: part_of GO:0097194 ! execution phase of apoptosis relationship: part_of GO:0097194 ! execution phase of apoptosis [Term] id: GO:0006928 name: movement of cell or subcellular component namespace: biological_process def: "The directed, self-propelled movement of a cell or subcellular component without the involvement of an external agent such as a transporter or a pore." [GOC:dgh, GOC:dph, GOC:jl, GOC:mlg] comment: Note that in GO cellular components include whole cells (cell is_a cellular component). subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell movement" RELATED [] synonym: "cellular component motion" EXACT [GOC:dph, GOC:jl] synonym: "cellular component movement" EXACT [] xref: MIPS_funcat:02.45.11 xref: MIPS_funcat:34.05 is_a: GO:0009987 ! cellular process [Term] id: GO:0006935 name: chemotaxis namespace: biological_process def: "The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." [ISBN:0198506732] synonym: "taxis in response to chemical stimulus" EXACT [] xref: MIPS_funcat:34.11.03.03 xref: Wikipedia:Chemotaxis is_a: GO:0042330 ! taxis relationship: part_of GO:0042221 ! response to chemical [Term] id: GO:0006949 name: syncytium formation namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division." [ISBN:0198506732] subset: goslim_pir is_a: GO:0009987 ! cellular process is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis [Term] id: GO:0006950 name: response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] xref: MIPS_funcat:32.01 is_a: GO:0050896 ! response to stimulus [Term] id: GO:0006970 name: response to osmotic stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of solutes outside the organism or cell." [GOC:jl] subset: goslim_yeast synonym: "osmotic response" EXACT [] synonym: "osmotic stress response" EXACT [] xref: MIPS_funcat:32.01.03 xref: MIPS_funcat:36.20.35.09.05 is_a: GO:0006950 ! response to stress is_a: GO:0009628 ! response to abiotic stimulus [Term] id: GO:0006974 name: cellular response to DNA damage stimulus namespace: biological_process alt_id: GO:0034984 def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism." [GOC:go_curators] subset: goslim_yeast synonym: "cellular DNA damage response" EXACT [] synonym: "DNA damage response" EXACT [] synonym: "response to DNA damage stimulus" BROAD [] synonym: "response to genotoxic stress" EXACT [] xref: MIPS_funcat:32.01.09 is_a: GO:0033554 ! cellular response to stress [Term] id: GO:0006979 name: response to oxidative stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals." [GOC:jl, PMID:12115731] subset: goslim_yeast xref: MIPS_funcat:32.01.01 is_a: GO:0006950 ! response to stress [Term] id: GO:0006983 name: ER overload response namespace: biological_process def: "The series of molecular signals generated by the accumulation of normal or misfolded proteins in the endoplasmic reticulum and leading to activation of transcription by NF-kappaB." [PMID:10390516] synonym: "endoplasmic reticulum overload response" EXACT [] synonym: "EOR" EXACT [] synonym: "ER-overload response" EXACT [] is_a: GO:0006984 ! ER-nucleus signaling pathway is_a: GO:0034976 ! response to endoplasmic reticulum stress is_a: GO:0071216 ! cellular response to biotic stimulus [Term] id: GO:0006984 name: ER-nucleus signaling pathway namespace: biological_process def: "Any series of molecular signals that conveys information from the endoplasmic reticulum to the nucleus, usually resulting in a change in transcriptional regulation." [GOC:mah] synonym: "endoplasmic reticulum to nucleus signaling pathway" EXACT [] synonym: "endoplasmic reticulum-nuclear signaling pathway" EXACT [] synonym: "ER to nucleus signaling pathway" EXACT [] synonym: "ER to nucleus signalling pathway" EXACT [] synonym: "ER-nuclear signaling pathway" EXACT [] synonym: "ER-nuclear signalling pathway" EXACT [] is_a: GO:0007165 ! signal transduction [Term] id: GO:0006986 name: response to unfolded protein namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an unfolded protein stimulus." [GOC:jl] comment: Note that this term should not be confused with 'unfolded protein response ; GO:0030968', which refers to one specific response to the presence of unfolded proteins in the ER. synonym: "heat shock protein activity" RELATED [] is_a: GO:0035966 ! response to topologically incorrect protein [Term] id: GO:0006990 name: positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response namespace: biological_process def: "The activation of genes whose promoters contain a specific sequence elements such as the unfolded protein response element (UPRE; consensus CAGCGTG) or the ER stress-response element (ERSE; CCAAN(N)9CCACG), as a result of signaling via the unfolded protein response." [GOC:dph, GOC:mah, GOC:tb, GOC:txnOH, PMID:12042763] synonym: "positive regulation of transcription of target genes involved in unfolded protein response" EXACT [GOC:dph, GOC:tb] synonym: "unfolded protein response, activation of target gene transcription" NARROW [] synonym: "unfolded protein response, positive regulation of target gene transcription" EXACT [GOC:tb] synonym: "unfolded protein response, stimulation of target gene transcription" NARROW [] synonym: "unfolded protein response, target gene transcriptional activation" BROAD [] synonym: "unfolded protein response, up regulation of target gene transcription" EXACT [] synonym: "unfolded protein response, up-regulation of target gene transcription" EXACT [] synonym: "unfolded protein response, upregulation of target gene transcription" EXACT [] is_a: GO:1901522 ! positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus intersection_of: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: part_of GO:0030968 ! endoplasmic reticulum unfolded protein response relationship: part_of GO:0030968 ! endoplasmic reticulum unfolded protein response [Term] id: GO:0006996 name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [GOC:curators] synonym: "organelle organization and biogenesis" RELATED [GOC:dph, GOC:jl, GOC:mah] synonym: "single organism organelle organization" EXACT [GOC:TermGenie] synonym: "single-organism organelle organization" RELATED [] is_a: GO:0016043 ! cellular component organization created_by: jl creation_date: 2013-12-19T15:25:51Z [Term] id: GO:0006997 name: nucleus organization namespace: biological_process alt_id: GO:0048287 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleus." [GOC:dph, GOC:ems, GOC:jl, GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir subset: goslim_yeast synonym: "nuclear morphology" RELATED [] synonym: "nuclear organisation" EXACT [GOC:curators] synonym: "nuclear organization" EXACT [GOC:curators] synonym: "nuclear organization and biogenesis" RELATED [GOC:mah] synonym: "nucleus organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.10 is_a: GO:0006996 ! organelle organization [Term] id: GO:0006998 name: nuclear envelope organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear envelope." [GOC:dph, GOC:ems, GOC:jl, GOC:mah] synonym: "nuclear envelope organisation" EXACT [GOC:mah] synonym: "nuclear envelope organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.10.05 is_a: GO:0061024 ! membrane organization relationship: part_of GO:0006997 ! nucleus organization relationship: part_of GO:0010256 ! endomembrane system organization [Term] id: GO:0007005 name: mitochondrion organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a mitochondrion; includes mitochondrial morphogenesis and distribution, and replication of the mitochondrial genome as well as synthesis of new mitochondrial components." [GOC:dph, GOC:jl, GOC:mah, GOC:sgd_curators, PMID:9786946] subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "mitochondria organization" EXACT [GOC:mah] synonym: "mitochondrion organisation" EXACT [GOC:mah] synonym: "mitochondrion organization and biogenesis" RELATED [GOC:curators] xref: MIPS_funcat:42.16 is_a: GO:0006996 ! organelle organization [Term] id: GO:0007006 name: mitochondrial membrane organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a mitochondrial membrane, either of the lipid bilayer surrounding a mitochondrion." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] synonym: "mitochondrial membrane organisation" EXACT [GOC:curators] synonym: "mitochondrial membrane organization and biogenesis" RELATED [GOC:mah] is_a: GO:0007005 ! mitochondrion organization is_a: GO:0061024 ! membrane organization intersection_of: GO:0061024 ! membrane organization intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0007010 name: cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_yeast synonym: "cytoskeletal organization and biogenesis" RELATED [GOC:mah] synonym: "cytoskeletal regulator activity" RELATED [] synonym: "cytoskeleton organisation" EXACT [GOC:curators] synonym: "cytoskeleton organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.04 is_a: GO:0006996 ! organelle organization [Term] id: GO:0007015 name: actin filament organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments. Includes processes that control the spatial distribution of actin filaments, such as organizing filaments into meshworks, bundles, or other structures, as by cross-linking." [GOC:mah] synonym: "actin filament organisation" EXACT [GOC:curators] synonym: "regulation of actin filament localization" NARROW [] is_a: GO:0097435 ! supramolecular fiber organization relationship: part_of GO:0030036 ! actin cytoskeleton organization [Term] id: GO:0007017 name: microtubule-based process namespace: biological_process def: "Any cellular process that depends upon or alters the microtubule cytoskeleton, that part of the cytoskeleton comprising microtubules and their associated proteins." [GOC:mah] subset: goslim_chembl is_a: GO:0009987 ! cellular process [Term] id: GO:0007018 name: microtubule-based movement namespace: biological_process def: "A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." [GOC:cjm, ISBN:0815316194] xref: MIPS_funcat:20.09.14.01 is_a: GO:0006928 ! movement of cell or subcellular component is_a: GO:0007017 ! microtubule-based process [Term] id: GO:0007019 name: microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of a microtubule." [ISBN:0815316194] synonym: "microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "microtubule depolymerization during nuclear congression" NARROW [] synonym: "microtubule disassembly" EXACT [] synonym: "microtubule shortening" EXACT [] is_a: GO:0031109 ! microtubule polymerization or depolymerization is_a: GO:0051261 ! protein depolymerization is_a: GO:0097435 ! supramolecular fiber organization [Term] id: GO:0007020 name: microtubule nucleation namespace: biological_process def: "The process in which tubulin alpha-beta heterodimers begin aggregation to form an oligomeric tubulin structure (a microtubule seed). Microtubule nucleation is the initiating step in the formation of a microtubule in the absence of any existing microtubules ('de novo' microtubule formation)." [GOC:go_curators, ISBN:0815316194, PMID:12517712] xref: Wikipedia:Microtubule_nucleation is_a: GO:0000226 ! microtubule cytoskeleton organization relationship: part_of GO:0046785 ! microtubule polymerization [Term] id: GO:0007026 name: negative regulation of microtubule depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule depolymerization; prevention of depolymerization of a microtubule can result from binding by 'capping' at the plus end (e.g. by interaction with another cellular protein of structure) or by exposing microtubules to a stabilizing drug such as taxol." [GOC:mah, ISBN:0815316194] synonym: "down regulation of microtubule depolymerization" EXACT [] synonym: "down-regulation of microtubule depolymerization" EXACT [] synonym: "downregulation of microtubule depolymerization" EXACT [] synonym: "inhibition of microtubule depolymerization" NARROW [] synonym: "microtubule rescue" NARROW [GOC:dph, GOC:tb] synonym: "microtubule stabilization" EXACT [] synonym: "negative regulation of microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "negative regulation of microtubule disassembly" EXACT [] is_a: GO:0031111 ! negative regulation of microtubule polymerization or depolymerization is_a: GO:0031114 ! regulation of microtubule depolymerization is_a: GO:1901880 ! negative regulation of protein depolymerization is_a: GO:1902904 ! negative regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007019 ! microtubule depolymerization relationship: negatively_regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0007027 name: negative regulation of axonemal microtubule depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the depolymerization of the specialized microtubules of the axoneme." [GOC:dph, GOC:mah] synonym: "axonemal microtubule stabilization" EXACT [] synonym: "negative regulation of microtubule depolymerization in axoneme" RELATED [GOC:dph] is_a: GO:0007026 ! negative regulation of microtubule depolymerization is_a: GO:0010937 ! regulation of cytoplasmic microtubule depolymerization is_a: GO:0031345 ! negative regulation of cell projection organization is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0060404 ! axonemal microtubule depolymerization relationship: negatively_regulates GO:0060404 ! axonemal microtubule depolymerization [Term] id: GO:0007028 name: cytoplasm organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the cytoplasm. The cytoplasm is all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [GOC:curators, GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir synonym: "cytoplasm organisation" EXACT [GOC:curators] synonym: "cytoplasm organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.03 is_a: GO:0016043 ! cellular component organization [Term] id: GO:0007031 name: peroxisome organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a peroxisome. A peroxisome is a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules." [GOC:mah] subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "peroxisome organisation" EXACT [GOC:curators] synonym: "peroxisome organization and biogenesis" RELATED [GOC:mah] synonym: "peroxisome-assembly ATPase activity" RELATED [] xref: MIPS_funcat:42.19 is_a: GO:0006996 ! organelle organization [Term] id: GO:0007033 name: vacuole organization namespace: biological_process alt_id: GO:0044086 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vacuole." [GOC:mah] subset: goslim_pir subset: goslim_yeast synonym: "vacuolar assembly" NARROW [GOC:mah] synonym: "vacuole biogenesis" RELATED [GOC:mah] synonym: "vacuole organisation" EXACT [GOC:curators] synonym: "vacuole organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.25 is_a: GO:0006996 ! organelle organization [Term] id: GO:0007039 name: protein catabolic process in the vacuole namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a protein in the vacuole, usually by the action of vacuolar proteases." [GOC:mah, GOC:vw] synonym: "vacuolar protein breakdown" RELATED [] synonym: "vacuolar protein catabolic process" RELATED [] synonym: "vacuolar protein catabolism" RELATED [] synonym: "vacuolar protein degradation" RELATED [] xref: MIPS_funcat:14.13.04 xref: MIPS_funcat:14.13.04.02 is_a: GO:0044257 ! cellular protein catabolic process intersection_of: GO:0030163 ! protein catabolic process intersection_of: occurs_in GO:0005773 ! vacuole relationship: occurs_in GO:0005773 ! vacuole [Term] id: GO:0007040 name: lysosome organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a lysosome. A lysosome is a cytoplasmic, membrane-bounded organelle that is found in most animal cells and that contains a variety of hydrolases." [GOC:mah] synonym: "lysosome organisation" EXACT [GOC:curators] synonym: "lysosome organization and biogenesis" RELATED [GOC:mah] xref: MIPS_funcat:42.25 is_a: GO:0080171 ! lytic vacuole organization [Term] id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "cell-division cycle" EXACT [] xref: MIPS_funcat:10 xref: MIPS_funcat:10.03 xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process [Term] id: GO:0007051 name: spindle organization namespace: biological_process alt_id: GO:0043146 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the spindle, the array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during DNA segregation and serves to move the duplicated chromosomes apart." [GOC:go_curators, GOC:mah] synonym: "spindle organisation" EXACT [GOC:curators] synonym: "spindle organization and biogenesis" RELATED [GOC:mah] synonym: "spindle stabilization" RELATED [] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:0022402 ! cell cycle process [Term] id: GO:0007052 name: mitotic spindle organization namespace: biological_process alt_id: GO:0000071 alt_id: GO:0030472 alt_id: GO:0043148 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a mitotic cell cycle." [GOC:go_curators, GOC:mah] comment: In fission yeast most mitotic spindle organization occurs in the nucleus; see https://github.com/geneontology/go-ontology/issues/15341. synonym: "mitotic spindle organisation" EXACT [GOC:curators] synonym: "mitotic spindle organisation in nucleus" NARROW [] synonym: "mitotic spindle organization and biogenesis" RELATED [GOC:mah] synonym: "mitotic spindle organization and biogenesis in cell nucleus" NARROW [] synonym: "mitotic spindle organization and biogenesis in nucleus" NARROW [] synonym: "mitotic spindle organization in nucleus" NARROW [] synonym: "mitotic spindle stabilization" RELATED [] synonym: "spindle organization and biogenesis during mitosis" EXACT [] synonym: "spindle organization and biogenesis in nucleus during mitosis" NARROW [] is_a: GO:0007051 ! spindle organization is_a: GO:1902850 ! microtubule cytoskeleton organization involved in mitosis intersection_of: GO:0007051 ! spindle organization intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007053 name: spindle assembly involved in male meiosis namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the spindle during a meiotic cell cycle in males. An example of this is found in Drosophila melanogaster." [GOC:mah] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0090306 ! spindle assembly involved in meiosis intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0007140 ! male meiotic nuclear division relationship: part_of GO:0007140 ! male meiotic nuclear division [Term] id: GO:0007054 name: spindle assembly involved in male meiosis I namespace: biological_process def: "The formation of the spindle during meiosis I of a meiotic cell cycle in males. An example of this is found in Drosophila melanogaster." [GOC:mah] synonym: "male meiosis I spindle assembly" RELATED [] is_a: GO:0007053 ! spindle assembly involved in male meiosis intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0007141 ! male meiosis I relationship: part_of GO:0007141 ! male meiosis I [Term] id: GO:0007056 name: spindle assembly involved in female meiosis namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the spindle during a meiotic cell cycle in females. An example of this is found in Drosophila melanogaster." [GOC:mah] synonym: "female meiotic spindle assembly" RELATED [] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0090306 ! spindle assembly involved in meiosis intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0007143 ! female meiotic nuclear division relationship: part_of GO:0007143 ! female meiotic nuclear division [Term] id: GO:0007057 name: spindle assembly involved in female meiosis I namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the spindle during meiosis I of a meiotic cell cycle in females. An example of this is found in Drosophila melanogaster." [GOC:mah] synonym: "female meiosis I spindle assembly" RELATED [] is_a: GO:0007056 ! spindle assembly involved in female meiosis intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0007144 ! female meiosis I relationship: part_of GO:0007144 ! female meiosis I [Term] id: GO:0007059 name: chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. In eukaryotes, chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles." [GOC:jl, GOC:mah, GOC:mtg_cell_cycle, GOC:vw] subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_yeast synonym: "chromosome division" EXACT [] synonym: "chromosome transmission" RELATED [] xref: MIPS_funcat:10.03.04 xref: MIPS_funcat:10.03.04.05 xref: Wikipedia:Chromosome_segregation is_a: GO:0009987 ! cellular process [Term] id: GO:0007060 name: male meiosis chromosome segregation namespace: biological_process def: "The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a male." [GOC:ai] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0045132 ! meiotic chromosome segregation relationship: part_of GO:0007140 ! male meiotic nuclear division [Term] id: GO:0007076 name: mitotic chromosome condensation namespace: biological_process def: "The cell cycle process in which chromatin structure is compacted prior to and during mitosis in eukaryotic cells." [GOC:mah, ISBN:0815316194] is_a: GO:0030261 ! chromosome condensation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0030261 ! chromosome condensation intersection_of: part_of GO:0000278 ! mitotic cell cycle relationship: part_of GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0007077 name: mitotic nuclear envelope disassembly namespace: biological_process def: "The cell cycle process in which the controlled breakdown of the nuclear envelope during mitotic cell division occurs." [GOC:bf] synonym: "mitotic nuclear envelope breakdown" EXACT [] synonym: "mitotic nuclear envelope catabolism" EXACT [] synonym: "mitotic nuclear envelope degradation" EXACT [] is_a: GO:0051081 ! nuclear envelope disassembly is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0051081 ! nuclear envelope disassembly intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007084 name: mitotic nuclear envelope reassembly namespace: biological_process def: "The cell cycle process that results in reformation of the nuclear envelope during mitotic cell division." [GOC:ai] is_a: GO:0031468 ! nuclear envelope reassembly is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0031468 ! nuclear envelope reassembly intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007088 name: regulation of mitotic nuclear division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitosis." [GOC:go_curators] synonym: "regulation of mitosis" EXACT [] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0140014 ! mitotic nuclear division relationship: regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0007091 name: metaphase/anaphase transition of mitotic cell cycle namespace: biological_process def: "The cell cycle process in which a cell progresses from metaphase to anaphase during mitosis, triggered by the activation of the anaphase promoting complex by Cdc20/Sleepy homolog which results in the degradation of Securin." [GOC:mtg_cell_cycle, PMID:10465783] synonym: "metaphase/anaphase transition by anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" EXACT [GOC:vw] synonym: "mitotic metaphase/anaphase transition" EXACT [] is_a: GO:0010965 ! regulation of mitotic sister chromatid separation is_a: GO:0044772 ! mitotic cell cycle phase transition is_a: GO:0044784 ! metaphase/anaphase transition of cell cycle intersection_of: GO:0044784 ! metaphase/anaphase transition of cell cycle intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007093 name: mitotic cell cycle checkpoint namespace: biological_process alt_id: GO:0031575 alt_id: GO:0071780 def: "A cell cycle checkpoint that ensures accurate chromosome replication and segregation by preventing progression through a mitotic cell cycle until conditions are suitable for the cell to proceed to the next stage." [GOC:mtg_cell_cycle] synonym: "mitotic checkpoint" RELATED [] is_a: GO:0000075 ! cell cycle checkpoint is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0000075 ! cell cycle checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007094 name: mitotic spindle assembly checkpoint namespace: biological_process alt_id: GO:0044810 def: "A cell cycle checkpoint that delays the metaphase/anaphase transition of a mitotic nuclear division until the spindle is correctly assembled and chromosomes are attached to the spindle." [GOC:mtg_cell_cycle, PMID:12360190] synonym: "Dma1-dependent checkpoint" NARROW [] synonym: "Mad2-dependent checkpoint" NARROW [] synonym: "mitotic cell cycle spindle assembly checkpoint" EXACT [] synonym: "SAC-independent checkpoint" NARROW [] is_a: GO:0045841 ! negative regulation of mitotic metaphase/anaphase transition is_a: GO:0071173 ! spindle assembly checkpoint is_a: GO:0071174 ! mitotic spindle checkpoint intersection_of: GO:0071173 ! spindle assembly checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007095 name: mitotic G2 DNA damage checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that detects and negatively regulates progression through the G2/M transition of the cell cycle in response to DNA damage." [GOC:mtg_cell_cycle] synonym: "mitotic cell cycle G2/M transition DNA damage checkpoint" EXACT [] is_a: GO:0031572 ! G2 DNA damage checkpoint is_a: GO:0044773 ! mitotic DNA damage checkpoint is_a: GO:0044818 ! mitotic G2/M transition checkpoint intersection_of: GO:0031572 ! G2 DNA damage checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007097 name: nuclear migration namespace: biological_process alt_id: GO:0040023 def: "The directed movement of the nucleus to a specific location within a cell." [GOC:ai] subset: goslim_aspergillus synonym: "establishment of cell nucleus localization" RELATED [] synonym: "establishment of localization of nucleus" RELATED [] synonym: "establishment of nucleus localisation" RELATED [GOC:mah] synonym: "establishment of nucleus localization" RELATED [] synonym: "establishment of position of nucleus" EXACT [] synonym: "nuclear movement" EXACT [] synonym: "nuclear positioning" EXACT [] synonym: "nucleus migration" EXACT [] synonym: "nucleus positioning" EXACT [] synonym: "positioning of nucleus" EXACT [] xref: MIPS_funcat:10.03.04.09 is_a: GO:0046907 ! intracellular transport is_a: GO:0051647 ! nucleus localization is_a: GO:0051656 ! establishment of organelle localization [Term] id: GO:0007112 name: male meiosis cytokinesis namespace: biological_process def: "A cell cycle process that occurs as part of the male meiotic cell cycle and results in the division of the cytoplasm of a cell to produce two daughter cells." [GOC:ai] synonym: "cytokinesis after male meiosis" EXACT [GOC:dph, GOC:tb] synonym: "cytokinesis involved in male meiotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0033206 ! meiotic cytokinesis intersection_of: GO:0000910 ! cytokinesis intersection_of: part_of GO:0007140 ! male meiotic nuclear division relationship: part_of GO:0007140 ! male meiotic nuclear division [Term] id: GO:0007127 name: meiosis I namespace: biological_process def: "The first meiotic nuclear division in which homologous chromosomes are paired and segregated from each other, producing two haploid daughter nuclei." [GOC:dph, GOC:jl, GOC:mtg_cell_cycle, PMID:9334324] synonym: "meiosis I nuclear division" EXACT [] xref: MIPS_funcat:10.03.02.01 xref: Wikipedia:Meiosis#Meiosis_I is_a: GO:0061982 ! meiosis I cell cycle process is_a: GO:0140013 ! meiotic nuclear division relationship: ends_during GO:0007134 ! meiotic telophase I [Term] id: GO:0007129 name: synapsis namespace: biological_process def: "The meiotic cell cycle process where side by side pairing and physical juxtaposition of homologous chromosomes is created during meiotic prophase. Synapsis begins when the chromosome arms begin to pair from the clustered telomeres and ends when synaptonemal complex or linear element assembly is complete." [GOC:mtg_cell_cycle, PMID:22582262, PMID:23117617] synonym: "chromosomal pairing" RELATED [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "chromosomal synapsis" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "homologous chromosome pairing at meiosis" EXACT [] xref: Wikipedia:Synapsis is_a: GO:0070192 ! chromosome organization involved in meiotic cell cycle relationship: part_of GO:0045143 ! homologous chromosome segregation [Term] id: GO:0007134 name: meiotic telophase I namespace: biological_process def: "The cell cycle phase which follows anaphase I of meiosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate is_a: GO:0051326 ! telophase is_a: GO:0098764 ! meiosis I cell cycle phase [Term] id: GO:0007140 name: male meiotic nuclear division namespace: biological_process def: "A cell cycle process by which the cell nucleus divides as part of a meiotic cell cycle in the male germline." [GOC:dph, GOC:mah, GOC:vw] synonym: "male meiosis" RELATED [] synonym: "male nuclear division" BROAD [] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0140013 ! meiotic nuclear division intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0048232 ! male gamete generation intersection_of: part_of GO:0051321 ! meiotic cell cycle relationship: part_of GO:0048232 ! male gamete generation [Term] id: GO:0007141 name: male meiosis I namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through male meiosis I, the first meiotic division in the male germline." [GOC:dph, GOC:mah] synonym: "male meiosis I nuclear division" EXACT [] is_a: GO:0007127 ! meiosis I is_a: GO:0007140 ! male meiotic nuclear division intersection_of: GO:0007127 ! meiosis I intersection_of: part_of GO:0048232 ! male gamete generation intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0007143 name: female meiotic nuclear division namespace: biological_process def: "A cell cycle process by which the cell nucleus divides as part of a meiotic cell cycle in the female germline." [GOC:dph, GOC:ems, GOC:mah, GOC:vw] comment: Note that female germ lines can be found in female or hermaphroditic organisms, so this term can be used to annotate gene products from hermaphrodites such as those of C. elegans. See also the biological process term 'meiotic nuclear division; GO:0140013'. synonym: "female meiosis" BROAD [] synonym: "female meiotic division" BROAD [] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0140013 ! meiotic nuclear division intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0007292 ! female gamete generation intersection_of: part_of GO:0051321 ! meiotic cell cycle relationship: part_of GO:0007292 ! female gamete generation [Term] id: GO:0007144 name: female meiosis I namespace: biological_process def: "The cell cycle process in which the first meiotic division occurs in the female germline." [GOC:mah] synonym: "female meiosis I nuclear division" EXACT [] is_a: GO:0007127 ! meiosis I is_a: GO:0007143 ! female meiotic nuclear division intersection_of: GO:0007127 ! meiosis I intersection_of: part_of GO:0007292 ! female gamete generation intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0007154 name: cell communication namespace: biological_process def: "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:mah] subset: goslim_pir subset: goslim_plant xref: Wikipedia:Cell_signaling is_a: GO:0009987 ! cellular process [Term] id: GO:0007155 name: cell adhesion namespace: biological_process alt_id: GO:0098602 def: "The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules." [GOC:hb, GOC:pf] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe synonym: "cell adhesion molecule activity" RELATED [] synonym: "single organism cell adhesion" RELATED [] xref: MIPS_funcat:34.07 xref: Wikipedia:Cell_adhesion is_a: GO:0022610 ! biological adhesion created_by: davidos creation_date: 2014-04-15T15:59:10Z [Term] id: GO:0007162 name: negative regulation of cell adhesion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell adhesion." [GOC:go_curators] synonym: "cell adhesion receptor inhibitor activity" RELATED [] synonym: "down regulation of cell adhesion" EXACT [] synonym: "down-regulation of cell adhesion" EXACT [] synonym: "downregulation of cell adhesion" EXACT [] synonym: "inhibition of cell adhesion" NARROW [] is_a: GO:0030155 ! regulation of cell adhesion is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007155 ! cell adhesion relationship: negatively_regulates GO:0007155 ! cell adhesion [Term] id: GO:0007163 name: establishment or maintenance of cell polarity namespace: biological_process alt_id: GO:0030012 alt_id: GO:0030467 def: "Any cellular process that results in the specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns." [GOC:mah] subset: goslim_pombe synonym: "cell polarity" RELATED [GOC:mah, GOC:vw] synonym: "establishment and/or maintenance of cell polarity" RELATED [] synonym: "establishment and/or maintenance of cell polarization" RELATED [] is_a: GO:0009987 ! cellular process [Term] id: GO:0007165 name: signal transduction namespace: biological_process alt_id: GO:0023033 def: "The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell." [GOC:go_curators, GOC:mtg_signaling_feb11] comment: Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] synonym: "signalling pathway" RELATED [GOC:mah] xref: MIPS_funcat:30 xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process relationship: part_of GO:0007154 ! cell communication relationship: part_of GO:0023052 ! signaling relationship: part_of GO:0051716 ! cellular response to stimulus [Term] id: GO:0007267 name: cell-cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions." [GOC:dos, GOC:mah] subset: goslim_chembl subset: goslim_generic subset: goslim_plant synonym: "cell-cell signalling" EXACT [] is_a: GO:0007154 ! cell communication is_a: GO:0023052 ! signaling [Term] id: GO:0007268 name: chemical synaptic transmission namespace: biological_process def: "The vesicular release of classical neurotransmitter molecules from a presynapse, across a chemical synapse, the subsequent activation of neurotransmitter receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." [GOC:jl, MeSH:D009435] subset: goslim_synapse synonym: "neurotransmission" RELATED [GOC:dph] synonym: "signal transmission across a synapse" BROAD [] synonym: "synaptic transmission" BROAD [] xref: MIPS_funcat:34.03.01 xref: Wikipedia:Neurotransmission is_a: GO:0098916 ! anterograde trans-synaptic signaling [Term] id: GO:0007269 name: neurotransmitter secretion namespace: biological_process alt_id: GO:0010554 def: "The regulated release of neurotransmitter from the presynapse into the synaptic cleft via calcium-regulated exocytosis during synaptic transmission." [CHEBI:25512, GOC:dph] comment: A neurotransmitter is any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell. Among the many substances that have the properties of a neurotransmitter are acetylcholine, noradrenaline, adrenaline, dopamine, glycine, gamma-aminobutyrate, glutamic acid, substance P, enkephalins, endorphins and serotonin. subset: goslim_synapse synonym: "neurotransmitter release" EXACT [] synonym: "neurotransmitter secretory pathway" EXACT [] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0006836 ! neurotransmitter transport is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0099643 ! signal release from synapse relationship: occurs_in GO:0098793 ! presynapse relationship: part_of GO:0007268 ! chemical synaptic transmission [Term] id: GO:0007271 name: synaptic transmission, cholinergic namespace: biological_process def: "The vesicular release of acetylcholine from a presynapse, across a chemical synapse, the subsequent activation of dopamine receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." [GOC:dos, Wikipedia:Cholinergic] is_a: GO:0007268 ! chemical synaptic transmission [Term] id: GO:0007274 name: neuromuscular synaptic transmission namespace: biological_process def: "The process of synaptic transmission from a neuron to a muscle, across a synapse." [GOC:dos, GOC:jl, MeSH:D009435] is_a: GO:0007268 ! chemical synaptic transmission [Term] id: GO:0007275 name: multicellular organism development namespace: biological_process def: "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:dph, GOC:ems, GOC:isa_complete, GOC:tb] comment: Note that this term was 'developmental process'. subset: goslim_chembl subset: goslim_plant xref: MIPS_funcat:41 is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048856 ! anatomical structure development [Term] id: GO:0007276 name: gamete generation namespace: biological_process alt_id: GO:0009552 def: "The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell." [GOC:ems, GOC:mtg_sensu] synonym: "gametogenesis" RELATED [] xref: MIPS_funcat:41.05.25 is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0019953 ! sexual reproduction [Term] id: GO:0007281 name: germ cell development namespace: biological_process def: "The process whose specific outcome is the progression of an immature germ cell over time, from its formation to the mature structure (gamete). A germ cell is any reproductive cell in a multicellular organism." [GOC:go_curators] synonym: "germ-cell development" EXACT [] synonym: "primordial germ cell development" NARROW [] xref: MIPS_funcat:43.03.02 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048468 ! cell development relationship: part_of GO:0007276 ! gamete generation [Term] id: GO:0007283 name: spermatogenesis namespace: biological_process def: "The process of formation of spermatozoa, including spermatocytogenesis and spermiogenesis." [GOC:jid, ISBN:9780878933846] synonym: "generation of spermatozoa" EXACT systematic_synonym [] xref: Wikipedia:Spermatogenesis is_a: GO:0048232 ! male gamete generation [Term] id: GO:0007285 name: primary spermatocyte growth namespace: biological_process def: "The phase of growth and gene expression that male germ cells undergo as they enter the spermatocyte stage. The cells grow in volume and transcribe most of the gene products needed for the morphological events that follow meiosis." [GOC:jid, ISBN:0879694238] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048588 ! developmental cell growth relationship: part_of GO:0007283 ! spermatogenesis [Term] id: GO:0007286 name: spermatid development namespace: biological_process def: "The process whose specific outcome is the progression of a spermatid over time, from its formation to the mature structure." [GOC:dph, GOC:go_curators] synonym: "spermatid cell development" EXACT [] synonym: "spermiogenesis" EXACT [] xref: Wikipedia:Spermiogenesis is_a: GO:0007281 ! germ cell development relationship: part_of GO:0048515 ! spermatid differentiation [Term] id: GO:0007289 name: spermatid nucleus differentiation namespace: biological_process def: "The specialization of the spermatid nucleus during the development of a spermatid into a mature male gamete competent for fertilization." [GOC:bf, GOC:dph, GOC:jl, GOC:mah] comment: See also the Cell Ontology term 'spermatid ; CL:0000018'. synonym: "spermatid nuclear differentiation" EXACT [] is_a: GO:0006997 ! nucleus organization is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism relationship: part_of GO:0007286 ! spermatid development [Term] id: GO:0007292 name: female gamete generation namespace: biological_process def: "Generation of the female gamete; specialised haploid cells produced by meiosis and along with a male gamete takes part in sexual reproduction." [GOC:dph, ISBN:0198506732] is_a: GO:0007276 ! gamete generation [Term] id: GO:0007296 name: vitellogenesis namespace: biological_process def: "The production of yolk. Yolk is a mixture of materials used for embryonic nutrition." [GOC:dph, ISBN:0879694238] synonym: "yolk formation" EXACT [] synonym: "yolk production" EXACT systematic_synonym [] xref: Wikipedia:Vitellogenesis is_a: GO:0007028 ! cytoplasm organization is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism relationship: part_of GO:0007292 ! female gamete generation [Term] id: GO:0007320 name: insemination namespace: biological_process def: "The introduction of semen or sperm into the genital tract of a female." [ISBN:0582227089] xref: Wikipedia:Insemination is_a: GO:0044703 ! multi-organism reproductive process is_a: GO:0044706 ! multi-multicellular organism process is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007620 ! copulation [Term] id: GO:0007338 name: single fertilization namespace: biological_process def: "The union of male and female gametes to form a zygote." [GOC:ems, GOC:mtg_sensu] synonym: "zygote biosynthesis" RELATED [] synonym: "zygote formation" RELATED [] xref: MIPS_funcat:41.05.01 is_a: GO:0009566 ! fertilization [Term] id: GO:0007346 name: regulation of mitotic cell cycle namespace: biological_process def: "Any process that modulates the rate or extent of progress through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "mitotic cell cycle modulation" EXACT [] synonym: "mitotic cell cycle regulation" EXACT [] synonym: "mitotic cell cycle regulator" RELATED [] synonym: "modulation of mitotic cell cycle progression" EXACT [] synonym: "regulation of mitotic cell cycle progression" EXACT [] synonym: "regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000278 ! mitotic cell cycle relationship: regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0007369 name: gastrulation namespace: biological_process def: "A complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GOC:curators, ISBN:9780878933846] xref: MIPS_funcat:41.05.09 xref: Wikipedia:Gastrulation is_a: GO:0048598 ! embryonic morphogenesis relationship: has_part GO:0001705 ! ectoderm formation relationship: has_part GO:0001706 ! endoderm formation relationship: has_part GO:0001707 ! mesoderm formation [Term] id: GO:0007398 name: ectoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the ectoderm over time, from its formation to the mature structure. In animal embryos, the ectoderm is the outer germ layer of the embryo, formed during gastrulation." [GOC:dph, GOC:tb] is_a: GO:0009888 ! tissue development [Term] id: GO:0007399 name: nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state." [GOC:dgh] synonym: "pan-neural process" RELATED [] xref: MIPS_funcat:45.03.17 xref: MIPS_funcat:47.03.01 is_a: GO:0048731 ! system development [Term] id: GO:0007409 name: axonogenesis namespace: biological_process alt_id: GO:0007410 def: "De novo generation of a long process of a neuron, including the terminal branched region. Refers to the morphogenesis or creation of shape or form of the developing axon, which carries efferent (outgoing) action potentials from the cell body towards target cells." [GOC:dph, GOC:jid, GOC:pg, GOC:pr, ISBN:0198506732] comment: Note that 'axonogenesis' differs from 'axon development' in that the latter also covers other processes, such as axon regeneration (regrowth after loss or damage, not necessarily of the whole axon). synonym: "axon growth" NARROW [] synonym: "axon morphogenesis" EXACT [GOC:bf, PMID:23517308] synonym: "neuron long process generation" EXACT systematic_synonym [] is_a: GO:0048812 ! neuron projection morphogenesis relationship: part_of GO:0048667 ! cell morphogenesis involved in neuron differentiation relationship: part_of GO:0061564 ! axon development [Term] id: GO:0007411 name: axon guidance namespace: biological_process alt_id: GO:0008040 def: "The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues." [ISBN:0878932437] synonym: "axon chemotaxis" RELATED [GOC:curators] synonym: "axon growth cone guidance" NARROW [] synonym: "axon pathfinding" EXACT [GOC:mah] xref: Wikipedia:Axon_guidance is_a: GO:0097485 ! neuron projection guidance relationship: part_of GO:0007409 ! axonogenesis [Term] id: GO:0007413 name: axonal fasciculation namespace: biological_process def: "The collection of axons into a bundle of rods, known as a fascicle." [GOC:dgh] synonym: "fasciculation of neuron" RELATED [] is_a: GO:0008038 ! neuron recognition is_a: GO:0106030 ! neuron projection fasciculation relationship: part_of GO:0061564 ! axon development [Term] id: GO:0007416 name: synapse assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a synapse. This process ends when the synapse is mature (functional)." [GOC:mah] subset: goslim_synapse synonym: "synapse biogenesis" EXACT [GOC:mah] synonym: "synaptogenesis" EXACT [GOC:mah] xref: Wikipedia:Synaptogenesis is_a: GO:0022607 ! cellular component assembly is_a: GO:0050808 ! synapse organization relationship: part_of GO:0007399 ! nervous system development [Term] id: GO:0007492 name: endoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the endoderm over time, from its formation to the mature structure. The endoderm is the innermost germ layer that develops into the gastrointestinal tract, the lungs and associated tissues." [GOC:dph, GOC:tb] is_a: GO:0009888 ! tissue development [Term] id: GO:0007498 name: mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue." [GOC:dph, GOC:tb] is_a: GO:0009888 ! tissue development [Term] id: GO:0007517 name: muscle organ development namespace: biological_process def: "The process whose specific outcome is the progression of the muscle over time, from its formation to the mature structure. The muscle is an organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work." [GOC:jid, ISBN:0198506732] xref: MIPS_funcat:45.03.12 is_a: GO:0048513 ! animal organ development is_a: GO:0061061 ! muscle structure development [Term] id: GO:0007530 name: sex determination namespace: biological_process def: "Any process that establishes and transmits the specification of sexual status of an individual organism." [ISBN:0198506732] xref: Wikipedia:Sex-determination_system is_a: GO:0003006 ! developmental process involved in reproduction [Term] id: GO:0007548 name: sex differentiation namespace: biological_process def: "The establishment of the sex of an organism by physical differentiation." [GOC:ai] xref: MIPS_funcat:41.05.23 xref: Wikipedia:Sexual_differentiation is_a: GO:0003006 ! developmental process involved in reproduction [Term] id: GO:0007549 name: dosage compensation namespace: biological_process def: "Compensating for the variation in the unpaired sex chromosome:autosome chromosome ratios between sexes by activation or inactivation of genes on one or both of the sex chromosomes." [GOC:ems, ISBN:0140512888, PMID:11498577] xref: Wikipedia:Dosage_compensation is_a: GO:0040029 ! regulation of gene expression, epigenetic [Term] id: GO:0007568 name: aging namespace: biological_process alt_id: GO:0016280 def: "A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700)." [GOC:PO_curators] subset: goslim_chembl subset: goslim_generic synonym: "ageing" EXACT [] xref: Wikipedia:Aging is_a: GO:0032502 ! developmental process [Term] id: GO:0007588 name: excretion namespace: biological_process def: "The elimination by an organism of the waste products that arise as a result of metabolic activity. These products include water, carbon dioxide (CO2), and nitrogenous compounds." [ISBN:0192801023] subset: goslim_pir xref: MIPS_funcat:36.05 xref: Wikipedia:Excretion is_a: GO:0003008 ! system process [Term] id: GO:0007610 name: behavior namespace: biological_process alt_id: GO:0044708 def: "The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity." [GOC:ems, GOC:jl, ISBN:0395448956, PMID:20160973] comment: 1. Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation reviews.\n2. While a broader definition of behavior encompassing plants and single cell organisms would be justified on the basis of some usage (see PMID:20160973 for discussion), GO uses a tight definition that limits behavior to animals and to responses involving the nervous system, excluding plant responses that GO classifies under development, and responses of unicellular organisms that has general classifications for covering the responses of cells in multicellular organisms (e.g. cell chemotaxis). subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_flybase_ribbon synonym: "behavioral response to stimulus" EXACT [] synonym: "behaviour" EXACT [] synonym: "behavioural response to stimulus" EXACT [] synonym: "single-organism behavior" RELATED [] xref: Wikipedia:Behavior is_a: GO:0050896 ! response to stimulus disjoint_from: GO:0032502 ! developmental process created_by: janelomax creation_date: 2012-09-20T14:06:08Z [Term] id: GO:0007611 name: learning or memory namespace: biological_process def: "The acquisition and processing of information and/or the storage and retrieval of this information over time." [GOC:jid, PMID:8938125] xref: MIPS_funcat:36.25.03.04.01 is_a: GO:0007610 ! behavior is_a: GO:0050890 ! cognition [Term] id: GO:0007612 name: learning namespace: biological_process def: "Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs as the result of experience." [ISBN:0582227089, ISBN:0721662544] xref: Wikipedia:Learning is_a: GO:0007611 ! learning or memory [Term] id: GO:0007617 name: mating behavior namespace: biological_process def: "The behavioral interactions between organisms for the purpose of mating, or sexual reproduction resulting in the formation of zygotes." [GOC:ai, GOC:dph] synonym: "mating behaviour" EXACT [] xref: Wikipedia:Mating_behaviour is_a: GO:0019098 ! reproductive behavior intersection_of: GO:0007610 ! behavior intersection_of: part_of GO:0007618 ! mating relationship: part_of GO:0007618 ! mating [Term] id: GO:0007618 name: mating namespace: biological_process def: "The pairwise union of individuals for the purpose of sexual reproduction, ultimately resulting in the formation of zygotes." [GOC:jl, ISBN:0387520546] is_a: GO:0044703 ! multi-organism reproductive process relationship: part_of GO:0019953 ! sexual reproduction [Term] id: GO:0007620 name: copulation namespace: biological_process def: "The act of sexual union between male and female, involving the transfer of sperm." [ISBN:0721662544] is_a: GO:0007618 ! mating [Term] id: GO:0007622 name: rhythmic behavior namespace: biological_process def: "The specific behavior of an organism that recur with measured regularity." [GOC:jl, GOC:pr] synonym: "rhythmic behavioral response to stimulus" EXACT [] synonym: "rhythmic behaviour" EXACT [] synonym: "rhythmic behavioural response to stimulus" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0048511 ! rhythmic process [Term] id: GO:0007623 name: circadian rhythm namespace: biological_process alt_id: GO:0050895 def: "Any biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators] subset: goslim_plant synonym: "circadian process" EXACT [] synonym: "circadian response" RELATED [] synonym: "response to circadian rhythm" RELATED [] xref: Wikipedia:Circadian_rhythm is_a: GO:0048511 ! rhythmic process [Term] id: GO:0007624 name: ultradian rhythm namespace: biological_process def: "The specific actions or reactions of an organism that recur with a regularity more frequent than every 24 hours." [GOC:jl, PMID:19708721] is_a: GO:0048511 ! rhythmic process [Term] id: GO:0007626 name: locomotory behavior namespace: biological_process def: "The specific movement from place to place of an organism in response to external or internal stimuli. Locomotion of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions." [GOC:dph] synonym: "behavior via locomotion" EXACT [] synonym: "locomotion in response to stimulus" EXACT [] synonym: "locomotory behavioral response to stimulus" EXACT [] synonym: "locomotory behaviour" EXACT [] synonym: "locomotory behavioural response to stimulus" EXACT [] is_a: GO:0007610 ! behavior [Term] id: GO:0007631 name: feeding behavior namespace: biological_process def: "Behavior associated with the intake of food." [GOC:mah] comment: See also the biological process term 'behavior ; GO:0007610'. synonym: "behavioral response to food" EXACT [] synonym: "behavioural response to food" EXACT [] synonym: "drinking" NARROW [] synonym: "eating" NARROW [] synonym: "feeding behaviour" EXACT [] xref: MIPS_funcat:36.03 xref: Wikipedia:List_of_feeding_behaviours is_a: GO:0007610 ! behavior [Term] id: GO:0007635 name: chemosensory behavior namespace: biological_process def: "Behavior that is dependent upon the sensation of chemicals." [GOC:go_curators] synonym: "behavioral response to chemical stimulus" EXACT [] synonym: "behavioural response to chemical stimulus" EXACT [] synonym: "chemosensory behaviour" EXACT [] is_a: GO:0007610 ! behavior relationship: part_of GO:0042221 ! response to chemical [Term] id: GO:0008021 name: synaptic vesicle namespace: cellular_component def: "A secretory organelle, typically 50 nm in diameter, of presynaptic nerve terminals; accumulates in high concentrations of neurotransmitters and secretes these into the synaptic cleft by fusion with the 'active zone' of the presynaptic plasma membrane." [PMID:10099709, PMID:12563290] comment: This term should not be confused with GO:0097547 'synaptic vesicle protein transport vesicle'. STVs and synaptic vesicles differ both functionally and morphologically. Functionally, STVs are transport vesicles that deliver synaptic vesicle proteins to synapses, while synaptic vesicles are responsible for transmitter release at synapses. Morphologically, synaptic vesicles are very homogeneous, while STVs are very heterogeneous in size and shape. STVs might be a precursor for synaptic vesicles. subset: goslim_synapse synonym: "docked vesicle" NARROW [NIF_Subcellular:sao403156667] xref: NIF_Subcellular:sao1071221672 xref: Wikipedia:Synaptic_vesicle is_a: GO:0044456 ! synapse part is_a: GO:0070382 ! exocytic vesicle is_a: GO:0097458 ! neuron part relationship: part_of GO:0098793 ! presynapse [Term] id: GO:0008037 name: cell recognition namespace: biological_process def: "The process in which a cell in an organism interprets its surroundings." [GOC:go_curators] subset: goslim_pir synonym: "recognition of surroundings by cell" EXACT [GOC:curators] is_a: GO:0009987 ! cellular process [Term] id: GO:0008038 name: neuron recognition namespace: biological_process def: "The process in which a neuronal cell in a multicellular organism interprets its surroundings." [GOC:go_curators] synonym: "neuronal cell recognition" EXACT [] is_a: GO:0008037 ! cell recognition relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0008088 name: axo-dendritic transport namespace: biological_process def: "The directed movement of organelles or molecules along microtubules in neuron projections." [ISBN:0815316194] subset: goslim_synapse synonym: "axon cargo transport" NARROW [] synonym: "axonal transport" NARROW [] synonym: "axoplasmic transport" NARROW [] xref: Wikipedia:Axoplasmic_transport is_a: GO:0010970 ! transport along microtubule relationship: occurs_in GO:0043005 ! neuron projection [Term] id: GO:0008089 name: anterograde axonal transport namespace: biological_process def: "The directed movement of organelles or molecules along microtubules from the cell body toward the cell periphery in nerve cell axons." [ISBN:0815316194] subset: goslim_synapse synonym: "anterograde axon cargo transport" EXACT [] is_a: GO:0098930 ! axonal transport relationship: occurs_in GO:1904115 ! axon cytoplasm [Term] id: GO:0008104 name: protein localization namespace: biological_process alt_id: GO:0008105 def: "Any process in which a protein is transported to, or maintained in, a specific location." [GOC:ai] synonym: "asymmetric protein localisation" RELATED [GOC:mah] synonym: "asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of protein localization" RELATED [] synonym: "protein localisation" EXACT [GOC:mah] xref: MIPS_funcat:18.01.03 is_a: GO:0033036 ! macromolecule localization [Term] id: GO:0008150 name: biological_process namespace: biological_process alt_id: GO:0000004 alt_id: GO:0007582 alt_id: GO:0044699 def: "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process is_a: BFO:0000015 ! process created_by: janelomax creation_date: 2012-09-19T15:05:24Z [Term] id: GO:0008152 name: metabolic process namespace: biological_process alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. subset: gocheck_do_not_manually_annotate subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] synonym: "multicellular organism metabolic process" NARROW [] synonym: "single-organism metabolic process" RELATED [] xref: MIPS_funcat:01 xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase created_by: janelomax creation_date: 2012-10-17T15:46:40Z [Term] id: GO:0008156 name: negative regulation of DNA replication namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of DNA replication." [GOC:go_curators] synonym: "DNA replication inhibitor" RELATED [] synonym: "down regulation of DNA replication" EXACT [] synonym: "down-regulation of DNA replication" EXACT [] synonym: "downregulation of DNA replication" EXACT [] synonym: "inhibition of DNA replication" NARROW [] is_a: GO:0006275 ! regulation of DNA replication is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006260 ! DNA replication relationship: negatively_regulates GO:0006260 ! DNA replication [Term] id: GO:0008213 name: protein alkylation namespace: biological_process def: "The addition of an alkyl group to a protein amino acid. An alkyl group is any group derived from an alkane by removal of one hydrogen atom." [GOC:ma] subset: goslim_yeast synonym: "protein amino acid alkylation" EXACT [GOC:bf] is_a: GO:0006464 ! cellular protein modification process [Term] id: GO:0008219 name: cell death namespace: biological_process def: "Any biological process that results in permanent cessation of all vital functions of a cell. A cell should be considered dead when any one of the following molecular or morphological criteria is met: (1) the cell has lost the integrity of its plasma membrane; (2) the cell, including its nucleus, has undergone complete fragmentation into discrete bodies (frequently referred to as apoptotic bodies). The cell corpse (or its fragments) may be engulfed by an adjacent cell in vivo, but engulfment of whole cells should not be considered a strict criteria to define cell death as, under some circumstances, live engulfed cells can be released from phagosomes (see PMID:18045538)." [GOC:mah, GOC:mtg_apoptosis, PMID:25236395] comment: This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term. subset: goslim_agr subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_plant synonym: "accidental cell death" RELATED [] synonym: "necrosis" RELATED [] xref: MIPS_funcat:40.10 is_a: GO:0009987 ! cellular process [Term] id: GO:0008233 name: peptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid." [GOC:jl, ISBN:0815332181] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "hydrolase, acting on peptide bonds" EXACT [] synonym: "peptide hydrolase activity" EXACT [] synonym: "protease activity" EXACT [] synonym: "proteinase activity" NARROW [] xref: EC:3.4 xref: Reactome:R-HSA-205112 "gamma-secretase cleaves p75NTR, releasing NRIF and TRAF6" xref: Reactome:R-HSA-3000243 "Unknown protease degrades GIF:Cbl to release Cbl" xref: Reactome:R-HSA-3139027 "Maturation of HIV Virion" xref: Reactome:R-HSA-376149 "Proteolytic processing of SLIT" xref: Reactome:R-HSA-448678 "CTSG cleaves CASP1(1-404)" xref: Reactome:R-HSA-5655483 "USP1 autocleavage" xref: Reactome:R-HSA-5684864 "NAPSA, CTSH, PGA3-5 cleave pro-SFTPB" xref: Reactome:R-HSA-5685902 "NAPSA, CTSH, PGA3-5 cleave pro-SFTPC" xref: Reactome:R-HSA-5693319 "CTRC hydrolyses PRSS1" is_a: GO:0016787 ! hydrolase activity is_a: GO:0140096 ! catalytic activity, acting on a protein relationship: part_of GO:0006508 ! proteolysis [Term] id: GO:0008234 name: cysteine-type peptidase activity namespace: molecular_function alt_id: GO:0004220 def: "Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile." [GOC:mah, http://merops.sanger.ac.uk/about/glossary.htm#CATTYPE] synonym: "cysteine protease activity" NARROW [] synonym: "thiol protease activity" NARROW [] xref: EC:3.4 xref: Reactome:R-HSA-2022381 "Cathepsin Z (Cathepsin X) hydrolyzes Angiotensin-(1-10) to Angiotensin-(1-8)" xref: Reactome:R-HSA-2467775 "Autocleavage of ESPL1 (Separase)" xref: Reactome:R-HSA-2467809 "ESPL1 (Separase) cleaves centromeric cohesin" xref: Reactome:R-HSA-5660752 "USP9X deubiquitinates Ub-SNCA" is_a: GO:0070011 ! peptidase activity, acting on L-amino acid peptides [Term] id: GO:0008283 name: cell population proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population." [GOC:mah, GOC:mb] comment: This term was moved out from being a child of 'cellular process' because it is a cell population-level process, and cellular processes are restricted to those processes that involve individual cells. Also note that this term is intended to be used for the proliferation of cells within a multicellular organism, not for the expansion of a population of single-celled organisms. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir synonym: "cell proliferation" RELATED [] is_a: GO:0008150 ! biological_process [Term] id: GO:0008284 name: positive regulation of cell population proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of cell proliferation." [GOC:go_curators] synonym: "activation of cell proliferation" NARROW [] synonym: "positive regulation of cell proliferation" RELATED [] synonym: "stimulation of cell proliferation" NARROW [] synonym: "up regulation of cell proliferation" EXACT [] synonym: "up-regulation of cell proliferation" EXACT [] synonym: "upregulation of cell proliferation" EXACT [] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008283 ! cell population proliferation relationship: positively_regulates GO:0008283 ! cell population proliferation [Term] id: GO:0008285 name: negative regulation of cell population proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of cell proliferation." [GOC:go_curators] synonym: "down regulation of cell proliferation" EXACT [] synonym: "down-regulation of cell proliferation" EXACT [] synonym: "downregulation of cell proliferation" EXACT [] synonym: "inhibition of cell proliferation" NARROW [] synonym: "negative regulation of cell proliferation" RELATED [] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008283 ! cell population proliferation relationship: negatively_regulates GO:0008283 ! cell population proliferation [Term] id: GO:0008291 name: acetylcholine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:jl, GOC:nln, ISBN:0192800752] synonym: "acetylcholine metabolism" EXACT [] is_a: GO:0017144 ! drug metabolic process is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0042445 ! hormone metabolic process is_a: GO:0097164 ! ammonium ion metabolic process is_a: GO:1900619 ! acetate ester metabolic process [Term] id: GO:0008301 name: DNA binding, bending namespace: molecular_function def: "The activity of binding selectively and non-covalently to and distorting the original structure of DNA, typically a straight helix, into a bend, or increasing the bend if the original structure was intrinsically bent due to its sequence." [GOC:krc, GOC:vw, PMID:10710711, PMID:19037758] synonym: "DNA bending activity" EXACT [] synonym: "DNA bending involving DNA binding" EXACT [] is_a: GO:0003677 ! DNA binding [Term] id: GO:0008306 name: associative learning namespace: biological_process def: "Learning by associating a stimulus (the cause) with a particular outcome (the effect)." [ISBN:0582227089] synonym: "classical conditioning" EXACT [] synonym: "conditional learning" EXACT [] synonym: "conditional response" EXACT [] synonym: "Pavlovian conditioning" EXACT [] xref: Wikipedia:Learning#Associative_learning is_a: GO:0007612 ! learning [Term] id: GO:0008354 name: germ cell migration namespace: biological_process def: "The orderly movement of a cell specialized to produce haploid gametes through the embryo from its site of production to the place where the gonads will form." [GOC:bf, GOC:jl] synonym: "germ-cell migration" EXACT [] synonym: "primordial germ cell migration" RELATED [] is_a: GO:0016477 ! cell migration is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism relationship: part_of GO:0007276 ! gamete generation [Term] id: GO:0008356 name: asymmetric cell division namespace: biological_process def: "The asymmetric division of cells to produce two daughter cells with different developmental potentials. It is of fundamental significance for the generation of cell diversity." [PMID:11672519] synonym: "asymmetric cytokinesis" RELATED [] synonym: "asymmetrical cell division" EXACT [] synonym: "asymmetrical cytokinesis" RELATED [] xref: Wikipedia:Asymmetric_cell_division is_a: GO:0051301 ! cell division [Term] id: GO:0008361 name: regulation of cell size namespace: biological_process def: "Any process that modulates the size of a cell." [GOC:go_curators] synonym: "cell size control" EXACT [] xref: MIPS_funcat:40.01.05 is_a: GO:0032535 ! regulation of cellular component size [Term] id: GO:0008380 name: RNA splicing namespace: biological_process alt_id: GO:0006395 def: "The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA." [GOC:krc, GOC:mah] subset: goslim_yeast synonym: "pre-mRNA splicing factor activity" RELATED [] xref: MIPS_funcat:11.04.03.01 xref: Wikipedia:RNA_splicing is_a: GO:0006396 ! RNA processing [Term] id: GO:0008406 name: gonad development namespace: biological_process def: "The process whose specific outcome is the progression of the gonad over time, from its formation to the mature structure. The gonad is an animal organ that produces gametes; in some species it also produces hormones." [GOC:ems, ISBN:0198506732] synonym: "gonadogenesis" EXACT [GOC:cjm] is_a: GO:0048513 ! animal organ development is_a: GO:0048608 ! reproductive structure development relationship: part_of GO:0045137 ! development of primary sexual characteristics [Term] id: GO:0008584 name: male gonad development namespace: biological_process def: "The process whose specific outcome is the progression of the male gonad over time, from its formation to the mature structure." [GOC:jid] synonym: "testicular development" EXACT [GOC:sl] synonym: "testis development" EXACT [GOC:sl] xref: MIPS_funcat:47.03.15.07 is_a: GO:0008406 ! gonad development relationship: part_of GO:0046546 ! development of primary male sexual characteristics [Term] id: GO:0008610 name: lipid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [GOC:go_curators] synonym: "lipid anabolism" EXACT [] synonym: "lipid biosynthesis" EXACT [] synonym: "lipid formation" EXACT [] synonym: "lipid synthesis" EXACT [] synonym: "lipogenesis" EXACT [GOC:sl] xref: MIPS_funcat:01.06.01 is_a: GO:0006629 ! lipid metabolic process is_a: GO:1901576 ! organic substance biosynthetic process [Term] id: GO:0008630 name: intrinsic apoptotic signaling pathway in response to DNA damage namespace: biological_process def: "A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway is induced by the detection of DNA damage, and ends when the execution phase of apoptosis is triggered." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [] is_a: GO:0006974 ! cellular response to DNA damage stimulus is_a: GO:0097193 ! intrinsic apoptotic signaling pathway [Term] id: GO:0008641 name: ubiquitin-like modifier activating enzyme activity namespace: molecular_function alt_id: GO:0008642 def: "Catalysis of the activation of small proteins, such as ubiquitin or ubiquitin-like proteins, through the formation of an ATP-dependent high-energy thiolester bond." [GOC:jl, GOC:mah] comment: Discussion of class label in this ticket: https://github.com/geneontology/go-ontology/issues/14208 subset: goslim_pir synonym: "small protein activating enzyme activity" NARROW [] is_a: GO:0016877 ! ligase activity, forming carbon-sulfur bonds [Term] id: GO:0009056 name: catabolic process namespace: biological_process alt_id: GO:0044243 alt_id: GO:0044712 def: "The chemical reactions and pathways resulting in the breakdown of substances, including the breakdown of carbon compounds with the liberation of energy for use by the cell or organism." [ISBN:0198547684] subset: goslim_agr subset: goslim_chembl subset: goslim_generic subset: goslim_plant synonym: "breakdown" EXACT [] synonym: "catabolism" EXACT [] synonym: "degradation" EXACT [] synonym: "multicellular organismal catabolic process" NARROW [] synonym: "single-organism catabolic process" RELATED [] xref: Wikipedia:Catabolism is_a: GO:0008152 ! metabolic process created_by: janelomax creation_date: 2012-10-17T15:52:35Z [Term] id: GO:0009057 name: macromolecule catabolic process namespace: biological_process alt_id: GO:0043285 alt_id: GO:0044266 def: "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah] subset: goslim_pir synonym: "biopolymer catabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule breakdown" EXACT [] synonym: "macromolecule catabolism" EXACT [] synonym: "macromolecule degradation" EXACT [] synonym: "multicellular organismal macromolecule catabolic process" NARROW [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901575 ! organic substance catabolic process [Term] id: GO:0009058 name: biosynthetic process namespace: biological_process alt_id: GO:0044274 alt_id: GO:0044711 def: "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684] subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] synonym: "multicellular organismal biosynthetic process" NARROW [] synonym: "single-organism biosynthetic process" RELATED [] synonym: "synthesis" EXACT [] xref: Wikipedia:Anabolism is_a: GO:0008152 ! metabolic process created_by: janelomax creation_date: 2012-10-17T15:52:18Z [Term] id: GO:0009059 name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah] subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] synonym: "macromolecule biosynthesis" EXACT [] synonym: "macromolecule formation" EXACT [] synonym: "macromolecule synthesis" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901576 ! organic substance biosynthetic process [Term] id: GO:0009266 name: response to temperature stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a temperature stimulus." [GOC:hb] synonym: "response to thermal stimulus" EXACT [] xref: MIPS_funcat:34.11.09 is_a: GO:0009628 ! response to abiotic stimulus [Term] id: GO:0009295 name: nucleoid namespace: cellular_component def: "The region of a virus, bacterial cell, mitochondrion or chloroplast to which the nucleic acid is confined." [GOC:bm, GOC:ma, ISBN:3540076689] xref: Wikipedia:Nucleoid is_a: GO:0005575 ! cellular_component [Term] id: GO:0009299 name: mRNA transcription namespace: biological_process alt_id: GO:0061023 def: "The cellular synthesis of messenger RNA (mRNA) from a DNA template." [GOC:jl] synonym: "cellular mRNA transcription" EXACT [] synonym: "mRNA biosynthesis" BROAD [] synonym: "mRNA biosynthetic process" BROAD [] synonym: "mRNA synthesis" BROAD [] xref: MIPS_funcat:11.02.03 is_a: GO:0006351 ! transcription, DNA-templated is_a: GO:0016071 ! mRNA metabolic process [Term] id: GO:0009306 name: protein secretion namespace: biological_process alt_id: GO:0045166 alt_id: GO:0045731 def: "The controlled release of proteins from a cell." [GOC:ai] synonym: "glycoprotein secretion" NARROW [] synonym: "protein secretion during cell fate commitment" NARROW [] synonym: "protein secretion resulting in cell fate commitment" NARROW [] is_a: GO:0002790 ! peptide secretion is_a: GO:0015031 ! protein transport is_a: GO:0032940 ! secretion by cell is_a: GO:0035592 ! establishment of protein localization to extracellular region [Term] id: GO:0009308 name: amine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." [GOC:jl, ISBN:0198506732] subset: goslim_chembl subset: goslim_pir synonym: "amine metabolism" EXACT [] is_a: GO:1901564 ! organonitrogen compound metabolic process [Term] id: GO:0009314 name: response to radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." [GOC:jl, Wikipedia:Electromagnetic_radiation] comment: Note that 'radiation' refers to electromagnetic radiation of any wavelength. synonym: "response to electromagnetic radiation stimulus" EXACT [] synonym: "response to radiation stimulus" EXACT [] xref: MIPS_funcat:32.01.13 is_a: GO:0009628 ! response to abiotic stimulus [Term] id: GO:0009410 name: response to xenobiotic stimulus namespace: biological_process alt_id: GO:0017104 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a xenobiotic compound stimulus. Xenobiotic compounds are compounds foreign to living organisms." [GOC:jl] is_a: GO:0042221 ! response to chemical [Term] id: GO:0009411 name: response to UV namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers." [GOC:hb] synonym: "response to ultraviolet light stimulus" EXACT [] synonym: "response to ultraviolet radiation stimulus" EXACT [] synonym: "response to UV light stimulus" EXACT [] synonym: "response to UV radiation stimulus" EXACT [] is_a: GO:0009416 ! response to light stimulus [Term] id: GO:0009416 name: response to light stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:go_curators, ISBN:0582227089] subset: goslim_plant xref: MIPS_funcat:34.11.01 xref: MIPS_funcat:34.11.01.01 xref: MIPS_funcat:36.20.35.11 is_a: GO:0009314 ! response to radiation [Term] id: GO:0009453 name: energy taxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to physical parameters involved in energy generation, such as light, oxygen, and oxidizable substrates." [GOC:jl, PMID:11029423] synonym: "energytaxis" EXACT [] synonym: "taxis in response to energy source" EXACT [] is_a: GO:0042330 ! taxis [Term] id: GO:0009566 name: fertilization namespace: biological_process def: "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:tb, ISBN:0198506732] synonym: "syngamy" EXACT [] xref: Wikipedia:Fertilisation is_a: GO:0022414 ! reproductive process relationship: part_of GO:0019953 ! sexual reproduction [Term] id: GO:0009605 name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] xref: MIPS_funcat:36.20.35 is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009607 name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009628 name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. Changed definition as requested in https://github.com/geneontology/go-ontology/issues/16572. subset: gocheck_do_not_manually_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009653 name: anatomical structure morphogenesis namespace: biological_process def: "The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form." [GOC:go_curators, ISBN:0521436125] subset: goslim_plant synonym: "anatomical structure organization" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "morphogenesis" EXACT [] xref: Wikipedia:Morphogenesis is_a: GO:0032502 ! developmental process relationship: part_of GO:0048856 ! anatomical structure development [Term] id: GO:0009712 name: catechol-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a compound containing a pyrocatechol (1,2-benzenediol) nucleus or substituent." [GOC:sm, ISBN:0198547684] synonym: "catechol metabolic process" RELATED [] synonym: "catechol metabolism" RELATED [] is_a: GO:0018958 ! phenol-containing compound metabolic process [Term] id: GO:0009713 name: catechol-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of catechol-containing compounds. Catechol is a compound containing a pyrocatechol nucleus or substituent." [GOC:go_curators] synonym: "catechol anabolism" RELATED [] synonym: "catechol biosynthesis" RELATED [] synonym: "catechol biosynthetic process" RELATED [] synonym: "catechol formation" RELATED [] synonym: "catechol synthesis" RELATED [] is_a: GO:0009712 ! catechol-containing compound metabolic process is_a: GO:0046189 ! phenol-containing compound biosynthetic process [Term] id: GO:0009786 name: regulation of asymmetric cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of asymmetric cell division." [GOC:lr] is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008356 ! asymmetric cell division relationship: regulates GO:0008356 ! asymmetric cell division [Term] id: GO:0009790 name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] subset: gocheck_do_not_manually_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_plant synonym: "embryogenesis" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "embryonal development" EXACT [] xref: Wikipedia:Embryogenesis is_a: GO:0007275 ! multicellular organism development [Term] id: GO:0009791 name: post-embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure. See embryonic development." [GOC:go_curators] subset: goslim_plant is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0009888 name: tissue development namespace: biological_process def: "The process whose specific outcome is the progression of a tissue over time, from its formation to the mature structure." [ISBN:0471245208] synonym: "histogenesis" EXACT [] synonym: "histogenesis and organogenesis" BROAD [] xref: Wikipedia:Histogenesis is_a: GO:0048856 ! anatomical structure development [Term] id: GO:0009889 name: regulation of biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "regulation of anabolism" EXACT [] synonym: "regulation of biosynthesis" EXACT [] synonym: "regulation of formation" EXACT [] synonym: "regulation of synthesis" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009058 ! biosynthetic process relationship: regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009890 name: negative regulation of biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "down regulation of biosynthetic process" EXACT [] synonym: "down-regulation of biosynthetic process" EXACT [] synonym: "downregulation of biosynthetic process" EXACT [] synonym: "inhibition of biosynthetic process" NARROW [] synonym: "negative regulation of anabolism" EXACT [] synonym: "negative regulation of biosynthesis" EXACT [] synonym: "negative regulation of formation" EXACT [] synonym: "negative regulation of synthesis" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0009892 ! negative regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009058 ! biosynthetic process relationship: negatively_regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009891 name: positive regulation of biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "activation of biosynthetic process" NARROW [] synonym: "positive regulation of anabolism" EXACT [] synonym: "positive regulation of biosynthesis" EXACT [] synonym: "positive regulation of formation" EXACT [] synonym: "positive regulation of synthesis" EXACT [] synonym: "stimulation of biosynthetic process" NARROW [] synonym: "up regulation of biosynthetic process" EXACT [] synonym: "up-regulation of biosynthetic process" EXACT [] synonym: "upregulation of biosynthetic process" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0009893 ! positive regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009058 ! biosynthetic process relationship: positively_regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009892 name: negative regulation of metabolic process namespace: biological_process alt_id: GO:0044252 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] synonym: "down regulation of metabolic process" EXACT [] synonym: "down-regulation of metabolic process" EXACT [] synonym: "downregulation of metabolic process" EXACT [] synonym: "inhibition of metabolic process" NARROW [] synonym: "inhibition of organismal metabolic process" NARROW [] synonym: "negative regulation of metabolism" EXACT [] synonym: "negative regulation of multicellular organismal metabolic process" NARROW [] synonym: "negative regulation of organismal metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008152 ! metabolic process relationship: negatively_regulates GO:0008152 ! metabolic process [Term] id: GO:0009893 name: positive regulation of metabolic process namespace: biological_process alt_id: GO:0044253 def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] synonym: "activation of metabolic process" NARROW [] synonym: "positive regulation of metabolism" EXACT [] synonym: "positive regulation of multicellular organismal metabolic process" NARROW [] synonym: "positive regulation of organismal metabolism" NARROW [] synonym: "stimulation of metabolic process" NARROW [] synonym: "stimulation of organismal metabolic process" NARROW [] synonym: "up regulation of metabolic process" EXACT [] synonym: "up-regulation of metabolic process" EXACT [] synonym: "up-regulation of organismal metabolic process" NARROW [] synonym: "upregulation of metabolic process" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008152 ! metabolic process relationship: positively_regulates GO:0008152 ! metabolic process [Term] id: GO:0009894 name: regulation of catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of substances." [GOC:go_curators] synonym: "regulation of breakdown" EXACT [] synonym: "regulation of catabolism" EXACT [] synonym: "regulation of degradation" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009056 ! catabolic process relationship: regulates GO:0009056 ! catabolic process [Term] id: GO:0009895 name: negative regulation of catabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances." [GOC:go_curators] synonym: "down regulation of catabolic process" EXACT [] synonym: "down-regulation of catabolic process" EXACT [] synonym: "downregulation of catabolic process" EXACT [] synonym: "inhibition of catabolic process" NARROW [] synonym: "negative regulation of breakdown" EXACT [] synonym: "negative regulation of catabolism" EXACT [] synonym: "negative regulation of degradation" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0009894 ! regulation of catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009056 ! catabolic process relationship: negatively_regulates GO:0009056 ! catabolic process [Term] id: GO:0009896 name: positive regulation of catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances." [GOC:go_curators] synonym: "activation of catabolic process" NARROW [] synonym: "positive regulation of breakdown" EXACT [] synonym: "positive regulation of catabolism" EXACT [] synonym: "positive regulation of degradation" EXACT [] synonym: "stimulation of catabolic process" NARROW [] synonym: "up regulation of catabolic process" EXACT [] synonym: "up-regulation of catabolic process" EXACT [] synonym: "upregulation of catabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0009894 ! regulation of catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009056 ! catabolic process relationship: positively_regulates GO:0009056 ! catabolic process [Term] id: GO:0009966 name: regulation of signal transduction namespace: biological_process alt_id: GO:0035466 def: "Any process that modulates the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "regulation of signaling pathway" RELATED [] synonym: "regulation of signalling pathway" RELATED [GOC:mah] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007165 ! signal transduction relationship: regulates GO:0007165 ! signal transduction [Term] id: GO:0009967 name: positive regulation of signal transduction namespace: biological_process alt_id: GO:0035468 def: "Any process that activates or increases the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "activation of signal transduction" NARROW [] synonym: "positive regulation of signaling pathway" RELATED [] synonym: "positive regulation of signalling pathway" RELATED [GOC:mah] synonym: "stimulation of signal transduction" NARROW [] synonym: "up regulation of signal transduction" EXACT [] synonym: "up-regulation of signal transduction" EXACT [] synonym: "upregulation of signal transduction" EXACT [] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007165 ! signal transduction relationship: positively_regulates GO:0007165 ! signal transduction [Term] id: GO:0009968 name: negative regulation of signal transduction namespace: biological_process alt_id: GO:0035467 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "down regulation of signal transduction" EXACT [] synonym: "down-regulation of signal transduction" EXACT [] synonym: "downregulation of signal transduction" EXACT [] synonym: "inhibition of signal transduction" NARROW [] synonym: "negative regulation of signaling pathway" RELATED [] synonym: "negative regulation of signalling pathway" RELATED [GOC:mah] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007165 ! signal transduction relationship: negatively_regulates GO:0007165 ! signal transduction [Term] id: GO:0009987 name: cellular process namespace: biological_process alt_id: GO:0008151 alt_id: GO:0044763 alt_id: GO:0050875 def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete] subset: goslim_plant synonym: "cell growth and/or maintenance" NARROW [] synonym: "cell physiology" EXACT [] synonym: "cellular physiological process" EXACT [] synonym: "single-organism cellular process" RELATED [] is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase created_by: janelomax creation_date: 2012-12-11T16:56:55Z [Term] id: GO:0009991 name: response to extracellular stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an extracellular stimulus." [GOC:go_curators] is_a: GO:0009605 ! response to external stimulus [Term] id: GO:0009994 name: oocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized immature germ cell acquires the specialized features of a mature female gamete." [GOC:go_curators, GOC:mtg_sensu] synonym: "oocyte cell differentiation" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0048477 ! oogenesis [Term] id: GO:0009996 name: negative regulation of cell fate specification namespace: biological_process def: "Any process that restricts, stops or prevents a cell from adopting a specific cell fate." [GOC:go_curators] synonym: "down regulation of cell fate specification" EXACT [] synonym: "down-regulation of cell fate specification" EXACT [] synonym: "downregulation of cell fate specification" EXACT [] synonym: "inhibition of cell fate specification" NARROW [] synonym: "suppression of cell fate" EXACT [] is_a: GO:0010454 ! negative regulation of cell fate commitment is_a: GO:0042659 ! regulation of cell fate specification intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0001708 ! cell fate specification relationship: negatively_regulates GO:0001708 ! cell fate specification [Term] id: GO:0010032 name: meiotic chromosome condensation namespace: biological_process def: "Compaction of chromatin structure prior to meiosis in eukaryotic cells." [PMID:10072401] synonym: "chromosome condensation involved in meiotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0030261 ! chromosome condensation is_a: GO:0070192 ! chromosome organization involved in meiotic cell cycle intersection_of: GO:0030261 ! chromosome condensation intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0010033 name: response to organic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus." [GOC:sm] is_a: GO:0042221 ! response to chemical [Term] id: GO:0010212 name: response to ionizing radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a ionizing radiation stimulus. Ionizing radiation is radiation with sufficient energy to remove electrons from atoms and may arise from spontaneous decay of unstable isotopes, resulting in alpha and beta particles and gamma rays. Ionizing radiation also includes X-rays." [PMID:12509526] synonym: "response to ionising radiation" EXACT [] synonym: "response to ionizing radiation stimulus" EXACT [] is_a: GO:0009314 ! response to radiation [Term] id: GO:0010256 name: endomembrane system organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the endomembrane system." [GOC:mah, GOC:sm] synonym: "endomembrane organization" EXACT [GOC:curators] synonym: "endomembrane system organisation" EXACT [GOC:mah] is_a: GO:0016043 ! cellular component organization [Term] id: GO:0010260 name: animal organ senescence namespace: biological_process alt_id: GO:0010261 def: "The process that occurs in an animal organ near the end of its active life that is associated with the dismantling of cell components and membranes, and an overall decline in metabolism." [GOC:tb] is_a: GO:0007568 ! aging relationship: part_of GO:0048513 ! animal organ development [Term] id: GO:0010324 name: membrane invagination namespace: biological_process alt_id: GO:1902534 def: "The infolding of a membrane." [GOC:tb] subset: goslim_yeast synonym: "single-organism membrane invagination" RELATED [] is_a: GO:0061024 ! membrane organization created_by: jl creation_date: 2013-12-02T13:58:34Z [Term] id: GO:0010332 name: response to gamma radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a gamma radiation stimulus. Gamma radiation is a form of electromagnetic radiation (EMR) or light emission of a specific frequency produced from sub-atomic particle interaction, such as electron-positron annihilation and radioactive decay. Gamma rays are generally characterized as EMR having the highest frequency and energy, and also the shortest wavelength, within the electromagnetic radiation spectrum." [GOC:tair_curators, Wikipedia:Gamma_ray] synonym: "response to gamma ray" RELATED [] synonym: "response to gamma-ray photon" RELATED [] is_a: GO:0010212 ! response to ionizing radiation [Term] id: GO:0010389 name: regulation of G2/M transition of mitotic cell cycle namespace: biological_process def: "Any signalling pathway that modulates the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the mitotic cell cycle." [GOC:mtg_cell_cycle, PMID:17329565] synonym: "regulation of mitotic entry" EXACT [GOC:vw] is_a: GO:1901990 ! regulation of mitotic cell cycle phase transition is_a: GO:1902749 ! regulation of cell cycle G2/M phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000086 ! G2/M transition of mitotic cell cycle relationship: regulates GO:0000086 ! G2/M transition of mitotic cell cycle [Term] id: GO:0010453 name: regulation of cell fate commitment namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell fate commitment. Cell fate commitment is the commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." [GOC:dph, GOC:tb] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0045165 ! cell fate commitment relationship: regulates GO:0045165 ! cell fate commitment [Term] id: GO:0010454 name: negative regulation of cell fate commitment namespace: biological_process def: "Any process that stops, prevents or reduces the frequency or rate of cell fate commitment. Cell fate commitment is the commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." [GOC:dph, GOC:tb] is_a: GO:0010453 ! regulation of cell fate commitment is_a: GO:0045596 ! negative regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0045165 ! cell fate commitment relationship: negatively_regulates GO:0045165 ! cell fate commitment [Term] id: GO:0010455 name: positive regulation of cell fate commitment namespace: biological_process def: "Any process that activates, maintains or increases the frequency or rate of cell fate commitment. Cell fate commitment is the commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." [GOC:dph, GOC:tb] is_a: GO:0010453 ! regulation of cell fate commitment is_a: GO:0045597 ! positive regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0045165 ! cell fate commitment relationship: positively_regulates GO:0045165 ! cell fate commitment [Term] id: GO:0010466 name: negative regulation of peptidase activity namespace: biological_process def: "Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins." [GOC:dph, GOC:tb] is_a: GO:0045861 ! negative regulation of proteolysis is_a: GO:0051346 ! negative regulation of hydrolase activity is_a: GO:0052547 ! regulation of peptidase activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008233 ! peptidase activity relationship: negatively_regulates GO:0008233 ! peptidase activity [Term] id: GO:0010467 name: gene expression namespace: biological_process def: "The process in which a gene's sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form." [GOC:dph, GOC:tb] subset: goslim_flybase_ribbon xref: Wikipedia:Gene_expression is_a: GO:0043170 ! macromolecule metabolic process [Term] id: GO:0010468 name: regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form." [GOC:dph, GOC:tb] comment: This class covers any process that regulates the rate of production of a mature gene product, and so includes processes that regulate that rate by regulating the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that regulates the level, stability or availability of mRNA or circRNA for translation and thereby regulates the rate of production of the encoded protein via translation. synonym: "regulation of gene product expression" RELATED [GOC:curators] synonym: "regulation of protein expression" NARROW [GOC:curators] xref: Wikipedia:Regulation_of_gene_expression is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0010467 ! gene expression relationship: regulates GO:0010467 ! gene expression [Term] id: GO:0010469 name: regulation of signaling receptor activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a signaling receptor activity. Receptor activity is when a molecule combines with an extracellular or intracellular messenger to initiate a change in cell activity." [GOC:dph, GOC:tb] synonym: "regulation of receptor activity" BROAD [] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0038023 ! signaling receptor activity relationship: regulates GO:0038023 ! signaling receptor activity [Term] id: GO:0010470 name: regulation of gastrulation namespace: biological_process def: "Any process that modulates the rate or extent of gastrulation. Gastrulation is the complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals." [GOC:dph, GOC:tb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0045995 ! regulation of embryonic development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007369 ! gastrulation relationship: regulates GO:0007369 ! gastrulation [Term] id: GO:0010506 name: regulation of autophagy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm." [GOC:dph, GOC:tb] is_a: GO:0031329 ! regulation of cellular catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006914 ! autophagy relationship: regulates GO:0006914 ! autophagy [Term] id: GO:0010507 name: negative regulation of autophagy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm." [GOC:dph, GOC:tb] is_a: GO:0010506 ! regulation of autophagy is_a: GO:0031330 ! negative regulation of cellular catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006914 ! autophagy relationship: negatively_regulates GO:0006914 ! autophagy [Term] id: GO:0010508 name: positive regulation of autophagy namespace: biological_process def: "Any process that activates, maintains or increases the rate of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm." [GOC:dph, GOC:tb] is_a: GO:0010506 ! regulation of autophagy is_a: GO:0031331 ! positive regulation of cellular catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006914 ! autophagy relationship: positively_regulates GO:0006914 ! autophagy [Term] id: GO:0010549 name: regulation of membrane disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of membrane disassembly." [GOC:dph, GOC:tb] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030397 ! membrane disassembly relationship: regulates GO:0030397 ! membrane disassembly [Term] id: GO:0010556 name: regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009059 ! macromolecule biosynthetic process relationship: regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010557 name: positive regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0010604 ! positive regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009059 ! macromolecule biosynthetic process relationship: positively_regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010558 name: negative regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0010605 ! negative regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009059 ! macromolecule biosynthetic process relationship: negatively_regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010562 name: positive regulation of phosphorus metabolic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006793 ! phosphorus metabolic process relationship: positively_regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0010563 name: negative regulation of phosphorus metabolic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006793 ! phosphorus metabolic process relationship: negatively_regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0010564 name: regulation of cell cycle process namespace: biological_process def: "Any process that modulates a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0022402 ! cell cycle process relationship: regulates GO:0022402 ! cell cycle process [Term] id: GO:0010571 name: positive regulation of nuclear cell cycle DNA replication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle." [GOC:mtg_cell_cycle] synonym: "positive regulation of DNA replication during S phase" RELATED [GOC:dph, GOC:tb] synonym: "positive regulation of DNA replication involved in S phase" EXACT [] synonym: "positive regulation of DNA replication involved in S-phase" EXACT [] is_a: GO:0033262 ! regulation of nuclear cell cycle DNA replication is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:2000105 ! positive regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0033260 ! nuclear DNA replication relationship: positively_regulates GO:0033260 ! nuclear DNA replication [Term] id: GO:0010604 name: positive regulation of macromolecule metabolic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043170 ! macromolecule metabolic process relationship: positively_regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0010605 name: negative regulation of macromolecule metabolic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043170 ! macromolecule metabolic process relationship: negatively_regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0010608 name: posttranscriptional regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression after the production of an RNA transcript." [GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression [Term] id: GO:0010623 name: programmed cell death involved in cell development namespace: biological_process def: "The activation of endogenous cellular processes that result in the death of a cell as part of its development." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] comment: This process is part of the natural developmental program of some cell types, but it does not always happen as part of the development or shaping of a gross anatomical structure. synonym: "developmental programmed cell death" BROAD [] synonym: "programmed cell death involved in development" BROAD [] is_a: GO:0012501 ! programmed cell death is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0012501 ! programmed cell death intersection_of: part_of GO:0048468 ! cell development relationship: part_of GO:0048468 ! cell development [Term] id: GO:0010628 name: positive regulation of gene expression namespace: biological_process def: "Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form." [GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0010604 ! positive regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0010467 ! gene expression relationship: positively_regulates GO:0010467 ! gene expression [Term] id: GO:0010629 name: negative regulation of gene expression namespace: biological_process def: "Any process that decreases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form." [GOC:dph, GOC:tb] comment: This term covers any process that negatively regulates the rate of production of a mature gene product, and so includes processes that negatively regulate that rate by reducing the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that reduces the level, stability or availability of mRNA or circRNA for translation and thereby reduces the rate of production of the encoded protein via translation. is_a: GO:0010468 ! regulation of gene expression is_a: GO:0010605 ! negative regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0010467 ! gene expression relationship: negatively_regulates GO:0010467 ! gene expression [Term] id: GO:0010638 name: positive regulation of organelle organization namespace: biological_process def: "Any process that increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:dph, GOC:tb] synonym: "positive regulation of organelle organisation" EXACT [GOC:mah] synonym: "positive regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006996 ! organelle organization relationship: positively_regulates GO:0006996 ! organelle organization [Term] id: GO:0010639 name: negative regulation of organelle organization namespace: biological_process def: "Any process that decreases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:dph, GOC:tb] synonym: "negative regulation of organelle organisation" EXACT [GOC:mah] synonym: "negative regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006996 ! organelle organization relationship: negatively_regulates GO:0006996 ! organelle organization [Term] id: GO:0010646 name: regulation of cell communication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007154 ! cell communication relationship: regulates GO:0007154 ! cell communication [Term] id: GO:0010647 name: positive regulation of cell communication namespace: biological_process def: "Any process that increases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007154 ! cell communication relationship: positively_regulates GO:0007154 ! cell communication [Term] id: GO:0010648 name: negative regulation of cell communication namespace: biological_process def: "Any process that decreases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007154 ! cell communication relationship: negatively_regulates GO:0007154 ! cell communication [Term] id: GO:0010672 name: regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle namespace: biological_process alt_id: GO:1900401 def: "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter as part of the meiotic cell cycle." [GOC:dph, GOC:tb, PMID:12161753] synonym: "regulation of meiosis by regulation of transcription from RNA polymerase II promoter" NARROW [] synonym: "regulation of transcription from RNA polymerase II promoter, meiotic" EXACT [GOC:mah] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II is_a: GO:0051037 ! regulation of transcription involved in meiotic cell cycle intersection_of: GO:0006357 ! regulation of transcription by RNA polymerase II intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: mah creation_date: 2012-04-20T02:45:12Z [Term] id: GO:0010673 name: positive regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle namespace: biological_process alt_id: GO:1900476 def: "Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as part of the meiotic cell cycle." [GOC:dph, GOC:tb, PMID:8618927] synonym: "activation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "positive regulation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [] synonym: "positive regulation of transcription from RNA polymerase II promoter, meiotic" EXACT [GOC:mah] synonym: "stimulation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "up regulation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "up-regulation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "upregulation of meiosis by positive regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] is_a: GO:0010672 ! regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II is_a: GO:0051039 ! positive regulation of transcription involved in meiotic cell cycle intersection_of: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: dianna.fisk creation_date: 2012-05-01T08:40:11Z [Term] id: GO:0010674 name: negative regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle namespace: biological_process alt_id: GO:1900475 def: "Any process that decreases the frequency, rate or extent of transcription from an RNA polymerase II promoter as part of the meiotic cell cycle." [GOC:dph, GOC:tb, PMID:8618927] synonym: "activation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "negative regulation of transcription from RNA polymerase II promoter, meiotic" EXACT [GOC:mah] synonym: "positive regulation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [] synonym: "stimulation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "up regulation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "up-regulation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "upregulation of meiosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] is_a: GO:0000122 ! negative regulation of transcription by RNA polymerase II is_a: GO:0010672 ! regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle is_a: GO:0051038 ! negative regulation of transcription involved in meiotic cell cycle intersection_of: GO:0000122 ! negative regulation of transcription by RNA polymerase II intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: dianna.fisk creation_date: 2012-05-01T08:39:58Z [Term] id: GO:0010720 name: positive regulation of cell development namespace: biological_process def: "Any process that increases the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048468 ! cell development relationship: positively_regulates GO:0048468 ! cell development [Term] id: GO:0010721 name: negative regulation of cell development namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048468 ! cell development relationship: negatively_regulates GO:0048468 ! cell development [Term] id: GO:0010769 name: regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0022604 ! regulation of cell morphogenesis is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010770 name: positive regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that increases the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0010769 ! regulation of cell morphogenesis involved in differentiation is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: positively_regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010771 name: negative regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0010769 ! regulation of cell morphogenesis involved in differentiation is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: negatively_regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010793 name: regulation of mRNA export from nucleus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of mRNA from the nucleus to the cytoplasm." [GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0046825 ! regulation of protein export from nucleus is_a: GO:0046831 ! regulation of RNA export from nucleus is_a: GO:2000197 ! regulation of ribonucleoprotein complex localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006406 ! mRNA export from nucleus relationship: regulates GO:0006406 ! mRNA export from nucleus [Term] id: GO:0010817 name: regulation of hormone levels namespace: biological_process def: "Any process that modulates the levels of hormone within an organism or a tissue. A hormone is any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0010821 name: regulation of mitochondrion organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a mitochondrion." [GOC:dph, GOC:tb] synonym: "regulation of mitochondrion organisation" EXACT [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007005 ! mitochondrion organization relationship: regulates GO:0007005 ! mitochondrion organization [Term] id: GO:0010822 name: positive regulation of mitochondrion organization namespace: biological_process def: "Any process that increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a mitochondrion." [GOC:dph, GOC:tb] synonym: "positive regulation of mitochondrion organisation" EXACT [GOC:mah] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0010821 ! regulation of mitochondrion organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007005 ! mitochondrion organization relationship: positively_regulates GO:0007005 ! mitochondrion organization [Term] id: GO:0010823 name: negative regulation of mitochondrion organization namespace: biological_process def: "Any process that decreases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a mitochondrion." [GOC:dph, GOC:tb] synonym: "negative regulation of mitochondrion organisation" EXACT [GOC:mah] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0010821 ! regulation of mitochondrion organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007005 ! mitochondrion organization relationship: negatively_regulates GO:0007005 ! mitochondrion organization [Term] id: GO:0010833 name: telomere maintenance via telomere lengthening namespace: biological_process def: "Any process that contributes to the maintenance of proper telomeric length and structure by affecting and monitoring the activity of telomeric proteins and lengthening the telomeric DNA." [GOC:dph, GOC:tb] is_a: GO:0000723 ! telomere maintenance [Term] id: GO:0010927 name: cellular component assembly involved in morphogenesis namespace: biological_process def: "The cellular component assembly that is part of the initial shaping of the component during its developmental progression." [GOC:dph, GOC:tb] is_a: GO:0022607 ! cellular component assembly is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0022607 ! cellular component assembly intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0032989 ! cellular component morphogenesis [Term] id: GO:0010937 name: regulation of cytoplasmic microtubule depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic microtubule depolymerization." [GOC:dph, GOC:tb] is_a: GO:0031114 ! regulation of microtubule depolymerization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0010938 ! cytoplasmic microtubule depolymerization relationship: regulates GO:0010938 ! cytoplasmic microtubule depolymerization [Term] id: GO:0010938 name: cytoplasmic microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of a cytoplasmic microtubule." [GOC:dph, GOC:tb] is_a: GO:0007019 ! microtubule depolymerization is_a: GO:0031122 ! cytoplasmic microtubule organization intersection_of: GO:0007019 ! microtubule depolymerization intersection_of: occurs_in GO:0005737 ! cytoplasm relationship: occurs_in GO:0005737 ! cytoplasm [Term] id: GO:0010939 name: regulation of necrotic cell death namespace: biological_process def: "Any process that modulates the rate, frequency or extent of necrotic cell death. Necrotic cell death is a cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents." [PMID:16507998] is_a: GO:0010941 ! regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070265 ! necrotic cell death relationship: regulates GO:0070265 ! necrotic cell death [Term] id: GO:0010940 name: positive regulation of necrotic cell death namespace: biological_process def: "Any process that increases the rate, frequency or extent of necrotic cell death. Necrotic cell death is a cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents." [PMID:16507998] is_a: GO:0010939 ! regulation of necrotic cell death is_a: GO:0010942 ! positive regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070265 ! necrotic cell death relationship: positively_regulates GO:0070265 ! necrotic cell death [Term] id: GO:0010941 name: regulation of cell death namespace: biological_process def: "Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008219 ! cell death relationship: regulates GO:0008219 ! cell death [Term] id: GO:0010942 name: positive regulation of cell death namespace: biological_process def: "Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] is_a: GO:0010941 ! regulation of cell death is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008219 ! cell death relationship: positively_regulates GO:0008219 ! cell death [Term] id: GO:0010948 name: negative regulation of cell cycle process namespace: biological_process def: "Any process that decreases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0045786 ! negative regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0022402 ! cell cycle process relationship: negatively_regulates GO:0022402 ! cell cycle process created_by: tanyaberardini creation_date: 2009-04-27T09:53:22Z [Term] id: GO:0010952 name: positive regulation of peptidase activity namespace: biological_process def: "Any process that increases the frequency, rate or extent of peptidase activity, the hydrolysis of peptide bonds within proteins." [GOC:dph, GOC:tb] is_a: GO:0045862 ! positive regulation of proteolysis is_a: GO:0051345 ! positive regulation of hydrolase activity is_a: GO:0052547 ! regulation of peptidase activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008233 ! peptidase activity relationship: positively_regulates GO:0008233 ! peptidase activity created_by: tanyaberardini creation_date: 2009-04-27T11:54:32Z [Term] id: GO:0010965 name: regulation of mitotic sister chromatid separation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic sister chromatid separation. Mitotic sister chromatid separation is the process in which sister chromatids are physically detached from each other during mitosis." [GOC:dph, GOC:tb] is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:1905818 ! regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051306 ! mitotic sister chromatid separation relationship: regulates GO:0051306 ! mitotic sister chromatid separation created_by: tanyaberardini creation_date: 2009-05-20T11:39:07Z [Term] id: GO:0010968 name: regulation of microtubule nucleation namespace: biological_process def: "Any process that modulates the rate, frequency or extent of microtubule nucleation. Microtubule nucleation is the 'de novo' formation of a microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule. Microtubule nucleation usually occurs from a specific site within a cell." [GOC:dph, GOC:tb] is_a: GO:0031113 ! regulation of microtubule polymerization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007020 ! microtubule nucleation relationship: regulates GO:0007020 ! microtubule nucleation created_by: tanyaberardini creation_date: 2009-05-20T11:51:21Z [Term] id: GO:0010970 name: transport along microtubule namespace: biological_process def: "The movement of organelles or other particles from one location in the cell to another along microtubules, driven by motor activity." [GOC:dph, GOC:mah, GOC:tb] synonym: "establishment of localization by movement along microtubule" EXACT [GOC:dph] synonym: "microtubule-based transport" BROAD [] synonym: "movement along microtubule" EXACT [] is_a: GO:0030705 ! cytoskeleton-dependent intracellular transport is_a: GO:0099111 ! microtubule-based transport created_by: tanyaberardini creation_date: 2009-05-27T10:56:08Z [Term] id: GO:0010971 name: positive regulation of G2/M transition of mitotic cell cycle namespace: biological_process alt_id: GO:0031662 def: "Any signalling pathway that activates or increases the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the mitotic cell cycle." [GOC:dph, GOC:mtg_cell_cycle, GOC:tb] synonym: "positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G2/M transition of mitotic cell cycle" RELATED [] synonym: "positive regulation of mitotic entry" EXACT [GOC:mah] is_a: GO:0010389 ! regulation of G2/M transition of mitotic cell cycle is_a: GO:1901992 ! positive regulation of mitotic cell cycle phase transition is_a: GO:1902751 ! positive regulation of cell cycle G2/M phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000086 ! G2/M transition of mitotic cell cycle relationship: positively_regulates GO:0000086 ! G2/M transition of mitotic cell cycle created_by: tanyaberardini creation_date: 2009-06-01T10:16:34Z [Term] id: GO:0010972 name: negative regulation of G2/M transition of mitotic cell cycle namespace: biological_process def: "Any signalling pathway that decreases or inhibits the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the mitotic cell cycle." [GOC:mtg_cell_cycle] synonym: "negative regulation of mitotic entry" EXACT [GOC:vw] is_a: GO:0010389 ! regulation of G2/M transition of mitotic cell cycle is_a: GO:1901991 ! negative regulation of mitotic cell cycle phase transition is_a: GO:1902750 ! negative regulation of cell cycle G2/M phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000086 ! G2/M transition of mitotic cell cycle relationship: negatively_regulates GO:0000086 ! G2/M transition of mitotic cell cycle created_by: tanyaberardini creation_date: 2009-06-01T10:18:29Z [Term] id: GO:0010975 name: regulation of neuron projection development namespace: biological_process def: "Any process that modulates the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "regulation of neurite development" NARROW [GOC:mah] synonym: "regulation of neurite formation" NARROW [GOC:mah] synonym: "regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0045664 ! regulation of neuron differentiation is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031175 ! neuron projection development relationship: regulates GO:0031175 ! neuron projection development created_by: tanyaberardini creation_date: 2009-06-01T10:44:45Z [Term] id: GO:0010976 name: positive regulation of neuron projection development namespace: biological_process def: "Any process that increases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "positive regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "positive regulation of neurite development" NARROW [GOC:mah] synonym: "positive regulation of neurite formation" NARROW [GOC:mah] synonym: "positive regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0010975 ! regulation of neuron projection development is_a: GO:0031346 ! positive regulation of cell projection organization is_a: GO:0045666 ! positive regulation of neuron differentiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0031175 ! neuron projection development relationship: positively_regulates GO:0031175 ! neuron projection development created_by: tanyaberardini creation_date: 2009-06-01T10:46:44Z [Term] id: GO:0010977 name: negative regulation of neuron projection development namespace: biological_process def: "Any process that decreases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "growth cone collapse" RELATED [GOC:pr] synonym: "negative regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "negative regulation of neurite development" NARROW [GOC:mah] synonym: "negative regulation of neurite formation" NARROW [GOC:mah] synonym: "negative regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0010975 ! regulation of neuron projection development is_a: GO:0031345 ! negative regulation of cell projection organization is_a: GO:0045665 ! negative regulation of neuron differentiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031175 ! neuron projection development relationship: negatively_regulates GO:0031175 ! neuron projection development created_by: tanyaberardini creation_date: 2009-06-01T10:47:42Z [Term] id: GO:0012501 name: programmed cell death namespace: biological_process alt_id: GO:0016244 def: "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." [GOC:lr, GOC:mtg_apoptosis] comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] synonym: "non-apoptotic programmed cell death" NARROW [] synonym: "nonapoptotic programmed cell death" NARROW [] synonym: "PCD" RELATED [] synonym: "RCD" RELATED [] synonym: "regulated cell death" BROAD [] xref: Wikipedia:Programmed_cell_death is_a: GO:0008219 ! cell death [Term] id: GO:0012505 name: endomembrane system namespace: cellular_component def: "A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi bodies, vesicles, cell membrane and nuclear envelope. Members of the endomembrane system pass materials through each other or though the use of vesicles." [GOC:lh] subset: goslim_aspergillus subset: goslim_candida subset: goslim_flybase_ribbon subset: goslim_yeast xref: Wikipedia:Endomembrane_system is_a: GO:0044464 ! cell part relationship: has_part GO:0005773 ! vacuole relationship: has_part GO:0005886 ! plasma membrane [Term] id: GO:0014041 name: regulation of neuron maturation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron maturation, the process leading to the attainment of the full functional capacity of a neuron. This process is independent of morphogenetic change." [GOC:ef] is_a: GO:0045664 ! regulation of neuron differentiation is_a: GO:1903429 ! regulation of cell maturation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042551 ! neuron maturation relationship: regulates GO:0042551 ! neuron maturation [Term] id: GO:0014042 name: positive regulation of neuron maturation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron maturation." [GOC:ef] synonym: "activation of neuron maturation" NARROW [] synonym: "stimulation of neuron maturation" NARROW [] synonym: "up regulation of neuron maturation" EXACT [] synonym: "up-regulation of neuron maturation" EXACT [] synonym: "upregulation of neuron maturation" EXACT [] is_a: GO:0014041 ! regulation of neuron maturation is_a: GO:0045666 ! positive regulation of neuron differentiation is_a: GO:1903431 ! positive regulation of cell maturation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042551 ! neuron maturation relationship: positively_regulates GO:0042551 ! neuron maturation [Term] id: GO:0014043 name: negative regulation of neuron maturation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neuron maturation." [GOC:ef] synonym: "down regulation of neuron maturation" EXACT [] synonym: "down-regulation of neuron maturation" EXACT [] synonym: "downregulation of neuron maturation" EXACT [] synonym: "inhibition of neuron maturation" NARROW [] is_a: GO:0014041 ! regulation of neuron maturation is_a: GO:0045665 ! negative regulation of neuron differentiation is_a: GO:1903430 ! negative regulation of cell maturation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042551 ! neuron maturation relationship: negatively_regulates GO:0042551 ! neuron maturation [Term] id: GO:0014076 name: response to fluoxetine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a fluoxetine stimulus. Fluoxetine increases the extracellular level of the neurotransmitter serotonin by inhibiting its reuptake into the presynaptic cell, increasing the level of serotonin available to bind to the postsynaptic receptor." [CHEBI:5118, GOC:ef, GOC:pr] comment: Note that this term is in the subset of terms that should not be used for direct manual annotation of gene products. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "response to selective serotonin reuptake inhibitor" RELATED [GOC:curators] synonym: "response to SSRI" RELATED [GOC:curators] is_a: GO:0009410 ! response to xenobiotic stimulus is_a: GO:0036276 ! response to antidepressant [Term] id: GO:0015031 name: protein transport namespace: biological_process alt_id: GO:0015831 def: "The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_yeast synonym: "enzyme transport" NARROW [] xref: MIPS_funcat:14 xref: MIPS_funcat:14.04 xref: MIPS_funcat:20.01.10 is_a: GO:0015833 ! peptide transport is_a: GO:0045184 ! establishment of protein localization [Term] id: GO:0015629 name: actin cytoskeleton namespace: cellular_component def: "The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes." [GOC:jl, ISBN:0395825172, ISBN:0815316194] subset: goslim_aspergillus xref: MIPS_funcat:70.04.03 is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0015630 name: microtubule cytoskeleton namespace: cellular_component def: "The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins." [GOC:jl, ISBN:0395825172] subset: goslim_aspergillus xref: MIPS_funcat:70.04.05 is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0015833 name: peptide transport namespace: biological_process def: "The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir xref: MIPS_funcat:20.01.09 is_a: GO:0042886 ! amide transport is_a: GO:0071702 ! organic substance transport [Term] id: GO:0015931 name: nucleobase-containing compound transport namespace: biological_process def: "The directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast synonym: "nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport [Term] id: GO:0016020 name: membrane namespace: cellular_component def: "A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it." [GOC:dos, GOC:mah, ISBN:0815316194] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: Wikipedia:Biological_membrane is_a: CARO:0000014 ! cell part is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016043 name: cellular component organization namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] synonym: "cellular component organisation in other organism" EXACT [GOC:mah] synonym: "cellular component organization at cellular level" EXACT [] synonym: "cellular component organization in other organism" EXACT [] xref: MIPS_funcat:42 is_a: GO:0009987 ! cellular process is_a: GO:0071840 ! cellular component organization or biogenesis [Term] id: GO:0016049 name: cell growth namespace: biological_process alt_id: GO:0048591 def: "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [GOC:ai] subset: gocheck_do_not_annotate subset: goslim_pir subset: goslim_plant synonym: "cell expansion" RELATED [] synonym: "cellular growth" EXACT [] synonym: "growth of cell" EXACT [] synonym: "metabolic process resulting in cell growth" RELATED [] synonym: "metabolism resulting in cell growth" RELATED [] synonym: "non-developmental cell growth" RELATED [GOC:mah] synonym: "non-developmental growth of a unicellular organism" RELATED [GOC:mah] xref: MIPS_funcat:40.01 is_a: GO:0009987 ! cellular process is_a: GO:0040007 ! growth [Term] id: GO:0016050 name: vesicle organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle." [GOC:mah] subset: goslim_pir subset: goslim_yeast synonym: "vesicle organisation" EXACT [GOC:curators] synonym: "vesicle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization [Term] id: GO:0016070 name: RNA metabolic process namespace: biological_process def: "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_metagenomics subset: goslim_pir synonym: "RNA metabolism" EXACT [] is_a: GO:0090304 ! nucleic acid metabolic process [Term] id: GO:0016071 name: mRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes." [ISBN:0198506732] subset: goslim_pombe synonym: "mRNA metabolism" EXACT [] is_a: GO:0016070 ! RNA metabolic process [Term] id: GO:0016079 name: synaptic vesicle exocytosis namespace: biological_process def: "Fusion of intracellular membrane-bounded vesicles with the pre-synaptic membrane of the neuronal cell resulting in release of neurotransmitter into the synaptic cleft." [GOC:jid, GOC:lmg] subset: goslim_synapse xref: MIPS_funcat:20.09.16.09.05 is_a: GO:0045055 ! regulated exocytosis is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0099003 ! vesicle-mediated transport in synapse is_a: GO:0099643 ! signal release from synapse intersection_of: GO:0045055 ! regulated exocytosis intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse relationship: part_of GO:0007269 ! neurotransmitter secretion relationship: part_of GO:0099504 ! synaptic vesicle cycle [Term] id: GO:0016192 name: vesicle-mediated transport namespace: biological_process alt_id: GO:0006899 def: "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane." [GOC:ai, GOC:mah, ISBN:08789310662000] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "nonselective vesicle transport" NARROW [] synonym: "protein sorting along secretory pathway" RELATED [] synonym: "vesicle trafficking" RELATED [] synonym: "vesicle transport" EXACT [] synonym: "vesicular transport" EXACT [GOC:mah] xref: MIPS_funcat:20.09.07 is_a: GO:0006810 ! transport [Term] id: GO:0016203 name: muscle attachment namespace: biological_process def: "The developmental process in which a skeletal muscle attaches to its target (such as bone or body wall)." [GOC:isa_complete, GOC:sart] is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0060538 ! skeletal muscle organ development [Term] id: GO:0016236 name: macroautophagy namespace: biological_process alt_id: GO:0034262 def: "The major inducible pathway for the general turnover of cytoplasmic constituents in eukaryotic cells, it is also responsible for the degradation of active cytoplasmic enzymes and organelles during nutrient starvation. Macroautophagy involves the formation of double-membrane-bounded autophagosomes which enclose the cytoplasmic constituent targeted for degradation in a membrane-bounded structure. Autophagosomes then fuse with a lysosome (or vacuole) releasing single-membrane-bounded autophagic bodies that are then degraded within the lysosome (or vacuole). Some types of macroautophagy, e.g. pexophagy, mitophagy, involve selective targeting of the targets to be degraded." [PMID:11099404, PMID:12914914, PMID:15798367, PMID:16973210, PMID:20159618, PMID:9412464] comment: Targeted macroautophagy sometimes targets regions of cytoplasm containing non-self, such as virus particles or components (e.g. see PMID:20159618). As this is essentially the same process as macroautophagy that encloses and digests only self, the term autophagy is still used despite the enclosure of some non-self (non-auto) entities. synonym: "autophagy" BROAD [] is_a: GO:0006914 ! autophagy [Term] id: GO:0016239 name: positive regulation of macroautophagy namespace: biological_process def: "Any process, such as recognition of nutrient depletion, that activates or increases the rate of macroautophagy to bring cytosolic macromolecules to the vacuole/lysosome for degradation." [GOC:go_curators, PMID:9412464] synonym: "activation of macroautophagy" NARROW [] synonym: "positive regulation of starvation-induced autophagy" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "stimulation of macroautophagy" NARROW [] synonym: "up regulation of macroautophagy" EXACT [] synonym: "up-regulation of macroautophagy" EXACT [] synonym: "upregulation of macroautophagy" EXACT [] is_a: GO:0010508 ! positive regulation of autophagy is_a: GO:0016241 ! regulation of macroautophagy intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016236 ! macroautophagy relationship: positively_regulates GO:0016236 ! macroautophagy [Term] id: GO:0016241 name: regulation of macroautophagy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of macroautophagy." [GOC:krc] synonym: "regulation of starvation-induced autophagy" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0010506 ! regulation of autophagy intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016236 ! macroautophagy relationship: regulates GO:0016236 ! macroautophagy [Term] id: GO:0016242 name: negative regulation of macroautophagy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of macroautophagy." [GOC:go_curators] synonym: "down regulation of macroautophagy" EXACT [] synonym: "down-regulation of macroautophagy" EXACT [] synonym: "downregulation of macroautophagy" EXACT [] synonym: "inhibition of macroautophagy" NARROW [] synonym: "negative regulation of starvation-induced autophagy" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0010507 ! negative regulation of autophagy is_a: GO:0016241 ! regulation of macroautophagy intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016236 ! macroautophagy relationship: negatively_regulates GO:0016236 ! macroautophagy [Term] id: GO:0016246 name: RNA interference namespace: biological_process def: "The process in which double-stranded RNAs silence cognate genes. Involves posttranscriptional gene inactivation ('silencing') both of transgenes or dsRNA introduced into a germline, and of the host gene(s) homologous to the transgenes or dsRNA. This silencing is triggered by the introduction of transgenes or double-stranded RNA (dsRNA), and can occur through a specific decrease in the level of mRNA, or by negative regulation of translation, of both host genes and transgenes." [GOC:ems, PMID:11201747, PMID:11713190, PMID:18771919] comment: Note that this term refers specifically to posttranscriptional mechanisms by which small interfering RNAs down-regulate gene expression. Also consider annotating to other descendants of 'gene silencing by RNA ; GO:0031047'. synonym: "posttranscriptional gene silencing by siRNA" EXACT [GOC:mah] synonym: "RNAi" EXACT [] xref: Wikipedia:RNA_interference is_a: GO:0035194 ! posttranscriptional gene silencing by RNA [Term] id: GO:0016301 name: kinase activity namespace: molecular_function def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [ISBN:0198506732] comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term. subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant subset: goslim_yeast synonym: "phosphokinase activity" EXACT [] xref: reactome:R-HSA-109822 "MAPK3,(MAPK1) phosphorylates GRB2-1:SOS1:p-Y427-SHC1" xref: reactome:R-HSA-109823 "MAPK3,(MAPK1) phosphorylates GRB2-1:SOS1:p-Y-IRS1,p-Y-IRS2" xref: reactome:R-HSA-111898 "Phosphorylation of cPLA2 by ERK-2" xref: reactome:R-HSA-112381 "Hyperphosphorylation (Ser2) of RNA Pol II CTD by P-TEFb complex" xref: reactome:R-HSA-139908 "Phosphorylation of DLC2 by MAPK8" xref: reactome:R-HSA-139918 "Phosphorylation of BIM by JNK" xref: reactome:R-HSA-165692 "Phosphorylation of 4E-BP1 by activated mTORC1" xref: reactome:R-HSA-165718 "mTORC1 phosphorylation of RPS6KB1 (S6K)" xref: reactome:R-HSA-165726 "Phosphorylation of Ribosomal protein S6 by activated S6K1" xref: reactome:R-HSA-165758 "Phosphorylation and inactivation of eEF2K by activated S6K1" xref: reactome:R-HSA-165766 "Phosphorylation and activation of eIF4G by activated S6K1" xref: reactome:R-HSA-165777 "Phosphorylation and activation of eIF4B by activated S6K1" xref: reactome:R-HSA-167084 "Hyperphosphorylation (Ser2) of RNA Pol II CTD by P-TEFb complex" xref: reactome:R-HSA-167098 "Phosphorylation (Ser5) of RNA pol II CTD" xref: reactome:R-HSA-167191 "Hyperphosphorylation (Ser2) of RNA Pol II CTD by the P-TEFb(Cyclin T1:Cdk9) complex" xref: reactome:R-HSA-170055 "Myt-1 mediated phosphorylation of Cyclin B:Cdc2 complexes" xref: reactome:R-HSA-170070 "Wee1-mediated phosphorylation of Cyclin B1:phospho-Cdc2 complexes" xref: reactome:R-HSA-170076 "CAK-mediated phosphorylation of Cyclin B1:Cdc2 complexes" xref: reactome:R-HSA-170087 "CAK-mediated phosphorylation of Cyclin A:Cdc2 complexes" xref: reactome:R-HSA-170116 "Myt-1 mediated phosphorylation of Cyclin A:Cdc2" xref: reactome:R-HSA-170126 "Phosphorylation of Cyclin B1 in the CRS domain" xref: reactome:R-HSA-170156 "Wee1-mediated phosphorylation of Cyclin A:phospho-Cdc2 complexes" xref: reactome:R-HSA-170704 "Phosphorylation of DSIF by the P-TEFb(Cyclin T1:Cdk9) complex" xref: reactome:R-HSA-170706 "Phosphorylation of NEFL by the P-TEFb(Cyclin T1:Cdk9) complex" xref: reactome:R-HSA-174164 "Phosphorylation of Cyclin A:Cdk2 at Tyr 15" xref: reactome:R-HSA-1839091 "Cytosolic FGFR1 fusion protein-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-1839107 "BCR-FGFR1-associated PI3K phosphorylates PIP2 to PIP3." xref: reactome:R-HSA-1839110 "p-BCR-p-FGFR1 phosphorylates GAB2" xref: reactome:R-HSA-187949 "CAK-mediated phosphorylation of Cyclin A:Cdk2" xref: reactome:R-HSA-188350 "CAK-mediated phosphorylation of Cyclin E:Cdk2" xref: reactome:R-HSA-191636 "Phosphorylation of Cx43 by c-src" xref: reactome:R-HSA-195275 "Phosphorylation of APC component of the destruction complex" xref: reactome:R-HSA-195283 "Phosphorylation of phospho- (Ser45, Thr41) beta-catenin at Ser37 by GSK-3" xref: reactome:R-HSA-195287 "Phosphorylation of phospho-(Ser45 ) at Thr 41 by GSK-3" xref: reactome:R-HSA-195300 "Phosphorylation of phospho-(Ser45,Thr41,Ser37) at Ser33 by GSK-3" xref: reactome:R-HSA-195318 "Phosphorylation of beta-catenin at Ser45 by CK1 alpha" xref: reactome:R-HSA-201717 "CSNK2-mediated phosphorylation of DVL" xref: reactome:R-HSA-211583 "Partial autophosphorylation of PAK-2 at Ser-19, Ser-20, Ser-55, Ser-192, and Ser-197" xref: reactome:R-HSA-211650 "Autophosphorylation of PAK-2p34 in the activation loop" xref: reactome:R-HSA-2214351 "PLK1 phosphorylates GORASP1" xref: reactome:R-HSA-2294580 "PLK1 hyperphosphorylates Condensin II complex" xref: reactome:R-HSA-2529020 "CK2 phosphorylates condensin I subunits" xref: reactome:R-HSA-389762 "Phosphorylation of PD-1" xref: reactome:R-HSA-392752 "Phosphorylation of L1 by CK-II" xref: reactome:R-HSA-442724 "Phosphorylation of CREB1 by ribosomal protein S6 kinases (RSKs)" xref: reactome:R-HSA-445079 "Phosphorylation of L1 by ERK" xref: reactome:R-HSA-5654690 "FGFR1-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654692 "FGFR1- and PTPN11- associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654697 "FGFR2- and PTPN11- associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654701 "FGFR2-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654705 "FGFR3-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654709 "FGFR3- and PTPN11-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654714 "FGFR4- and PTPN11-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5654717 "FGFR4-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5655235 "Activated FGFR4 mutant-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5655289 "Activated FGFR3 mutant-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5655290 "Activated FGFR1 mutant-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5655323 "Activated FGFR2 mutant-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-5668545 "NIK autophosphorylates on T559" xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm" xref: reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm" xref: Reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines" xref: reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines" xref: reactome:R-HSA-6814409 "CK2 phosphorylates PDCL" xref: reactome:R-HSA-68954 "Mcm2-7 is phosphorylated by DDK" xref: reactome:R-HSA-69195 "Phosphorylation of Cyclin E:CDK2 complexes by WEE1" xref: reactome:R-HSA-69604 "Phosphorylation of Cdc25A at Ser-123 by Chk1" xref: reactome:R-HSA-75028 "Phosphorylation of Wee1 kinase by Chk1" xref: reactome:R-HSA-75809 "Phosphorylation of Cdc25C at Ser216 by CHEK2" xref: reactome:R-HSA-77071 "Phosphorylation (Ser5) of RNA pol II CTD" xref: reactome:R-HSA-8853323 "Activated FGFR3 fusion-associated PI3K phosphorylates PIP2 to PIP3" xref: reactome:R-HSA-8942836 "CDK4/6:CCND complexes are activated by T-loop phosphorylation of CDK4/6" xref: reactome:R-HSA-8948039 "FUNDC1 is phosphorylated by CK2" xref: reactome:R-HSA-8948143 "p-S13, FUNDC1 is phosphorylated by CK2 at Tyr18" xref: reactome:R-HSA-8948146 "FUNDC1 is phosphorylated by ULK1 at Ser17" is_a: GO:0016772 ! transferase activity, transferring phosphorus-containing groups relationship: part_of GO:0016310 ! phosphorylation [Term] id: GO:0016310 name: phosphorylation namespace: biological_process def: "The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide." [ISBN:0198506732] subset: goslim_chembl subset: goslim_metagenomics xref: Wikipedia:Phosphorylation is_a: GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0016321 name: female meiosis chromosome segregation namespace: biological_process def: "The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a female." [GOC:ai] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0045132 ! meiotic chromosome segregation intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0007143 ! female meiotic nuclear division relationship: part_of GO:0007143 ! female meiotic nuclear division [Term] id: GO:0016358 name: dendrite development namespace: biological_process def: "The process whose specific outcome is the progression of the dendrite over time, from its formation to the mature structure." [GOC:aruk, GOC:bc, GOC:jl, ISBN:0198506732, PMID:22683681] is_a: GO:0031175 ! neuron projection development is_a: GO:0048856 ! anatomical structure development [Term] id: GO:0016441 name: posttranscriptional gene silencing namespace: biological_process def: "The inactivation of gene expression by a posttranscriptional mechanism." [GOC:mah, PMID:15020054] synonym: "cosuppression" RELATED [] synonym: "post-transcriptional gene silencing" EXACT [GOC:vw] synonym: "PTGS" EXACT [] synonym: "quelling" EXACT [] xref: Wikipedia:Post_transcriptional_gene_silencing is_a: GO:0010608 ! posttranscriptional regulation of gene expression is_a: GO:0016458 ! gene silencing is_a: GO:0040029 ! regulation of gene expression, epigenetic [Term] id: GO:0016458 name: gene silencing namespace: biological_process def: "Any process carried out at the cellular level that results in either long-term transcriptional repression via action on chromatin structure or RNA mediated, post-transcriptional repression of gene expression." [GOC:dos, GOC:dph, GOC:jid, GOC:tb] comment: This is a rather broad grouping term. While it was originally defined for long-term, heritable, epigenetic effects, short term effects on expression mediated by RNA are also frequently referred to as gene silencing, and are grouped under this class. subset: goslim_pir synonym: "long-term maintenance of gene inactivation" NARROW [] xref: Wikipedia:Gene_silencing is_a: GO:0009987 ! cellular process is_a: GO:0010629 ! negative regulation of gene expression [Term] id: GO:0016459 name: myosin complex namespace: cellular_component def: "A protein complex, formed of one or more myosin heavy chains plus associated light chains and other proteins, that functions as a molecular motor; uses the energy of ATP hydrolysis to move actin filaments or to move vesicles or other cargo on fixed actin filaments; has magnesium-ATPase activity and binds actin. Myosin classes are distinguished based on sequence features of the motor, or head, domain, but also have distinct tail regions that are believed to bind specific cargoes." [GOC:mah, Wikipedia:Myosin] is_a: GO:0032991 ! protein-containing complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0016460 name: myosin II complex namespace: cellular_component def: "A myosin complex containing two class II myosin heavy chains, two myosin essential light chains and two myosin regulatory light chains. Also known as classical myosin or conventional myosin, the myosin II class includes the major muscle myosin of vertebrate and invertebrate muscle, and is characterized by alpha-helical coiled coil tails that self assemble to form a variety of filament structures." [Wikipedia:Myosin] synonym: "conventional myosin" RELATED [] is_a: GO:0016459 ! myosin complex [Term] id: GO:0016477 name: cell migration namespace: biological_process def: "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms." [GOC:cjm, GOC:dph, GOC:ems, GOC:pf, http://en.wikipedia.org/wiki/Cell_migration] xref: MIPS_funcat:34.05.01 xref: Wikipedia:Cell_migration is_a: GO:0048870 ! cell motility [Term] id: GO:0016482 name: cytosolic transport namespace: biological_process def: "The directed movement of substances or organelles within the cytosol." [GOC:ai] is_a: GO:0046907 ! intracellular transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005829 ! cytosol relationship: occurs_in GO:0005829 ! cytosol [Term] id: GO:0016740 name: transferase activity namespace: molecular_function def: "Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: EC:2 xref: Reactome:R-HSA-1483089 "PE is converted to PS by PTDSS2" xref: reactome:R-HSA-1483089 "PE is converted to PS by PTDSS2" xref: Reactome:R-HSA-1483186 "PC is converted to PS by PTDSS1" xref: reactome:R-HSA-1483186 "PC is converted to PS by PTDSS1" xref: Reactome:R-HSA-5668414 "TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK" xref: reactome:R-HSA-5668414 "TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK" xref: Reactome:R-HSA-6787403 "GTPBP3 and MTO1 transform uridine-34 yielding 5-taurinomethyluridine-34 in tRNA" xref: reactome:R-HSA-6787403 "GTPBP3 and MTO1 transform uridine-34 yielding 5-taurinomethyluridine-34 in tRNA" xref: Reactome:R-HSA-8868783 "TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248" xref: reactome:R-HSA-8868783 "TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248" is_a: GO:0003824 ! catalytic activity [Term] id: GO:0016757 name: transferase activity, transferring glycosyl groups namespace: molecular_function alt_id: GO:0016932 def: "Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] comment: Note that enzymes of class EC:2.4.99.- should also be annotated to this term. subset: goslim_chembl subset: goslim_generic subset: goslim_yeast synonym: "glycosyltransferase activity" EXACT [] synonym: "transferase activity, transferring other glycosyl groups" NARROW [] synonym: "transglycosidase activity" EXACT [] synonym: "transglycosylase activity" EXACT [] xref: EC:2.4 xref: Reactome:R-HSA-5173005 "B3GALTL transfers glucose to O-fucosyl-proteins" xref: Reactome:R-HSA-6785565 "Defective B3GALTL does not transfer glucose to O-fucosyl-proteins" is_a: GO:0016740 ! transferase activity [Term] id: GO:0016772 name: transferase activity, transferring phosphorus-containing groups namespace: molecular_function def: "Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] comment: Note that this term encompasses all kinase activities, as well as activities that transfer other phosphorus-containing groups such as diphosphate or nucleotides. subset: goslim_chembl xref: EC:2.7 is_a: GO:0016740 ! transferase activity [Term] id: GO:0016787 name: hydrolase activity namespace: molecular_function def: "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: EC:3 xref: Reactome:R-HSA-1236938 "Partial proteolysis of antigen in phagolysosomes" xref: Reactome:R-HSA-2029475 "Production of AA by iPLA2 upon FCGR activation" xref: Reactome:R-HSA-5694583 "ABHD4 hydrolyses NAPE" xref: Reactome:R-HSA-5695964 "ABHD14B hydrolyses PNPB" xref: Reactome:R-HSA-6786190 "CMBL hydrolyses OM to OLMS" xref: Reactome:R-HSA-6788295 "HDHD1:Mg2+ dephosphorylates PURIDP" xref: Reactome:R-HSA-8938314 "ENPPs hydrolyse CoA-SH to PPANT, PAP" xref: Reactome:R-HSA-8952137 "Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate" is_a: GO:0003824 ! catalytic activity [Term] id: GO:0016788 name: hydrolase activity, acting on ester bonds namespace: molecular_function def: "Catalysis of the hydrolysis of any ester bond." [GOC:jl] subset: goslim_chembl synonym: "esterase activity" EXACT [] xref: EC:3.1 xref: Reactome:R-HSA-162729 "uPAR-acyl-GPI + H2O -> uPAR + long-chain fatty acid" xref: Reactome:R-HSA-9023617 "Butyrylcholinesterase hydrolyzes acyl Ghrelin" xref: Reactome:R-HSA-9023619 "Platelet-activating factor acetylhydrolase (PLA2G7) hydrolyzes acyl Ghrelin" is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0016874 name: ligase activity namespace: molecular_function def: "Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate." [EC:6, GOC:mah] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_yeast synonym: "synthetase activity" EXACT [GOC:jh2] xref: EC:6 is_a: GO:0003824 ! catalytic activity [Term] id: GO:0016877 name: ligase activity, forming carbon-sulfur bonds namespace: molecular_function def: "Catalysis of the joining of two molecules via a carbon-sulfur bond, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate." [EC:6.2, GOC:mah] synonym: "ligase activity, forming carbon-sulphur bonds" EXACT [] xref: EC:6.2 is_a: GO:0016874 ! ligase activity [Term] id: GO:0016879 name: ligase activity, forming carbon-nitrogen bonds namespace: molecular_function def: "Catalysis of the joining of two molecules, or two groups within a single molecule, via a carbon-nitrogen bond, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate." [EC:6.3, GOC:mah] comment: Note that enzymes of class EC:6.3.4.- should also be annotated to this term. synonym: "other carbon-nitrogen ligase activity" NARROW [] xref: EC:6.3 is_a: GO:0016874 ! ligase activity [Term] id: GO:0016881 name: acid-amino acid ligase activity namespace: molecular_function def: "Catalysis of the ligation of an acid to an amino acid via a carbon-nitrogen bond, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate." [GOC:jl, GOC:mah] synonym: "peptide synthase activity" EXACT [] xref: EC:6.3.2 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0017144 name: drug metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a drug, a substance used in the diagnosis, treatment or prevention of a disease; as used here antibiotic substances (see antibiotic metabolism) are considered to be drugs, even if not used in medical or veterinary practice." [GOC:cab2] subset: goslim_chembl subset: goslim_pir synonym: "drug metabolism" EXACT [] xref: Wikipedia:Drug_metabolism is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0017145 name: stem cell division namespace: biological_process def: "The self-renewing division of a stem cell. A stem cell is an undifferentiated cell, in the embryo or adult, that can undergo unlimited division and give rise to one or several different cell types." [GOC:jid, ISBN:0582227089] synonym: "stem cell renewal" EXACT [] is_a: GO:0051301 ! cell division [Term] id: GO:0017148 name: negative regulation of translation namespace: biological_process alt_id: GO:0016478 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:isa_complete] synonym: "down regulation of protein biosynthetic process" EXACT [] synonym: "down-regulation of protein biosynthetic process" EXACT [] synonym: "downregulation of protein biosynthetic process" EXACT [] synonym: "inhibition of protein biosynthetic process" NARROW [] synonym: "negative regulation of protein anabolism" EXACT [] synonym: "negative regulation of protein biosynthesis" EXACT [] synonym: "negative regulation of protein biosynthetic process" EXACT [] synonym: "negative regulation of protein formation" EXACT [] synonym: "negative regulation of protein synthesis" EXACT [] synonym: "protein biosynthesis inhibitor activity" RELATED [] synonym: "protein biosynthetic process inhibitor activity" RELATED [] is_a: GO:0006417 ! regulation of translation is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:0032269 ! negative regulation of cellular protein metabolic process is_a: GO:0034249 ! negative regulation of cellular amide metabolic process is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006412 ! translation relationship: negatively_regulates GO:0006412 ! translation [Term] id: GO:0017156 name: calcium-ion regulated exocytosis namespace: biological_process def: "The release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell, induced by a rise in cytosolic calcium-ion levels." [GOC:go_curators] comment: Note that the calcium regulated exocytosis pathway can be leaky: some level of exocytosis via this pathway occurs spontaneously. This phenomenon underlies spontaneous neurotransmitter release from presynapses. This phenomenon is distinct from the unregulated, calcium independent exocytosis pathway. synonym: "calcium ion-dependent exocytosis" EXACT [] is_a: GO:0045055 ! regulated exocytosis [Term] id: GO:0017157 name: regulation of exocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of exocytosis." [GOC:go_curators] is_a: GO:0060627 ! regulation of vesicle-mediated transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006887 ! exocytosis relationship: regulates GO:0006887 ! exocytosis [Term] id: GO:0017158 name: regulation of calcium ion-dependent exocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of calcium ion-dependent exocytosis." [GOC:go_curators] is_a: GO:1903305 ! regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0017156 ! calcium-ion regulated exocytosis relationship: regulates GO:0017156 ! calcium-ion regulated exocytosis [Term] id: GO:0018130 name: heterocycle biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [ISBN:0198547684] synonym: "heterocycle anabolism" EXACT [] synonym: "heterocycle biosynthesis" EXACT [] synonym: "heterocycle formation" EXACT [] synonym: "heterocycle synthesis" EXACT [] is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0046483 ! heterocycle metabolic process [Term] id: GO:0018958 name: phenol-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [CHEBI:33853, ISBN:0198506732] comment: Note that phenol metabolism is not included as a child of 'xenobiotic metabolism' because although it is synthesized industrially, phenol is also found naturally in animal wastes and other organic materials. It is often formed by the activity of microorganisms, which can chemically modify a variety of xenobiotic and naturally occurring phenolic compounds. synonym: "carbolic acid metabolic process" EXACT [] synonym: "carbolic acid metabolism" EXACT [] synonym: "hydroxybenzene metabolic process" EXACT [] synonym: "hydroxybenzene metabolism" EXACT [] synonym: "phenol-containing compound metabolism" EXACT [GOC:curators] xref: UM-BBD_pathwayID:phe is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process [Term] id: GO:0018985 name: pronuclear envelope synthesis namespace: biological_process def: "Synthesis and ordering of the envelope of pronuclei." [GOC:ems] is_a: GO:0006998 ! nuclear envelope organization is_a: GO:0022414 ! reproductive process relationship: part_of GO:0007338 ! single fertilization [Term] id: GO:0018991 name: oviposition namespace: biological_process def: "The deposition of eggs (either fertilized or not) upon a surface or into a medium such as water." [GOC:ems] synonym: "egg laying" BROAD [] synonym: "egg-laying" BROAD [] xref: Wikipedia:Oviposition is_a: GO:0019098 ! reproductive behavior [Term] id: GO:0018992 name: germ-line sex determination namespace: biological_process def: "The determination of sex and sexual phenotype in an organism's germ line." [GOC:ems] is_a: GO:0007530 ! sex determination relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0018996 name: molting cycle, collagen and cuticulin-based cuticle namespace: biological_process def: "The periodic shedding of part or all of a collagen and cuticulin-based cuticle, which is then replaced by a new collagen and cuticulin-based cuticle. An example of this is found in the Nematode worm, Caenorhabditis elegans." [GOC:jl, GOC:mtg_sensu] synonym: "collagen and cuticulin-based cuticle molting cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0042303 ! molting cycle [Term] id: GO:0019093 name: mitochondrial RNA localization namespace: biological_process def: "Any process in which mitochondrial RNA is transported to, or maintained in, a specific location." [GOC:ai] synonym: "establishment and maintenance of mitochondrial RNA localization" EXACT [] synonym: "mitochondrial RNA localisation" EXACT [GOC:mah] synonym: "mtRNA localization" EXACT [] is_a: GO:0006403 ! RNA localization intersection_of: GO:0006403 ! RNA localization intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion [Term] id: GO:0019098 name: reproductive behavior namespace: biological_process alt_id: GO:0033057 alt_id: GO:0044704 def: "The specific behavior of an organism that is associated with reproduction." [GOC:jl, GOC:pr] synonym: "multicellular organism reproductive behavior" NARROW [] synonym: "reproductive behavior in a multicellular organism" EXACT [GOC:curators] synonym: "reproductive behaviour" EXACT [] synonym: "single-organism reproductive behavior" RELATED [] is_a: GO:0007610 ! behavior is_a: GO:0048609 ! multicellular organismal reproductive process intersection_of: GO:0007610 ! behavior intersection_of: part_of GO:0000003 ! reproduction created_by: janelomax creation_date: 2012-09-19T16:01:37Z [Term] id: GO:0019216 name: regulation of lipid metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "regulation of lipid metabolism" EXACT [] xref: MIPS_funcat:01.06.10 is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006629 ! lipid metabolic process relationship: regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0019219 name: regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0019220 name: regulation of phosphate metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "regulation of phosphate metabolism" EXACT [] is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0019222 name: regulation of metabolic process namespace: biological_process alt_id: GO:0044246 def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] subset: goslim_metagenomics synonym: "regulation of metabolism" EXACT [] synonym: "regulation of multicellular organismal metabolic process" NARROW [] synonym: "regulation of organismal metabolic process" NARROW [GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008152 ! metabolic process relationship: regulates GO:0008152 ! metabolic process [Term] id: GO:0019226 name: transmission of nerve impulse namespace: biological_process def: "The neurological system process in which a signal is transmitted through the nervous system by a combination of action potential propagation and synaptic transmission." [GOC:curators, ISBN:0815316194] synonym: "conduction of nerve impulse" EXACT [GOC:dph] synonym: "signal transmission along a neuron" EXACT [] is_a: GO:0035637 ! multicellular organismal signaling is_a: GO:0050877 ! nervous system process relationship: has_part GO:0001508 ! action potential relationship: has_part GO:0007268 ! chemical synaptic transmission relationship: part_of GO:0007154 ! cell communication [Term] id: GO:0019336 name: phenol-containing compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [CHEBI:33853, GOC:go_curators, ISBN:0198506732] synonym: "phenol-containing compound breakdown" EXACT [GOC:curators] synonym: "phenol-containing compound catabolism" EXACT [GOC:curators] synonym: "phenol-containing compound degradation" EXACT [GOC:curators] xref: MetaCyc:PHENOLDEG-PWY is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0019439 ! aromatic compound catabolic process is_a: GO:1901361 ! organic cyclic compound catabolic process is_a: GO:1901616 ! organic hydroxy compound catabolic process [Term] id: GO:0019438 name: aromatic compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aromatic compounds, any substance containing an aromatic carbon ring." [GOC:ai] synonym: "aromatic compound anabolism" EXACT [] synonym: "aromatic compound biosynthesis" EXACT [] synonym: "aromatic compound formation" EXACT [] synonym: "aromatic compound synthesis" EXACT [] synonym: "aromatic hydrocarbon biosynthesis" NARROW [] synonym: "aromatic hydrocarbon biosynthetic process" NARROW [] xref: MIPS_funcat:01.05.01.03.09 is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0044249 ! cellular biosynthetic process [Term] id: GO:0019439 name: aromatic compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring." [GOC:ai] synonym: "aromatic compound breakdown" EXACT [] synonym: "aromatic compound catabolism" EXACT [] synonym: "aromatic compound degradation" EXACT [] synonym: "aromatic hydrocarbon catabolic process" NARROW [] synonym: "aromatic hydrocarbon catabolism" NARROW [] xref: MIPS_funcat:01.05.01.01.09 xref: MIPS_funcat:01.05.01.01.11 is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0044248 ! cellular catabolic process [Term] id: GO:0019538 name: protein metabolic process namespace: biological_process alt_id: GO:0006411 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "multicellular organismal protein metabolic process" NARROW [] synonym: "protein metabolic process and modification" EXACT [] synonym: "protein metabolism" EXACT [] synonym: "protein metabolism and modification" EXACT [] xref: Wikipedia:Protein_metabolism is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process [Term] id: GO:0019614 name: catechol-containing compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of catechol-containing compounds. Catechol is a compound containing a pyrocatechol nucleus or substituent." [GOC:go_curators] synonym: "catechol breakdown" RELATED [] synonym: "catechol catabolic process" RELATED [] synonym: "catechol catabolism" RELATED [] synonym: "catechol degradation" RELATED [] is_a: GO:0009712 ! catechol-containing compound metabolic process is_a: GO:0019336 ! phenol-containing compound catabolic process [Term] id: GO:0019722 name: calcium-mediated signaling namespace: biological_process def: "Any intracellular signal transduction in which the signal is passed on within the cell via calcium ions." [GOC:signaling] synonym: "calcium ion signaling" EXACT [] synonym: "calcium signaling" EXACT [] synonym: "calcium signalling" EXACT [] synonym: "calcium-mediated signalling" EXACT [] xref: MIPS_funcat:30.01.09.03 xref: Wikipedia:Calcium_signaling is_a: GO:0019932 ! second-messenger-mediated signaling [Term] id: GO:0019725 name: cellular homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state at the level of the cell." [GOC:isa_complete, GOC:jl, ISBN:0395825172] subset: goslim_aspergillus subset: goslim_candida subset: goslim_plant is_a: GO:0009987 ! cellular process is_a: GO:0042592 ! homeostatic process intersection_of: GO:0042592 ! homeostatic process intersection_of: occurs_in GO:0005623 ! cell relationship: occurs_in GO:0005623 ! cell [Term] id: GO:0019748 name: secondary metabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "secondary metabolism" EXACT [] synonym: "secondary metabolite metabolic process" EXACT [] synonym: "secondary metabolite metabolism" EXACT [] xref: MIPS_funcat:01.20 xref: Wikipedia:Secondary_metabolism is_a: GO:0008152 ! metabolic process [Term] id: GO:0019777 name: Atg12 transferase activity namespace: molecular_function def: "Catalysis of the transfer of ATG12 from one protein to another via the reaction X-ATG12 + Y --> Y-ATG12 + X, where both X-ATG12 and Y-ATG12 are covalent linkages." [GOC:mah, PMID:12826404] synonym: "APG12 conjugating enzyme activity" NARROW [] synonym: "APG12 ligase activity" NARROW [] synonym: "Atg12 conjugating enzyme activity" NARROW [] synonym: "Atg12 ligase activity" NARROW [] xref: Reactome:R-HSA-5681999 "ATG10 transfers ATG12 from ATG7 to ATG10" is_a: GO:0019787 ! ubiquitin-like protein transferase activity [Term] id: GO:0019778 name: Atg12 activating enzyme activity namespace: molecular_function def: "Catalysis of the activation of the small ubiquitin-related modifier APG12, through the formation of an ATP-dependent high-energy thiolester bond." [GOC:mah] synonym: "APG12 activating enzyme activity" RELATED [GOC:vw] is_a: GO:0008641 ! ubiquitin-like modifier activating enzyme activity [Term] id: GO:0019783 name: ubiquitin-like protein-specific protease activity namespace: molecular_function alt_id: GO:1904454 alt_id: GO:1904455 def: "Catalysis of the hydrolysis of peptide or isopeptide bonds within small proteins such as ubiquitin or ubiquitin-like proteins (e.g. APG8, ISG15, NEDD8, SUMO), or between the small protein and a larger protein to which it has been conjugated." [GOC:ma, GOC:mah] synonym: "small conjugating protein-specific protease activity" EXACT [GOC:dph] synonym: "ubiquitin-like specific protease activity" NARROW [] synonym: "ubiquitin-like-protein-specific protease activity" NARROW [] synonym: "ubiquitin-specific protease activity involved in negative regulation of ERAD pathway" NARROW [] synonym: "ubiquitin-specific protease activity involved in positive regulation of ERAD pathway" NARROW [] is_a: GO:0008234 ! cysteine-type peptidase activity [Term] id: GO:0019786 name: Atg8-specific protease activity namespace: molecular_function def: "Catalysis of the hydrolysis of APG8, a small ubiquitin-related modifier." [GOC:mah] synonym: "APG8-PE hydrolase" RELATED [] synonym: "APG8-specific protease activity" RELATED [GOC:vw] is_a: GO:0019783 ! ubiquitin-like protein-specific protease activity [Term] id: GO:0019787 name: small conjugating protein ligase activity name: ubiquitin-like protein transferase activity namespace: molecular_function alt_id: GO:0008639 alt_id: GO:0008640 def: "Catalysis of the transfer of a ubiquitin-like from one protein to another via the reaction X-ULP + Y --> Y-ULP + X, where both X-ULP and Y-ULP are covalent linkages. ULP represents a ubiquitin-like protein." [GOC:mah, GOC:rn, PMID:10806345, PMID:10884686] subset: goslim_pir synonym: "E2" RELATED [] synonym: "E3" RELATED [dph:GOC] synonym: "small conjugating protein ligase activity" NARROW [GOC:dph] synonym: "small conjugating protein transferase activity" EXACT [GOC:dph] synonym: "small protein conjugating enzyme activity" NARROW [] synonym: "ubiquitin-like conjugating enzyme activity" NARROW [] synonym: "ubiquitin-like-protein ligase activity" NARROW [] xref: Reactome:R-HSA-5678490 "ATG16L1 complex transfers LC3 from ATG3 to PE" xref: Reactome:R-HSA-688137 "RIP2 is K63 polyubiquitinated" is_a: GO:0016740 ! transferase activity is_a: GO:0016881 ! acid-amino acid ligase activity is_a: GO:0140096 ! catalytic activity, acting on a protein [Term] id: GO:0019932 name: second-messenger-mediated signaling namespace: biological_process def: "Any intracellular signal transduction in which the signal is passed on within the cell via a second messenger; a small molecule or ion that can be quickly generated or released from intracellular stores, and can diffuse within the cell. Second-messenger signaling includes production or release of the second messenger, and effectors downstream of the second messenger that further transmit the signal within the cell." [GOC:signaling, ISBN:0815316194, PMID:15221855, Wikipedia:Second_messenger_system] synonym: "second messenger mediated signaling" EXACT [] synonym: "second messenger mediated signalling" EXACT [] synonym: "second messenger-mediated signaling" EXACT [] synonym: "second messenger-mediated signalling" EXACT [] synonym: "second-messenger-mediated signal transduction" EXACT [GOC:signaling] synonym: "second-messenger-mediated signalling" EXACT [] xref: MIPS_funcat:30.01.09 is_a: GO:0035556 ! intracellular signal transduction [Term] id: GO:0019953 name: sexual reproduction namespace: biological_process def: "A reproduction process that creates a new organism by combining the genetic material of two gametes, which may come from two organisms or from a single organism, in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. It occurs both in eukaryotes and prokaryotes: in multicellular eukaryotic organisms, an individual is created anew; in prokaryotes, the initial cell has additional or transformed genetic material. In a process called genetic recombination, genetic material (DNA) originating from two gametes join up so that homologous sequences are aligned with each other, and this is followed by exchange of genetic information. After the new recombinant chromosome is formed, it is passed on to progeny." [GOC:jl, GOC:kmv, GOC:krc, GOC:tb, http://en.wikipedia.org/wiki/Sexual_reproduction, ISBN:0387520546] comment: Sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times. xref: Wikipedia:Sexual_reproduction is_a: GO:0000003 ! reproduction is_a: GO:0044703 ! multi-organism reproductive process [Term] id: GO:0021700 name: developmental maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an anatomical structure, cell or cellular component to attain its fully functional state." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06] comment: This term was added by GO_REF:0000021. subset: goslim_chembl subset: goslim_generic is_a: GO:0032502 ! developmental process [Term] id: GO:0022008 name: neurogenesis namespace: biological_process def: "Generation of cells within the nervous system." [GO_REF:0000021, GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06] comment: This term was added by GO_REF:0000021. synonym: "nervous system cell generation" EXACT systematic_synonym [] synonym: "neural cell differentiation" RELATED [GOC:BHF, GOC:dph] xref: Wikipedia:Neurogenesis is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0007399 ! nervous system development [Term] id: GO:0022402 name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle relationship: part_of GO:0007049 ! cell cycle [Term] id: GO:0022403 name: cell cycle phase namespace: biological_process def: "One of the distinct periods or stages into which the cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate is_a: GO:0044848 ! biological phase [Term] id: GO:0022404 name: molting cycle process namespace: biological_process def: "A multicellular organismal process involved in the periodic casting off and regeneration of an outer covering of cuticle, feathers, hair, horns, skin." [GOC:isa_complete] is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0042303 ! molting cycle [Term] id: GO:0022407 name: regulation of cell-cell adhesion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of attachment of a cell to another cell." [GOC:isa_complete] is_a: GO:0030155 ! regulation of cell adhesion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0098609 ! cell-cell adhesion relationship: regulates GO:0098609 ! cell-cell adhesion [Term] id: GO:0022408 name: negative regulation of cell-cell adhesion namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of cell adhesion to another cell." [GOC:isa_complete] synonym: "down regulation of cell-cell adhesion" EXACT [] synonym: "down-regulation of cell-cell adhesion" EXACT [] synonym: "downregulation of cell-cell adhesion" EXACT [] synonym: "inhibition of cell-cell adhesion" NARROW [] is_a: GO:0007162 ! negative regulation of cell adhesion is_a: GO:0022407 ! regulation of cell-cell adhesion intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0098609 ! cell-cell adhesion relationship: negatively_regulates GO:0098609 ! cell-cell adhesion [Term] id: GO:0022409 name: positive regulation of cell-cell adhesion namespace: biological_process def: "Any process that activates or increases the rate or extent of cell adhesion to another cell." [GOC:isa_complete] synonym: "activation of cell-cell adhesion" NARROW [] synonym: "stimulation of cell-cell adhesion" NARROW [] synonym: "up regulation of cell-cell adhesion" EXACT [] synonym: "up-regulation of cell-cell adhesion" EXACT [] synonym: "upregulation of cell-cell adhesion" EXACT [] is_a: GO:0022407 ! regulation of cell-cell adhesion is_a: GO:0045785 ! positive regulation of cell adhesion intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0098609 ! cell-cell adhesion relationship: positively_regulates GO:0098609 ! cell-cell adhesion [Term] id: GO:0022411 name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] is_a: GO:0016043 ! cellular component organization [Term] id: GO:0022412 name: cellular process involved in reproduction in multicellular organism namespace: biological_process def: "A process, occurring at the cellular level, that is involved in the reproductive function of a multicellular organism." [GOC:isa_complete] synonym: "reproductive cellular process in multicellular organism" EXACT [GOC:curators] is_a: GO:0009987 ! cellular process is_a: GO:0022414 ! reproductive process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0032504 ! multicellular organism reproduction relationship: part_of GO:0032504 ! multicellular organism reproduction [Term] id: GO:0022414 name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] synonym: "single organism reproductive process" RELATED [] is_a: GO:0008150 ! biological_process intersection_of: GO:0008150 ! biological_process intersection_of: part_of GO:0000003 ! reproduction disjoint_from: GO:0044848 ! biological phase relationship: part_of GO:0000003 ! reproduction created_by: janelomax creation_date: 2012-09-19T15:56:06Z [Term] id: GO:0022603 name: regulation of anatomical structure morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of anatomical structure morphogenesis." [GOC:mah] synonym: "regulation of morphogenesis" EXACT [] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009653 ! anatomical structure morphogenesis relationship: regulates GO:0009653 ! anatomical structure morphogenesis [Term] id: GO:0022604 name: regulation of cell morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell morphogenesis. Cell morphogenesis is the developmental process in which the shape of a cell is generated and organized." [GOC:isa_complete] synonym: "negative regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] synonym: "positive regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] synonym: "regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000902 ! cell morphogenesis relationship: regulates GO:0000902 ! cell morphogenesis [Term] id: GO:0022607 name: cellular component assembly namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl subset: goslim_generic subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] is_a: GO:0016043 ! cellular component organization relationship: part_of GO:0044085 ! cellular component biogenesis [Term] id: GO:0022610 name: biological adhesion namespace: biological_process def: "The attachment of a cell or organism to a substrate, another cell, or other organism. Biological adhesion includes intracellular attachment between membrane regions." [GOC:isa_complete] subset: goslim_pir is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase [Term] id: GO:0022611 name: dormancy process namespace: biological_process def: "A developmental process in which dormancy (sometimes called a dormant state) is induced, maintained or broken. Dormancy is a suspension of most physiological activity and growth that can be reactivated." [GOC:isa_complete, GOC:PO_curators, PO_REF:00009] comment: In plants and animals, dormancy may be a response to environmental conditions such as seasonality or extreme heat, drought, or cold. In plants, dormancy may involve the formation of dormant buds, and may be preceded by the senescence of plant parts such as leaves in woody plants or most of the shoot system in herbaceous perennials. The exit from dormancy in vascular plants is marked by resumed growth of buds and/or growth of vascular cambium. synonym: "multicellular organism dormancy process" NARROW [] synonym: "spore dormancy process" NARROW [GOC:PO_curators] is_a: GO:0032502 ! developmental process [Term] id: GO:0022613 name: ribonucleoprotein complex biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a complex containing RNA and proteins. Includes the biosynthesis of the constituent RNA and protein molecules, and those macromolecular modifications that are involved in synthesis or assembly of the ribonucleoprotein complex." [GOC:isa_complete, GOC:mah] synonym: "ribonucleoprotein complex biogenesis and assembly" EXACT [GOC:mah] synonym: "RNA-protein complex biogenesis" EXACT [GOC:mah] is_a: GO:0044085 ! cellular component biogenesis [Term] id: GO:0022618 name: ribonucleoprotein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex." [GOC:jl] subset: goslim_chembl subset: goslim_generic synonym: "protein-RNA complex assembly" EXACT [] synonym: "RNA-protein complex assembly" EXACT [] synonym: "RNP complex assembly" EXACT [] is_a: GO:0034622 ! cellular protein-containing complex assembly is_a: GO:0071826 ! ribonucleoprotein complex subunit organization relationship: part_of GO:0022613 ! ribonucleoprotein complex biogenesis [Term] id: GO:0023019 name: signal transduction involved in regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression as a consequence of a process in which a signal is released and/or conveyed from one location to another." [GOC:mtg_signal] synonym: "regulation of gene expression as a consequence of signal transmission" RELATED [GOC:bf] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: part_of GO:0010468 ! regulation of gene expression relationship: part_of GO:0010468 ! regulation of gene expression creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023051 name: regulation of signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "regulation of signaling process" RELATED [GOC:bf] synonym: "regulation of signalling process" RELATED [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0023052 ! signaling relationship: regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023052 name: signaling namespace: biological_process alt_id: GO:0023046 alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pombe subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] synonym: "signalling" EXACT [] synonym: "signalling process" RELATED [GOC:mah] synonym: "single organism signaling" RELATED [] is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase created_by: janelomax creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023056 name: positive regulation of signaling namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "positive regulation of signaling process" RELATED [GOC:bf] synonym: "positive regulation of signalling process" EXACT [GOC:mah] is_a: GO:0023051 ! regulation of signaling is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0023052 ! signaling relationship: positively_regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023057 name: negative regulation of signaling namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "negative regulation of signaling process" RELATED [GOC:bf] synonym: "negative regulation of signalling process" RELATED [GOC:mah] is_a: GO:0023051 ! regulation of signaling is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0023052 ! signaling relationship: negatively_regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023061 name: signal release namespace: biological_process def: "The process in which a signal is secreted or discharged into the extracellular medium from a cellular source." [GOC:mtg_signal] synonym: "signal secretion" EXACT [GOC:bf] is_a: GO:0032940 ! secretion by cell intersection_of: GO:0032940 ! secretion by cell intersection_of: part_of GO:0007267 ! cell-cell signaling relationship: part_of GO:0007267 ! cell-cell signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0030003 name: cellular cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of cations at the level of a cell." [GOC:ceb, GOC:mah] xref: MIPS_funcat:34.01.01 is_a: GO:0006873 ! cellular ion homeostasis is_a: GO:0055080 ! cation homeostasis [Term] id: GO:0030004 name: cellular monovalent inorganic cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of monovalent inorganic cations at the level of a cell." [GOC:ai, GOC:mah] is_a: GO:0030003 ! cellular cation homeostasis is_a: GO:0055067 ! monovalent inorganic cation homeostasis [Term] id: GO:0030016 name: myofibril namespace: cellular_component def: "The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism." [ISBN:0815316194] synonym: "striated muscle fiber" RELATED [] synonym: "striated muscle fibre" RELATED [] xref: Wikipedia:Myofibril is_a: GO:0043292 ! contractile fiber [Term] id: GO:0030017 name: sarcomere namespace: cellular_component def: "The repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [ISBN:0815316194] xref: Wikipedia:Sarcomere is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0030016 ! myofibril [Term] id: GO:0030029 name: actin filament-based process namespace: biological_process def: "Any cellular process that depends upon or alters the actin cytoskeleton, that part of the cytoskeleton comprising actin filaments and their associated proteins." [GOC:mah] synonym: "microfilament-based process" RELATED [] is_a: GO:0009987 ! cellular process [Term] id: GO:0030030 name: cell projection organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, GOC:mah, http://www.cogsci.princeton.edu/~wn/] synonym: "cell projection organisation" EXACT [GOC:curators] synonym: "cell projection organization and biogenesis" RELATED [GOC:mah] synonym: "cell surface structure organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization [Term] id: GO:0030031 name: cell projection assembly namespace: biological_process def: "Formation of a prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, GOC:mah, http://www.cogsci.princeton.edu/~wn/] synonym: "cell projection biogenesis" RELATED [GOC:mah] synonym: "formation of a cell surface projection" EXACT [] is_a: GO:0022607 ! cellular component assembly is_a: GO:0030030 ! cell projection organization [Term] id: GO:0030036 name: actin cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_pombe synonym: "actin cytoskeleton organisation" EXACT [GOC:curators] synonym: "actin cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "actin modulating activity" RELATED [] xref: MIPS_funcat:42.04.03 is_a: GO:0007010 ! cytoskeleton organization is_a: GO:0030029 ! actin filament-based process [Term] id: GO:0030037 name: actin filament reorganization involved in cell cycle namespace: biological_process def: "The cell cycle process in which rearrangement of the spatial distribution of actin filaments and associated proteins occurs." [GOC:mah] synonym: "actin filament reorganisation involved in cell cycle" EXACT [GOC:mah] synonym: "actin filament reorganization during cell cycle" RELATED [GOC:dph, GOC:tb] xref: MIPS_funcat:10.03.05 xref: MIPS_funcat:10.03.05.03 is_a: GO:0022402 ! cell cycle process is_a: GO:0090527 ! actin filament reorganization intersection_of: GO:0090527 ! actin filament reorganization intersection_of: part_of GO:0007049 ! cell cycle [Term] id: GO:0030054 name: cell junction namespace: cellular_component def: "A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix." [GOC:mah, http://www.vivo.colostate.edu/hbooks/cmb/cells/pmemb/junctions_a.html, ISBN:0198506732] subset: goslim_agr subset: goslim_flybase_ribbon xref: MIPS_funcat:70.06 xref: Wikipedia:Cell_junction is_a: GO:0005575 ! cellular_component [Term] id: GO:0030071 name: regulation of mitotic metaphase/anaphase transition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the cell cycle process in which a cell progresses from metaphase to anaphase during mitosis, triggered by the activation of the anaphase promoting complex by Cdc20/Sleepy homolog which results in the degradation of Securin." [GOC:mah] is_a: GO:0010965 ! regulation of mitotic sister chromatid separation is_a: GO:1901990 ! regulation of mitotic cell cycle phase transition is_a: GO:1902099 ! regulation of metaphase/anaphase transition of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle relationship: regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle [Term] id: GO:0030100 name: regulation of endocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endocytosis." [GOC:go_curators] is_a: GO:0051128 ! regulation of cellular component organization is_a: GO:0060627 ! regulation of vesicle-mediated transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006897 ! endocytosis relationship: regulates GO:0006897 ! endocytosis [Term] id: GO:0030133 name: transport vesicle namespace: cellular_component def: "Any of the vesicles of the constitutive secretory pathway, which carry cargo from the endoplasmic reticulum to the Golgi, between Golgi cisternae, from the Golgi to the ER (retrograde transport) or to destinations within or outside the cell." [GOC:mah, PMID:22160157] comment: Note that the term 'secretory vesicle' is sometimes used in this sense, but can also mean 'secretory granule ; GO:0030141'. synonym: "constitutive secretory pathway transport vesicle" EXACT [] synonym: "Golgi to vacuole transport vesicle" NARROW [] synonym: "Golgi-vacuole transport vesicle" NARROW [] synonym: "secretory vesicle" RELATED [] xref: MIPS_funcat:70.09 xref: NIF_Subcellular:sao885490876 is_a: GO:0031410 ! cytoplasmic vesicle relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0030154 name: cell differentiation namespace: biological_process def: "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_plant xref: MIPS_funcat:40.02 xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process [Term] id: GO:0030155 name: regulation of cell adhesion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of attachment of a cell to another cell or to the extracellular matrix." [GOC:mah] synonym: "cell adhesion receptor regulator activity" RELATED [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007155 ! cell adhesion relationship: regulates GO:0007155 ! cell adhesion [Term] id: GO:0030162 name: regulation of proteolysis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the hydrolysis of a peptide bond or bonds within a protein." [GOC:mah] synonym: "regulation of peptidolysis" EXACT [] is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006508 ! proteolysis relationship: regulates GO:0006508 ! proteolysis [Term] id: GO:0030163 name: protein catabolic process namespace: biological_process alt_id: GO:0044254 def: "The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." [GOC:mah] comment: This term refers to the breakdown of mature proteins. For cleavage events involved in generating a mature protein from a precursor, consider instead the term 'protein maturation ; GO:0051604' and its children. subset: goslim_aspergillus subset: goslim_candida subset: goslim_pombe synonym: "multicellular organismal protein catabolic process" NARROW [] synonym: "pheromone catabolic process" RELATED [] synonym: "pheromone catabolism" RELATED [] synonym: "protein breakdown" EXACT [] synonym: "protein catabolism" EXACT [] synonym: "protein degradation" EXACT [] xref: MIPS_funcat:14.13 xref: Wikipedia:Protein_catabolism is_a: GO:0009057 ! macromolecule catabolic process is_a: GO:0019538 ! protein metabolic process is_a: GO:1901565 ! organonitrogen compound catabolic process [Term] id: GO:0030174 name: regulation of DNA-dependent DNA replication initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of initiation of DNA-dependent DNA replication; the process in which DNA becomes competent to replicate. In eukaryotes, replication competence is established in early G1 and lost during the ensuing S phase." [GOC:mah] synonym: "DNA replication licencing" EXACT [] synonym: "DNA replication licensing" EXACT [] synonym: "regulation of DNA replication initiation" BROAD [GOC:vw] is_a: GO:0051052 ! regulation of DNA metabolic process is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006270 ! DNA replication initiation relationship: regulates GO:0006270 ! DNA replication initiation [Term] id: GO:0030182 name: neuron differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron." [GOC:mah] xref: MIPS_funcat:43.03.13 is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0048699 ! generation of neurons [Term] id: GO:0030261 name: chromosome condensation namespace: biological_process alt_id: GO:0000068 def: "The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells." [GOC:mah, ISBN:0815316194] synonym: "DNA condensation" BROAD [Wikipedia:DNA_condensation] synonym: "eukaryotic chromosome condensation" EXACT [GOC:bf] synonym: "nuclear chromosome condensation" EXACT [GOC:bf] xref: MIPS_funcat:10.03.04.03 is_a: GO:0006323 ! DNA packaging [Term] id: GO:0030307 name: positive regulation of cell growth namespace: biological_process def: "Any process that activates or increases the frequency, rate, extent or direction of cell growth." [GOC:go_curators] synonym: "activation of cell growth" NARROW [] synonym: "stimulation of cell growth" NARROW [] synonym: "up regulation of cell growth" EXACT [] synonym: "up-regulation of cell growth" EXACT [] synonym: "upregulation of cell growth" EXACT [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0045927 ! positive regulation of growth is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016049 ! cell growth relationship: positively_regulates GO:0016049 ! cell growth [Term] id: GO:0030308 name: negative regulation of cell growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, extent or direction of cell growth." [GOC:go_curators] synonym: "down regulation of cell growth" EXACT [] synonym: "down-regulation of cell growth" EXACT [] synonym: "downregulation of cell growth" EXACT [] synonym: "inhibition of cell growth" NARROW [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0045926 ! negative regulation of growth is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016049 ! cell growth relationship: negatively_regulates GO:0016049 ! cell growth [Term] id: GO:0030334 name: regulation of cell migration namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell migration." [GOC:go_curators] is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016477 ! cell migration relationship: regulates GO:0016477 ! cell migration [Term] id: GO:0030335 name: positive regulation of cell migration namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell migration." [GOC:go_curators] synonym: "activation of cell migration" NARROW [] synonym: "stimulation of cell migration" NARROW [] synonym: "up regulation of cell migration" EXACT [] synonym: "up-regulation of cell migration" EXACT [] synonym: "upregulation of cell migration" EXACT [] is_a: GO:0030334 ! regulation of cell migration is_a: GO:2000147 ! positive regulation of cell motility intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016477 ! cell migration relationship: positively_regulates GO:0016477 ! cell migration [Term] id: GO:0030336 name: negative regulation of cell migration namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell migration." [GOC:go_curators] synonym: "down regulation of cell migration" EXACT [] synonym: "down-regulation of cell migration" EXACT [] synonym: "downregulation of cell migration" EXACT [] synonym: "inhibition of cell migration" NARROW [] is_a: GO:0030334 ! regulation of cell migration is_a: GO:2000146 ! negative regulation of cell motility intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016477 ! cell migration relationship: negatively_regulates GO:0016477 ! cell migration [Term] id: GO:0030397 name: membrane disassembly namespace: biological_process def: "The controlled breakdown of any cell membrane in the context of a normal process such as autophagy." [GOC:mah] synonym: "membrane breakdown" EXACT [] synonym: "membrane catabolism" EXACT [] synonym: "membrane degradation" EXACT [] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0061024 ! membrane organization [Term] id: GO:0030421 name: defecation namespace: biological_process def: "The expulsion of feces from the rectum." [GOC:mah] xref: Wikipedia:Defecation is_a: GO:0007588 ! excretion [Term] id: GO:0030424 name: axon namespace: cellular_component def: "The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter." [GOC:nln, ISBN:0198506732] xref: NIF_Subcellular:sao1770195789 xref: Wikipedia:Axon is_a: GO:0043005 ! neuron projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030425 name: dendrite namespace: cellular_component def: "A neuron projection that has a short, tapering, morphology. Dendrites receive and integrate signals from other neurons or from sensory stimuli, and conduct nerve impulses towards the axon or the cell body. In most neurons, the impulse is conveyed from dendrites to axon via the cell body, but in some types of unipolar neuron, the impulse does not travel via the cell body." [GOC:aruk, GOC:bc, GOC:dos, GOC:mah, GOC:nln, ISBN:0198506732] xref: NIF_Subcellular:sao1211023249 xref: Wikipedia:Dendrite is_a: GO:0043005 ! neuron projection is_a: GO:0120038 ! plasma membrane bounded cell projection part relationship: part_of GO:0097447 ! dendritic tree property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030516 name: regulation of axon extension namespace: biological_process def: "Any process that modulates the rate, direction or extent of axon extension." [GOC:go_curators] is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0050770 ! regulation of axonogenesis is_a: GO:0061387 ! regulation of extent of cell growth intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048675 ! axon extension relationship: regulates GO:0048675 ! axon extension [Term] id: GO:0030517 name: negative regulation of axon extension namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of axon outgrowth." [GOC:mah] synonym: "down regulation of axon extension" EXACT [] synonym: "down-regulation of axon extension" EXACT [] synonym: "downregulation of axon extension" EXACT [] synonym: "inhibition of axon extension" NARROW [] is_a: GO:0030308 ! negative regulation of cell growth is_a: GO:0030516 ! regulation of axon extension is_a: GO:0048640 ! negative regulation of developmental growth is_a: GO:0050771 ! negative regulation of axonogenesis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048675 ! axon extension relationship: negatively_regulates GO:0048675 ! axon extension [Term] id: GO:0030534 name: adult behavior namespace: biological_process def: "Behavior in a fully developed and mature organism." [GOC:mah, ISBN:0877797099] comment: See also the biological process term 'behavior ; GO:0007610'. synonym: "adult behavioral response to stimulus" EXACT [] synonym: "adult behaviour" EXACT [] synonym: "adult behavioural response to stimulus" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0030537 name: larval behavior namespace: biological_process alt_id: GO:0017037 def: "Behavior in a larval form of an organism, an immature organism that must undergo metamorphosis to assume adult characteristics." [GOC:mah, ISBN:0877797099] comment: See also the biological process term 'behavior ; GO:0007610'. synonym: "larval behaviour" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0030545 name: receptor regulator activity namespace: molecular_function def: "The function of interacting (directly or indirectly) with receptors such that the proportion of receptors in the active form is changed." [GOC:ceb] xref: MIPS_funcat:18.02.07 is_a: GO:0098772 ! molecular function regulator [Term] id: GO:0030546 name: signaling receptor activator activity namespace: molecular_function def: "The function of interacting (directly or indirectly) with receptors such that the proportion of receptors in the active form is increased." [GOC:ceb] synonym: "receptor activator activity" BROAD [] is_a: GO:0030545 ! receptor regulator activity [Term] id: GO:0030588 name: pseudocleavage namespace: biological_process def: "Partial constriction of the cytoplasm of an embryo to form a furrow that resembles a cleavage furrow but does not complete cytokinesis." [GOC:mah, PMID:10751167, PMID:7729583] is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0009790 ! embryo development [Term] id: GO:0030590 name: first cell cycle pseudocleavage namespace: biological_process def: "A process that occurs during the first cell cycle in an embryo, in which anterior cortical contractions culminate in a single partial constriction of the embryo called the pseudocleavage furrow. An example of this process is found in nematode worms." [GOC:mtg_sensu, PMID:7729583] is_a: GO:0030588 ! pseudocleavage [Term] id: GO:0030641 name: regulation of cellular pH namespace: biological_process def: "Any process involved in the maintenance of an internal equilibrium of hydrogen ions (protons) within a cell or between a cell and its external environment." [GOC:dph, GOC:mah, GOC:tb] synonym: "cellular hydrogen ion homeostasis" EXACT [GOC:dph, GOC:tb] synonym: "proton homeostasis" EXACT [] xref: MIPS_funcat:34.01.01.03 is_a: GO:0006885 ! regulation of pH is_a: GO:0030004 ! cellular monovalent inorganic cation homeostasis [Term] id: GO:0030705 name: cytoskeleton-dependent intracellular transport namespace: biological_process def: "The directed movement of substances along cytoskeletal fibers such as microfilaments or microtubules within a cell." [GOC:mah] subset: goslim_chembl subset: goslim_generic xref: MIPS_funcat:20.09.14 is_a: GO:0046907 ! intracellular transport [Term] id: GO:0030728 name: ovulation namespace: biological_process def: "The release of a mature ovum/oocyte from an ovary." [GOC:bf, ISBN:0878932437] xref: Wikipedia:Ovulation is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007292 ! female gamete generation [Term] id: GO:0030855 name: epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an epithelial cell, any of the cells making up an epithelium." [GOC:ecd, PMID:11839751] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0060429 ! epithelium development [Term] id: GO:0030856 name: regulation of epithelial cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030855 ! epithelial cell differentiation relationship: regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030857 name: negative regulation of epithelial cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] synonym: "down regulation of epithelial cell differentiation" EXACT [] synonym: "down-regulation of epithelial cell differentiation" EXACT [] synonym: "downregulation of epithelial cell differentiation" EXACT [] synonym: "inhibition of epithelial cell differentiation" NARROW [] is_a: GO:0030856 ! regulation of epithelial cell differentiation is_a: GO:0045596 ! negative regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030855 ! epithelial cell differentiation relationship: negatively_regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030858 name: positive regulation of epithelial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] synonym: "activation of epithelial cell differentiation" NARROW [] synonym: "stimulation of epithelial cell differentiation" NARROW [] synonym: "up regulation of epithelial cell differentiation" EXACT [] synonym: "up-regulation of epithelial cell differentiation" EXACT [] synonym: "upregulation of epithelial cell differentiation" EXACT [] is_a: GO:0030856 ! regulation of epithelial cell differentiation is_a: GO:0045597 ! positive regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030855 ! epithelial cell differentiation relationship: positively_regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030968 name: endoplasmic reticulum unfolded protein response namespace: biological_process def: "The series of molecular signals generated as a consequence of the presence of unfolded proteins in the endoplasmic reticulum (ER) or other ER-related stress; results in changes in the regulation of transcription and translation." [GOC:mah, PMID:12042763] comment: Note that this term should not be confused with 'response to unfolded protein ; GO:0006986', which refers to any response to the presence of unfolded proteins anywhere in the cell or in multicellular organism. Also see 'ER-associated protein catabolic process ; GO:0030433'. synonym: "ER unfolded protein response" EXACT [] synonym: "erUPR" EXACT [] synonym: "SREBP-mediated signalling pathway" RELATED [] xref: MIPS_funcat:32.01.07 is_a: GO:0007165 ! signal transduction is_a: GO:0034976 ! response to endoplasmic reticulum stress relationship: part_of GO:0034620 ! cellular response to unfolded protein [Term] id: GO:0030990 name: intraciliary transport particle namespace: cellular_component def: "A nonmembrane-bound oligomeric protein complex that participates in bidirectional transport of molecules (cargo) along axonemal microtubules." [GOC:cilia, GOC:kmv, PMID:14570576, PMID:22118932, PMID:23945166] comment: Note that we deem cilia and microtubule-based flagella to be equivalent. subset: goslim_pir synonym: "IFT complex" RELATED [] synonym: "intraflagellar transport complex" EXACT [] synonym: "intraflagellar transport particle" EXACT [] is_a: GO:0032991 ! protein-containing complex [Term] id: GO:0031012 name: extracellular matrix namespace: cellular_component alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_generic subset: goslim_pir synonym: "matrisome" NARROW [] synonym: "proteinaceous extracellular matrix" EXACT [] xref: MIPS_funcat:70.27.01 xref: NIF_Subcellular:nlx_subcell_20090513 xref: Wikipedia:Extracellular_matrix is_a: GO:0044421 ! extracellular region part [Term] id: GO:0031047 name: gene silencing by RNA namespace: biological_process def: "Any process in which RNA molecules inactivate expression of target genes." [GOC:dph, GOC:mah, GOC:tb, PMID:15020054] synonym: "RNA-mediated gene silencing" EXACT [GOC:dph, GOC:tb] is_a: GO:0016458 ! gene silencing [Term] id: GO:0031090 name: organelle membrane namespace: cellular_component def: "A membrane that is one of the two lipid bilayers of an organelle envelope or the outermost membrane of single membrane bound organelle." [GOC:dos, GOC:mah] synonym: "intracellular membrane" RELATED [NIF_Subcellular:sao830981606] xref: NIF_Subcellular:sao830981606 is_a: GO:0016020 ! membrane is_a: GO:0044422 ! organelle part relationship: part_of GO:0043227 ! membrane-bounded organelle [Term] id: GO:0031109 name: microtubule polymerization or depolymerization namespace: biological_process def: "Assembly or disassembly of microtubules by the addition or removal of tubulin heterodimers from a microtubule." [GOC:mah] is_a: GO:0000226 ! microtubule cytoskeleton organization [Term] id: GO:0031110 name: regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule polymerization or depolymerization by the addition or removal of tubulin heterodimers from a microtubule." [GOC:mah] is_a: GO:0070507 ! regulation of microtubule cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031111 name: negative regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule polymerization or depolymerization." [GOC:mah] synonym: "down regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "down-regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "downregulation of microtubule polymerization or depolymerization" EXACT [] synonym: "inhibition of microtubule polymerization or depolymerization" NARROW [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0051494 ! negative regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: negatively_regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031112 name: positive regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule polymerization or depolymerization." [GOC:mah] synonym: "activation of microtubule polymerization or depolymerization" NARROW [] synonym: "stimulation of microtubule polymerization or depolymerization" NARROW [] synonym: "up regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "up-regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "upregulation of microtubule polymerization or depolymerization" EXACT [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0051495 ! positive regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: positively_regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031113 name: regulation of microtubule polymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule polymerization." [GOC:mah] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0032271 ! regulation of protein polymerization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0046785 ! microtubule polymerization relationship: regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031114 name: regulation of microtubule depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule depolymerization." [GOC:mah] synonym: "regulation of microtubule disassembly" EXACT [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:1901879 ! regulation of protein depolymerization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007019 ! microtubule depolymerization relationship: regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0031115 name: negative regulation of microtubule polymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule polymerization." [GOC:mah] synonym: "down regulation of microtubule polymerization" EXACT [] synonym: "down-regulation of microtubule polymerization" EXACT [] synonym: "downregulation of microtubule polymerization" EXACT [] synonym: "inhibition of microtubule polymerization" NARROW [] is_a: GO:0031111 ! negative regulation of microtubule polymerization or depolymerization is_a: GO:0031113 ! regulation of microtubule polymerization is_a: GO:0032272 ! negative regulation of protein polymerization is_a: GO:1902904 ! negative regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0046785 ! microtubule polymerization relationship: negatively_regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031116 name: positive regulation of microtubule polymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule polymerization." [GOC:mah] synonym: "activation of microtubule polymerization" NARROW [] synonym: "stimulation of microtubule polymerization" NARROW [] synonym: "up regulation of microtubule polymerization" EXACT [] synonym: "up-regulation of microtubule polymerization" EXACT [] synonym: "upregulation of microtubule polymerization" EXACT [] is_a: GO:0031112 ! positive regulation of microtubule polymerization or depolymerization is_a: GO:0031113 ! regulation of microtubule polymerization is_a: GO:0032273 ! positive regulation of protein polymerization is_a: GO:1902905 ! positive regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0046785 ! microtubule polymerization relationship: positively_regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031117 name: positive regulation of microtubule depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule depolymerization." [GOC:mah] synonym: "activation of microtubule depolymerization" NARROW [] synonym: "microtubule destabilization" EXACT [] synonym: "positive regulation of microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "positive regulation of microtubule disassembly" EXACT [] synonym: "stimulation of microtubule depolymerization" NARROW [] synonym: "up regulation of microtubule depolymerization" EXACT [] synonym: "up-regulation of microtubule depolymerization" EXACT [] synonym: "upregulation of microtubule depolymerization" EXACT [] is_a: GO:0031112 ! positive regulation of microtubule polymerization or depolymerization is_a: GO:0031114 ! regulation of microtubule depolymerization is_a: GO:1901881 ! positive regulation of protein depolymerization is_a: GO:1902905 ! positive regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007019 ! microtubule depolymerization relationship: positively_regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0031122 name: cytoplasmic microtubule organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures formed of microtubules and associated proteins in the cytoplasm of a cell." [GOC:mah] synonym: "cytoplasmic microtubule organisation" EXACT [GOC:curators] synonym: "cytoplasmic microtubule organization and biogenesis" RELATED [GOC:mah] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:0097435 ! supramolecular fiber organization [Term] id: GO:0031128 name: developmental induction namespace: biological_process def: "A developmental process involving two tissues in which one tissue (the inducer) produces a signal that directs cell fate commitment of cells in the second tissue (the responder)." [GOC:cjm, GOC:dph, GOC:mah, PMID:24503535] is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process intersection_of: has_part GO:0045168 ! cell-cell signaling involved in cell fate commitment relationship: has_part GO:0045168 ! cell-cell signaling involved in cell fate commitment [Term] id: GO:0031129 name: inductive cell-cell signaling namespace: biological_process def: "Signaling at short range between cells of different ancestry and developmental potential that results in one cell or group of cells effecting a developmental change in the other. This is often done by secretion of proteins by one cell which affects the neighboring cells and causes them to adopt a certain fate." [GOC:mah] synonym: "inductive cell-cell signalling" EXACT [] is_a: GO:0031128 ! developmental induction [Term] id: GO:0031143 name: pseudopodium namespace: cellular_component def: "A temporary protrusion or retractile process of a cell, associated with flowing movements of the protoplasm, and serving for locomotion and feeding." [ISBN:0198506732] subset: goslim_pir synonym: "pseudopod" EXACT [] xref: Wikipedia:Pseudopod is_a: GO:0120025 ! plasma membrane bounded cell projection [Term] id: GO:0031175 name: neuron projection development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:mah] synonym: "neurite biosynthesis" NARROW [] synonym: "neurite development" NARROW [GOC:dph] synonym: "neurite formation" NARROW [] synonym: "neurite growth" NARROW [] synonym: "neurite outgrowth" NARROW [] is_a: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: part_of GO:0048666 ! neuron development relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0031323 name: regulation of cellular metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] synonym: "regulation of cellular metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044237 ! cellular metabolic process relationship: regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031324 name: negative regulation of cellular metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] synonym: "down regulation of cellular metabolic process" EXACT [] synonym: "down-regulation of cellular metabolic process" EXACT [] synonym: "downregulation of cellular metabolic process" EXACT [] synonym: "inhibition of cellular metabolic process" NARROW [] synonym: "negative regulation of cellular metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044237 ! cellular metabolic process relationship: negatively_regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031325 name: positive regulation of cellular metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] synonym: "activation of cellular metabolic process" NARROW [] synonym: "positive regulation of cellular metabolism" EXACT [] synonym: "stimulation of cellular metabolic process" NARROW [] synonym: "up regulation of cellular metabolic process" EXACT [] synonym: "up-regulation of cellular metabolic process" EXACT [] synonym: "upregulation of cellular metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044237 ! cellular metabolic process relationship: positively_regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031326 name: regulation of cellular biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "regulation of cellular anabolism" EXACT [] synonym: "regulation of cellular biosynthesis" EXACT [] synonym: "regulation of cellular formation" EXACT [] synonym: "regulation of cellular synthesis" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044249 ! cellular biosynthetic process relationship: regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031327 name: negative regulation of cellular biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "down regulation of cellular biosynthetic process" EXACT [] synonym: "down-regulation of cellular biosynthetic process" EXACT [] synonym: "downregulation of cellular biosynthetic process" EXACT [] synonym: "inhibition of cellular biosynthetic process" NARROW [] synonym: "negative regulation of cellular anabolism" EXACT [] synonym: "negative regulation of cellular biosynthesis" EXACT [] synonym: "negative regulation of cellular formation" EXACT [] synonym: "negative regulation of cellular synthesis" EXACT [] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044249 ! cellular biosynthetic process relationship: negatively_regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031328 name: positive regulation of cellular biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "activation of cellular biosynthetic process" NARROW [] synonym: "positive regulation of cellular anabolism" EXACT [] synonym: "positive regulation of cellular biosynthesis" EXACT [] synonym: "positive regulation of cellular formation" EXACT [] synonym: "positive regulation of cellular synthesis" EXACT [] synonym: "stimulation of cellular biosynthetic process" NARROW [] synonym: "up regulation of cellular biosynthetic process" EXACT [] synonym: "up-regulation of cellular biosynthetic process" EXACT [] synonym: "upregulation of cellular biosynthetic process" EXACT [] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044249 ! cellular biosynthetic process relationship: positively_regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031329 name: regulation of cellular catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] synonym: "regulation of cellular breakdown" EXACT [] synonym: "regulation of cellular catabolism" EXACT [] synonym: "regulation of cellular degradation" EXACT [] is_a: GO:0009894 ! regulation of catabolic process is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044248 ! cellular catabolic process relationship: regulates GO:0044248 ! cellular catabolic process [Term] id: GO:0031330 name: negative regulation of cellular catabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] synonym: "down regulation of cellular catabolic process" EXACT [] synonym: "down-regulation of cellular catabolic process" EXACT [] synonym: "downregulation of cellular catabolic process" EXACT [] synonym: "inhibition of cellular catabolic process" NARROW [] synonym: "negative regulation of cellular breakdown" EXACT [] synonym: "negative regulation of cellular catabolism" EXACT [] synonym: "negative regulation of cellular degradation" EXACT [] is_a: GO:0009895 ! negative regulation of catabolic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0031329 ! regulation of cellular catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044248 ! cellular catabolic process relationship: negatively_regulates GO:0044248 ! cellular catabolic process [Term] id: GO:0031331 name: positive regulation of cellular catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:mah] synonym: "activation of cellular catabolic process" NARROW [] synonym: "positive regulation of cellular breakdown" EXACT [] synonym: "positive regulation of cellular catabolism" EXACT [] synonym: "positive regulation of cellular degradation" EXACT [] synonym: "stimulation of cellular catabolic process" NARROW [] synonym: "up regulation of cellular catabolic process" EXACT [] synonym: "up-regulation of cellular catabolic process" EXACT [] synonym: "upregulation of cellular catabolic process" EXACT [] is_a: GO:0009896 ! positive regulation of catabolic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0031329 ! regulation of cellular catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044248 ! cellular catabolic process relationship: positively_regulates GO:0044248 ! cellular catabolic process [Term] id: GO:0031333 name: negative regulation of protein complex assembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein complex assembly." [GOC:mah] synonym: "down regulation of protein complex assembly" EXACT [] synonym: "down-regulation of protein complex assembly" EXACT [] synonym: "downregulation of protein complex assembly" EXACT [] synonym: "inhibition of protein complex assembly" NARROW [] is_a: GO:0043254 ! regulation of protein complex assembly is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0065003 ! protein-containing complex assembly relationship: negatively_regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0031334 name: positive regulation of protein complex assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein complex assembly." [GOC:mah] synonym: "activation of protein complex assembly" NARROW [] synonym: "stimulation of protein complex assembly" NARROW [] synonym: "up regulation of protein complex assembly" EXACT [] synonym: "up-regulation of protein complex assembly" EXACT [] synonym: "upregulation of protein complex assembly" EXACT [] is_a: GO:0043254 ! regulation of protein complex assembly is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0065003 ! protein-containing complex assembly relationship: positively_regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0031338 name: regulation of vesicle fusion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vesicle fusion." [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0060627 ! regulation of vesicle-mediated transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006906 ! vesicle fusion relationship: regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031339 name: negative regulation of vesicle fusion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of vesicle fusion." [GOC:mah] synonym: "down regulation of vesicle fusion" EXACT [] synonym: "down-regulation of vesicle fusion" EXACT [] synonym: "downregulation of vesicle fusion" EXACT [] synonym: "inhibition of vesicle fusion" NARROW [] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0031338 ! regulation of vesicle fusion is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006906 ! vesicle fusion relationship: negatively_regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031340 name: positive regulation of vesicle fusion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vesicle fusion." [GOC:mah] synonym: "activation of vesicle fusion" NARROW [] synonym: "stimulation of vesicle fusion" NARROW [] synonym: "up regulation of vesicle fusion" EXACT [] synonym: "up-regulation of vesicle fusion" EXACT [] synonym: "upregulation of vesicle fusion" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0031338 ! regulation of vesicle fusion is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006906 ! vesicle fusion relationship: positively_regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031344 name: regulation of cell projection organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "regulation of cell projection organisation" EXACT [GOC:curators] synonym: "regulation of cell projection organization and biogenesis" RELATED [GOC:mah] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030030 ! cell projection organization relationship: regulates GO:0030030 ! cell projection organization [Term] id: GO:0031345 name: negative regulation of cell projection organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "down regulation of cell projection organization" EXACT [GOC:mah] synonym: "down-regulation of cell projection organization" EXACT [] synonym: "downregulation of cell projection organization" EXACT [] synonym: "inhibition of cell projection organization" NARROW [] synonym: "negative regulation of cell projection organisation" EXACT [GOC:curators] synonym: "negative regulation of cell projection organization and biogenesis" RELATED [GOC:mah] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030030 ! cell projection organization relationship: negatively_regulates GO:0030030 ! cell projection organization [Term] id: GO:0031346 name: positive regulation of cell projection organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "activation of cell projection organization" NARROW [] synonym: "positive regulation of cell projection organisation" EXACT [GOC:curators] synonym: "positive regulation of cell projection organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cell projection organization" NARROW [] synonym: "up regulation of cell projection organization" EXACT [] synonym: "up-regulation of cell projection organization" EXACT [] synonym: "upregulation of cell projection organization" EXACT [] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030030 ! cell projection organization relationship: positively_regulates GO:0030030 ! cell projection organization [Term] id: GO:0031399 name: regulation of protein modification process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein." [GOC:mah, GOC:tb] subset: goslim_yeast is_a: GO:0032268 ! regulation of cellular protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006464 ! cellular protein modification process relationship: regulates GO:0006464 ! cellular protein modification process [Term] id: GO:0031400 name: negative regulation of protein modification process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein." [GOC:mah, GOC:tb] synonym: "down regulation of protein modification" EXACT [] synonym: "down-regulation of protein modification" EXACT [] synonym: "downregulation of protein modification" EXACT [] synonym: "inhibition of protein modification" NARROW [] is_a: GO:0031399 ! regulation of protein modification process is_a: GO:0032269 ! negative regulation of cellular protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006464 ! cellular protein modification process relationship: negatively_regulates GO:0006464 ! cellular protein modification process [Term] id: GO:0031401 name: positive regulation of protein modification process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein." [GOC:mah, GOC:tb] synonym: "activation of protein modification" NARROW [] synonym: "stimulation of protein modification" NARROW [] synonym: "up regulation of protein modification" EXACT [] synonym: "up-regulation of protein modification" EXACT [] synonym: "upregulation of protein modification" EXACT [] is_a: GO:0031399 ! regulation of protein modification process is_a: GO:0032270 ! positive regulation of cellular protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006464 ! cellular protein modification process relationship: positively_regulates GO:0006464 ! cellular protein modification process [Term] id: GO:0031410 name: cytoplasmic vesicle namespace: cellular_component alt_id: GO:0016023 def: "A vesicle found in the cytoplasm of a cell." [GOC:ai, GOC:mah, GOC:vesicles] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_yeast synonym: "cytoplasmic membrane bounded vesicle" RELATED [] synonym: "cytoplasmic membrane-enclosed vesicle" RELATED [] synonym: "cytoplasmic, membrane-bounded vesicle" RELATED [] xref: NIF_Subcellular:sao180601769 is_a: GO:0044444 ! cytoplasmic part is_a: GO:0097708 ! intracellular vesicle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0031430 name: M band namespace: cellular_component def: "The midline of aligned thick filaments in a sarcomere; location of specific proteins that link thick filaments. Depending on muscle type the M band consists of different numbers of M lines." [GOC:mtg_muscle, ISBN:0198506732, ISBN:0815316194] synonym: "M disc" EXACT [] synonym: "M line" NARROW [] synonym: "mesophragma" EXACT [] synonym: "midline" BROAD [] xref: Wikipedia:Sarcomere#bands is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0031672 ! A band [Term] id: GO:0031468 name: nuclear envelope reassembly namespace: biological_process def: "The reformation of the nuclear envelope following its breakdown in the context of a normal process." [GOC:mah] is_a: GO:0006998 ! nuclear envelope organization [Term] id: GO:0031503 name: protein-containing complex localization namespace: biological_process def: "A localization process that acts on a protein complex; the complex is transported to, or maintained in, a specific location." [GOC:mah] synonym: "establishment and maintenance of protein complex localization" EXACT [] synonym: "protein complex localisation" EXACT [GOC:mah] synonym: "protein complex localization" RELATED [] is_a: GO:0008104 ! protein localization [Term] id: GO:0031532 name: actin cytoskeleton reorganization namespace: biological_process alt_id: GO:0007012 def: "A process that is carried out at the cellular level which results in dynamic structural changes to the arrangement of constituent parts of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:ecd, GOC:mah] synonym: "actin cytoskeleton remodeling" EXACT [] synonym: "actin cytoskeleton reorganisation" EXACT [GOC:curators] is_a: GO:0030036 ! actin cytoskeleton organization [Term] id: GO:0031567 name: mitotic cell size control checkpoint namespace: biological_process def: "The mitotic cell cycle checkpoint that delays or arrests cell cycle progression until cells have reached a critical size." [GOC:mtg_cell_cycle] synonym: "mitotic cell cycle cell size control checkpoint" EXACT [GOC:mah] is_a: GO:0007093 ! mitotic cell cycle checkpoint intersection_of: GO:0007093 ! mitotic cell cycle checkpoint intersection_of: part_of GO:0008361 ! regulation of cell size relationship: part_of GO:0008361 ! regulation of cell size [Term] id: GO:0031568 name: G1 cell size control checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that monitors cell size, and negatively regulates cell cycle progression between G1 and S phase until a critical size is reached." [GOC:mtg_cell_cycle] synonym: "mitotic cell cycle G1/S transition size control checkpoint" EXACT [] synonym: "mitotic G1 cell size control checkpoint" EXACT [] is_a: GO:0031567 ! mitotic cell size control checkpoint is_a: GO:2000134 ! negative regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0031567 ! mitotic cell size control checkpoint intersection_of: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle [Term] id: GO:0031570 name: DNA integrity checkpoint namespace: biological_process def: "A cell cycle process that controls cell cycle progression in response to changes in DNA structure by monitoring the integrity of the DNA. The DNA integrity checkpoint begins with detection of DNA damage, defects in DNA structure or DNA replication, and progresses through signal transduction and ends with cell cycle effector processes." [GOC:mtg_cell_cycle] is_a: GO:0000075 ! cell cycle checkpoint [Term] id: GO:0031571 name: mitotic G1 DNA damage checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that detects and negatively regulates progression through the G1/S transition of the cell cycle in response to DNA damage." [GOC:mtg_cell_cycle] synonym: "mitotic cell cycle G1/S transition DNA damage checkpoint" EXACT [] is_a: GO:0044773 ! mitotic DNA damage checkpoint is_a: GO:0044783 ! G1 DNA damage checkpoint is_a: GO:0044819 ! mitotic G1/S transition checkpoint intersection_of: GO:0044783 ! G1 DNA damage checkpoint intersection_of: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle [Term] id: GO:0031572 name: G2 DNA damage checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects and negatively regulates progression from G2 to M phase in the cell cycle in response to DNA damage." [GOC:mtg_cell_cycle] comment: Note that this term should only be used as a grouping term for the mitotic and meiotic G2 DNA damage checkpoints, and should not be used for direct manual annotation. You should always be able to choose one of its child terms instead. subset: gocheck_do_not_manually_annotate synonym: "G2/M transition DNA damage checkpoint" EXACT [] is_a: GO:0000077 ! DNA damage checkpoint [Term] id: GO:0031573 name: intra-S DNA damage checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that slows DNA synthesis in response to DNA damage by the prevention of new origin firing and the stabilization of slow replication fork progression." [GOC:vw] synonym: "mitotic intra-S DNA damage checkpoint" EXACT [] synonym: "S-phase checkpoint" BROAD [] is_a: GO:0044773 ! mitotic DNA damage checkpoint [Term] id: GO:0031577 name: spindle checkpoint namespace: biological_process def: "A cell cycle checkpoint that originates from the mitotic or meiotic spindle." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose either a mitotic or meiotic child term. subset: gocheck_do_not_manually_annotate xref: Wikipedia:Spindle_checkpoint is_a: GO:0000075 ! cell cycle checkpoint [Term] id: GO:0031644 name: regulation of nervous system process name: regulation of neurological system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a neurophysiological process, an organ system process carried out by any of the organs or tissues of neurological system." [GOC:dph, GOC:mah, GOC:tb] def: "Any process that modulates the frequency, rate or extent of a neurophysiological process, an organ system process carried out by any of the organs or tissues of the nervous system." [GOC:dph, GOC:mah, GOC:tb] synonym: "regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "regulation of neurological system process" EXACT [] synonym: "regulation of neurophysiological process" EXACT [] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0050877 ! nervous system process relationship: regulates GO:0050877 ! nervous system process [Term] id: GO:0031645 name: negative regulation of nervous system process name: negative regulation of neurological system process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a neurophysiological process." [GOC:dph, GOC:mah, GOC:tb] synonym: "down regulation of neurological process" EXACT [] synonym: "down-regulation of neurological process" EXACT [] synonym: "downregulation of neurological process" EXACT [] synonym: "inhibition of neurological process" NARROW [] synonym: "negative regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "negative regulation of neurological system process" EXACT [] synonym: "negative regulation of neurophysiological process" EXACT [] is_a: GO:0031644 ! regulation of nervous system process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0050877 ! nervous system process relationship: negatively_regulates GO:0050877 ! nervous system process [Term] id: GO:0031646 name: positive regulation of nervous system process name: positive regulation of neurological system process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a neurophysiological process." [GOC:dph, GOC:mah, GOC:tb] synonym: "activation of neurological process" NARROW [] synonym: "positive regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "positive regulation of neurological system process" EXACT [] synonym: "positive regulation of neurophysiological process" EXACT [] synonym: "stimulation of neurological process" NARROW [] synonym: "up regulation of neurological process" EXACT [] synonym: "up-regulation of neurological process" EXACT [] synonym: "upregulation of neurological process" EXACT [] is_a: GO:0031644 ! regulation of nervous system process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0050877 ! nervous system process relationship: positively_regulates GO:0050877 ! nervous system process [Term] id: GO:0031647 name: regulation of protein stability namespace: biological_process def: "Any process that affects the structure and integrity of a protein, altering the likelihood of its degradation or aggregation." [GOC:dph, GOC:mah, GOC:tb] subset: goslim_pir is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0031667 name: response to nutrient levels namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of nutrients." [GOC:mah] is_a: GO:0009991 ! response to extracellular stimulus [Term] id: GO:0031672 name: A band namespace: cellular_component def: "The dark-staining region of a sarcomere, in which myosin thick filaments are present; the center is traversed by the paler H zone, which in turn contains the M line." [ISBN:0321204131] synonym: "A disc" EXACT [] synonym: "anisotropic disc" EXACT [] synonym: "Q disc" EXACT [] synonym: "transverse disc" EXACT [] xref: Wikipedia:Sarcomere#bands is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0030017 ! sarcomere [Term] id: GO:0031965 name: nuclear membrane namespace: cellular_component def: "Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space." [GOC:mah, GOC:pz] xref: NIF_Subcellular:sao1687101204 is_a: GO:0031090 ! organelle membrane is_a: GO:0044428 ! nuclear part relationship: part_of GO:0005635 ! nuclear envelope [Term] id: GO:0031967 name: organelle envelope namespace: cellular_component def: "A double membrane structure enclosing an organelle, including two lipid bilayers and the region between them. In some cases, an organelle envelope may have more than two membranes." [GOC:mah, GOC:pz] subset: goslim_mouse is_a: GO:0031975 ! envelope is_a: GO:0044446 ! intracellular organelle part relationship: part_of GO:0043227 ! membrane-bounded organelle [Term] id: GO:0031974 name: membrane-enclosed lumen namespace: cellular_component def: "The enclosed volume within a sealed membrane or between two sealed membranes. Encompasses the volume enclosed by the membranes of a particular organelle, e.g. endoplasmic reticulum lumen, or the space between the two lipid bilayers of a double membrane surrounding an organelle, e.g. nuclear envelope lumen." [GOC:add, GOC:mah] is_a: GO:0005575 ! cellular_component [Term] id: GO:0031975 name: envelope namespace: cellular_component def: "A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers, and may include a cell wall layer; also includes the space between layers." [GOC:mah, GOC:pz] is_a: GO:0044464 ! cell part [Term] id: GO:0031981 name: nuclear lumen namespace: cellular_component def: "The volume enclosed by the nuclear inner membrane." [GOC:mah, GOC:pz] is_a: GO:0044428 ! nuclear part is_a: GO:0070013 ! intracellular organelle lumen [Term] id: GO:0031982 name: vesicle namespace: cellular_component alt_id: GO:0031988 def: "Any small, fluid-filled, spherical organelle enclosed by membrane." [GOC:mah, GOC:pz, GOC:vesicles] subset: goslim_pir synonym: "membrane-bounded vesicle" RELATED [] synonym: "membrane-enclosed vesicle" RELATED [] xref: NIF_Subcellular:sao221389602 xref: Wikipedia:Vesicle_(biology) is_a: GO:0043227 ! membrane-bounded organelle [Term] id: GO:0031987 name: locomotion involved in locomotory behavior namespace: biological_process def: "Self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." [GOC:mah] synonym: "locomotion during locomotory behaviour" EXACT [] is_a: GO:0040011 ! locomotion intersection_of: GO:0040011 ! locomotion intersection_of: part_of GO:0007626 ! locomotory behavior relationship: part_of GO:0007626 ! locomotory behavior [Term] id: GO:0032042 name: mitochondrial DNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mitochondrial DNA." [GOC:mah] synonym: "mitochondrial DNA metabolism" EXACT [] synonym: "mtDNA metabolic process" EXACT [] synonym: "mtDNA metabolism" EXACT [] is_a: GO:0006259 ! DNA metabolic process intersection_of: GO:0006259 ! DNA metabolic process intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0000002 ! mitochondrial genome maintenance [Term] id: GO:0032060 name: bleb assembly namespace: biological_process def: "The assembly of a bleb, a cell extension caused by localized decoupling of the cytoskeleton from the plasma membrane and characterized by rapid formation, rounded shape, and scarcity of organelles within the protrusion. Plasma membrane blebbing occurs during apoptosis and other cellular processes, including cell locomotion, cell division, and as a result of physical or chemical stresses." [GOC:mah, GOC:mtg_apoptosis, http://en.wikipedia.org/wiki/Bleb_(cell_biology), PMID:12083798, PMID:16624291] synonym: "blebbing" BROAD [GOC:pr] synonym: "cell blebbing" EXACT [] synonym: "membrane blebbing" BROAD [GOC:pr] synonym: "plasma membrane bleb assembly" EXACT [GOC:pr] synonym: "plasma membrane blebbing" EXACT [GOC:pr] is_a: GO:0120031 ! plasma membrane bounded cell projection assembly [Term] id: GO:0032091 name: negative regulation of protein binding namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding." [GOC:mah] synonym: "down regulation of protein binding" EXACT [] synonym: "down-regulation of protein binding" EXACT [] synonym: "downregulation of protein binding" EXACT [] synonym: "inhibition of protein binding" NARROW [] is_a: GO:0043393 ! regulation of protein binding is_a: GO:0051100 ! negative regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0005515 ! protein binding relationship: negatively_regulates GO:0005515 ! protein binding [Term] id: GO:0032092 name: positive regulation of protein binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein binding." [GOC:mah] synonym: "activation of protein binding" NARROW [] synonym: "stimulation of protein binding" NARROW [] synonym: "up regulation of protein binding" EXACT [] synonym: "up-regulation of protein binding" EXACT [] synonym: "upregulation of protein binding" EXACT [] is_a: GO:0043393 ! regulation of protein binding is_a: GO:0051099 ! positive regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0005515 ! protein binding relationship: positively_regulates GO:0005515 ! protein binding [Term] id: GO:0032094 name: response to food namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a food stimulus; food is anything which, when taken into the body, serves to nourish or build up the tissues or to supply body heat." [GOC:add, ISBN:0721601464] is_a: GO:0031667 ! response to nutrient levels is_a: GO:0042221 ! response to chemical [Term] id: GO:0032095 name: regulation of response to food namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a food stimulus." [GOC:add] is_a: GO:0032107 ! regulation of response to nutrient levels intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032094 ! response to food relationship: regulates GO:0032094 ! response to food [Term] id: GO:0032096 name: negative regulation of response to food namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a food stimulus." [GOC:add] synonym: "down regulation of response to food" EXACT [] synonym: "down-regulation of response to food" EXACT [] synonym: "downregulation of response to food" EXACT [] synonym: "inhibition of response to food" NARROW [] is_a: GO:0032095 ! regulation of response to food is_a: GO:0032108 ! negative regulation of response to nutrient levels intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032094 ! response to food relationship: negatively_regulates GO:0032094 ! response to food [Term] id: GO:0032097 name: positive regulation of response to food namespace: biological_process def: "Any process that activates, maintains, or increases the rate of a response to a food stimulus." [GOC:add] synonym: "activation of response to food" NARROW [] synonym: "stimulation of response to food" NARROW [] synonym: "up regulation of response to food" EXACT [] synonym: "up-regulation of response to food" EXACT [] synonym: "upregulation of response to food" EXACT [] is_a: GO:0032095 ! regulation of response to food is_a: GO:0032109 ! positive regulation of response to nutrient levels intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032094 ! response to food relationship: positively_regulates GO:0032094 ! response to food [Term] id: GO:0032101 name: regulation of response to external stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009605 ! response to external stimulus relationship: regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032102 name: negative regulation of response to external stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to external stimulus" EXACT [] synonym: "down-regulation of response to external stimulus" EXACT [] synonym: "downregulation of response to external stimulus" EXACT [] synonym: "inhibition of response to external stimulus" NARROW [] is_a: GO:0032101 ! regulation of response to external stimulus is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009605 ! response to external stimulus relationship: negatively_regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032103 name: positive regulation of response to external stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to external stimulus" NARROW [] synonym: "stimulation of response to external stimulus" NARROW [] synonym: "up regulation of response to external stimulus" EXACT [] synonym: "up-regulation of response to external stimulus" EXACT [] synonym: "upregulation of response to external stimulus" EXACT [] is_a: GO:0032101 ! regulation of response to external stimulus is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009605 ! response to external stimulus relationship: positively_regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032104 name: regulation of response to extracellular stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an extracellular stimulus." [GOC:mah] is_a: GO:0032101 ! regulation of response to external stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009991 ! response to extracellular stimulus relationship: regulates GO:0009991 ! response to extracellular stimulus [Term] id: GO:0032105 name: negative regulation of response to extracellular stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to an extracellular stimulus." [GOC:mah] synonym: "down regulation of response to extracellular stimulus" EXACT [] synonym: "down-regulation of response to extracellular stimulus" EXACT [] synonym: "downregulation of response to extracellular stimulus" EXACT [] synonym: "inhibition of response to extracellular stimulus" NARROW [] is_a: GO:0032102 ! negative regulation of response to external stimulus is_a: GO:0032104 ! regulation of response to extracellular stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009991 ! response to extracellular stimulus relationship: negatively_regulates GO:0009991 ! response to extracellular stimulus [Term] id: GO:0032106 name: positive regulation of response to extracellular stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an extracellular stimulus." [GOC:mah] synonym: "activation of response to extracellular stimulus" NARROW [] synonym: "stimulation of response to extracellular stimulus" NARROW [] synonym: "up regulation of response to extracellular stimulus" EXACT [] synonym: "up-regulation of response to extracellular stimulus" EXACT [] synonym: "upregulation of response to extracellular stimulus" EXACT [] is_a: GO:0032103 ! positive regulation of response to external stimulus is_a: GO:0032104 ! regulation of response to extracellular stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009991 ! response to extracellular stimulus relationship: positively_regulates GO:0009991 ! response to extracellular stimulus [Term] id: GO:0032107 name: regulation of response to nutrient levels namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to nutrient levels." [GOC:mah] is_a: GO:0032104 ! regulation of response to extracellular stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031667 ! response to nutrient levels relationship: regulates GO:0031667 ! response to nutrient levels [Term] id: GO:0032108 name: negative regulation of response to nutrient levels namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to nutrient levels." [GOC:mah] synonym: "down regulation of response to nutrient levels" EXACT [] synonym: "down-regulation of response to nutrient levels" EXACT [] synonym: "downregulation of response to nutrient levels" EXACT [] synonym: "inhibition of response to nutrient levels" NARROW [] is_a: GO:0032105 ! negative regulation of response to extracellular stimulus is_a: GO:0032107 ! regulation of response to nutrient levels intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031667 ! response to nutrient levels relationship: negatively_regulates GO:0031667 ! response to nutrient levels [Term] id: GO:0032109 name: positive regulation of response to nutrient levels namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a response to nutrient levels." [GOC:mah] synonym: "activation of response to nutrient levels" NARROW [] synonym: "stimulation of response to nutrient levels" NARROW [] synonym: "up regulation of response to nutrient levels" EXACT [] synonym: "up-regulation of response to nutrient levels" EXACT [] synonym: "upregulation of response to nutrient levels" EXACT [] is_a: GO:0032106 ! positive regulation of response to extracellular stimulus is_a: GO:0032107 ! regulation of response to nutrient levels intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0031667 ! response to nutrient levels relationship: positively_regulates GO:0031667 ! response to nutrient levels [Term] id: GO:0032153 name: cell division site namespace: cellular_component def: "The eventual plane of cell division (also known as cell cleavage or cytokinesis) in a dividing cell. In Eukaryotes, the cleavage apparatus, composed of septin structures and the actomyosin contractile ring, forms along this plane, and the mitotic, or meiotic, spindle is aligned perpendicular to the division plane. In bacteria, the cell division site is generally located at mid-cell and is the site at which the cytoskeletal structure, the Z-ring, assembles." [GOC:bf, GOC:imk, GOC:krc, GOC:ns, PMID:12101122, PMID:15380095, PMID:16983191, PMID:18165305] comment: Note that this term refers to the future site of division in a cell that has not yet divided. subset: goslim_pir synonym: "cell division plane" EXACT [] is_a: GO:0044464 ! cell part [Term] id: GO:0032154 name: cleavage furrow namespace: cellular_component def: "The cleavage furrow is a plasma membrane invagination at the cell division site. The cleavage furrow begins as a shallow groove and eventually deepens to divide the cytoplasm." [GOC:vw, ISBN:0805319409] comment: While the term 'cleavage furrow' was initially associated with animal cells, such a structure occurs in many other types of cells, including unicellular protists. xref: Wikipedia:Cleavage_furrow is_a: GO:0032155 ! cell division site part is_a: GO:0098590 ! plasma membrane region [Term] id: GO:0032155 name: cell division site part namespace: cellular_component def: "Any constituent part of the cell division plane, the eventual plane of cell division in a dividing cell." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "cell division plane part" EXACT [] is_a: GO:0044464 ! cell part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0032153 ! cell division site relationship: part_of GO:0032153 ! cell division site [Term] id: GO:0032200 name: telomere organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of telomeres, terminal regions of a linear chromosome that include the telomeric DNA repeats and associated proteins." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_pombe subset: goslim_yeast synonym: "chromosome organization, telomeric" EXACT [] synonym: "organization of chromosome, telomeric region" EXACT [] synonym: "telomere organisation" EXACT [GOC:mah] synonym: "telomere organization and biogenesis" RELATED [GOC:mah] is_a: GO:0051276 ! chromosome organization [Term] id: GO:0032204 name: regulation of telomere maintenance namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA." [GOC:mah] is_a: GO:0033044 ! regulation of chromosome organization is_a: GO:0051052 ! regulation of DNA metabolic process is_a: GO:0065008 ! regulation of biological quality intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000723 ! telomere maintenance relationship: regulates GO:0000723 ! telomere maintenance [Term] id: GO:0032205 name: negative regulation of telomere maintenance namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA." [GOC:mah] synonym: "down regulation of telomere maintenance" EXACT [] synonym: "down-regulation of telomere maintenance" EXACT [] synonym: "downregulation of telomere maintenance" EXACT [] synonym: "inhibition of telomere maintenance" NARROW [] is_a: GO:0032204 ! regulation of telomere maintenance is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:2001251 ! negative regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000723 ! telomere maintenance relationship: negatively_regulates GO:0000723 ! telomere maintenance [Term] id: GO:0032206 name: positive regulation of telomere maintenance namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA." [GOC:mah] synonym: "activation of telomere maintenance" NARROW [] synonym: "stimulation of telomere maintenance" NARROW [] synonym: "up regulation of telomere maintenance" EXACT [] synonym: "up-regulation of telomere maintenance" EXACT [] synonym: "upregulation of telomere maintenance" EXACT [] is_a: GO:0032204 ! regulation of telomere maintenance is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000723 ! telomere maintenance relationship: positively_regulates GO:0000723 ! telomere maintenance [Term] id: GO:0032222 name: regulation of synaptic transmission, cholinergic namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cholinergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter acetylcholine." [GOC:mah] is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007271 ! synaptic transmission, cholinergic relationship: regulates GO:0007271 ! synaptic transmission, cholinergic [Term] id: GO:0032223 name: negative regulation of synaptic transmission, cholinergic namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cholinergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter acetylcholine." [GOC:mah] synonym: "down regulation of synaptic transmission, cholinergic" EXACT [] synonym: "down-regulation of synaptic transmission, cholinergic" EXACT [] synonym: "downregulation of synaptic transmission, cholinergic" EXACT [] synonym: "inhibition of synaptic transmission, cholinergic" NARROW [] is_a: GO:0032222 ! regulation of synaptic transmission, cholinergic is_a: GO:0050805 ! negative regulation of synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007271 ! synaptic transmission, cholinergic relationship: negatively_regulates GO:0007271 ! synaptic transmission, cholinergic [Term] id: GO:0032224 name: positive regulation of synaptic transmission, cholinergic namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of cholinergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter acetylcholine." [GOC:mah] synonym: "activation of synaptic transmission, cholinergic" NARROW [] synonym: "stimulation of synaptic transmission, cholinergic" NARROW [] synonym: "up regulation of synaptic transmission, cholinergic" EXACT [] synonym: "up-regulation of synaptic transmission, cholinergic" EXACT [] synonym: "upregulation of synaptic transmission, cholinergic" EXACT [] is_a: GO:0032222 ! regulation of synaptic transmission, cholinergic is_a: GO:0050806 ! positive regulation of synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007271 ! synaptic transmission, cholinergic relationship: positively_regulates GO:0007271 ! synaptic transmission, cholinergic [Term] id: GO:0032228 name: regulation of synaptic transmission, GABAergic namespace: biological_process def: "Any process that modulates the frequency, rate or extent of GABAergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter gamma-aminobutyric acid (GABA)." [GOC:mah] is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051932 ! synaptic transmission, GABAergic relationship: regulates GO:0051932 ! synaptic transmission, GABAergic [Term] id: GO:0032229 name: negative regulation of synaptic transmission, GABAergic namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of GABAergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter gamma-aminobutyric acid (GABA)." [GOC:mah] synonym: "down regulation of synaptic transmission, GABAergic" EXACT [] synonym: "down-regulation of synaptic transmission, GABAergic" EXACT [] synonym: "downregulation of synaptic transmission, GABAergic" EXACT [] synonym: "inhibition of synaptic transmission, GABAergic" NARROW [] is_a: GO:0032228 ! regulation of synaptic transmission, GABAergic is_a: GO:0050805 ! negative regulation of synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051932 ! synaptic transmission, GABAergic relationship: negatively_regulates GO:0051932 ! synaptic transmission, GABAergic [Term] id: GO:0032230 name: positive regulation of synaptic transmission, GABAergic namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of GABAergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter gamma-aminobutyric acid (GABA)." [GOC:mah] synonym: "activation of synaptic transmission, GABAergic" NARROW [] synonym: "stimulation of synaptic transmission, GABAergic" NARROW [] synonym: "up regulation of synaptic transmission, GABAergic" EXACT [] synonym: "up-regulation of synaptic transmission, GABAergic" EXACT [] synonym: "upregulation of synaptic transmission, GABAergic" EXACT [] is_a: GO:0032228 ! regulation of synaptic transmission, GABAergic is_a: GO:0050806 ! positive regulation of synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051932 ! synaptic transmission, GABAergic relationship: positively_regulates GO:0051932 ! synaptic transmission, GABAergic [Term] id: GO:0032239 name: regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0015931 ! nucleobase-containing compound transport relationship: regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032240 name: negative regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "down regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "down-regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "downregulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "inhibition of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0032239 ! regulation of nucleobase-containing compound transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0015931 ! nucleobase-containing compound transport relationship: negatively_regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032241 name: positive regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "activation of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] synonym: "stimulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "up regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "up-regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "upregulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] is_a: GO:0032239 ! regulation of nucleobase-containing compound transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0015931 ! nucleobase-containing compound transport relationship: positively_regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032259 name: methylation namespace: biological_process def: "The process in which a methyl group is covalently attached to a molecule." [GOC:mah] subset: goslim_chembl xref: Wikipedia:Methylation is_a: GO:0008152 ! metabolic process [Term] id: GO:0032268 name: regulation of cellular protein metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "regulation of cellular protein metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044267 ! cellular protein metabolic process relationship: regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032269 name: negative regulation of cellular protein metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "down regulation of cellular protein metabolic process" EXACT [] synonym: "down-regulation of cellular protein metabolic process" EXACT [] synonym: "downregulation of cellular protein metabolic process" EXACT [] synonym: "inhibition of cellular protein metabolic process" NARROW [] synonym: "negative regulation of cellular protein metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044267 ! cellular protein metabolic process relationship: negatively_regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032270 name: positive regulation of cellular protein metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "activation of cellular protein metabolic process" NARROW [] synonym: "positive regulation of cellular protein metabolism" EXACT [] synonym: "stimulation of cellular protein metabolic process" NARROW [] synonym: "up regulation of cellular protein metabolic process" EXACT [] synonym: "up-regulation of cellular protein metabolic process" EXACT [] synonym: "upregulation of cellular protein metabolic process" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0051247 ! positive regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044267 ! cellular protein metabolic process relationship: positively_regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032271 name: regulation of protein polymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "regulation of protein polymerisation" EXACT [] is_a: GO:0043254 ! regulation of protein complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051258 ! protein polymerization relationship: regulates GO:0051258 ! protein polymerization [Term] id: GO:0032272 name: negative regulation of protein polymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "down regulation of protein polymerization" EXACT [] synonym: "down-regulation of protein polymerization" EXACT [] synonym: "downregulation of protein polymerization" EXACT [] synonym: "inhibition of protein polymerization" NARROW [] is_a: GO:0031333 ! negative regulation of protein complex assembly is_a: GO:0032271 ! regulation of protein polymerization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051258 ! protein polymerization relationship: negatively_regulates GO:0051258 ! protein polymerization [Term] id: GO:0032273 name: positive regulation of protein polymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "activation of protein polymerization" NARROW [] synonym: "stimulation of protein polymerization" NARROW [] synonym: "up regulation of protein polymerization" EXACT [] synonym: "up-regulation of protein polymerization" EXACT [] synonym: "upregulation of protein polymerization" EXACT [] is_a: GO:0031334 ! positive regulation of protein complex assembly is_a: GO:0032271 ! regulation of protein polymerization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051258 ! protein polymerization relationship: positively_regulates GO:0051258 ! protein polymerization [Term] id: GO:0032297 name: negative regulation of DNA-dependent DNA replication initiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of initiation of DNA-dependent DNA replication." [GOC:mah] synonym: "down regulation of DNA replication initiation" EXACT [] synonym: "down-regulation of DNA replication initiation" EXACT [] synonym: "downregulation of DNA replication initiation" EXACT [] synonym: "inhibition of DNA replication initiation" NARROW [] synonym: "negative regulation of DNA replication initiation" BROAD [GOC:vw] is_a: GO:0030174 ! regulation of DNA-dependent DNA replication initiation is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:2000104 ! negative regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006270 ! DNA replication initiation relationship: negatively_regulates GO:0006270 ! DNA replication initiation [Term] id: GO:0032298 name: positive regulation of DNA-dependent DNA replication initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of initiation of DNA-dependent DNA replication." [GOC:mah] synonym: "activation of DNA replication initiation" NARROW [] synonym: "negative regulation of DNA replication initiation" BROAD [GOC:vw] synonym: "stimulation of DNA replication initiation" NARROW [] synonym: "up regulation of DNA replication initiation" EXACT [] synonym: "up-regulation of DNA replication initiation" EXACT [] synonym: "upregulation of DNA replication initiation" EXACT [] is_a: GO:0030174 ! regulation of DNA-dependent DNA replication initiation is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:2000105 ! positive regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006270 ! DNA replication initiation relationship: positively_regulates GO:0006270 ! DNA replication initiation [Term] id: GO:0032350 name: regulation of hormone metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving any hormone." [GOC:mah] synonym: "regulation of hormone metabolism" EXACT [] is_a: GO:0010817 ! regulation of hormone levels is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042445 ! hormone metabolic process relationship: regulates GO:0042445 ! hormone metabolic process [Term] id: GO:0032351 name: negative regulation of hormone metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving any hormone." [GOC:mah] synonym: "down regulation of hormone metabolic process" EXACT [] synonym: "down-regulation of hormone metabolic process" EXACT [] synonym: "downregulation of hormone metabolic process" EXACT [] synonym: "inhibition of hormone metabolic process" NARROW [] synonym: "negative regulation of hormone metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0032350 ! regulation of hormone metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042445 ! hormone metabolic process relationship: negatively_regulates GO:0042445 ! hormone metabolic process [Term] id: GO:0032352 name: positive regulation of hormone metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving any hormone." [GOC:mah] synonym: "activation of hormone metabolic process" NARROW [] synonym: "positive regulation of hormone metabolism" EXACT [] synonym: "stimulation of hormone metabolic process" NARROW [] synonym: "up regulation of hormone metabolic process" EXACT [] synonym: "up-regulation of hormone metabolic process" EXACT [] synonym: "upregulation of hormone metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0032350 ! regulation of hormone metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042445 ! hormone metabolic process relationship: positively_regulates GO:0042445 ! hormone metabolic process [Term] id: GO:0032386 name: regulation of intracellular transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] is_a: GO:0051049 ! regulation of transport is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0046907 ! intracellular transport relationship: regulates GO:0046907 ! intracellular transport [Term] id: GO:0032387 name: negative regulation of intracellular transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] synonym: "down regulation of intracellular transport" EXACT [] synonym: "down-regulation of intracellular transport" EXACT [] synonym: "downregulation of intracellular transport" EXACT [] synonym: "inhibition of intracellular transport" NARROW [] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0046907 ! intracellular transport relationship: negatively_regulates GO:0046907 ! intracellular transport [Term] id: GO:0032388 name: positive regulation of intracellular transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] synonym: "activation of intracellular transport" NARROW [] synonym: "stimulation of intracellular transport" NARROW [] synonym: "up regulation of intracellular transport" EXACT [] synonym: "up-regulation of intracellular transport" EXACT [] synonym: "upregulation of intracellular transport" EXACT [] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0046907 ! intracellular transport relationship: positively_regulates GO:0046907 ! intracellular transport [Term] id: GO:0032459 name: regulation of protein oligomerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein oligomerization." [GOC:mah] is_a: GO:0043254 ! regulation of protein complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051259 ! protein complex oligomerization relationship: regulates GO:0051259 ! protein complex oligomerization [Term] id: GO:0032460 name: negative regulation of protein oligomerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein oligomerization." [GOC:mah] synonym: "down regulation of protein oligomerization" EXACT [] synonym: "down-regulation of protein oligomerization" EXACT [] synonym: "downregulation of protein oligomerization" EXACT [] synonym: "inhibition of protein oligomerization" NARROW [] is_a: GO:0031333 ! negative regulation of protein complex assembly is_a: GO:0032459 ! regulation of protein oligomerization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051259 ! protein complex oligomerization relationship: negatively_regulates GO:0051259 ! protein complex oligomerization [Term] id: GO:0032461 name: positive regulation of protein oligomerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein oligomerization." [GOC:mah] synonym: "activation of protein oligomerization" NARROW [] synonym: "induction of protein oligomerization" RELATED [] synonym: "stimulation of protein oligomerization" NARROW [] synonym: "up regulation of protein oligomerization" EXACT [] synonym: "up-regulation of protein oligomerization" EXACT [] synonym: "upregulation of protein oligomerization" EXACT [] is_a: GO:0031334 ! positive regulation of protein complex assembly is_a: GO:0032459 ! regulation of protein oligomerization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051259 ! protein complex oligomerization relationship: positively_regulates GO:0051259 ! protein complex oligomerization [Term] id: GO:0032465 name: regulation of cytokinesis namespace: biological_process alt_id: GO:0071775 def: "Any process that modulates the frequency, rate or extent of the division of the cytoplasm of a cell and its separation into two daughter cells." [GOC:mah] synonym: "regulation of cell cycle cytokinesis" EXACT [] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000910 ! cytokinesis relationship: regulates GO:0000910 ! cytokinesis [Term] id: GO:0032466 name: negative regulation of cytokinesis namespace: biological_process alt_id: GO:0071776 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the division of the cytoplasm of a cell, and its separation into two daughter cells." [GOC:mah] synonym: "down regulation of cytokinesis" EXACT [] synonym: "down-regulation of cytokinesis" EXACT [] synonym: "downregulation of cytokinesis" EXACT [] synonym: "inhibition of cytokinesis" NARROW [] synonym: "negative regulation of cell cycle cytokinesis" RELATED [] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0032465 ! regulation of cytokinesis is_a: GO:0051782 ! negative regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000910 ! cytokinesis relationship: negatively_regulates GO:0000910 ! cytokinesis [Term] id: GO:0032467 name: positive regulation of cytokinesis namespace: biological_process alt_id: GO:0071777 def: "Any process that activates or increases the frequency, rate or extent of the division of the cytoplasm of a cell, and its separation into two daughter cells." [GOC:mah] synonym: "activation of cytokinesis" NARROW [] synonym: "positive regulation of cell cycle cytokinesis" RELATED [] synonym: "stimulation of cytokinesis" NARROW [] synonym: "up regulation of cytokinesis" EXACT [] synonym: "up-regulation of cytokinesis" EXACT [] synonym: "upregulation of cytokinesis" EXACT [] is_a: GO:0032465 ! regulation of cytokinesis is_a: GO:0051781 ! positive regulation of cell division is_a: GO:0090068 ! positive regulation of cell cycle process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000910 ! cytokinesis relationship: positively_regulates GO:0000910 ! cytokinesis [Term] id: GO:0032501 name: multicellular organismal process namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] subset: goslim_pir synonym: "organismal physiological process" EXACT [] synonym: "single-multicellular organism process" RELATED [] is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase created_by: janelomax creation_date: 2012-09-19T16:07:47Z [Term] id: GO:0032502 name: developmental process namespace: biological_process alt_id: GO:0044767 def: "A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition." [GOC:isa_complete] subset: goslim_agr subset: goslim_aspergillus subset: goslim_flybase_ribbon subset: goslim_pir synonym: "development" NARROW [] synonym: "single-organism developmental process" RELATED [] is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase created_by: janelomax creation_date: 2012-12-19T12:21:31Z [Term] id: GO:0032504 name: multicellular organism reproduction namespace: biological_process def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] is_a: GO:0000003 ! reproduction is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0032507 name: maintenance of protein location in cell namespace: biological_process def: "Any process in which a protein is maintained in a specific location within, or in the membrane of, a cell, and is prevented from moving elsewhere." [GOC:isa_complete, GOC:mah] synonym: "maintenance of protein localization in cell" RELATED [GOC:dph, GOC:tb] is_a: GO:0045185 ! maintenance of protein location is_a: GO:0051651 ! maintenance of location in cell intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005623 ! cell relationship: occurs_in GO:0005623 ! cell relationship: part_of GO:0034613 ! cellular protein localization [Term] id: GO:0032535 name: regulation of cellular component size namespace: biological_process def: "A process that modulates the size of a cellular component." [GOC:mah] is_a: GO:0016043 ! cellular component organization is_a: GO:0090066 ! regulation of anatomical structure size [Term] id: GO:0032543 name: mitochondrial translation namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a protein in a mitochondrion. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein; the mitochondrion has its own ribosomes and transfer RNAs, and uses a genetic code that differs from the nuclear code." [GOC:go_curators] subset: goslim_yeast synonym: "mitochondrial protein anabolism" EXACT [] synonym: "mitochondrial protein biosynthesis" EXACT [] synonym: "mitochondrial protein formation" EXACT [] synonym: "mitochondrial protein synthesis" EXACT [] synonym: "mitochondrial protein translation" EXACT [] is_a: GO:0006412 ! translation intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0005739 ! mitochondrion intersection_of: part_of GO:0140053 ! mitochondrial gene expression relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0140053 ! mitochondrial gene expression [Term] id: GO:0032594 name: protein transport within lipid bilayer namespace: biological_process def: "The directed movement of a protein from one location to another within a lipid bilayer." [GOC:mah] synonym: "protein translocation within membrane" EXACT [] synonym: "receptor translocation within membrane" NARROW [] synonym: "receptor transport within lipid bilayer" NARROW [] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0051668 ! localization within membrane is_a: GO:0061024 ! membrane organization intersection_of: GO:0015031 ! protein transport intersection_of: occurs_in GO:0016020 ! membrane [Term] id: GO:0032774 name: RNA biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers. Refers not only to transcription but also to e.g. viral RNA replication." [GOC:mah, GOC:txnOH] comment: Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study. synonym: "RNA anabolism" EXACT [] synonym: "RNA biosynthesis" EXACT [] synonym: "RNA formation" EXACT [] synonym: "RNA synthesis" EXACT [] is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0016070 ! RNA metabolic process is_a: GO:0034654 ! nucleobase-containing compound biosynthetic process [Term] id: GO:0032838 name: plasma membrane bounded cell projection cytoplasm namespace: cellular_component def: "All of the contents of a plasma membrane bounded cell projection, excluding the plasma membrane surrounding the projection." [GOC:krc, GOC:mah] is_a: GO:0099568 ! cytoplasmic region is_a: GO:0120038 ! plasma membrane bounded cell projection part intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0120025 ! plasma membrane bounded cell projection [Term] id: GO:0032839 name: dendrite cytoplasm namespace: cellular_component def: "All of the contents of a dendrite, excluding the surrounding plasma membrane." [GOC:mah] synonym: "dendritic cytoplasm" EXACT [] is_a: GO:0120111 ! neuron projection cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0030425 ! dendrite relationship: part_of GO:0030425 ! dendrite [Term] id: GO:0032847 name: regulation of cellular pH reduction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a process that reduces the internal pH of a cell." [GOC:mah] synonym: "regulation of cell pH reduction" EXACT [] synonym: "regulation of cellular acidification" EXACT [] synonym: "regulation of intracellular acidification" RELATED [] synonym: "regulation of intracellular pH reduction" EXACT [] synonym: "regulation of reduction of cellular pH" EXACT [] synonym: "regulation of reduction of pH in cell" EXACT [] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0051453 ! regulation of intracellular pH intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051452 ! intracellular pH reduction relationship: regulates GO:0051452 ! intracellular pH reduction [Term] id: GO:0032848 name: negative regulation of cellular pH reduction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a process that reduces the internal pH of a cell." [GOC:mah] synonym: "down regulation of cellular pH reduction" EXACT [] synonym: "down-regulation of cellular pH reduction" EXACT [] synonym: "downregulation of cellular pH reduction" EXACT [] synonym: "inhibition of cellular pH reduction" NARROW [] synonym: "negative regulation of cell pH reduction" EXACT [] synonym: "negative regulation of cellular acidification" EXACT [] synonym: "negative regulation of intracellular acidification" RELATED [] synonym: "negative regulation of intracellular pH reduction" EXACT [] synonym: "negative regulation of reduction of cellular pH" EXACT [] synonym: "negative regulation of reduction of pH in cell" EXACT [] is_a: GO:0032847 ! regulation of cellular pH reduction is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051454 ! intracellular pH elevation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051452 ! intracellular pH reduction relationship: negatively_regulates GO:0051452 ! intracellular pH reduction [Term] id: GO:0032849 name: positive regulation of cellular pH reduction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a process that reduces the internal pH of a cell." [GOC:mah] synonym: "activation of cellular pH reduction" NARROW [] synonym: "positive regulation of cell pH reduction" EXACT [] synonym: "positive regulation of cellular acidification" EXACT [] synonym: "positive regulation of intracellular acidification" RELATED [] synonym: "positive regulation of intracellular pH reduction" EXACT [] synonym: "positive regulation of reduction of cellular pH" EXACT [] synonym: "positive regulation of reduction of pH in cell" EXACT [] synonym: "stimulation of cellular pH reduction" NARROW [] synonym: "up regulation of cellular pH reduction" EXACT [] synonym: "up-regulation of cellular pH reduction" EXACT [] synonym: "upregulation of cellular pH reduction" EXACT [] is_a: GO:0032847 ! regulation of cellular pH reduction is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051452 ! intracellular pH reduction relationship: positively_regulates GO:0051452 ! intracellular pH reduction [Term] id: GO:0032875 name: regulation of DNA endoreduplication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA endoreduplication." [GOC:mah] synonym: "regulation of DNA endoreplication" EXACT [] synonym: "regulation of DNA re-duplication" EXACT [] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042023 ! DNA endoreduplication relationship: regulates GO:0042023 ! DNA endoreduplication [Term] id: GO:0032876 name: negative regulation of DNA endoreduplication namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of DNA endoreduplication." [GOC:mah] synonym: "down regulation of DNA endoreduplication" EXACT [] synonym: "down-regulation of DNA endoreduplication" EXACT [] synonym: "downregulation of DNA endoreduplication" EXACT [] synonym: "inhibition of DNA endoreduplication" NARROW [] synonym: "negative regulation of DNA endoreplication" EXACT [] synonym: "negative regulation of DNA re-duplication" EXACT [] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0032875 ! regulation of DNA endoreduplication is_a: GO:2000104 ! negative regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042023 ! DNA endoreduplication relationship: negatively_regulates GO:0042023 ! DNA endoreduplication [Term] id: GO:0032877 name: positive regulation of DNA endoreduplication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA endoreduplication." [GOC:mah] synonym: "activation of DNA endoreduplication" NARROW [] synonym: "positive regulation of DNA endoreplication" EXACT [] synonym: "positive regulation of DNA re-duplication" EXACT [] synonym: "stimulation of DNA endoreduplication" NARROW [] synonym: "up regulation of DNA endoreduplication" EXACT [] synonym: "up-regulation of DNA endoreduplication" EXACT [] synonym: "upregulation of DNA endoreduplication" EXACT [] is_a: GO:0032875 ! regulation of DNA endoreduplication is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:2000105 ! positive regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042023 ! DNA endoreduplication relationship: positively_regulates GO:0042023 ! DNA endoreduplication [Term] id: GO:0032878 name: regulation of establishment or maintenance of cell polarity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns." [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007163 ! establishment or maintenance of cell polarity relationship: regulates GO:0007163 ! establishment or maintenance of cell polarity [Term] id: GO:0032879 name: regulation of localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any process in which a cell, a substance, or a cellular entity is transported to, or maintained in, a specific location." [GOC:mah] synonym: "regulation of localisation" EXACT [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051179 ! localization relationship: regulates GO:0051179 ! localization [Term] id: GO:0032880 name: regulation of protein localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any process in which a protein is transported to, or maintained in, a specific location." [GOC:dph, GOC:mah, GOC:tb] subset: goslim_chembl synonym: "regulation of protein localisation" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008104 ! protein localization relationship: regulates GO:0008104 ! protein localization [Term] id: GO:0032886 name: regulation of microtubule-based process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the microtubule cytoskeleton." [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007017 ! microtubule-based process relationship: regulates GO:0007017 ! microtubule-based process [Term] id: GO:0032887 name: regulation of spindle elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the cell cycle process in which the distance is lengthened between poles of the spindle." [GOC:mah] is_a: GO:0051983 ! regulation of chromosome segregation is_a: GO:0090224 ! regulation of spindle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051231 ! spindle elongation relationship: regulates GO:0051231 ! spindle elongation [Term] id: GO:0032888 name: regulation of mitotic spindle elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the cell cycle process in which the distance is lengthened between poles of the mitotic spindle." [GOC:mah] is_a: GO:0032887 ! regulation of spindle elongation is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:0060236 ! regulation of mitotic spindle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000022 ! mitotic spindle elongation relationship: regulates GO:0000022 ! mitotic spindle elongation [Term] id: GO:0032940 name: secretion by cell namespace: biological_process def: "The controlled release of a substance by a cell." [GOC:mah] synonym: "cellular secretion" EXACT [] xref: Wikipedia:Secretion is_a: GO:0046903 ! secretion is_a: GO:0140352 ! export from cell [Term] id: GO:0032956 name: regulation of actin cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:mah] synonym: "regulation of actin cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of actin cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0032970 ! regulation of actin filament-based process is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030036 ! actin cytoskeleton organization relationship: regulates GO:0030036 ! actin cytoskeleton organization [Term] id: GO:0032970 name: regulation of actin filament-based process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the actin cytoskeleton." [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030029 ! actin filament-based process relationship: regulates GO:0030029 ! actin filament-based process [Term] id: GO:0032982 name: myosin filament namespace: cellular_component def: "A protein complex containing myosin heavy chains, plus associated light chains and other proteins, in which the myosin heavy chains are arranged into a filament." [GOC:mah] synonym: "myosin thick filament" RELATED [] synonym: "thick filament" RELATED [] is_a: GO:0016459 ! myosin complex [Term] id: GO:0032984 name: protein-containing complex disassembly namespace: biological_process alt_id: GO:0034623 alt_id: GO:0043241 def: "The disaggregation of a protein-containing macromolecular complex into its constituent components." [GOC:mah] synonym: "cellular macromolecule complex disassembly" RELATED [] synonym: "macromolecule complex disassembly" RELATED [] synonym: "protein complex disassembly" EXACT [] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0043933 ! protein-containing complex subunit organization [Term] id: GO:0032989 name: cellular component morphogenesis namespace: biological_process def: "The process in which cellular structures, including whole cells or cell parts, are generated and organized." [GOC:dph, GOC:mah, GOC:tb] subset: goslim_pir synonym: "cellular structure morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0016043 ! cellular component organization is_a: GO:0048869 ! cellular developmental process [Term] id: GO:0032990 name: cell part morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a cell part are generated and organized." [GOC:mah] is_a: GO:0032989 ! cellular component morphogenesis [Term] id: GO:0032991 name: protein-containing complex namespace: cellular_component alt_id: GO:0043234 def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together." [GOC:dos, GOC:mah] def: "Any macromolecular complex composed of two or more polypeptide subunits, which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups, such as nucleotides, metal ions or carbohydrate groups." [GOC:go_curators] comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. comment: Note that although at some level almost all cellular components can be thought of as protein complexes, this term is intended to exclude structures composed of the same repeating subunit or subunits, for example microtubules. Protein complexes encompassed by this term are generally not structural, and usually have a defined set of subunits. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir synonym: "macromolecular complex" EXACT [] synonym: "macromolecule complex" EXACT [] synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component [Term] id: GO:0033036 name: macromolecule localization namespace: biological_process def: "Any process in which a macromolecule is transported to, or maintained in, a specific location." [GOC:mah] subset: goslim_flybase_ribbon synonym: "macromolecule localisation" EXACT [GOC:mah] is_a: GO:0051179 ! localization [Term] id: GO:0033043 name: regulation of organelle organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:mah] subset: goslim_yeast synonym: "regulation of organelle organisation" EXACT [GOC:mah] synonym: "regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006996 ! organelle organization relationship: regulates GO:0006996 ! organelle organization [Term] id: GO:0033044 name: regulation of chromosome organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a chromosome." [GOC:mah] synonym: "regulation of chromosome organisation" EXACT [GOC:mah] synonym: "regulation of chromosome organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051276 ! chromosome organization relationship: regulates GO:0051276 ! chromosome organization [Term] id: GO:0033045 name: regulation of sister chromatid segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sister chromatid segregation." [GOC:mah] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0033044 ! regulation of chromosome organization is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000819 ! sister chromatid segregation relationship: regulates GO:0000819 ! sister chromatid segregation [Term] id: GO:0033046 name: negative regulation of sister chromatid segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of sister chromatid segregation." [GOC:mah] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0033045 ! regulation of sister chromatid segregation is_a: GO:0051985 ! negative regulation of chromosome segregation is_a: GO:2001251 ! negative regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000819 ! sister chromatid segregation relationship: negatively_regulates GO:0000819 ! sister chromatid segregation [Term] id: GO:0033047 name: regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sister chromatid segregation during mitosis." [GOC:mah] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0033045 ! regulation of sister chromatid segregation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000070 ! mitotic sister chromatid segregation relationship: regulates GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0033048 name: negative regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of sister chromatid segregation during mitosis." [GOC:mah] is_a: GO:0033046 ! negative regulation of sister chromatid segregation is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:0045839 ! negative regulation of mitotic nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation relationship: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0033058 name: directional locomotion namespace: biological_process def: "Self-propelled movement of a cell or organism from one location to another along an axis." [GOC:mtg_MIT_16mar07] is_a: GO:0040011 ! locomotion [Term] id: GO:0033059 name: cellular pigmentation namespace: biological_process def: "The deposition or aggregation of coloring matter in a cell." [GOC:mtg_MIT_16mar07] is_a: GO:0009987 ! cellular process is_a: GO:0043473 ! pigmentation [Term] id: GO:0033119 name: negative regulation of RNA splicing namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of RNA splicing." [GOC:mah] is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:0043484 ! regulation of RNA splicing is_a: GO:0051253 ! negative regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008380 ! RNA splicing relationship: negatively_regulates GO:0008380 ! RNA splicing [Term] id: GO:0033120 name: positive regulation of RNA splicing namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of RNA splicing." [GOC:mah] is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0043484 ! regulation of RNA splicing is_a: GO:0051254 ! positive regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008380 ! RNA splicing relationship: positively_regulates GO:0008380 ! RNA splicing [Term] id: GO:0033157 name: regulation of intracellular protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of proteins within cells." [GOC:mah] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0051223 ! regulation of protein transport is_a: GO:1903827 ! regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006886 ! intracellular protein transport relationship: regulates GO:0006886 ! intracellular protein transport [Term] id: GO:0033206 name: meiotic cytokinesis namespace: biological_process def: "A cell cycle process that results in the division of the cytoplasm of a cell after meiosis, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle] synonym: "cytokinesis after meiosis" EXACT [] is_a: GO:0061640 ! cytoskeleton-dependent cytokinesis is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0061640 ! cytoskeleton-dependent cytokinesis intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0033238 name: regulation of cellular amine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform amines." [GOC:mah] synonym: "regulation of amine metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044106 ! cellular amine metabolic process relationship: regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033239 name: negative regulation of cellular amine metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amines." [GOC:mah] synonym: "negative regulation of amine metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044106 ! cellular amine metabolic process relationship: negatively_regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033240 name: positive regulation of cellular amine metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amines." [GOC:mah] synonym: "positive regulation of amine metabolism" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044106 ! cellular amine metabolic process relationship: positively_regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033260 name: nuclear DNA replication namespace: biological_process def: "The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle." [GOC:mtg_cell_cycle] synonym: "DNA replication during S phase" RELATED [GOC:dph, GOC:tb] synonym: "DNA replication involved in S phase" EXACT [] synonym: "DNA replication involved in S-phase" EXACT [] synonym: "nuclear cell cycle DNA replication" EXACT [] is_a: GO:0044786 ! cell cycle DNA replication intersection_of: GO:0006260 ! DNA replication intersection_of: occurs_in GO:0005634 ! nucleus intersection_of: part_of GO:0007049 ! cell cycle relationship: occurs_in GO:0005634 ! nucleus [Term] id: GO:0033262 name: regulation of nuclear cell cycle DNA replication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of The DNA-dependent DNA replication that occurs in the nucleus of eukaryotic organisms as part of the cell cycle." [GOC:mtg_cell_cycle] synonym: "regulation of DNA replication during S phase" RELATED [GOC:dph, GOC:tb] synonym: "regulation of DNA replication involved in S phase" EXACT [] synonym: "regulation of DNA replication involved in S-phase" EXACT [] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0033260 ! nuclear DNA replication relationship: regulates GO:0033260 ! nuclear DNA replication [Term] id: GO:0033267 name: axon part namespace: cellular_component def: "A part of an axon, a cell projection of a neuron." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate xref: NIF_Subcellular:sao280355188 is_a: GO:0097458 ! neuron part is_a: GO:0120038 ! plasma membrane bounded cell projection part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0030424 ! axon relationship: part_of GO:0030424 ! axon [Term] id: GO:0033313 name: meiotic cell cycle checkpoint namespace: biological_process def: "A cell cycle checkpoint that ensures accurate chromosome replication and segregation by preventing progression through a meiotic cell cycle until conditions are suitable for the cell to proceed to the next stage." [GOC:mtg_cell_cycle] is_a: GO:0000075 ! cell cycle checkpoint is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0000075 ! cell cycle checkpoint intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0033316 name: meiotic spindle assembly checkpoint namespace: biological_process def: "A cell cycle checkpoint that delays the metaphase/anaphase transition of a meiotic cell cycle until the spindle is correctly assembled and chromosomes are attached to the spindle." [GOC:mah] is_a: GO:0044779 ! meiotic spindle checkpoint is_a: GO:0071173 ! spindle assembly checkpoint intersection_of: GO:0071173 ! spindle assembly checkpoint intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0033363 name: secretory granule organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a secretory granule. A secretory granule is a small subcellular vesicle, surrounded by a membrane, that is formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion." [GOC:mah] synonym: "secretory granule organisation" EXACT [GOC:mah] synonym: "secretory granule organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016050 ! vesicle organization relationship: part_of GO:0010256 ! endomembrane system organization [Term] id: GO:0033365 name: protein localization to organelle namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within an organelle." [GOC:mah] synonym: "protein localisation to organelle" EXACT [GOC:mah] synonym: "protein localization in organelle" EXACT [GOC:mah] is_a: GO:0034613 ! cellular protein localization [Term] id: GO:0033554 name: cellular response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0006950 ! response to stress is_a: GO:0051716 ! cellular response to stimulus [Term] id: GO:0033673 name: negative regulation of kinase activity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] synonym: "down regulation of kinase activity" EXACT [] synonym: "down-regulation of kinase activity" EXACT [] synonym: "downregulation of kinase activity" EXACT [] synonym: "inhibition of kinase activity" NARROW [] synonym: "kinase inhibitor" NARROW [] is_a: GO:0042326 ! negative regulation of phosphorylation is_a: GO:0043549 ! regulation of kinase activity is_a: GO:0051348 ! negative regulation of transferase activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016301 ! kinase activity relationship: negatively_regulates GO:0016301 ! kinase activity [Term] id: GO:0033674 name: positive regulation of kinase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] synonym: "kinase activator" NARROW [] synonym: "stimulation of kinase activity" NARROW [] synonym: "up regulation of kinase activity" EXACT [] synonym: "up-regulation of kinase activity" EXACT [] synonym: "upregulation of kinase activity" EXACT [] is_a: GO:0042327 ! positive regulation of phosphorylation is_a: GO:0043549 ! regulation of kinase activity is_a: GO:0051347 ! positive regulation of transferase activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016301 ! kinase activity relationship: positively_regulates GO:0016301 ! kinase activity [Term] id: GO:0034242 name: negative regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mah] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:0060142 ! regulation of syncytium formation by plasma membrane fusion intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: negatively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0034248 name: regulation of cellular amide metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "regulation of amide metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043603 ! cellular amide metabolic process relationship: regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034249 name: negative regulation of cellular amide metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "negative regulation of amide metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043603 ! cellular amide metabolic process relationship: negatively_regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034250 name: positive regulation of cellular amide metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "positive regulation of amide metabolism" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043603 ! cellular amide metabolic process relationship: positively_regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034263 name: positive regulation of autophagy in response to ER overload namespace: biological_process def: "The process in which the accumulation of misfolded proteins in the endoplasmic reticulum triggers a response that positively regulates autophagy." [GOC:mah] synonym: "autophagy in response to endoplasmic reticulum overload" EXACT [] synonym: "autophagy in response to ER stress" EXACT [] is_a: GO:0006983 ! ER overload response is_a: GO:0010508 ! positive regulation of autophagy intersection_of: GO:0006983 ! ER overload response intersection_of: positively_regulates GO:0006914 ! autophagy [Term] id: GO:0034504 name: protein localization to nucleus namespace: biological_process alt_id: GO:0044744 def: "A process in which a protein transports or maintains the localization of another protein to the nucleus." [GOC:ecd] synonym: "protein localisation to nucleus" EXACT [GOC:mah] synonym: "protein localization in cell nucleus" EXACT [] synonym: "protein localization in nucleus" EXACT [GOC:mah] synonym: "protein targeting to nucleus" RELATED [] is_a: GO:0033365 ! protein localization to organelle creation_date: 2012-11-07T15:45:54Z [Term] id: GO:0034608 name: vulval location namespace: biological_process def: "Location, by the male, of his partner's vulva when backing along the ventral side of the hermaphrodite during mating. The male stops at the vulva, coordinates his movements to the hermaphrodite's, and positions his tail precisely over the vulva so that he may insert his spicules and ejaculate." [PMID:18050467] is_a: GO:0060179 ! male mating behavior [Term] id: GO:0034609 name: spicule insertion namespace: biological_process def: "Insertion of the male copulatory spicules into the hermaphrodite. Spicule insertion behavior initiates when the male cloaca contacts the vulva. During most mating encounters, the spicule tips will prod the vulva continuously until they partially penetrate, which then causes the protractors to contract completely so that the spicules extend through the vulva." [PMID:18050467] is_a: GO:0060179 ! male mating behavior [Term] id: GO:0034613 name: cellular protein localization namespace: biological_process alt_id: GO:0016249 def: "Any process in which a protein is transported to, and/or maintained in, a specific location at the level of a cell. Localization at the cellular level encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GOC:mah] synonym: "cellular protein localisation" EXACT [GOC:mah] synonym: "channel localizer activity" NARROW [GOC:mah] is_a: GO:0008104 ! protein localization is_a: GO:0070727 ! cellular macromolecule localization [Term] id: GO:0034620 name: cellular response to unfolded protein namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an unfolded protein stimulus." [GOC:mah] comment: Note that this term should not be confused with 'unfolded protein response ; GO:0030968', which refers to the signaling pathways that respond to the presence of unfolded proteins in the ER. synonym: "heat shock protein activity" RELATED [] is_a: GO:0006986 ! response to unfolded protein is_a: GO:0035967 ! cellular response to topologically incorrect protein [Term] id: GO:0034622 name: cellular protein-containing complex assembly namespace: biological_process alt_id: GO:0043623 def: "The aggregation, arrangement and bonding together of a set of components to form a protein complex, occurring at the level of an individual cell." [GOC:jl] synonym: "cellular macromolecule complex assembly" RELATED [] synonym: "cellular protein complex assembly" EXACT [] is_a: GO:0065003 ! protein-containing complex assembly [Term] id: GO:0034641 name: cellular nitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds, as carried out by individual cells." [GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "cellular nitrogen compound metabolism" EXACT [] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0034644 name: cellular response to UV namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers." [GOC:mah] synonym: "cellular response to ultraviolet light stimulus" EXACT [] synonym: "cellular response to ultraviolet radiation stimulus" EXACT [] synonym: "cellular response to UV light stimulus" EXACT [] synonym: "cellular response to UV radiation stimulus" EXACT [] is_a: GO:0009411 ! response to UV is_a: GO:0071482 ! cellular response to light stimulus [Term] id: GO:0034645 name: cellular macromolecule biosynthetic process namespace: biological_process alt_id: GO:0034961 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells." [CHEBI:33694, GOC:mah] synonym: "cellular biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "cellular macromolecule anabolism" EXACT [GOC:mah] synonym: "cellular macromolecule biosynthesis" EXACT [GOC:mah] synonym: "cellular macromolecule formation" EXACT [GOC:mah] synonym: "cellular macromolecule synthesis" EXACT [GOC:mah] is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0034654 name: nucleobase-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:mah] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid anabolism" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid biosynthesis" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid formation" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid synthesis" NARROW [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process [Term] id: GO:0034655 name: nucleobase-containing compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "nucleobase, nucleoside, nucleotide and nucleic acid breakdown" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid catabolic process" RELATED [GOC:dph, GOC:tb] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid catabolism" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid degradation" EXACT [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0019439 ! aromatic compound catabolic process is_a: GO:0044270 ! cellular nitrogen compound catabolic process is_a: GO:0046700 ! heterocycle catabolic process is_a: GO:1901361 ! organic cyclic compound catabolic process [Term] id: GO:0034762 name: regulation of transmembrane transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other." [GOC:mah] synonym: "regulation of membrane transport" EXACT [] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0055085 ! transmembrane transport relationship: regulates GO:0055085 ! transmembrane transport [Term] id: GO:0034763 name: negative regulation of transmembrane transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other." [GOC:mah] synonym: "down regulation of transmembrane transport" EXACT [] synonym: "down-regulation of transmembrane transport" EXACT [] synonym: "downregulation of transmembrane transport" EXACT [] synonym: "inhibition of transmembrane transport" NARROW [] synonym: "negative regulation of membrane transport" EXACT [] is_a: GO:0034762 ! regulation of transmembrane transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0055085 ! transmembrane transport relationship: negatively_regulates GO:0055085 ! transmembrane transport [Term] id: GO:0034764 name: positive regulation of transmembrane transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a solute from one side of a membrane to the other." [GOC:mah] synonym: "activation of transmembrane transport" NARROW [] synonym: "positive regulation of membrane transport" EXACT [] synonym: "stimulation of transmembrane transport" NARROW [] synonym: "up regulation of transmembrane transport" EXACT [] synonym: "up-regulation of transmembrane transport" EXACT [] synonym: "upregulation of transmembrane transport" EXACT [] is_a: GO:0034762 ! regulation of transmembrane transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0055085 ! transmembrane transport relationship: positively_regulates GO:0055085 ! transmembrane transport [Term] id: GO:0034976 name: response to endoplasmic reticulum stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stress acting at the endoplasmic reticulum. ER stress usually results from the accumulation of unfolded or misfolded proteins in the ER lumen." [GOC:cjm, GOC:mah] synonym: "cellular response to endoplasmic reticulum stress" EXACT [] synonym: "ER stress response" EXACT [] synonym: "response to ER stress" EXACT [] is_a: GO:0033554 ! cellular response to stress [Term] id: GO:0035046 name: pronuclear migration namespace: biological_process def: "The directed movement of the male and female pronuclei towards each other prior to their fusion." [GOC:bf, PMID:9199363] is_a: GO:0007097 ! nuclear migration is_a: GO:0022414 ! reproductive process relationship: part_of GO:0007338 ! single fertilization [Term] id: GO:0035047 name: centrosomal and pronuclear rotation namespace: biological_process def: "The rotation of centrosomes and associated pronuclei in one-cell embryos such as those of Caenorhabditis elegans, occurring as a transition between pronuclear migration and pronuclear fusion." [GOC:bf, ISBN:087969307X, PMID:10085292] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0007338 ! single fertilization [Term] id: GO:0035176 name: social behavior namespace: biological_process def: "Behavior directed towards society, or taking place between members of the same species. Occurs predominantly, or only, in individuals that are part of a group." [GOC:jh2, PMID:12848939, Wikipedia:Social_behavior] comment: Behavior such as predation which involves members of different species is not social. Communication between members of different species is also not social behavior. synonym: "cooperative behavior" RELATED [] synonym: "social behaviour" EXACT [] xref: Wikipedia:Social_behavior is_a: GO:0051703 ! intraspecies interaction between organisms is_a: GO:0051705 ! multi-organism behavior [Term] id: GO:0035177 name: larval foraging behavior namespace: biological_process def: "The movement of a larva through a feeding substrate whilst feeding on food." [PMID:12848927] synonym: "larval foraging behaviour" EXACT [] is_a: GO:0030537 ! larval behavior is_a: GO:0060756 ! foraging behavior [Term] id: GO:0035188 name: hatching namespace: biological_process def: "The emergence of an immature organism from a protective structure." [GOC:dgh, GOC:isa_complete, ISBN:0198612001] is_a: GO:0071684 ! organism emergence from protective structure relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0035194 name: posttranscriptional gene silencing by RNA namespace: biological_process def: "Any process of posttranscriptional gene inactivation (silencing) mediated by small RNA molecules that may trigger RNA (often mRNA) degradation or negatively regulate mRNA translation." [GOC:aruk, GOC:bc, GOC:mah, GOC:rl, PMID:15020054, PMID:15066275, PMID:15066283, PMID:23985560, PMID:28379604] synonym: "RNA-mediated posttranscriptional gene silencing" EXACT [GOC:dph, GOC:tb] synonym: "sense-PTGS" RELATED [] is_a: GO:0016441 ! posttranscriptional gene silencing is_a: GO:0031047 ! gene silencing by RNA [Term] id: GO:0035295 name: tube development namespace: biological_process def: "The process whose specific outcome is the progression of a tube over time, from its initial formation to a mature structure. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts." [PMID:12526790] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0035437 name: maintenance of protein localization in endoplasmic reticulum namespace: biological_process def: "Any process in which a protein is maintained in the endoplasmic reticulum and prevented from moving elsewhere. These include sequestration within the endoplasmic reticulum, protein stabilization to prevent transport elsewhere and the active retrieval of proteins that escape the endoplasmic reticulum." [GOC:bf, GOC:vw] synonym: "maintenance of protein localisation in endoplasmic reticulum" EXACT [GOC:mah] synonym: "maintenance of protein localization in ER" EXACT [] synonym: "maintenance of protein location in endoplasmic reticulum" EXACT [] synonym: "maintenance of protein location in ER" EXACT [] synonym: "protein-endoplasmic reticulum retention" EXACT [] synonym: "protein-ER retention" EXACT [] synonym: "retention of protein in endoplasmic reticulum" EXACT [] synonym: "retention of protein in ER" EXACT [] is_a: GO:0072595 ! maintenance of protein localization in organelle intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005783 ! endoplasmic reticulum relationship: occurs_in GO:0005783 ! endoplasmic reticulum relationship: part_of GO:0070972 ! protein localization to endoplasmic reticulum created_by: rfoulger creation_date: 2010-04-09T10:39:49Z [Term] id: GO:0035556 name: intracellular signal transduction namespace: biological_process alt_id: GO:0007242 alt_id: GO:0007243 alt_id: GO:0023013 alt_id: GO:0023034 def: "The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell." [GOC:bf, GOC:jl, GOC:signaling, ISBN:3527303782] synonym: "intracellular protein kinase cascade" NARROW [GOC:signaling] synonym: "intracellular signal transduction pathway" NARROW [] synonym: "intracellular signaling cascade" RELATED [GOC:signaling] synonym: "intracellular signaling chain" EXACT [ISBN:3527303782] synonym: "intracellular signaling pathway" RELATED [] synonym: "protein kinase cascade" NARROW [GOC:signaling] synonym: "signal transduction via intracellular signaling cascade" RELATED [] synonym: "signal transmission via intracellular cascade" NARROW [] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: occurs_in GO:0005622 ! intracellular relationship: occurs_in GO:0005622 ! intracellular created_by: rfoulger creation_date: 2010-05-14T01:14:37Z [Term] id: GO:0035592 name: establishment of protein localization to extracellular region namespace: biological_process def: "The directed movement of a protein to a specific location within the extracellular region." [GOC:bf, GOC:BHF] synonym: "establishment of protein localisation in extracellular region" EXACT [GOC:mah] synonym: "establishment of protein localization in extracellular region" EXACT [GOC:curators] is_a: GO:0045184 ! establishment of protein localization is_a: GO:0071692 ! protein localization to extracellular region created_by: rfoulger creation_date: 2010-11-09T10:25:08Z [Term] id: GO:0035637 name: multicellular organismal signaling namespace: biological_process def: "The transfer of information occurring at the level of a multicellular organism." [GOC:go_curators] synonym: "multicellular organismal signalling" EXACT [GOC:bf] is_a: GO:0023052 ! signaling is_a: GO:0032501 ! multicellular organismal process created_by: rfoulger creation_date: 2011-01-14T10:13:50Z [Term] id: GO:0035694 name: mitochondrial protein catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a mitochondrial protein. This process is necessary to maintain the healthy state of mitochondria and is thought to occur via the induction of an intramitochondrial lysosome-like organelle that acts to eliminate the damaged oxidised mitochondrial proteins without destroying the mitochondrial structure." [GOC:sp, PMID:21264221, PMID:21264228] synonym: "catabolism of mitochondrial protein" EXACT [GOC:bf] synonym: "degradation of damaged mitochondrial protein" EXACT [GOC:bf] is_a: GO:0044257 ! cellular protein catabolic process intersection_of: GO:0030163 ! protein catabolic process intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0007005 ! mitochondrion organization created_by: rfoulger creation_date: 2011-02-28T11:06:40Z [Term] id: GO:0035770 name: ribonucleoprotein granule namespace: cellular_component def: "A non-membranous macromolecular complex containing proteins and translationally silenced mRNAs. RNA granules contain proteins that control the localization, stability, and translation of their RNA cargo. Different types of RNA granules (RGs) exist, depending on the cell type and cellular conditions." [GOC:go_curators, GOC:sp, PMID:16520386, PMID:20368989, PMID:21436445] synonym: "mRNP granule" EXACT [] synonym: "RNA granule" NARROW [] synonym: "RNP granule" EXACT [] is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:1990904 ! ribonucleoprotein complex created_by: rfoulger creation_date: 2011-04-01T10:50:47Z [Term] id: GO:0035825 name: homologous recombination namespace: biological_process def: "A DNA recombination process that results in the equal exchange of genetic material between the recombining DNA molecules." [GOC:mah, PMID:11139492, PMID:17304215] synonym: "chromosomal crossover" RELATED [GOC:mah, Wikipedia:Chromosomal_crossover] synonym: "interchromosomal DNA recombination" EXACT [] synonym: "interstrand DNA recombination" EXACT [] synonym: "reciprocal DNA recombination" NARROW [] xref: Wikipedia:Chromosomal_crossover is_a: GO:0006310 ! DNA recombination created_by: rfoulger creation_date: 2011-05-04T01:23:31Z [Term] id: GO:0035882 name: defecation rhythm namespace: biological_process def: "The rhythmic process of defecation that consists of an intestinal oscillator which regulates calcium waves. These waves in turn control a stereotypical, three-part pattern of muscle contractions. In some organisms, defecation can recur with a regularity more frequent than every 24 hours. For example, in a well-fed Caenorhabditis elegans, the defecation motor program occurs approximately every 45 seconds, and is temperature- and touch-compensated." [GOC:bf, GOC:kmv, PMID:7479775, PMID:8158250, PMID:9066270] synonym: "defecation behavior" RELATED [PMID:7479775, PMID:9066270] synonym: "defecation cycle" EXACT [PMID:8158250] synonym: "defecation motor program" EXACT [GOC:kmv, PMID:9066270] synonym: "DMP" EXACT [PMID:9066270] is_a: GO:0007624 ! ultradian rhythm relationship: part_of GO:0030421 ! defecation created_by: rfoulger creation_date: 2011-06-06T11:36:35Z [Term] id: GO:0035966 name: response to topologically incorrect protein namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a protein that is not folded in its correct three-dimensional structure." [GOC:bf] synonym: "response to misfolded or unfolded protein" RELATED [GOC:bf] is_a: GO:0006950 ! response to stress is_a: GO:0010033 ! response to organic substance created_by: rfoulger creation_date: 2011-08-03T11:43:12Z [Term] id: GO:0035967 name: cellular response to topologically incorrect protein namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a protein that is not folded in its correct three-dimensional structure." [GOC:bf] synonym: "cellular response to misfolded or unfolded protein" RELATED [GOC:bf] is_a: GO:0033554 ! cellular response to stress is_a: GO:0035966 ! response to topologically incorrect protein is_a: GO:0071310 ! cellular response to organic substance created_by: rfoulger creation_date: 2011-08-03T11:44:50Z [Term] id: GO:0036211 name: protein modification process namespace: biological_process def: "The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification)." [GOC:bf, GOC:jl] synonym: "protein modification" EXACT [GOC:bf] is_a: GO:0019538 ! protein metabolic process is_a: GO:0043412 ! macromolecule modification created_by: rfoulger creation_date: 2012-04-26T01:47:12Z [Term] id: GO:0036276 name: response to antidepressant namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antidepressant stimulus, a mood-stimulating drug." [CHEBI:35469, GOC:hp] comment: Note that this term is in the subset of terms that should not be used for direct manual annotation of gene products. It was created to be used for cross-referencing by other ontologies. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0042493 ! response to drug created_by: rfoulger creation_date: 2012-07-09T02:12:44Z [Term] id: GO:0036379 name: myofilament namespace: cellular_component def: "Any of the smallest contractile units of a myofibril (striated muscle fiber)." [Wikipedia:Myofilament] synonym: "striated muscle filament" EXACT [GOC:bf] is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0030016 ! myofibril created_by: rfoulger creation_date: 2013-05-22T14:39:06Z [Term] id: GO:0036385 name: nucleoid DNA packaging namespace: biological_process def: "Any process in which DNA and associated proteins are formed into a compact, orderly structure within a nucleoid." [GOC:bf, GOC:bhm] is_a: GO:0006323 ! DNA packaging intersection_of: GO:0006323 ! DNA packaging intersection_of: occurs_in GO:0009295 ! nucleoid relationship: occurs_in GO:0009295 ! nucleoid created_by: rfoulger creation_date: 2013-05-30T10:36:05Z [Term] id: GO:0036464 name: cytoplasmic ribonucleoprotein granule namespace: cellular_component def: "A ribonucleoprotein granule located in the cytoplasm." [GOC:bf, GOC:PARL, PMID:15121898] synonym: "Staufen granule" NARROW [PMID:15121898] is_a: GO:0035770 ! ribonucleoprotein granule is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0035770 ! ribonucleoprotein granule intersection_of: part_of GO:0005737 ! cytoplasm created_by: rebeccafoulger creation_date: 2014-06-18T09:44:44Z [Term] id: GO:0036465 name: synaptic vesicle recycling namespace: biological_process def: "The trafficking of synaptic vesicles from the pre-synaptic membrane so the vesicle can dock and prime for another round of exocytosis and neurotransmitter release. Recycling occurs after synaptic vesicle exocytosis, and is necessary to replenish presynaptic vesicle pools, sustain transmitter release and preserve the structural integrity of the presynaptic membrane. Recycling can occur following transient fusion with the presynaptic membrane (kiss and run), or via endocytosis of presynaptic membrane." [GOC:bf, GOC:pad, GOC:PARL, PMID:15217342, PMID:22026965, PMID:23245563] synonym: "kiss-and-run synaptic vesicle recycling" NARROW [PMID:15217342] synonym: "kiss-and-stay synaptic vesicle recycling" NARROW [PMID:152127342] is_a: GO:0006810 ! transport is_a: GO:0051649 ! establishment of localization in cell relationship: part_of GO:0099504 ! synaptic vesicle cycle created_by: rebeccafoulger creation_date: 2014-06-26T11:03:08Z [Term] id: GO:0036477 name: somatodendritic compartment namespace: cellular_component def: "The region of a neuron that includes the cell body (cell soma) and dendrite(s), but excludes the axon." [GOC:pad, GOC:PARL] is_a: GO:0097458 ! neuron part created_by: rebeccafoulger creation_date: 2014-07-24T10:06:19Z [Term] id: GO:0038023 name: signaling receptor activity namespace: molecular_function alt_id: GO:0004872 alt_id: GO:0019041 def: "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." [GOC:bf, GOC:signaling] subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] is_a: GO:0060089 ! molecular transducer activity created_by: rfoulger creation_date: 2011-08-01T02:45:27Z [Term] id: GO:0038024 name: cargo receptor activity namespace: molecular_function def: "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles." [PMID:15239958, PMID:27903609] comment: Notes: (1) this term and its child terms are intended for receptors that bind to and internalize molecules by receptor-mediated endocytosis. For receptors that are coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857. synonym: "endocytic receptor activity" NARROW [GOC:signaling, ISBN:0123645387, PMID:12671190] synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in receptor-mediated endocytosis" NARROW [GOC:bf] synonym: "transport receptor activity" BROAD [GOC:signaling] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0060090 ! molecular adaptor activity relationship: part_of GO:0006897 ! endocytosis created_by: rfoulger creation_date: 2011-08-01T02:50:45Z [Term] id: GO:0040002 name: collagen and cuticulin-based cuticle development namespace: biological_process def: "Synthesis and deposition of a collagen and cuticulin-based noncellular, hardened, or membranous secretion from an epithelial sheet. An example of this process is found in Caenorhabditis elegans." [GOC:mtg_sensu] synonym: "collagen and cuticulin-based cuticle anabolism" EXACT [] synonym: "collagen and cuticulin-based cuticle biosynthetic process" EXACT [] synonym: "collagen and cuticulin-based cuticle formation" EXACT [] synonym: "collagen and cuticulin-based cuticle synthesis" EXACT [] is_a: GO:0042335 ! cuticle development [Term] id: GO:0040004 name: collagen and cuticulin-based cuticle attachment to epithelium namespace: biological_process def: "Attaching of a collagen and cuticulin-based cuticle to the epithelium underlying it. An example of this process is found in Caenorhabditis elegans." [GOC:ems, GOC:mtg_sensu] synonym: "cuticular attachment to epithelium" BROAD [] is_a: GO:0022404 ! molting cycle process relationship: part_of GO:0018996 ! molting cycle, collagen and cuticulin-based cuticle [Term] id: GO:0040007 name: growth namespace: biological_process alt_id: GO:0048590 def: "The increase in size or mass of an entire organism, a part of an organism or a cell." [GOC:bf, GOC:ma] comment: See also the biological process term 'cell growth ; GO:0016049'. subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "growth pattern" RELATED [] synonym: "non-developmental growth" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase [Term] id: GO:0040008 name: regulation of growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the growth of all or part of an organism so that it occurs at its proper speed, either globally or in a specific part of the organism's development." [GOC:ems, GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0040007 ! growth relationship: regulates GO:0040007 ! growth [Term] id: GO:0040011 name: locomotion namespace: biological_process def: "Self-propelled movement of a cell or organism from one location to another." [GOC:dgh] subset: goslim_chembl subset: goslim_generic subset: goslim_pir xref: MIPS_funcat:02.45.11 is_a: GO:0008150 ! biological_process disjoint_from: GO:0044848 ! biological phase [Term] id: GO:0040012 name: regulation of locomotion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of locomotion of a cell or organism." [GOC:ems] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0040011 ! locomotion relationship: regulates GO:0040011 ! locomotion [Term] id: GO:0040013 name: negative regulation of locomotion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of locomotion of a cell or organism." [GOC:go_curators] synonym: "down regulation of locomotion" EXACT [] synonym: "down-regulation of locomotion" EXACT [] synonym: "downregulation of locomotion" EXACT [] synonym: "inhibition of locomotion" NARROW [] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0040011 ! locomotion relationship: negatively_regulates GO:0040011 ! locomotion [Term] id: GO:0040017 name: positive regulation of locomotion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of locomotion of a cell or organism." [GOC:go_curators] synonym: "activation of locomotion" NARROW [] synonym: "stimulation of locomotion" NARROW [] synonym: "up regulation of locomotion" EXACT [] synonym: "up-regulation of locomotion" EXACT [] synonym: "upregulation of locomotion" EXACT [] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0040011 ! locomotion relationship: positively_regulates GO:0040011 ! locomotion [Term] id: GO:0040019 name: positive regulation of embryonic development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of embryonic development." [GOC:go_curators] synonym: "activation of embryonic development" NARROW [] synonym: "stimulation of embryonic development" NARROW [] synonym: "up regulation of embryonic development" EXACT [] synonym: "up-regulation of embryonic development" EXACT [] synonym: "upregulation of embryonic development" EXACT [] is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009790 ! embryo development relationship: positively_regulates GO:0009790 ! embryo development [Term] id: GO:0040020 name: regulation of meiotic nuclear division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of meiotic nuclear division, the process in which the nucleus of a diploid cell divides twice forming four haploid cells, one or more of which usually function as gametes." [GOC:ems, GOC:ma] synonym: "regulation of meiosis" BROAD [GOC:vw] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0051445 ! regulation of meiotic cell cycle is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0140013 ! meiotic nuclear division relationship: regulates GO:0140013 ! meiotic nuclear division [Term] id: GO:0040021 name: hermaphrodite germ-line sex determination namespace: biological_process alt_id: GO:0042005 def: "The determination of sex and sexual phenotype in the germ line of a hermaphrodite." [GOC:ems] is_a: GO:0018992 ! germ-line sex determination [Term] id: GO:0040022 name: feminization of hermaphroditic germ-line namespace: biological_process def: "The determination of female sex and sexual phenotype in the germ-line of the hermaphrodite." [GOC:ems] is_a: GO:0040021 ! hermaphrodite germ-line sex determination [Term] id: GO:0040024 name: dauer larval development namespace: biological_process def: "The process whose specific outcome is the progression of the dauer larva over time, through the facultative diapause of the dauer (enduring) larval stage, with specialized traits adapted for dispersal and long-term survival, with elevated stress resistance and without feeding." [GOC:ems, ISBN:087969307X] is_a: GO:0002119 ! nematode larval development [Term] id: GO:0040025 name: vulval development namespace: biological_process def: "The process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [GOC:ems, GOC:kmv, ISBN:087969307X] is_a: GO:0048569 ! post-embryonic animal organ development relationship: part_of GO:0002119 ! nematode larval development [Term] id: GO:0040026 name: positive regulation of vulval development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of development of the vulva. Vulval development is the process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [GOC:ems, GOC:kmv] synonym: "activation of vulval development" RELATED [] synonym: "stimulation of vulval development" RELATED [] synonym: "up regulation of vulval development" RELATED [] synonym: "up-regulation of vulval development" RELATED [] synonym: "upregulation of vulval development" RELATED [] is_a: GO:0040028 ! regulation of vulval development is_a: GO:0061063 ! positive regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0040025 ! vulval development relationship: positively_regulates GO:0040025 ! vulval development [Term] id: GO:0040027 name: negative regulation of vulval development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of development of the vulva. Vulval development is the process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [GOC:ems, GOC:kmv] synonym: "down regulation of vulval development" EXACT [] synonym: "down-regulation of vulval development" EXACT [] synonym: "downregulation of vulval development" EXACT [] synonym: "inhibition of vulval development" NARROW [] is_a: GO:0040028 ! regulation of vulval development is_a: GO:0061064 ! negative regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0040025 ! vulval development relationship: negatively_regulates GO:0040025 ! vulval development [Term] id: GO:0040028 name: regulation of vulval development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of development of the vulva. Vulval development is the process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [GOC:kmv, GOC:ma] is_a: GO:0061062 ! regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0040025 ! vulval development relationship: regulates GO:0040025 ! vulval development [Term] id: GO:0040029 name: regulation of gene expression, epigenetic namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence." [PMID:10521337, PMID:11498582] subset: goslim_plant is_a: GO:0010468 ! regulation of gene expression [Term] id: GO:0040033 name: negative regulation of translation, ncRNA-mediated namespace: biological_process def: "Any process, mediated by small non-coding RNAs, that stops, prevents or reduces the rate that mRNAs are effectively translated into protein." [GOC:dph, GOC:ems, GOC:tb] synonym: "down regulation of mRNA translation, ncRNA-mediated" EXACT [] synonym: "down-regulation of mRNA translation, ncRNA-mediated" EXACT [] synonym: "downregulation of mRNA translation, ncRNA-mediated" EXACT [] synonym: "inhibition of mRNA translation, ncRNA-mediated" NARROW [] is_a: GO:0017148 ! negative regulation of translation is_a: GO:0045974 ! regulation of translation, ncRNA-mediated [Term] id: GO:0040034 name: regulation of development, heterochronic namespace: biological_process def: "Any process that modulates the consistent predetermined time point at which an integrated living unit or organism progresses from an initial condition to a later condition and the rate at which this time point is reached." [PMID:9442909] synonym: "developmental timing" RELATED [] synonym: "heterochronic regulation of development" EXACT [] synonym: "temporal regulation of development" EXACT [] is_a: GO:0050793 ! regulation of developmental process [Term] id: GO:0040038 name: polar body extrusion after meiotic divisions namespace: biological_process def: "The cell cycle process in which two small cells are generated, as byproducts destined to degenerate, as a result of the first and second meiotic divisions of a primary oocyte during its development to a mature ovum. One polar body is formed in the first division of meiosis and the other in the second division; at each division, the cytoplasm divides unequally, so that the polar body is of much smaller size than the developing oocyte. At the second division in which a polar body is formed, the polar body and the developing oocyte each contain a haploid set of chromosomes." [GOC:ems, ISBN:0198506732] is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0033206 ! meiotic cytokinesis relationship: part_of GO:0007143 ! female meiotic nuclear division [Term] id: GO:0040040 name: thermosensory behavior namespace: biological_process def: "Behavior that is dependent upon the sensation of temperature." [GOC:ems] synonym: "behavioral response to temperature stimulus" EXACT [] synonym: "behavioural response to temperature stimulus" EXACT [] synonym: "thermosensory behaviour" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0009266 ! response to temperature stimulus [Term] id: GO:0042023 name: DNA endoreduplication namespace: biological_process def: "Regulated re-replication of DNA within a single cell cycle, resulting in an increased cell ploidy. An example of this process occurs in the synthesis of Drosophila salivary gland cell polytene chromosomes." [GOC:jl, GOC:vw] comment: Note that this term is only to be used in situations were this process occurs normally. Not to be used to describe mutant or diseased states. synonym: "DNA endoreplication" EXACT [] synonym: "DNA re-duplication" EXACT [] is_a: GO:0044786 ! cell cycle DNA replication relationship: has_part GO:0006270 ! DNA replication initiation [Term] id: GO:0042053 name: regulation of dopamine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving dopamine." [GOC:go_curators] synonym: "regulation of dopamine metabolism" EXACT [] is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042417 ! dopamine metabolic process relationship: regulates GO:0042417 ! dopamine metabolic process [Term] id: GO:0042069 name: regulation of catecholamine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catecholamines." [GOC:go_curators] synonym: "regulation of catecholamine metabolism" EXACT [] is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006584 ! catecholamine metabolic process relationship: regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0042073 name: intraciliary transport namespace: biological_process alt_id: GO:0035734 def: "The bidirectional movement of large protein complexes along microtubules within a cilium, mediated by motor proteins." [GOC:cilia, GOC:kmv, PMID:17981739, PMID:18180368, PMID:22869374, Reactome:R-HSA-5620924.2] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "IFT" RELATED [] synonym: "intraflagellar transport" EXACT [] synonym: "intraflagellar transport involved in cilium organization" EXACT [] synonym: "intraflagellar transport involved in microtubule-based flagellum organisation" EXACT [] xref: Wikipedia:Intraflagellar_transport is_a: GO:0031503 ! protein-containing complex localization is_a: GO:0098840 ! protein transport along microtubule relationship: occurs_in GO:0005929 ! cilium relationship: part_of GO:0044782 ! cilium organization [Term] id: GO:0042074 name: cell migration involved in gastrulation namespace: biological_process def: "The migration of individual cells within the blastocyst to help establish the multi-layered body plan of the organism (gastrulation). For example, the migration of cells from the surface to the interior of the embryo (ingression)." [GOC:jl, http://www.cellmigration.org/, ISBN:0878932437] is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0007369 ! gastrulation relationship: part_of GO:0007369 ! gastrulation [Term] id: GO:0042127 name: regulation of cell population proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation." [GOC:jl] synonym: "regulation of cell proliferation" RELATED [] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008283 ! cell population proliferation relationship: regulates GO:0008283 ! cell population proliferation [Term] id: GO:0042133 name: neurotransmitter metabolic process namespace: biological_process def: "The chemical reactions and pathways involving neurotransmitters, any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell." [CHEBI:25512, GOC:jl] subset: goslim_pir synonym: "neurotransmitter metabolism" EXACT [] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0042135 name: neurotransmitter catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell." [CHEBI:25512, GOC:jl] subset: goslim_synapse synonym: "neurotransmitter breakdown" EXACT [] synonym: "neurotransmitter catabolism" EXACT [] synonym: "neurotransmitter degradation" EXACT [] is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0044248 ! cellular catabolic process [Term] id: GO:0042136 name: neurotransmitter biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell." [CHEBI:25512, GOC:jl] subset: goslim_synapse synonym: "neurotransmitter anabolism" EXACT [] synonym: "neurotransmitter biosynthesis" EXACT [] synonym: "neurotransmitter biosynthesis and storage" BROAD [] synonym: "neurotransmitter biosynthetic process and storage" BROAD [] synonym: "neurotransmitter formation" EXACT [] synonym: "neurotransmitter synthesis" EXACT [] is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0044249 ! cellular biosynthetic process [Term] id: GO:0042176 name: regulation of protein catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." [GOC:go_curators, GOC:jl] synonym: "regulation of protein breakdown" EXACT [] synonym: "regulation of protein catabolism" EXACT [] synonym: "regulation of protein degradation" EXACT [] is_a: GO:0009894 ! regulation of catabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030163 ! protein catabolic process relationship: regulates GO:0030163 ! protein catabolic process [Term] id: GO:0042177 name: negative regulation of protein catabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." [GOC:go_curators, GOC:jl, PMID:10207076] synonym: "down regulation of protein catabolic process" EXACT [] synonym: "down-regulation of protein catabolic process" EXACT [] synonym: "downregulation of protein catabolic process" EXACT [] synonym: "inhibition of protein catabolic process" NARROW [] synonym: "negative regulation of protein breakdown" EXACT [] synonym: "negative regulation of protein catabolism" EXACT [] synonym: "negative regulation of protein degradation" EXACT [] is_a: GO:0009895 ! negative regulation of catabolic process is_a: GO:0042176 ! regulation of protein catabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030163 ! protein catabolic process relationship: negatively_regulates GO:0030163 ! protein catabolic process [Term] id: GO:0042221 name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_metagenomics subset: goslim_plant subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] xref: MIPS_funcat:34.11.03 xref: MIPS_funcat:34.11.03.05 xref: MIPS_funcat:36.20.35.09 is_a: GO:0050896 ! response to stimulus [Term] id: GO:0042303 name: molting cycle namespace: biological_process def: "The periodic casting off and regeneration of an outer covering of cuticle, feathers, hair, horns, skin, etc." [GOC:jl, ISBN:0198506732] subset: goslim_pir is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0042325 name: regulation of phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule." [GOC:jl] is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016310 ! phosphorylation relationship: regulates GO:0016310 ! phosphorylation [Term] id: GO:0042326 name: negative regulation of phosphorylation namespace: biological_process def: "Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule." [GOC:jl] synonym: "down regulation of phosphorylation" EXACT [] synonym: "down-regulation of phosphorylation" EXACT [] synonym: "downregulation of phosphorylation" EXACT [] synonym: "inhibition of phosphorylation" NARROW [] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0045936 ! negative regulation of phosphate metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016310 ! phosphorylation relationship: negatively_regulates GO:0016310 ! phosphorylation [Term] id: GO:0042327 name: positive regulation of phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule." [GOC:jl] synonym: "activation of phosphorylation" NARROW [] synonym: "stimulation of phosphorylation" NARROW [] synonym: "up regulation of phosphorylation" EXACT [] synonym: "up-regulation of phosphorylation" EXACT [] synonym: "upregulation of phosphorylation" EXACT [] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0045937 ! positive regulation of phosphate metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016310 ! phosphorylation relationship: positively_regulates GO:0016310 ! phosphorylation [Term] id: GO:0042330 name: taxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to an external stimulus." [GOC:jl, ISBN:0192801023] synonym: "directed movement in response to stimulus" EXACT [] xref: Wikipedia:Taxis is_a: GO:0040011 ! locomotion relationship: part_of GO:0009605 ! response to external stimulus [Term] id: GO:0042331 name: phototaxis namespace: biological_process alt_id: GO:0046953 def: "The directed movement of a motile cell or organism in response to light." [GOC:jl, ISBN:0192800981] synonym: "phototactic behavior" EXACT [] synonym: "phototactic behaviour" EXACT [] synonym: "taxis in response to light" EXACT [] xref: MIPS_funcat:34.11.01.05 xref: Wikipedia:Phototaxis is_a: GO:0009416 ! response to light stimulus is_a: GO:0009453 ! energy taxis [Term] id: GO:0042335 name: cuticle development namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a cuticle, the outer layer of some animals and plants, which acts to prevent water loss." [ISBN:0192800825] synonym: "cuticle anabolism" EXACT [] synonym: "cuticle biosynthesis" EXACT [] synonym: "cuticle biosynthetic process" EXACT [] synonym: "cuticle formation" EXACT [] synonym: "cuticle synthesis" EXACT [] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0042338 name: cuticle development involved in collagen and cuticulin-based cuticle molting cycle namespace: biological_process def: "Synthesis and deposition of a collagen and cuticulin-based noncellular, hardened, or membranous secretion from an epithelial sheet, occurring as part of the molting cycle. An example of this process is found in Caenorhabditis elegans." [GOC:mtg_sensu] synonym: "collagen and cuticulin-based cuticle development during molting" RELATED [GOC:dph, GOC:tb] synonym: "cuticle anabolism during molting" BROAD [] synonym: "cuticle biosynthetic process during molting" BROAD [] synonym: "cuticle formation during molting" BROAD [] synonym: "cuticle synthesis during molting" BROAD [] is_a: GO:0040002 ! collagen and cuticulin-based cuticle development intersection_of: GO:0042335 ! cuticle development intersection_of: part_of GO:0018996 ! molting cycle, collagen and cuticulin-based cuticle relationship: part_of GO:0018996 ! molting cycle, collagen and cuticulin-based cuticle [Term] id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0042416 name: dopamine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:jl, ISBN:0198506732] synonym: "dopamine anabolism" EXACT [] synonym: "dopamine biosynthesis" EXACT [] synonym: "dopamine formation" EXACT [] synonym: "dopamine synthesis" EXACT [] is_a: GO:0042417 ! dopamine metabolic process is_a: GO:0042423 ! catecholamine biosynthetic process [Term] id: GO:0042417 name: dopamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:jl, ISBN:0198506732] synonym: "dopamine metabolism" EXACT [] is_a: GO:0006584 ! catecholamine metabolic process is_a: GO:0017144 ! drug metabolic process is_a: GO:0097164 ! ammonium ion metabolic process [Term] id: GO:0042420 name: dopamine catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:jl, ISBN:0198506732] synonym: "dopamine breakdown" EXACT [] synonym: "dopamine catabolism" EXACT [] synonym: "dopamine degradation" EXACT [] is_a: GO:0042417 ! dopamine metabolic process is_a: GO:0042424 ! catecholamine catabolic process is_a: GO:0042737 ! drug catabolic process [Term] id: GO:0042423 name: catecholamine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] synonym: "catecholamine anabolism" EXACT [] synonym: "catecholamine biosynthesis" EXACT [] synonym: "catecholamine formation" EXACT [] synonym: "catecholamine synthesis" EXACT [] xref: MIPS_funcat:01.20.35.03 xref: Wikipedia:Catecholamines is_a: GO:0006584 ! catecholamine metabolic process is_a: GO:0009713 ! catechol-containing compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process [Term] id: GO:0042424 name: catecholamine catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] synonym: "catecholamine breakdown" EXACT [] synonym: "catecholamine catabolism" EXACT [] synonym: "catecholamine degradation" EXACT [] is_a: GO:0006584 ! catecholamine metabolic process is_a: GO:0019614 ! catechol-containing compound catabolic process is_a: GO:1901565 ! organonitrogen compound catabolic process [Term] id: GO:0042427 name: serotonin biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] synonym: "serotonin anabolism" EXACT [] synonym: "serotonin biosynthesis" EXACT [] synonym: "serotonin formation" EXACT [] synonym: "serotonin synthesis" EXACT [] xref: Wikipedia:Serotonin is_a: GO:0042136 ! neurotransmitter biosynthetic process is_a: GO:0042428 ! serotonin metabolic process is_a: GO:0042435 ! indole-containing compound biosynthetic process is_a: GO:0046189 ! phenol-containing compound biosynthetic process is_a: GO:1901162 ! primary amino compound biosynthetic process [Term] id: GO:0042428 name: serotonin metabolic process namespace: biological_process def: "The chemical reactions and pathways involving serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] synonym: "serotonin metabolism" EXACT [] is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0042430 ! indole-containing compound metabolic process is_a: GO:0097164 ! ammonium ion metabolic process is_a: GO:1901160 ! primary amino compound metabolic process [Term] id: GO:0042429 name: serotonin catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] synonym: "serotonin breakdown" EXACT [] synonym: "serotonin catabolism" EXACT [] synonym: "serotonin degradation" EXACT [] is_a: GO:0019336 ! phenol-containing compound catabolic process is_a: GO:0042135 ! neurotransmitter catabolic process is_a: GO:0042428 ! serotonin metabolic process is_a: GO:0042436 ! indole-containing compound catabolic process is_a: GO:1901161 ! primary amino compound catabolic process [Term] id: GO:0042430 name: indole-containing compound metabolic process namespace: biological_process alt_id: GO:0042434 def: "The chemical reactions and pathways involving compounds that contain an indole (2,3-benzopyrrole) skeleton." [CHEBI:24828, GOC:jl, GOC:mah] synonym: "indole and derivative metabolic process" EXACT [GOC:curators] synonym: "indole and derivative metabolism" EXACT [] synonym: "indole derivative metabolic process" NARROW [GOC:curators] synonym: "indole derivative metabolism" NARROW [GOC:curators] synonym: "indole-containing compound metabolism" EXACT [GOC:curators] synonym: "ketole metabolic process" EXACT [] synonym: "ketole metabolism" EXACT [] is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process [Term] id: GO:0042435 name: indole-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of compounds that contain an indole (2,3-benzopyrrole) skeleton." [CHEBI:24828, GOC:jl] synonym: "indole derivative biosynthesis" EXACT [] synonym: "indole derivative biosynthetic process" EXACT [GOC:curators] synonym: "indole-containing compound anabolism" EXACT [GOC:curators] synonym: "indole-containing compound biosynthesis" EXACT [GOC:curators] synonym: "indole-containing compound formation" EXACT [GOC:curators] synonym: "indole-containing compound synthesis" EXACT [GOC:curators] is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0042430 ! indole-containing compound metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process [Term] id: GO:0042436 name: indole-containing compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of compounds that contain an indole (2,3-benzopyrrole) skeleton." [CHEBI:24828, GOC:jl] synonym: "indole derivative catabolic process" EXACT [GOC:curators] synonym: "indole derivative catabolism" EXACT [] synonym: "indole-containing compound breakdown" EXACT [GOC:curators] synonym: "indole-containing compound catabolism" EXACT [GOC:curators] synonym: "indole-containing compound degradation" EXACT [GOC:curators] is_a: GO:0019439 ! aromatic compound catabolic process is_a: GO:0042430 ! indole-containing compound metabolic process is_a: GO:0044270 ! cellular nitrogen compound catabolic process is_a: GO:0046700 ! heterocycle catabolic process is_a: GO:1901361 ! organic cyclic compound catabolic process is_a: GO:1901565 ! organonitrogen compound catabolic process [Term] id: GO:0042439 name: ethanolamine-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving ethanolamine (2-aminoethanol) and compounds derived from it." [CHEBI:16000, GOC:mah] synonym: "ethanolamine and derivative metabolic process" EXACT [GOC:curators] synonym: "ethanolamine and derivative metabolism" EXACT [] synonym: "ethanolamine-containing compound metabolism" EXACT [GOC:mah] is_a: GO:0006066 ! alcohol metabolic process is_a: GO:0006576 ! cellular biogenic amine metabolic process [Term] id: GO:0042445 name: hormone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone." [CHEBI:24621, GOC:jl] subset: goslim_pir synonym: "hormone metabolism" EXACT [] is_a: GO:0008152 ! metabolic process is_a: GO:0010817 ! regulation of hormone levels [Term] id: GO:0042493 name: response to drug namespace: biological_process alt_id: GO:0017035 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease." [GOC:jl] subset: goslim_candida synonym: "drug resistance" RELATED [] synonym: "drug susceptibility/resistance" RELATED [] is_a: GO:0042221 ! response to chemical [Term] id: GO:0042551 name: neuron maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for a neuron to attain its fully functional state." [GOC:dph, GOC:jl] is_a: GO:0048469 ! cell maturation is_a: GO:0071695 ! anatomical structure maturation relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0042579 name: microbody namespace: cellular_component def: "Cytoplasmic organelles, spherical or oval in shape, that are bounded by a single membrane and contain oxidative enzymes, especially those utilizing hydrogen peroxide (H2O2)." [ISBN:0198506732] subset: goslim_pir xref: Wikipedia:Microbody is_a: GO:0043231 ! intracellular membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0042592 name: homeostatic process namespace: biological_process alt_id: GO:0032844 alt_id: GO:0032845 alt_id: GO:0032846 def: "Any biological process involved in the maintenance of an internal steady state." [GOC:jl, ISBN:0395825172] subset: goslim_agr subset: goslim_chembl subset: goslim_generic subset: goslim_mouse synonym: "activation of homeostatic process" NARROW [] synonym: "homeostasis" EXACT [] synonym: "inhibition of homeostatic process" NARROW [] synonym: "negative regulation of homeostatic process" RELATED [] synonym: "positive regulation of homeostatic process" RELATED [] synonym: "regulation of homeostatic process" RELATED [] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0042645 name: mitochondrial nucleoid namespace: cellular_component def: "The region of a mitochondrion to which the DNA is confined." [GOC:jl] is_a: GO:0009295 ! nucleoid is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0044429 ! mitochondrial part intersection_of: GO:0009295 ! nucleoid intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0005759 ! mitochondrial matrix [Term] id: GO:0042659 name: regulation of cell fate specification namespace: biological_process def: "Any process that mediates the adoption of a specific fate by a cell." [GOC:go_curators] is_a: GO:0010453 ! regulation of cell fate commitment intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0001708 ! cell fate specification relationship: regulates GO:0001708 ! cell fate specification [Term] id: GO:0042660 name: positive regulation of cell fate specification namespace: biological_process def: "Any process that activates or enables a cell to adopt a specific fate." [GOC:go_curators] synonym: "activation of cell fate specification" NARROW [] synonym: "stimulation of cell fate specification" NARROW [] synonym: "up regulation of cell fate specification" EXACT [] synonym: "up-regulation of cell fate specification" EXACT [] synonym: "upregulation of cell fate specification" EXACT [] is_a: GO:0010455 ! positive regulation of cell fate commitment is_a: GO:0042659 ! regulation of cell fate specification intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0001708 ! cell fate specification relationship: positively_regulates GO:0001708 ! cell fate specification [Term] id: GO:0042692 name: muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a muscle cell." [CL:0000187, GOC:go_curators] synonym: "myogenesis" RELATED [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0061061 ! muscle structure development [Term] id: GO:0042713 name: sperm ejaculation namespace: biological_process def: "The expulsion of seminal fluid, thick white fluid containing spermatozoa, from the male genital tract." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007320 ! insemination [Term] id: GO:0042737 name: drug catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a drug, a substance used in the diagnosis, treatment or prevention of a disease." [GOC:go_curators] synonym: "drug breakdown" EXACT [] synonym: "drug catabolism" EXACT [] synonym: "drug degradation" EXACT [] is_a: GO:0017144 ! drug metabolic process is_a: GO:0044248 ! cellular catabolic process [Term] id: GO:0042752 name: regulation of circadian rhythm namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a circadian rhythm. A circadian rhythm is a biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:dph, GOC:jl, GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007623 ! circadian rhythm relationship: regulates GO:0007623 ! circadian rhythm [Term] id: GO:0042753 name: positive regulation of circadian rhythm namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a circadian rhythm behavior." [GOC:go_curators] synonym: "activation of circadian rhythm" NARROW [] synonym: "stimulation of circadian rhythm" NARROW [] synonym: "up regulation of circadian rhythm" EXACT [] synonym: "up-regulation of circadian rhythm" EXACT [] synonym: "upregulation of circadian rhythm" EXACT [] is_a: GO:0042752 ! regulation of circadian rhythm is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007623 ! circadian rhythm relationship: positively_regulates GO:0007623 ! circadian rhythm [Term] id: GO:0042754 name: negative regulation of circadian rhythm namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a circadian rhythm behavior." [GOC:go_curators] synonym: "down regulation of circadian rhythm" EXACT [] synonym: "down-regulation of circadian rhythm" EXACT [] synonym: "downregulation of circadian rhythm" EXACT [] synonym: "inhibition of circadian rhythm" NARROW [] is_a: GO:0042752 ! regulation of circadian rhythm is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007623 ! circadian rhythm relationship: negatively_regulates GO:0007623 ! circadian rhythm [Term] id: GO:0042755 name: eating behavior namespace: biological_process def: "The specific behavior of an organism relating to the intake of food, any substance (usually solid) that can be metabolized by an organism to give energy and build tissue." [GOC:jl, GOC:pr, PMID:19361967] synonym: "eating behaviour" EXACT [] is_a: GO:0007631 ! feeding behavior [Term] id: GO:0042770 name: signal transduction in response to DNA damage namespace: biological_process def: "A cascade of processes induced by the detection of DNA damage within a cell." [GOC:go_curators] synonym: "DNA damage response, signal transduction" EXACT [GOC:curators] synonym: "response to DNA damage stimulus by intracellular signaling cascade" EXACT [GOC:dph, GOC:tb] is_a: GO:0006974 ! cellular response to DNA damage stimulus is_a: GO:0035556 ! intracellular signal transduction [Term] id: GO:0042810 name: pheromone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving pheromones, a substance that is secreted and released by an organism and detected by a second organism of the same or a closely related species, in which it causes a specific reaction, such as a definite behavioral reaction or a developmental process." [ISBN:0198506732] subset: goslim_pir synonym: "pheromone metabolism" EXACT [] is_a: GO:0019748 ! secondary metabolic process is_a: GO:0042445 ! hormone metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0042886 name: amide transport namespace: biological_process def: "The directed movement of an amide, any compound containing one, two, or three acyl groups attached to a nitrogen atom, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl, ISBN:0198506732] subset: goslim_pir is_a: GO:0071705 ! nitrogen compound transport [Term] id: GO:0042981 name: regulation of apoptotic process namespace: biological_process def: "Any process that modulates the occurrence or rate of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. synonym: "apoptosis regulator activity" RELATED [] synonym: "regulation of apoptosis" NARROW [] is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006915 ! apoptotic process relationship: regulates GO:0006915 ! apoptotic process [Term] id: GO:0042995 name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] is_a: GO:0044464 ! cell part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043005 name: neuron projection namespace: cellular_component def: "A prolongation or process extending from a nerve cell, e.g. an axon or dendrite." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_pir synonym: "nerve fiber" RELATED [GOC:dph] synonym: "neurite" NARROW [] synonym: "neuron process" EXACT [] synonym: "neuron protrusion" EXACT [NIF_Subcellular:sao-250931889] synonym: "neuronal cell projection" EXACT [] xref: NIF_Subcellular:sao-867568886 is_a: GO:0097458 ! neuron part is_a: GO:0120025 ! plasma membrane bounded cell projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043043 name: peptide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of peptides, compounds of 2 or more (but usually less than 100) amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another. This may include the translation of a precursor protein and its subsequent processing into a functional peptide." [CHEBI:16670, GOC:dph, GOC:jl] synonym: "peptide anabolism" EXACT [] synonym: "peptide biosynthesis" EXACT [] synonym: "peptide formation" EXACT [] synonym: "peptide synthesis" EXACT [] is_a: GO:0006518 ! peptide metabolic process is_a: GO:0043604 ! amide biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process [Term] id: GO:0043050 name: pharyngeal pumping namespace: biological_process def: "The contraction and relaxation movements of the pharyngeal muscle that mediate feeding in nematodes." [GOC:cab1, PMID:2181052] synonym: "pumping behavior" RELATED [] is_a: GO:0042755 ! eating behavior [Term] id: GO:0043051 name: regulation of pharyngeal pumping namespace: biological_process def: "Any process that modulates the contraction and relaxation movements of the pharyngeal muscle that mediates feeding in nematodes." [GOC:cab1, PMID:2181052] is_a: GO:1903998 ! regulation of eating behavior intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043050 ! pharyngeal pumping relationship: regulates GO:0043050 ! pharyngeal pumping [Term] id: GO:0043052 name: thermotaxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to a temperature gradient. Movement may be towards either a higher or lower temperature." [GOC:cab1, WB_REF:cgc467] synonym: "taxis in response to temperature stimulus" EXACT [] xref: Wikipedia:Thermotaxis is_a: GO:0009266 ! response to temperature stimulus is_a: GO:0042330 ! taxis [Term] id: GO:0043053 name: dauer entry namespace: biological_process def: "Entry into the facultative diapause of the dauer (enduring) larval stage of nematode development." [GOC:cab1, GOC:kmv, PMID:10077613] synonym: "nematode entry into dormancy" EXACT [] is_a: GO:0055115 ! entry into diapause relationship: part_of GO:0040024 ! dauer larval development [Term] id: GO:0043054 name: dauer exit namespace: biological_process def: "Exit from the facultative diapause of the dauer (enduring) larval stage of nematode development." [GOC:cab1, PMID:12620986] synonym: "exit from nematode dormancy" EXACT [] is_a: GO:0071981 ! exit from diapause relationship: part_of GO:0040024 ! dauer larval development [Term] id: GO:0043057 name: backward locomotion namespace: biological_process def: "Posterior movement of an organism, e.g. following the direction of the tail of an animal." [GOC:go_curators] is_a: GO:0033058 ! directional locomotion [Term] id: GO:0043058 name: regulation of backward locomotion namespace: biological_process def: "Any process that modulates the speed, mechanical force, or rhythm of the posterior movement of an organism." [GOC:go_curators] is_a: GO:0040012 ! regulation of locomotion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043057 ! backward locomotion relationship: regulates GO:0043057 ! backward locomotion [Term] id: GO:0043065 name: positive regulation of apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is positively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. subset: goslim_chembl synonym: "activation of apoptosis" NARROW [] synonym: "positive regulation of apoptosis" NARROW [] synonym: "pro-apoptosis" RELATED [] synonym: "stimulation of apoptosis" NARROW [] synonym: "up regulation of apoptosis" EXACT [] synonym: "up-regulation of apoptosis" EXACT [] synonym: "upregulation of apoptosis" EXACT [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0043068 ! positive regulation of programmed cell death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006915 ! apoptotic process relationship: positively_regulates GO:0006915 ! apoptotic process [Term] id: GO:0043066 name: negative regulation of apoptotic process namespace: biological_process alt_id: GO:0006916 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is negatively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. synonym: "anti-apoptosis" EXACT [] synonym: "apoptosis inhibitor activity" RELATED [] synonym: "down regulation of apoptosis" EXACT [] synonym: "down-regulation of apoptosis" EXACT [] synonym: "downregulation of apoptosis" EXACT [] synonym: "inhibition of apoptosis" NARROW [] synonym: "negative regulation of apoptosis" NARROW [] synonym: "pro-survival" RELATED [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0043069 ! negative regulation of programmed cell death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006915 ! apoptotic process relationship: negatively_regulates GO:0006915 ! apoptotic process [Term] id: GO:0043067 name: regulation of programmed cell death namespace: biological_process alt_id: GO:0043070 def: "Any process that modulates the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "regulation of non-apoptotic programmed cell death" NARROW [] is_a: GO:0010941 ! regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0012501 ! programmed cell death relationship: regulates GO:0012501 ! programmed cell death [Term] id: GO:0043068 name: positive regulation of programmed cell death namespace: biological_process alt_id: GO:0043071 def: "Any process that activates or increases the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "activation of programmed cell death" NARROW [] synonym: "positive regulation of non-apoptotic programmed cell death" NARROW [] synonym: "stimulation of programmed cell death" NARROW [] synonym: "up regulation of programmed cell death" EXACT [] synonym: "up-regulation of programmed cell death" EXACT [] synonym: "upregulation of programmed cell death" EXACT [] is_a: GO:0010942 ! positive regulation of cell death is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0012501 ! programmed cell death relationship: positively_regulates GO:0012501 ! programmed cell death [Term] id: GO:0043069 name: negative regulation of programmed cell death namespace: biological_process alt_id: GO:0043072 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "down regulation of programmed cell death" EXACT [] synonym: "down-regulation of programmed cell death" EXACT [] synonym: "downregulation of programmed cell death" EXACT [] synonym: "inhibition of programmed cell death" NARROW [] synonym: "negative regulation of non-apoptotic programmed cell death" NARROW [] is_a: GO:0043067 ! regulation of programmed cell death is_a: GO:0060548 ! negative regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0012501 ! programmed cell death relationship: negatively_regulates GO:0012501 ! programmed cell death [Term] id: GO:0043085 name: positive regulation of catalytic activity namespace: biological_process alt_id: GO:0048554 def: "Any process that activates or increases the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] subset: goslim_chembl synonym: "activation of enzyme activity" NARROW [] synonym: "activation of metalloenzyme activity" NARROW [] synonym: "positive regulation of enzyme activity" EXACT [GOC:tb] synonym: "positive regulation of metalloenzyme activity" NARROW [] synonym: "stimulation of enzyme activity" NARROW [] synonym: "stimulation of metalloenzyme activity" NARROW [] synonym: "up regulation of enzyme activity" EXACT [] synonym: "up regulation of metalloenzyme activity" NARROW [] synonym: "up-regulation of enzyme activity" EXACT [] synonym: "up-regulation of metalloenzyme activity" NARROW [] synonym: "upregulation of enzyme activity" EXACT [] synonym: "upregulation of metalloenzyme activity" NARROW [] xref: MIPS_funcat:18.02.01.01 is_a: GO:0044093 ! positive regulation of molecular function is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0003824 ! catalytic activity relationship: positively_regulates GO:0003824 ! catalytic activity [Term] id: GO:0043086 name: negative regulation of catalytic activity namespace: biological_process alt_id: GO:0048553 def: "Any process that stops or reduces the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] synonym: "down regulation of enzyme activity" EXACT [] synonym: "down regulation of metalloenzyme activity" NARROW [] synonym: "down-regulation of enzyme activity" EXACT [] synonym: "down-regulation of metalloenzyme activity" EXACT [] synonym: "downregulation of enzyme activity" EXACT [] synonym: "downregulation of metalloenzyme activity" NARROW [] synonym: "inhibition of enzyme activity" NARROW [] synonym: "inhibition of metalloenzyme activity" NARROW [] synonym: "negative regulation of enzyme activity" EXACT [GOC:tb] synonym: "negative regulation of metalloenzyme activity" NARROW [] is_a: GO:0044092 ! negative regulation of molecular function is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0003824 ! catalytic activity relationship: negatively_regulates GO:0003824 ! catalytic activity [Term] id: GO:0043143 name: regulation of translation by machinery localization namespace: biological_process def: "Any process in which proteins and protein complexes involved in translation are transported to, or maintained in, a specific location." [GOC:jl] synonym: "establishment and maintenance of translational machinery localization" EXACT [] synonym: "establishment and maintenance of translational protein localization" EXACT [] synonym: "regulation of translation by machinery localisation" EXACT [GOC:mah] synonym: "translational machinery localization" EXACT [GOC:dph, GOC:tb] synonym: "translational protein localization" EXACT [] is_a: GO:0006417 ! regulation of translation is_a: GO:0034613 ! cellular protein localization intersection_of: GO:0008104 ! protein localization intersection_of: part_of GO:0006412 ! translation relationship: part_of GO:0006412 ! translation [Term] id: GO:0043170 name: macromolecule metabolic process namespace: biological_process alt_id: GO:0043283 alt_id: GO:0044259 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah] subset: goslim_pir synonym: "biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule metabolism" EXACT [] synonym: "multicellular organismal macromolecule metabolic process" NARROW [] synonym: "organismal macromolecule metabolism" EXACT [] is_a: GO:0071704 ! organic substance metabolic process [Term] id: GO:0043186 name: P granule namespace: cellular_component alt_id: GO:0018994 def: "A small cytoplasmic, non-membranous RNA/protein complex aggregates in the primordial germ cells of many higher eukaryotes." [GOC:dph, GOC:kmv, PMID:11262230] synonym: "germline granule" EXACT [] synonym: "nuage" BROAD [] synonym: "polar granule" EXACT [] is_a: GO:0036464 ! cytoplasmic ribonucleoprotein granule relationship: part_of GO:0060293 ! germ plasm [Term] id: GO:0043226 name: organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_chembl subset: goslim_generic subset: goslim_pir xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0005575 ! cellular_component [Term] id: GO:0043227 name: membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] synonym: "membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao414196390 is_a: GO:0043226 ! organelle [Term] id: GO:0043228 name: non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] synonym: "non-membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao1456184038 is_a: GO:0043226 ! organelle [Term] id: GO:0043229 name: intracellular organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir is_a: GO:0043226 ! organelle is_a: GO:0044424 ! intracellular part intersection_of: GO:0043226 ! organelle intersection_of: part_of GO:0005622 ! intracellular [Term] id: GO:0043230 name: extracellular organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, occurring outside the cell. Includes, for example, extracellular membrane vesicles (EMVs) and the cellulosomes of anaerobic bacteria and fungi." [GOC:jl, PMID:9914479] subset: goslim_pir is_a: GO:0043226 ! organelle is_a: GO:0044421 ! extracellular region part intersection_of: GO:0043226 ! organelle intersection_of: part_of GO:0005576 ! extracellular region [Term] id: GO:0043231 name: intracellular membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir synonym: "intracellular membrane-enclosed organelle" EXACT [] is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle [Term] id: GO:0043232 name: intracellular non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] subset: goslim_mouse subset: goslim_pir synonym: "intracellular non-membrane-enclosed organelle" EXACT [] is_a: GO:0043228 ! non-membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle intersection_of: GO:0043228 ! non-membrane-bounded organelle intersection_of: part_of GO:0005622 ! intracellular [Term] id: GO:0043233 name: organelle lumen namespace: cellular_component def: "The internal volume enclosed by the membranes of a particular organelle; includes the volume enclosed by a single organelle membrane, e.g. endoplasmic reticulum lumen, or the volume enclosed by the innermost of the two lipid bilayers of an organelle envelope, e.g. nuclear lumen." [GOC:jl, GOC:mah] is_a: GO:0031974 ! membrane-enclosed lumen is_a: GO:0044422 ! organelle part intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0043226 ! organelle [Term] id: GO:0043242 name: negative regulation of protein complex disassembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] synonym: "down regulation of protein complex disassembly" EXACT [] synonym: "down-regulation of protein complex disassembly" EXACT [] synonym: "downregulation of protein complex disassembly" EXACT [] synonym: "inhibition of protein complex disassembly" NARROW [] is_a: GO:0043244 ! regulation of protein complex disassembly is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032984 ! protein-containing complex disassembly relationship: negatively_regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043243 name: positive regulation of protein complex disassembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] synonym: "activation of protein complex disassembly" NARROW [] synonym: "stimulation of protein complex disassembly" NARROW [] synonym: "up regulation of protein complex disassembly" EXACT [] synonym: "up-regulation of protein complex disassembly" EXACT [] synonym: "upregulation of protein complex disassembly" EXACT [] is_a: GO:0043244 ! regulation of protein complex disassembly is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032984 ! protein-containing complex disassembly relationship: positively_regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043244 name: regulation of protein complex disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032984 ! protein-containing complex disassembly relationship: regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043254 name: regulation of protein complex assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein complex assembly." [GOC:jl] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0065003 ! protein-containing complex assembly relationship: regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0043277 name: apoptotic cell clearance namespace: biological_process def: "The recognition and removal of an apoptotic cell by a neighboring cell or by a phagocyte." [GOC:rk, PMID:14685684] comment: Note that unlike mammals or Drosophila, C. elegans (and many lower organisms) do not have professional macrophages/phagocytes, instead cell corpses are engulfed by neighboring cells. Cell types that can function as engulfing cells include hypodermal cells, gonadal sheath cells, pharyngeal muscle cells, and intestinal cells. synonym: "apoptotic cell removal" EXACT [] synonym: "efferocytosis" EXACT [PMID:17548650] synonym: "programmed cell clearance" EXACT [] is_a: GO:0006909 ! phagocytosis [Term] id: GO:0043292 name: contractile fiber namespace: cellular_component def: "Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:go_curators, ISBN:0815316194] synonym: "contractile fibre" EXACT [] synonym: "muscle fiber" BROAD [] synonym: "muscle fibre" BROAD [] is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0044444 ! cytoplasmic part is_a: GO:0099512 ! supramolecular fiber [Term] id: GO:0043296 name: apical junction complex namespace: cellular_component def: "A functional unit located near the cell apex at the points of contact between epithelial cells, which in vertebrates is composed of the tight junction, the zonula adherens, and desmosomes and in some invertebrates, such as Drosophila, is composed of the subapical complex (SAC), the zonula adherens and the septate junction. Functions in the regulation of cell polarity, tissue integrity and intercellular adhesion and permeability." [GOC:go_curators, GOC:kmv, PMID:12525486, PMID:15196556] synonym: "apical cell junction complex" EXACT [GOC:mah] synonym: "apical junction" EXACT [] is_a: GO:0005911 ! cell-cell junction [Term] id: GO:0043388 name: positive regulation of DNA binding namespace: biological_process def: "Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb] synonym: "activation of DNA binding" NARROW [] synonym: "stimulation of DNA binding" NARROW [] synonym: "up regulation of DNA binding" EXACT [] synonym: "up-regulation of DNA binding" EXACT [] synonym: "upregulation of DNA binding" EXACT [] is_a: GO:0051099 ! positive regulation of binding is_a: GO:0051101 ! regulation of DNA binding intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0003677 ! DNA binding relationship: positively_regulates GO:0003677 ! DNA binding [Term] id: GO:0043392 name: negative regulation of DNA binding namespace: biological_process def: "Any process that stops or reduces the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb] synonym: "down regulation of DNA binding" EXACT [] synonym: "down-regulation of DNA binding" EXACT [] synonym: "downregulation of DNA binding" EXACT [] synonym: "inhibition of DNA binding" NARROW [] is_a: GO:0051100 ! negative regulation of binding is_a: GO:0051101 ! regulation of DNA binding intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0003677 ! DNA binding relationship: negatively_regulates GO:0003677 ! DNA binding [Term] id: GO:0043393 name: regulation of protein binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein binding." [GOC:go_curators] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0005515 ! protein binding relationship: regulates GO:0005515 ! protein binding [Term] id: GO:0043412 name: macromolecule modification namespace: biological_process def: "The covalent alteration of one or more monomeric units in a polypeptide, polynucleotide, polysaccharide, or other biological macromolecule, resulting in a change in its properties." [GOC:go_curators] subset: goslim_pir is_a: GO:0043170 ! macromolecule metabolic process [Term] id: GO:0043414 name: macromolecule methylation namespace: biological_process def: "The covalent attachment of a methyl residue to one or more monomeric units in a polypeptide, polynucleotide, polysaccharide, or other biological macromolecule." [GOC:go_curators] is_a: GO:0032259 ! methylation is_a: GO:0043412 ! macromolecule modification is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0043455 name: regulation of secondary metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of secondary metabolism, the chemical reactions and pathways involving compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon." [GOC:jl] synonym: "regulation of secondary metabolism" EXACT [] xref: MIPS_funcat:01.20.70 is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0019748 ! secondary metabolic process relationship: regulates GO:0019748 ! secondary metabolic process [Term] id: GO:0043473 name: pigmentation namespace: biological_process def: "The accumulation of pigment in an organism, tissue or cell, either by increased deposition or by increased number of cells." [GOC:jl] subset: goslim_chembl subset: goslim_generic subset: goslim_pir is_a: GO:0008150 ! biological_process [Term] id: GO:0043484 name: regulation of RNA splicing namespace: biological_process def: "Any process that modulates the frequency, rate or extent of RNA splicing, the process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA." [GOC:jl] xref: MIPS_funcat:11.04.03.01.10 is_a: GO:0010468 ! regulation of gene expression is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008380 ! RNA splicing relationship: regulates GO:0008380 ! RNA splicing [Term] id: GO:0043523 name: regulation of neuron apoptotic process namespace: biological_process def: "Any process that modulates the occurrence or rate of cell death by apoptotic process in neurons." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "regulation of apoptosis of neuronal cells" EXACT [] synonym: "regulation of apoptosis of neurons" EXACT [] synonym: "regulation of neuron apoptosis" NARROW [] synonym: "regulation of neuron programmed cell death" EXACT [] synonym: "regulation of neuronal cell programmed cell death" EXACT [] synonym: "regulation of programmed cell death of neuronal cells" EXACT [] synonym: "regulation of programmed cell death, neurons" EXACT [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051402 ! neuron apoptotic process relationship: regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043524 name: negative regulation of neuron apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "down regulation of neuron apoptosis" EXACT [] synonym: "down-regulation of neuron apoptosis" EXACT [] synonym: "downregulation of neuron apoptosis" EXACT [] synonym: "inhibition of neuron apoptosis" NARROW [] synonym: "negative regulation of neuron apoptosis" NARROW [] synonym: "negative regulation of programmed cell death, neurons" EXACT [] synonym: "neuron survival" NARROW [] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:0043523 ! regulation of neuron apoptotic process is_a: GO:1901215 ! negative regulation of neuron death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051402 ! neuron apoptotic process relationship: negatively_regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043525 name: positive regulation of neuron apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell death of neurons by apoptotic process." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "activation of neuron apoptosis" NARROW [] synonym: "positive regulation of neuron apoptosis" NARROW [] synonym: "positive regulation of programmed cell death, neurons" EXACT [] synonym: "stimulation of neuron apoptosis" NARROW [] synonym: "up regulation of neuron apoptosis" EXACT [] synonym: "up-regulation of neuron apoptosis" EXACT [] synonym: "upregulation of neuron apoptosis" EXACT [] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:0043523 ! regulation of neuron apoptotic process is_a: GO:1901216 ! positive regulation of neuron death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051402 ! neuron apoptotic process relationship: positively_regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043549 name: regulation of kinase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:bf] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016301 ! kinase activity relationship: regulates GO:0016301 ! kinase activity [Term] id: GO:0043603 name: cellular amide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group, as carried out by individual cells." [CHEBI:32988] subset: goslim_pir synonym: "amide metabolism" EXACT [] is_a: GO:0034641 ! cellular nitrogen compound metabolic process [Term] id: GO:0043604 name: amide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [CHEBI:32988] is_a: GO:0043603 ! cellular amide metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process [Term] id: GO:0043624 name: cellular protein complex disassembly namespace: biological_process def: "The disaggregation of a protein complex into its constituent components, occurring at the level of an individual cell. Protein complexes may have other associated non-protein prosthetic groups, such as nucleic acids, metal ions or carbohydrate groups." [GOC:jl] is_a: GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043652 name: engulfment of apoptotic cell namespace: biological_process def: "The removal of the apoptotic cell by phagocytosis, by a neighboring cell or by a phagocyte." [GOC:rk, PMID:15536015] comment: This term should be used to annotate gene products from the engulfing cell that facilitate phagocytosis of apoptotic cells. It should not be mistaken with GO:0070782 'phosphatidylserine exposure on apoptotic cell surface', a process occurring in apoptotic cells that acts as a signal for engulfing cells. If gene products involved in such instances of phosphatidylserine exposure are shown to have a positive effect on engulfment, they may be annotated to GO:1901076 'positive regulation of engulfment of apoptotic cell'. synonym: "engulfment of apoptotic cell corpse" EXACT [] synonym: "engulfment of cell corpse" EXACT [] is_a: GO:0006911 ! phagocytosis, engulfment relationship: part_of GO:0043277 ! apoptotic cell clearance [Term] id: GO:0043900 name: regulation of multi-organism process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a multi-organism process, a process in which an organism has an effect on another organism of the same or different species." [GOC:jl] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051704 ! multi-organism process relationship: regulates GO:0051704 ! multi-organism process [Term] id: GO:0043901 name: negative regulation of multi-organism process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a multi-organism process, a process in which an organism has an effect on another organism of the same or different species." [GOC:jl] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051704 ! multi-organism process relationship: negatively_regulates GO:0051704 ! multi-organism process [Term] id: GO:0043902 name: positive regulation of multi-organism process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a multi-organism process, a process in which an organism has an effect on another organism of the same or different species." [GOC:jl] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051704 ! multi-organism process relationship: positively_regulates GO:0051704 ! multi-organism process [Term] id: GO:0043933 name: protein-containing complex subunit organization namespace: biological_process alt_id: GO:0034600 alt_id: GO:0034621 alt_id: GO:0071822 def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein complex." [GOC:mah] synonym: "cellular macromolecular complex organization" RELATED [] synonym: "cellular macromolecular complex subunit organisation" RELATED [GOC:curators] synonym: "cellular macromolecular complex subunit organization" RELATED [] synonym: "macromolecular complex organization" RELATED [] synonym: "macromolecular complex subunit organisation" RELATED [GOC:curators] synonym: "macromolecular complex subunit organization" RELATED [] synonym: "protein complex subunit organisation" EXACT [GOC:mah] synonym: "protein complex subunit organization" EXACT [] is_a: GO:0016043 ! cellular component organization created_by: midori creation_date: 2010-09-08T10:01:42Z [Term] id: GO:0044057 name: regulation of system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a system process, a multicellular organismal process carried out by any of the organs or tissues in an organ system." [GOC:jl] is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0003008 ! system process relationship: regulates GO:0003008 ! system process [Term] id: GO:0044062 name: regulation of excretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of excretion, the elimination by an organism of the waste products that arise as a result of metabolic activity." [GOC:jl] is_a: GO:0044057 ! regulation of system process is_a: GO:0051046 ! regulation of secretion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007588 ! excretion relationship: regulates GO:0007588 ! excretion [Term] id: GO:0044085 name: cellular component biogenesis namespace: biological_process alt_id: GO:0071843 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component. Includes biosynthesis of constituent macromolecules, and those macromolecular modifications that are involved in synthesis or assembly of the cellular component." [GOC:jl, GOC:mah] subset: goslim_pir synonym: "cellular component biogenesis at cellular level" EXACT [] is_a: GO:0071840 ! cellular component organization or biogenesis [Term] id: GO:0044087 name: regulation of cellular component biogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular component biogenesis, a process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component." [GOC:jl] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044085 ! cellular component biogenesis relationship: regulates GO:0044085 ! cellular component biogenesis [Term] id: GO:0044088 name: regulation of vacuole organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a vacuole." [GOC:jl, GOC:mah] synonym: "regulation of vacuole biogenesis" RELATED [GOC:mah] synonym: "regulation of vacuole organisation" EXACT [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007033 ! vacuole organization relationship: regulates GO:0007033 ! vacuole organization [Term] id: GO:0044089 name: positive regulation of cellular component biogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cellular component biogenesis, a process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component." [GOC:jl] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044085 ! cellular component biogenesis relationship: positively_regulates GO:0044085 ! cellular component biogenesis [Term] id: GO:0044090 name: positive regulation of vacuole organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a vacuole." [GOC:jl, GOC:mah] synonym: "positive regulation of vacuole biogenesis" RELATED [GOC:mah] synonym: "positive regulation of vacuole organisation" EXACT [GOC:mah] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0044088 ! regulation of vacuole organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007033 ! vacuole organization relationship: positively_regulates GO:0007033 ! vacuole organization [Term] id: GO:0044092 name: negative regulation of molecular function namespace: biological_process def: "Any process that stops or reduces the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0003674 ! molecular_function relationship: negatively_regulates GO:0003674 ! molecular_function created_by: jane creation_date: 2009-04-21T04:07:27Z [Term] id: GO:0044093 name: positive regulation of molecular function namespace: biological_process def: "Any process that activates or increases the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0003674 ! molecular_function relationship: positively_regulates GO:0003674 ! molecular_function created_by: jane creation_date: 2009-04-21T04:11:06Z [Term] id: GO:0044106 name: cellular amine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group, as carried out by individual cells. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." [GOC:jl] is_a: GO:0009308 ! amine metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process created_by: jane creation_date: 2009-07-15T11:55:44Z [Term] id: GO:0044237 name: cellular metabolic process namespace: biological_process def: "The chemical reactions and pathways by which individual cells transform chemical substances." [GOC:go_curators] synonym: "cellular metabolism" EXACT [] synonym: "intermediary metabolism" RELATED [GOC:mah] is_a: GO:0008152 ! metabolic process is_a: GO:0009987 ! cellular process [Term] id: GO:0044238 name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: goslim_pir synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process [Term] id: GO:0044248 name: cellular catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of substances, carried out by individual cells." [GOC:jl] synonym: "cellular breakdown" EXACT [] synonym: "cellular catabolism" EXACT [] synonym: "cellular degradation" EXACT [] is_a: GO:0009056 ! catabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044257 name: cellular protein catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a protein by individual cells." [GOC:jl] synonym: "cellular protein breakdown" EXACT [] synonym: "cellular protein catabolism" EXACT [] synonym: "cellular protein degradation" EXACT [] is_a: GO:0030163 ! protein catabolic process is_a: GO:0044265 ! cellular macromolecule catabolic process is_a: GO:0044267 ! cellular protein metabolic process [Term] id: GO:0044260 name: cellular macromolecule metabolic process namespace: biological_process alt_id: GO:0034960 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells." [CHEBI:33694, GOC:mah] synonym: "cellular biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "cellular macromolecule metabolism" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044265 name: cellular macromolecule catabolic process namespace: biological_process alt_id: GO:0034962 def: "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells." [CHEBI:33694, GOC:jl] synonym: "cellular biopolymer catabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "cellular macromolecule breakdown" EXACT [] synonym: "cellular macromolecule catabolism" EXACT [] synonym: "cellular macromolecule degradation" EXACT [] is_a: GO:0009057 ! macromolecule catabolic process is_a: GO:0044248 ! cellular catabolic process is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0044267 name: cellular protein metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification." [GOC:jl] synonym: "cellular protein metabolism" EXACT [] is_a: GO:0019538 ! protein metabolic process is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0044270 name: cellular nitrogen compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of organic and inorganic nitrogenous compounds." [GOC:jl, ISBN:0198506732] synonym: "nitrogen compound breakdown" BROAD [] synonym: "nitrogen compound catabolism" BROAD [] synonym: "nitrogen compound degradation" BROAD [] xref: MIPS_funcat:01.02.01.09 is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0044248 ! cellular catabolic process [Term] id: GO:0044271 name: cellular nitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic and inorganic nitrogenous compounds." [GOC:jl, ISBN:0198506732] synonym: "nitrogen compound anabolism" BROAD [] synonym: "nitrogen compound biosynthesis" BROAD [] synonym: "nitrogen compound formation" BROAD [] synonym: "nitrogen compound synthesis" BROAD [] is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0044249 ! cellular biosynthetic process [Term] id: GO:0044281 name: small molecule metabolic process namespace: biological_process def: "The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics synonym: "small molecule metabolism" EXACT [] is_a: GO:0008152 ! metabolic process created_by: jane creation_date: 2010-01-26T12:05:20Z [Term] id: GO:0044420 name: extracellular matrix component namespace: cellular_component def: "Any constituent part of the extracellular matrix, the structure lying external to one or more cells, which provides structural support for cells or tissues; may be completely external to the cell (as in animals) or be part of the cell (as often seen in plants)." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "extracellular matrix part" EXACT [] is_a: GO:0044421 ! extracellular region part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0031012 ! extracellular matrix relationship: part_of GO:0031012 ! extracellular matrix [Term] id: GO:0044421 name: extracellular region part namespace: cellular_component def: "Any constituent part of the extracellular region, the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers constituent parts of the host cell environment outside an intracellular parasite." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "extracellular structure" RELATED [NIF_Subcellular:sao9117790637] xref: NIF_Subcellular:sao9117790637 is_a: GO:0005575 ! cellular_component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005576 ! extracellular region relationship: part_of GO:0005576 ! extracellular region [Term] id: GO:0044422 name: organelle part namespace: cellular_component def: "Any constituent part of an organelle, an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, but excludes the plasma membrane." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0005575 ! cellular_component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0043226 ! organelle relationship: part_of GO:0043226 ! organelle [Term] id: GO:0044424 name: intracellular part namespace: cellular_component def: "Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044464 ! cell part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005622 ! intracellular relationship: part_of GO:0005622 ! intracellular [Term] id: GO:0044425 name: membrane part namespace: cellular_component def: "Any constituent part of a membrane, a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0005575 ! cellular_component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0016020 ! membrane relationship: part_of GO:0016020 ! membrane [Term] id: GO:0044427 name: chromosomal part namespace: cellular_component def: "Any constituent part of a chromosome, a structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "chromosomal component" EXACT [] synonym: "chromosome component" EXACT [] synonym: "chromosome part" EXACT [] is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005694 ! chromosome relationship: part_of GO:0005694 ! chromosome [Term] id: GO:0044428 name: nuclear part namespace: cellular_component def: "Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "nuclear subcomponent" EXACT [NIF_Subcellular:sao1499850686] synonym: "nucleus component" EXACT [] xref: NIF_Subcellular:sao1499850686 is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0005634 ! nucleus [Term] id: GO:0044429 name: mitochondrial part namespace: cellular_component def: "Any constituent part of a mitochondrion, a semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "mitochondrial subcomponent" EXACT [NIF_Subcellular:sao666410040] synonym: "mitochondrion component" EXACT [] xref: NIF_Subcellular:sao666410040 is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005739 ! mitochondrion relationship: part_of GO:0005739 ! mitochondrion [Term] id: GO:0044430 name: cytoskeletal part namespace: cellular_component def: "Any constituent part of the cytoskeleton, a cellular scaffolding or skeleton that maintains cell shape, enables some cell motion (using structures such as flagella and cilia), and plays important roles in both intra-cellular transport (e.g. the movement of vesicles and organelles) and cellular division. Includes constituent parts of intermediate filaments, microfilaments, microtubules, and the microtrabecular lattice." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "cytoskeletal element" EXACT [NIF_Subcellular:sao1635329413] synonym: "cytoskeleton component" EXACT [] xref: NIF_Subcellular:sao1635329413 is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005856 ! cytoskeleton relationship: part_of GO:0005856 ! cytoskeleton [Term] id: GO:0044431 name: Golgi apparatus part namespace: cellular_component def: "Any constituent part of the Golgi apparatus, a compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "Golgi component" EXACT [] synonym: "Golgi subcomponent" EXACT [NIF_Subcellular:sao624292949] xref: NIF_Subcellular:sao624292949 is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005794 ! Golgi apparatus relationship: part_of GO:0005794 ! Golgi apparatus [Term] id: GO:0044432 name: endoplasmic reticulum part namespace: cellular_component def: "Any constituent part of the endoplasmic reticulum, the irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "ER component" EXACT [] is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005783 ! endoplasmic reticulum relationship: part_of GO:0005783 ! endoplasmic reticulum [Term] id: GO:0044433 name: cytoplasmic vesicle part namespace: cellular_component def: "Any constituent part of cytoplasmic vesicle, a vesicle formed of membrane or protein, found in the cytoplasm of a cell." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0031410 ! cytoplasmic vesicle relationship: part_of GO:0031410 ! cytoplasmic vesicle [Term] id: GO:0044437 name: vacuolar part namespace: cellular_component def: "Any constituent part of a vacuole, a closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "vacuole component" EXACT [] is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005773 ! vacuole relationship: part_of GO:0005773 ! vacuole [Term] id: GO:0044438 name: microbody part namespace: cellular_component def: "Any constituent part of a microbody, a cytoplasmic organelle, spherical or oval in shape, that is bounded by a single membrane and contains oxidative enzymes, especially those utilizing hydrogen peroxide (H2O2)." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044446 ! intracellular organelle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0042579 ! microbody relationship: part_of GO:0042579 ! microbody [Term] id: GO:0044439 name: peroxisomal part namespace: cellular_component def: "Any constituent part of a peroxisome, a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules; contains some enzymes that produce and others that degrade hydrogen peroxide (H2O2)." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "peroxisome component" EXACT [] is_a: GO:0044438 ! microbody part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005777 ! peroxisome relationship: part_of GO:0005777 ! peroxisome [Term] id: GO:0044440 name: endosomal part namespace: cellular_component def: "Any constituent part of an endosome, a membrane-bounded organelle to which materials ingested by endocytosis are delivered." [GOC:mah, PMID:19696797] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "endosomal subcomponent" EXACT [NIF_Subcellular:sao1683772610] synonym: "endosome component" EXACT [] xref: NIF_Subcellular:sao1683772610 is_a: GO:0044433 ! cytoplasmic vesicle part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005768 ! endosome relationship: part_of GO:0005768 ! endosome [Term] id: GO:0044441 name: ciliary part namespace: cellular_component alt_id: GO:0044442 def: "Any constituent part of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:cilia, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. Also note that cilia and eukaryotic flagella are deemed to be equivalent. subset: gocheck_do_not_annotate synonym: "cilial part" EXACT [] synonym: "cilium part" EXACT [] synonym: "flagellar part" NARROW [] synonym: "flagellum component" NARROW [] synonym: "flagellum part" NARROW [] synonym: "microtubule-based flagellum part" EXACT [] is_a: GO:0044422 ! organelle part is_a: GO:0120038 ! plasma membrane bounded cell projection part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005929 ! cilium relationship: part_of GO:0005929 ! cilium [Term] id: GO:0044444 name: cytoplasmic part namespace: cellular_component def: "Any constituent part of the cytoplasm, all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "cytoplasm component" EXACT [] is_a: GO:0044424 ! intracellular part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0044445 name: cytosolic part namespace: cellular_component def: "Any constituent part of cytosol, that part of the cytoplasm that does not contain membranous or particulate subcellular components." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "cytosol component" EXACT [] is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005829 ! cytosol relationship: part_of GO:0005829 ! cytosol [Term] id: GO:0044446 name: intracellular organelle part namespace: cellular_component def: "A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044422 ! organelle part is_a: GO:0044424 ! intracellular part relationship: part_of GO:0043229 ! intracellular organelle [Term] id: GO:0044447 name: axoneme part namespace: cellular_component def: "Any constituent part of an axoneme, the bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements." [GOC:cilia, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. Also note that cilia and eukaryotic flagella are deemed to be equivalent. subset: gocheck_do_not_annotate synonym: "axonemal part" EXACT [] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044441 ! ciliary part is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005930 ! axoneme relationship: part_of GO:0005930 ! axoneme [Term] id: GO:0044449 name: contractile fiber part namespace: cellular_component def: "Any constituent part of a contractile fiber, a fiber composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "contractile fibre component" EXACT [] synonym: "muscle fiber component" BROAD [] synonym: "muscle fibre component" BROAD [] is_a: GO:0044422 ! organelle part is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0043292 ! contractile fiber relationship: part_of GO:0043292 ! contractile fiber [Term] id: GO:0044452 name: nucleolar part namespace: cellular_component def: "Any constituent part of a nucleolus, a small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "nucleolus component" EXACT [] is_a: GO:0044428 ! nuclear part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005730 ! nucleolus relationship: part_of GO:0005730 ! nucleolus [Term] id: GO:0044453 name: nuclear membrane part namespace: cellular_component def: "Any constituent part of the nuclear membrane, the envelope that surrounds the nucleus of eukaryotic cells." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044425 ! membrane part is_a: GO:0044428 ! nuclear part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0031965 ! nuclear membrane relationship: part_of GO:0031965 ! nuclear membrane [Term] id: GO:0044454 name: nuclear chromosome part namespace: cellular_component def: "Any constituent part of a nuclear chromosome, a chromosome that encodes the nuclear genome and is found in the nucleus of a eukaryotic cell during the cell cycle phases when the nucleus is intact." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044427 ! chromosomal part is_a: GO:0044428 ! nuclear part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0000228 ! nuclear chromosome relationship: part_of GO:0000228 ! nuclear chromosome [Term] id: GO:0044456 name: synapse part namespace: cellular_component def: "Any constituent part of a synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate synonym: "synaptic component" RELATED [NIF_Subcellular:sao1784069613] xref: NIF_Subcellular:sao1784069613 is_a: CARO:0000014 ! cell part is_a: GO:0005575 ! cellular_component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0045202 ! synapse relationship: part_of GO:0045202 ! synapse property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044459 name: plasma membrane part namespace: cellular_component def: "Any constituent part of the plasma membrane, the membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044425 ! membrane part is_a: GO:0044464 ! cell part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0005886 ! plasma membrane [Term] id: GO:0044463 name: cell projection part namespace: cellular_component def: "Any constituent part of a cell projection, a prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044464 ! cell part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0042995 ! cell projection relationship: part_of GO:0042995 ! cell projection [Term] id: GO:0044464 name: cell part namespace: cellular_component def: "Any constituent part of a cell, the basic structural and functional unit of all organisms." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cellular subcomponent" EXACT [NIF_Subcellular:sao628508602] synonym: "protoplast" RELATED [GOC:mah] xref: NIF_Subcellular:sao628508602 is_a: CARO:0000014 ! cell part is_a: GO:0005575 ! cellular_component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0005623 ! cell relationship: part_of GO:0005623 ! cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044703 name: multi-organism reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals, involving another organism." [GOC:jl] is_a: GO:0022414 ! reproductive process is_a: GO:0051704 ! multi-organism process created_by: janelomax creation_date: 2012-09-19T15:56:30Z [Term] id: GO:0044706 name: multi-multicellular organism process namespace: biological_process def: "A multicellular organism process which involves another multicellular organism of the same or different species." [GOC:jl] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0051704 ! multi-organism process created_by: janelomax creation_date: 2012-09-19T16:06:16Z [Term] id: GO:0044770 name: cell cycle phase transition namespace: biological_process def: "The cell cycle process by which a cell commits to entering the next cell cycle phase." [GOC:mtg_cell_cycle] synonym: "cell cycle transition" EXACT [] is_a: GO:0022402 ! cell cycle process created_by: janelomax creation_date: 2013-02-28T12:54:59Z [Term] id: GO:0044771 name: meiotic cell cycle phase transition namespace: biological_process def: "The cell cycle process by which a cell commits to entering the next meiotic cell cycle phase." [GOC:mtg_cell_cycle] synonym: "cell cycle transition" BROAD [] is_a: GO:0044770 ! cell cycle phase transition is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0044770 ! cell cycle phase transition intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: janelomax creation_date: 2013-02-28T13:08:17Z [Term] id: GO:0044772 name: mitotic cell cycle phase transition namespace: biological_process def: "The cell cycle process by which a cell commits to entering the next mitotic cell cycle phase." [GOC:mtg_cell_cycle] is_a: GO:0044770 ! cell cycle phase transition is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0044770 ! cell cycle phase transition intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: janelomax creation_date: 2013-02-28T13:09:33Z [Term] id: GO:0044773 name: mitotic DNA damage checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that detects and negatively regulates progression through the cell cycle in response to DNA damage." [GOC:mtg_cell_cycle] is_a: GO:0000077 ! DNA damage checkpoint is_a: GO:0044774 ! mitotic DNA integrity checkpoint intersection_of: GO:0000077 ! DNA damage checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: janelomax creation_date: 2013-02-28T15:55:25Z [Term] id: GO:0044774 name: mitotic DNA integrity checkpoint namespace: biological_process alt_id: GO:0070683 def: "A mitotic cell cycle process that controls cell cycle progression in response to changes in DNA structure by monitoring the integrity of the DNA. The DNA integrity checkpoint begins with detection of DNA damage, defects in DNA structure or DNA replication, and ends with signal transduction." [GOC:mtg_cell_cycle] synonym: "mitotic cell cycle G2/M transition decatenation checkpoint" EXACT [] synonym: "topo II checkpoint" EXACT [GOC:jp] synonym: "topoisomerase II checkpoint" EXACT [GOC:jp] is_a: GO:0007093 ! mitotic cell cycle checkpoint is_a: GO:0031570 ! DNA integrity checkpoint intersection_of: GO:0031570 ! DNA integrity checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: janelomax creation_date: 2013-02-28T16:07:26Z [Term] id: GO:0044778 name: meiotic DNA integrity checkpoint namespace: biological_process def: "A meiotic cell cycle process that controls cell cycle progression in response to changes in DNA structure by monitoring the integrity of the DNA. The DNA integrity checkpoint begins with detection of DNA damage, defects in DNA structure or DNA replication, and ends with signal transduction." [GOC:mtg_cell_cycle] is_a: GO:0031570 ! DNA integrity checkpoint is_a: GO:0033313 ! meiotic cell cycle checkpoint intersection_of: GO:0031570 ! DNA integrity checkpoint intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: janelomax creation_date: 2013-03-20T16:46:06Z [Term] id: GO:0044779 name: meiotic spindle checkpoint namespace: biological_process def: "A cell cycle checkpoint that delays the metaphase/anaphase transition of a meiotic nuclear division until the spindle is correctly assembled and that the chromosomes are attached to the spindle." [GOC:mtg_cell_cycle] is_a: GO:0031577 ! spindle checkpoint is_a: GO:0033313 ! meiotic cell cycle checkpoint is_a: GO:1902103 ! negative regulation of metaphase/anaphase transition of meiotic cell cycle intersection_of: GO:0031577 ! spindle checkpoint intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: janelomax creation_date: 2013-03-21T14:01:28Z [Term] id: GO:0044782 name: cilium organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:cilia, GOC:jl] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "microtubule-based flagellum organization" EXACT [] is_a: GO:0006996 ! organelle organization is_a: GO:0120036 ! plasma membrane bounded cell projection organization created_by: janelomax creation_date: 2013-03-27T15:09:58Z [Term] id: GO:0044783 name: G1 DNA damage checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects and negatively regulates progression from G1 to S phase in the cell cycle in response to DNA damage." [GOC:mtg_cell_cycle] synonym: "G1/S DNA damage checkpoint" EXACT [] is_a: GO:0000077 ! DNA damage checkpoint created_by: janelomax creation_date: 2013-05-02T12:52:39Z [Term] id: GO:0044784 name: metaphase/anaphase transition of cell cycle namespace: biological_process def: "The cell cycle process in which a cell progresses from metaphase to anaphase as part of the cell cycle." [GOC:mtg_cell_cycle] is_a: GO:0033045 ! regulation of sister chromatid segregation is_a: GO:0044770 ! cell cycle phase transition created_by: janelomax creation_date: 2013-05-02T13:09:34Z [Term] id: GO:0044785 name: metaphase/anaphase transition of meiotic cell cycle namespace: biological_process def: "The cell cycle process in which a cell progresses from metaphase to anaphase as part of meiosis." [GOC:mtg_cell_cycle] synonym: "meiotic metaphase/anaphase transition" EXACT [] is_a: GO:0044771 ! meiotic cell cycle phase transition is_a: GO:0044784 ! metaphase/anaphase transition of cell cycle intersection_of: GO:0044784 ! metaphase/anaphase transition of cell cycle intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: janelomax creation_date: 2013-05-02T13:11:28Z [Term] id: GO:0044786 name: cell cycle DNA replication namespace: biological_process def: "The DNA-dependent DNA replication that takes place as part of the cell cycle." [GOC:mtg_cell_cycle] is_a: GO:0006261 ! DNA-dependent DNA replication is_a: GO:0022402 ! cell cycle process intersection_of: GO:0006261 ! DNA-dependent DNA replication intersection_of: part_of GO:0007049 ! cell cycle created_by: janelomax creation_date: 2013-05-02T15:52:22Z [Term] id: GO:0044818 name: mitotic G2/M transition checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects and negatively regulates progression from G2 to M phase as part of a mitotic cell cycle." [GOC:mtg_cell_cycle] is_a: GO:0007093 ! mitotic cell cycle checkpoint is_a: GO:0010972 ! negative regulation of G2/M transition of mitotic cell cycle created_by: janelomax creation_date: 2013-11-19T14:20:00Z [Term] id: GO:0044819 name: mitotic G1/S transition checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects and negatively regulates progression from G1 to S phase as part of a mitotic cell cycle." [GOC:mtg_cell_cycle] is_a: GO:0007093 ! mitotic cell cycle checkpoint is_a: GO:2000134 ! negative regulation of G1/S transition of mitotic cell cycle created_by: janelomax creation_date: 2013-11-19T14:31:14Z [Term] id: GO:0044839 name: cell cycle G2/M phase transition namespace: biological_process def: "The cell cycle process by which a cell in G2 phase commits to M phase." [GOC:jl, GOC:mtg_cell_cycle] is_a: GO:0044770 ! cell cycle phase transition created_by: janelomax creation_date: 2014-03-05T14:56:45Z [Term] id: GO:0044840 name: gut granule namespace: cellular_component def: "A lysosome-related organelle contained within the intestinal cells of the nematode C. elegans. Gut granules are acidified, birefringent, autofluorescent, and contain the vacuolar H+-ATPase. They also serve as sites of cellular zinc storage." [GOC:kmv, PMID:22916203, PMID:24204312] is_a: GO:0031410 ! cytoplasmic vesicle created_by: janelomax creation_date: 2014-03-25T11:56:41Z [Term] id: GO:0044841 name: gut granule membrane namespace: cellular_component def: "The membrane of a gut granule, a lysosome-related organelle contained within the intestinal cells of the nematode C. elegans." [GOC:kmv, PMID:22916203, PMID:24204312] is_a: GO:0031090 ! organelle membrane is_a: GO:0044433 ! cytoplasmic vesicle part intersection_of: GO:0031090 ! organelle membrane intersection_of: part_of GO:0044840 ! gut granule relationship: part_of GO:0044840 ! gut granule created_by: janelomax creation_date: 2014-03-25T12:02:05Z [Term] id: GO:0044842 name: gut granule lumen namespace: cellular_component def: "The lumen of a gut granule, a lysosome-related organelle contained within the intestinal cells of the nematode C. elegans." [GOC:kmv, PMID:22916203, PMID:24204312] is_a: GO:0044433 ! cytoplasmic vesicle part is_a: GO:0070013 ! intracellular organelle lumen intersection_of: GO:0043233 ! organelle lumen intersection_of: part_of GO:0044840 ! gut granule relationship: part_of GO:0044840 ! gut granule created_by: janelomax creation_date: 2014-03-25T12:02:32Z [Term] id: GO:0044843 name: cell cycle G1/S phase transition namespace: biological_process def: "The cell cycle process by which a cell in G1 phase commits to S phase." [GOC:mtg_cell_cycle] is_a: GO:0044770 ! cell cycle phase transition created_by: janelomax creation_date: 2014-03-25T16:33:47Z [Term] id: GO:0044848 name: biological phase namespace: biological_process def: "A distinct period or stage in a biological process or cycle." [GOC:jl] comment: Note that phases are is_a disjoint from other biological processes. happens_during relationships can operate between phases and other biological processes e.g. DNA replication happens_during S phase. subset: gocheck_do_not_manually_annotate is_a: GO:0008150 ! biological_process disjoint_from: GO:0048511 ! rhythmic process disjoint_from: GO:0050896 ! response to stimulus disjoint_from: GO:0051179 ! localization disjoint_from: GO:0051704 ! multi-organism process disjoint_from: GO:0071840 ! cellular component organization or biogenesis created_by: janelomax creation_date: 2014-07-16T13:12:40Z [Term] id: GO:0045026 name: plasma membrane fusion namespace: biological_process alt_id: GO:0006947 def: "The joining of the lipid bilayer membrane that surround a cell with that of another cell, producing a single cell." [GOC:elh, GOC:mtg_muscle] synonym: "cell fusion" BROAD [] synonym: "cell-cell fusion" BROAD [] is_a: GO:0061025 ! membrane fusion [Term] id: GO:0045055 name: regulated exocytosis namespace: biological_process def: "A process of exocytosis in which soluble proteins and other substances are initially stored in secretory vesicles for later release. It is found mainly in cells that are specialized for secreting products such as hormones, neurotransmitters, or digestive enzymes rapidly on demand." [GOC:mah, ISBN:0716731363] synonym: "regulated secretory pathway" EXACT [] is_a: GO:0006887 ! exocytosis [Term] id: GO:0045120 name: pronucleus namespace: cellular_component def: "The nucleus of either the ovum or the spermatozoon following fertilization. Thus, in the fertilized ovum, there are two pronuclei, one originating from the ovum, the other from the spermatozoon that brought about fertilization; they approach each other, but do not fuse until just before the first cleavage, when each pronucleus loses its membrane to release its contents." [ISBN:0198506732] xref: Wikipedia:Pronucleus is_a: GO:0005634 ! nucleus [Term] id: GO:0045132 name: meiotic chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets during M phase of the meiotic cell cycle." [GOC:ai, GOC:mah] is_a: GO:0098813 ! nuclear chromosome segregation is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0140013 ! meiotic nuclear division relationship: part_of GO:0140013 ! meiotic nuclear division [Term] id: GO:0045137 name: development of primary sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary sexual characteristics over time, from their formation to the mature structures. The primary sexual characteristics are the testes in males and the ovaries in females and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0003006 ! developmental process involved in reproduction relationship: part_of GO:0007275 ! multicellular organism development relationship: part_of GO:0007548 ! sex differentiation [Term] id: GO:0045143 name: homologous chromosome segregation namespace: biological_process alt_id: GO:0007061 def: "The cell cycle process in which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the first division of the meiotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner; this pairing off, referred to as synapsis, permits genetic recombination. One homolog (both sister chromatids) of each morphologic type goes into each of the resulting chromosome sets." [GOC:ai, ISBN:0815316194] synonym: "meiosis I, chromosome segregation" EXACT [] is_a: GO:0045132 ! meiotic chromosome segregation intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0007127 ! meiosis I relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0045161 name: neuronal ion channel clustering namespace: biological_process def: "The process in which voltage-gated ion channels become localized to distinct subcellular domains in the neuron. Specific targeting, clustering, and maintenance of these channels in their respective domains are essential to achieve high conduction velocities of action potential propagation." [PMID:11456440] is_a: GO:0061024 ! membrane organization relationship: part_of GO:0042551 ! neuron maturation [Term] id: GO:0045165 name: cell fate commitment namespace: biological_process def: "The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." [ISBN:0716731185] comment: Note that this term was 'cell fate determination' but the term name was changed to better match its existing definition and the child term 'cell fate determination; GO:0001709' was also created. is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0030154 ! cell differentiation [Term] id: GO:0045168 name: cell-cell signaling involved in cell fate commitment namespace: biological_process def: "Signaling at long or short range between cells that results in the commitment of a cell to a certain fate." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "cell fate commitment, cell-cell signaling" EXACT [] synonym: "cell fate commitment, cell-cell signalling" EXACT [] synonym: "cell-cell signaling during in cell fate commitment" EXACT [] synonym: "cell-cell signaling resulting in cell fate commitment" EXACT [] synonym: "cell-cell signalling during cell fate commitment" EXACT [] synonym: "cell-cell signalling involved in cell fate specification" NARROW [GOC:dph, GOC:tb] synonym: "cell-cell signalling resulting in cell fate commitment" EXACT [] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: part_of GO:0045165 ! cell fate commitment relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0045182 name: translation regulator activity namespace: molecular_function def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai] subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir subset: goslim_plant synonym: "translation factor activity" EXACT [] is_a: GO:0003674 ! molecular_function intersection_of: GO:0003674 ! molecular_function intersection_of: part_of GO:0006417 ! regulation of translation relationship: part_of GO:0006417 ! regulation of translation [Term] id: GO:0045184 name: establishment of protein localization namespace: biological_process def: "The directed movement of a protein to a specific location." [GOC:bf] synonym: "establishment of protein localisation" EXACT [GOC:mah] synonym: "protein positioning" EXACT [] synonym: "protein recruitment" EXACT [] is_a: GO:0008104 ! protein localization is_a: GO:0051234 ! establishment of localization [Term] id: GO:0045185 name: maintenance of protein location namespace: biological_process def: "Any process in which a protein is maintained in a location and prevented from moving elsewhere. These include sequestration, stabilization to prevent transport elsewhere and the active retrieval of proteins that do move away." [GOC:bf] synonym: "active protein retrieval" NARROW [] synonym: "maintenance of protein localization" RELATED [GOC:dph, GOC:tb] synonym: "protein retention" NARROW [] synonym: "protein sequestering" NARROW [] is_a: GO:0051235 ! maintenance of location relationship: part_of GO:0008104 ! protein localization [Term] id: GO:0045202 name: synapse namespace: cellular_component def: "The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [ISBN:0198506732] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_synapse synonym: "electrotonic synapse" RELATED [NIF_Subcellular:sao1311109124] synonym: "mixed synapse" NARROW [NIF_Subcellular:sao1506103497] synonym: "synaptic junction" EXACT [] xref: NIF_Subcellular:sao914572699 xref: Wikipedia:Chemical_synapse is_a: CARO:0000014 ! cell part is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045495 name: pole plasm namespace: cellular_component def: "Differentiated cytoplasm associated with a pole (animal, vegetal, anterior, or posterior) of an oocyte, egg or early embryo." [GOC:kmv, PMID:17113380] synonym: "germ plasm" NARROW [] synonym: "polar plasm" EXACT [] is_a: GO:0005737 ! cytoplasm [Term] id: GO:0045595 name: regulation of cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell differentiation, the process in which relatively unspecialized cells acquire specialized structural and functional features." [GOC:go_curators] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030154 ! cell differentiation relationship: regulates GO:0030154 ! cell differentiation [Term] id: GO:0045596 name: negative regulation of cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell differentiation." [GOC:go_curators] synonym: "down regulation of cell differentiation" EXACT [] synonym: "down-regulation of cell differentiation" EXACT [] synonym: "downregulation of cell differentiation" EXACT [] synonym: "inhibition of cell differentiation" NARROW [] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030154 ! cell differentiation relationship: negatively_regulates GO:0030154 ! cell differentiation [Term] id: GO:0045597 name: positive regulation of cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell differentiation." [GOC:go_curators] synonym: "activation of cell differentiation" NARROW [] synonym: "stimulation of cell differentiation" NARROW [] synonym: "up regulation of cell differentiation" EXACT [] synonym: "up-regulation of cell differentiation" EXACT [] synonym: "upregulation of cell differentiation" EXACT [] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030154 ! cell differentiation relationship: positively_regulates GO:0030154 ! cell differentiation [Term] id: GO:0045664 name: regulation of neuron differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron differentiation." [GOC:go_curators] is_a: GO:0050767 ! regulation of neurogenesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030182 ! neuron differentiation relationship: regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045665 name: negative regulation of neuron differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neuron differentiation." [GOC:go_curators] synonym: "down regulation of neuron differentiation" EXACT [] synonym: "down-regulation of neuron differentiation" EXACT [] synonym: "downregulation of neuron differentiation" EXACT [] synonym: "inhibition of neuron differentiation" NARROW [] is_a: GO:0045664 ! regulation of neuron differentiation is_a: GO:0050768 ! negative regulation of neurogenesis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030182 ! neuron differentiation relationship: negatively_regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045666 name: positive regulation of neuron differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron differentiation." [GOC:go_curators] synonym: "activation of neuron differentiation" NARROW [] synonym: "stimulation of neuron differentiation" NARROW [] synonym: "up regulation of neuron differentiation" EXACT [] synonym: "up-regulation of neuron differentiation" EXACT [] synonym: "upregulation of neuron differentiation" EXACT [] is_a: GO:0045664 ! regulation of neuron differentiation is_a: GO:0050769 ! positive regulation of neurogenesis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030182 ! neuron differentiation relationship: positively_regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045700 name: regulation of spermatid nuclear differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of spermatid nuclear differentiation." [GOC:go_curators] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:0060284 ! regulation of cell development is_a: GO:1903353 ! regulation of nucleus organization is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007289 ! spermatid nucleus differentiation relationship: regulates GO:0007289 ! spermatid nucleus differentiation [Term] id: GO:0045701 name: negative regulation of spermatid nuclear differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of spermatid nuclear differentiation." [GOC:go_curators] synonym: "down regulation of spermatid nuclear differentiation" EXACT [] synonym: "down-regulation of spermatid nuclear differentiation" EXACT [] synonym: "downregulation of spermatid nuclear differentiation" EXACT [] synonym: "inhibition of spermatid nuclear differentiation" NARROW [] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0045700 ! regulation of spermatid nuclear differentiation is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007289 ! spermatid nucleus differentiation relationship: negatively_regulates GO:0007289 ! spermatid nucleus differentiation [Term] id: GO:0045702 name: positive regulation of spermatid nuclear differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of spermatid nuclear differentiation." [GOC:go_curators] synonym: "activation of spermatid nuclear differentiation" NARROW [] synonym: "stimulation of spermatid nuclear differentiation" NARROW [] synonym: "up regulation of spermatid nuclear differentiation" EXACT [] synonym: "up-regulation of spermatid nuclear differentiation" EXACT [] synonym: "upregulation of spermatid nuclear differentiation" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0045700 ! regulation of spermatid nuclear differentiation is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007289 ! spermatid nucleus differentiation relationship: positively_regulates GO:0007289 ! spermatid nucleus differentiation [Term] id: GO:0045727 name: positive regulation of translation namespace: biological_process alt_id: GO:0045946 def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "activation of protein biosynthetic process" NARROW [] synonym: "positive regulation of protein anabolism" EXACT [] synonym: "positive regulation of protein biosynthesis" EXACT [] synonym: "positive regulation of protein biosynthetic process" EXACT [GOC:tb] synonym: "positive regulation of protein formation" EXACT [] synonym: "positive regulation of protein synthesis" EXACT [] synonym: "stimulation of protein biosynthetic process" NARROW [] synonym: "up regulation of protein biosynthetic process" EXACT [] synonym: "up-regulation of protein biosynthetic process" EXACT [] synonym: "upregulation of protein biosynthetic process" EXACT [] is_a: GO:0006417 ! regulation of translation is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0032270 ! positive regulation of cellular protein metabolic process is_a: GO:0034250 ! positive regulation of cellular amide metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006412 ! translation relationship: positively_regulates GO:0006412 ! translation [Term] id: GO:0045732 name: positive regulation of protein catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." [GOC:go_curators] synonym: "activation of protein catabolic process" NARROW [] synonym: "positive regulation of protein breakdown" EXACT [] synonym: "positive regulation of protein catabolism" EXACT [] synonym: "positive regulation of protein degradation" EXACT [] synonym: "stimulation of protein catabolic process" NARROW [] synonym: "up regulation of protein catabolic process" EXACT [] synonym: "up-regulation of protein catabolic process" EXACT [] synonym: "upregulation of protein catabolic process" EXACT [] is_a: GO:0009896 ! positive regulation of catabolic process is_a: GO:0042176 ! regulation of protein catabolic process is_a: GO:0051247 ! positive regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030163 ! protein catabolic process relationship: positively_regulates GO:0030163 ! protein catabolic process [Term] id: GO:0045740 name: positive regulation of DNA replication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA replication." [GOC:go_curators] synonym: "activation of DNA replication" NARROW [] synonym: "stimulation of DNA replication" NARROW [] synonym: "up regulation of DNA replication" EXACT [] synonym: "up-regulation of DNA replication" EXACT [] synonym: "upregulation of DNA replication" EXACT [] is_a: GO:0006275 ! regulation of DNA replication is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006260 ! DNA replication relationship: positively_regulates GO:0006260 ! DNA replication [Term] id: GO:0045759 name: negative regulation of action potential namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:go_curators] synonym: "down regulation of action potential" EXACT [] synonym: "down-regulation of action potential" EXACT [] synonym: "downregulation of action potential" EXACT [] synonym: "inhibition of action potential" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0001508 ! action potential relationship: negatively_regulates GO:0001508 ! action potential [Term] id: GO:0045760 name: positive regulation of action potential namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:go_curators] synonym: "activation of action potential" NARROW [] synonym: "stimulation of action potential" NARROW [] synonym: "up regulation of action potential" EXACT [] synonym: "up-regulation of action potential" EXACT [] synonym: "upregulation of action potential" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0001508 ! action potential relationship: positively_regulates GO:0001508 ! action potential [Term] id: GO:0045769 name: negative regulation of asymmetric cell division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of asymmetric cell division." [GOC:go_curators] synonym: "down regulation of asymmetric cell division" EXACT [] synonym: "down-regulation of asymmetric cell division" EXACT [] synonym: "downregulation of asymmetric cell division" EXACT [] synonym: "inhibition of asymmetric cell division" NARROW [] is_a: GO:0009786 ! regulation of asymmetric cell division is_a: GO:0051782 ! negative regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008356 ! asymmetric cell division relationship: negatively_regulates GO:0008356 ! asymmetric cell division [Term] id: GO:0045770 name: positive regulation of asymmetric cell division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of asymmetric cell division." [GOC:go_curators] synonym: "activation of asymmetric cell division" NARROW [] synonym: "stimulation of asymmetric cell division" NARROW [] synonym: "up regulation of asymmetric cell division" EXACT [] synonym: "up-regulation of asymmetric cell division" EXACT [] synonym: "upregulation of asymmetric cell division" EXACT [] is_a: GO:0009786 ! regulation of asymmetric cell division is_a: GO:0051781 ! positive regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008356 ! asymmetric cell division relationship: positively_regulates GO:0008356 ! asymmetric cell division [Term] id: GO:0045773 name: positive regulation of axon extension namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of axon extension." [GOC:go_curators] synonym: "activation of axon extension" NARROW [] synonym: "stimulation of axon extension" NARROW [] synonym: "up regulation of axon extension" EXACT [] synonym: "up-regulation of axon extension" EXACT [] synonym: "upregulation of axon extension" EXACT [] is_a: GO:0030307 ! positive regulation of cell growth is_a: GO:0030516 ! regulation of axon extension is_a: GO:0048639 ! positive regulation of developmental growth is_a: GO:0050772 ! positive regulation of axonogenesis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048675 ! axon extension relationship: positively_regulates GO:0048675 ! axon extension [Term] id: GO:0045785 name: positive regulation of cell adhesion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell adhesion." [GOC:go_curators] synonym: "activation of cell adhesion" NARROW [] synonym: "stimulation of cell adhesion" NARROW [] synonym: "up regulation of cell adhesion" EXACT [] synonym: "up-regulation of cell adhesion" EXACT [] synonym: "upregulation of cell adhesion" EXACT [] is_a: GO:0030155 ! regulation of cell adhesion is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007155 ! cell adhesion relationship: positively_regulates GO:0007155 ! cell adhesion [Term] id: GO:0045786 name: negative regulation of cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of progression through the cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of progression through cell cycle" EXACT [] synonym: "down-regulation of progression through cell cycle" EXACT [] synonym: "downregulation of progression through cell cycle" EXACT [] synonym: "inhibition of progression through cell cycle" NARROW [] synonym: "negative regulation of cell cycle progression" EXACT [] synonym: "negative regulation of progression through cell cycle" EXACT [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007049 ! cell cycle relationship: negatively_regulates GO:0007049 ! cell cycle [Term] id: GO:0045787 name: positive regulation of cell cycle namespace: biological_process def: "Any process that activates or increases the rate or extent of progression through the cell cycle." [GOC:go_curators] synonym: "activation of progression through cell cycle" NARROW [] synonym: "positive regulation of cell cycle progression" EXACT [] synonym: "positive regulation of progression through cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of progression through cell cycle" NARROW [] synonym: "up regulation of progression through cell cycle" EXACT [] synonym: "up-regulation of progression through cell cycle" EXACT [] synonym: "upregulation of progression through cell cycle" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007049 ! cell cycle relationship: positively_regulates GO:0007049 ! cell cycle [Term] id: GO:0045806 name: negative regulation of endocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis." [GOC:go_curators] synonym: "down regulation of endocytosis" EXACT [] synonym: "down-regulation of endocytosis" EXACT [] synonym: "downregulation of endocytosis" EXACT [] synonym: "inhibition of endocytosis" NARROW [] is_a: GO:0030100 ! regulation of endocytosis is_a: GO:0051051 ! negative regulation of transport is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006897 ! endocytosis relationship: negatively_regulates GO:0006897 ! endocytosis [Term] id: GO:0045807 name: positive regulation of endocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endocytosis." [GOC:go_curators] synonym: "activation of endocytosis" NARROW [] synonym: "stimulation of endocytosis" NARROW [] synonym: "up regulation of endocytosis" EXACT [] synonym: "up-regulation of endocytosis" EXACT [] synonym: "upregulation of endocytosis" EXACT [] is_a: GO:0030100 ! regulation of endocytosis is_a: GO:0051050 ! positive regulation of transport is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006897 ! endocytosis relationship: positively_regulates GO:0006897 ! endocytosis [Term] id: GO:0045833 name: negative regulation of lipid metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "down regulation of lipid metabolic process" EXACT [] synonym: "down-regulation of lipid metabolic process" EXACT [] synonym: "downregulation of lipid metabolic process" EXACT [] synonym: "inhibition of lipid metabolic process" NARROW [] synonym: "negative regulation of lipid metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006629 ! lipid metabolic process relationship: negatively_regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0045834 name: positive regulation of lipid metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "activation of lipid metabolic process" NARROW [] synonym: "positive regulation of lipid metabolism" EXACT [] synonym: "stimulation of lipid metabolic process" NARROW [] synonym: "up regulation of lipid metabolic process" EXACT [] synonym: "up-regulation of lipid metabolic process" EXACT [] synonym: "upregulation of lipid metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006629 ! lipid metabolic process relationship: positively_regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0045835 name: negative regulation of meiotic nuclear division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of meiosis." [GOC:go_curators] synonym: "down regulation of meiosis" EXACT [] synonym: "down-regulation of meiosis" EXACT [] synonym: "downregulation of meiosis" EXACT [] synonym: "inhibition of meiosis" NARROW [] synonym: "negative regulation of meiosis" EXACT [] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0040020 ! regulation of meiotic nuclear division is_a: GO:0051447 ! negative regulation of meiotic cell cycle is_a: GO:0051784 ! negative regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0140013 ! meiotic nuclear division relationship: negatively_regulates GO:0140013 ! meiotic nuclear division [Term] id: GO:0045836 name: positive regulation of meiotic nuclear division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of meiosis." [GOC:go_curators] synonym: "activation of meiosis" NARROW [] synonym: "positive regulation of meiosis" EXACT [] synonym: "stimulation of meiosis" NARROW [] synonym: "up regulation of meiosis" EXACT [] synonym: "up-regulation of meiosis" EXACT [] synonym: "upregulation of meiosis" EXACT [] is_a: GO:0040020 ! regulation of meiotic nuclear division is_a: GO:0051446 ! positive regulation of meiotic cell cycle is_a: GO:0051785 ! positive regulation of nuclear division is_a: GO:0090068 ! positive regulation of cell cycle process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0140013 ! meiotic nuclear division relationship: positively_regulates GO:0140013 ! meiotic nuclear division [Term] id: GO:0045839 name: negative regulation of mitotic nuclear division namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of mitosis. Mitosis is the division of the eukaryotic cell nucleus to produce two daughter nuclei that, usually, contain the identical chromosome complement to their mother." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of mitosis" EXACT [] synonym: "down-regulation of mitosis" EXACT [] synonym: "downregulation of mitosis" EXACT [] synonym: "inhibition of mitosis" NARROW [] synonym: "negative regulation of mitosis" EXACT [] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:0051784 ! negative regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0140014 ! mitotic nuclear division relationship: negatively_regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0045840 name: positive regulation of mitotic nuclear division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitosis." [GOC:go_curators] synonym: "activation of mitosis" NARROW [] synonym: "mitogenic activity" NARROW [] synonym: "positive regulation of mitosis" EXACT [] synonym: "stimulation of mitosis" NARROW [] synonym: "up regulation of mitosis" EXACT [] synonym: "up-regulation of mitosis" EXACT [] synonym: "upregulation of mitosis" EXACT [] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:0051785 ! positive regulation of nuclear division is_a: GO:0090068 ! positive regulation of cell cycle process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0140014 ! mitotic nuclear division relationship: positively_regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0045841 name: negative regulation of mitotic metaphase/anaphase transition namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the cell cycle process in which a cell progresses from metaphase to anaphase during mitosis, triggered by the activation of the anaphase promoting complex by Cdc20/Sleepy homolog which results in the degradation of Securin." [GOC:go_curators] synonym: "down regulation of mitotic metaphase/anaphase transition" EXACT [] synonym: "down-regulation of mitotic metaphase/anaphase transition" EXACT [] synonym: "downregulation of mitotic metaphase/anaphase transition" EXACT [] synonym: "inhibition of mitotic metaphase/anaphase transition" NARROW [] is_a: GO:0030071 ! regulation of mitotic metaphase/anaphase transition is_a: GO:1901991 ! negative regulation of mitotic cell cycle phase transition is_a: GO:1902100 ! negative regulation of metaphase/anaphase transition of cell cycle is_a: GO:2000816 ! negative regulation of mitotic sister chromatid separation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle relationship: negatively_regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle [Term] id: GO:0045842 name: positive regulation of mitotic metaphase/anaphase transition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the cell cycle process in which a cell progresses from metaphase to anaphase during mitosis, triggered by the activation of the anaphase promoting complex by Cdc20/Sleepy homolog which results in the degradation of Securin." [GOC:go_curators] synonym: "activation of mitotic metaphase/anaphase transition" NARROW [] synonym: "stimulation of mitotic metaphase/anaphase transition" NARROW [] synonym: "up regulation of mitotic metaphase/anaphase transition" EXACT [] synonym: "up-regulation of mitotic metaphase/anaphase transition" EXACT [] synonym: "upregulation of mitotic metaphase/anaphase transition" EXACT [] is_a: GO:0030071 ! regulation of mitotic metaphase/anaphase transition is_a: GO:1901970 ! positive regulation of mitotic sister chromatid separation is_a: GO:1901992 ! positive regulation of mitotic cell cycle phase transition is_a: GO:1902101 ! positive regulation of metaphase/anaphase transition of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle relationship: positively_regulates GO:0007091 ! metaphase/anaphase transition of mitotic cell cycle [Term] id: GO:0045851 name: pH reduction namespace: biological_process def: "Any process that reduces the internal pH of an organism, part of an organism or a cell, measured by the concentration of the hydrogen ion." [GOC:go_curators] synonym: "acidification" EXACT [] is_a: GO:0006885 ! regulation of pH [Term] id: GO:0045852 name: pH elevation namespace: biological_process def: "Any process that increases the internal pH of an organism, part of an organism or a cell, measured by the concentration of the hydrogen ion." [GOC:go_curators] is_a: GO:0006885 ! regulation of pH [Term] id: GO:0045861 name: negative regulation of proteolysis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the hydrolysis of a peptide bond or bonds within a protein." [GOC:go_curators] synonym: "down regulation of proteolysis" EXACT [] synonym: "down-regulation of proteolysis" EXACT [] synonym: "downregulation of proteolysis" EXACT [] synonym: "inhibition of proteolysis" NARROW [] synonym: "negative regulation of peptidolysis" EXACT [] is_a: GO:0030162 ! regulation of proteolysis is_a: GO:0032269 ! negative regulation of cellular protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006508 ! proteolysis relationship: negatively_regulates GO:0006508 ! proteolysis [Term] id: GO:0045862 name: positive regulation of proteolysis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the hydrolysis of a peptide bond or bonds within a protein." [GOC:go_curators] synonym: "activation of proteolysis" NARROW [] synonym: "positive regulation of peptidolysis" EXACT [] synonym: "stimulation of proteolysis" NARROW [] synonym: "up regulation of proteolysis" EXACT [] synonym: "up-regulation of proteolysis" EXACT [] synonym: "upregulation of proteolysis" EXACT [] is_a: GO:0030162 ! regulation of proteolysis is_a: GO:0032270 ! positive regulation of cellular protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006508 ! proteolysis relationship: positively_regulates GO:0006508 ! proteolysis [Term] id: GO:0045892 name: negative regulation of transcription, DNA-templated namespace: biological_process alt_id: GO:0016481 alt_id: GO:0032582 alt_id: GO:0061021 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] synonym: "down regulation of gene-specific transcription" RELATED [] synonym: "down regulation of transcription, DNA-dependent" EXACT [] synonym: "down-regulation of gene-specific transcription" RELATED [] synonym: "down-regulation of transcription, DNA-dependent" EXACT [] synonym: "downregulation of gene-specific transcription" RELATED [] synonym: "downregulation of transcription, DNA-dependent" EXACT [] synonym: "inhibition of gene-specific transcription" RELATED [] synonym: "inhibition of transcription, DNA-dependent" NARROW [] synonym: "negative regulation of cellular transcription, DNA-dependent" EXACT [] synonym: "negative regulation of gene-specific transcription" RELATED [] synonym: "negative regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] synonym: "transcription repressor activity" RELATED [] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:1903507 ! negative regulation of nucleic acid-templated transcription is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006351 ! transcription, DNA-templated relationship: negatively_regulates GO:0006351 ! transcription, DNA-templated [Term] id: GO:0045893 name: positive regulation of transcription, DNA-templated namespace: biological_process alt_id: GO:0043193 alt_id: GO:0045941 alt_id: GO:0061020 def: "Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] synonym: "activation of gene-specific transcription" RELATED [] synonym: "activation of transcription, DNA-dependent" NARROW [] synonym: "positive regulation of cellular transcription, DNA-dependent" EXACT [] synonym: "positive regulation of gene-specific transcription" RELATED [] synonym: "positive regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] synonym: "stimulation of gene-specific transcription" NARROW [] synonym: "stimulation of transcription, DNA-dependent" NARROW [] synonym: "transcription activator activity" RELATED [] synonym: "up regulation of gene-specific transcription" RELATED [] synonym: "up regulation of transcription, DNA-dependent" EXACT [] synonym: "up-regulation of gene-specific transcription" RELATED [] synonym: "up-regulation of transcription, DNA-dependent" EXACT [] synonym: "upregulation of gene-specific transcription" RELATED [] synonym: "upregulation of transcription, DNA-dependent" EXACT [] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:1903508 ! positive regulation of nucleic acid-templated transcription intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006351 ! transcription, DNA-templated relationship: positively_regulates GO:0006351 ! transcription, DNA-templated [Term] id: GO:0045900 name: negative regulation of translational elongation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational elongation." [GOC:go_curators] synonym: "down regulation of translational elongation" EXACT [] synonym: "down-regulation of translational elongation" EXACT [] synonym: "downregulation of translational elongation" EXACT [] synonym: "inhibition of translational elongation" NARROW [] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:0017148 ! negative regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006414 ! translational elongation relationship: negatively_regulates GO:0006414 ! translational elongation [Term] id: GO:0045901 name: positive regulation of translational elongation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational elongation." [GOC:go_curators] synonym: "activation of translational elongation" NARROW [] synonym: "stimulation of translational elongation" NARROW [] synonym: "up regulation of translational elongation" EXACT [] synonym: "up-regulation of translational elongation" EXACT [] synonym: "upregulation of translational elongation" EXACT [] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006414 ! translational elongation relationship: positively_regulates GO:0006414 ! translational elongation [Term] id: GO:0045904 name: negative regulation of translational termination namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational termination." [GOC:go_curators] synonym: "down regulation of translational termination" EXACT [] synonym: "down-regulation of translational termination" EXACT [] synonym: "downregulation of translational termination" EXACT [] synonym: "inhibition of translational termination" NARROW [] is_a: GO:0006449 ! regulation of translational termination is_a: GO:0017148 ! negative regulation of translation is_a: GO:0043242 ! negative regulation of protein complex disassembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006415 ! translational termination relationship: negatively_regulates GO:0006415 ! translational termination [Term] id: GO:0045905 name: positive regulation of translational termination namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational termination." [GOC:go_curators] synonym: "activation of translational termination" NARROW [] synonym: "stimulation of translational termination" NARROW [] synonym: "up regulation of translational termination" EXACT [] synonym: "up-regulation of translational termination" EXACT [] synonym: "upregulation of translational termination" EXACT [] is_a: GO:0006449 ! regulation of translational termination is_a: GO:0043243 ! positive regulation of protein complex disassembly is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006415 ! translational termination relationship: positively_regulates GO:0006415 ! translational termination [Term] id: GO:0045910 name: negative regulation of DNA recombination namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of DNA recombination." [GOC:go_curators] synonym: "down regulation of DNA recombination" EXACT [] synonym: "down-regulation of DNA recombination" EXACT [] synonym: "downregulation of DNA recombination" EXACT [] synonym: "inhibition of DNA recombination" NARROW [] is_a: GO:0000018 ! regulation of DNA recombination is_a: GO:0051053 ! negative regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006310 ! DNA recombination relationship: negatively_regulates GO:0006310 ! DNA recombination [Term] id: GO:0045911 name: positive regulation of DNA recombination namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA recombination." [GOC:go_curators] synonym: "activation of DNA recombination" NARROW [] synonym: "stimulation of DNA recombination" NARROW [] synonym: "up regulation of DNA recombination" EXACT [] synonym: "up-regulation of DNA recombination" EXACT [] synonym: "upregulation of DNA recombination" EXACT [] is_a: GO:0000018 ! regulation of DNA recombination is_a: GO:0051054 ! positive regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006310 ! DNA recombination relationship: positively_regulates GO:0006310 ! DNA recombination [Term] id: GO:0045914 name: negative regulation of catecholamine metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving catecholamine." [GOC:go_curators] synonym: "down regulation of catecholamine metabolic process" EXACT [] synonym: "down-regulation of catecholamine metabolic process" EXACT [] synonym: "downregulation of catecholamine metabolic process" EXACT [] synonym: "inhibition of catecholamine metabolic process" NARROW [] synonym: "negative regulation of catecholamine metabolism" EXACT [] is_a: GO:0033239 ! negative regulation of cellular amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006584 ! catecholamine metabolic process relationship: negatively_regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0045915 name: positive regulation of catecholamine metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catecholamine." [GOC:go_curators] synonym: "activation of catecholamine metabolic process" NARROW [] synonym: "positive regulation of catecholamine metabolism" EXACT [] synonym: "stimulation of catecholamine metabolic process" NARROW [] synonym: "up regulation of catecholamine metabolic process" EXACT [] synonym: "up-regulation of catecholamine metabolic process" EXACT [] synonym: "upregulation of catecholamine metabolic process" EXACT [] is_a: GO:0033240 ! positive regulation of cellular amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006584 ! catecholamine metabolic process relationship: positively_regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0045920 name: negative regulation of exocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of exocytosis." [GOC:go_curators] synonym: "down regulation of exocytosis" EXACT [] synonym: "down-regulation of exocytosis" EXACT [] synonym: "downregulation of exocytosis" EXACT [] synonym: "inhibition of exocytosis" NARROW [] is_a: GO:0017157 ! regulation of exocytosis is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006887 ! exocytosis relationship: negatively_regulates GO:0006887 ! exocytosis [Term] id: GO:0045921 name: positive regulation of exocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of exocytosis." [GOC:go_curators] synonym: "activation of exocytosis" NARROW [] synonym: "stimulation of exocytosis" NARROW [] synonym: "up regulation of exocytosis" EXACT [] synonym: "up-regulation of exocytosis" EXACT [] synonym: "upregulation of exocytosis" EXACT [] is_a: GO:0017157 ! regulation of exocytosis is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006887 ! exocytosis relationship: positively_regulates GO:0006887 ! exocytosis [Term] id: GO:0045926 name: negative regulation of growth namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of growth, the increase in size or mass of all or part of an organism." [GOC:go_curators] synonym: "down regulation of growth" EXACT [] synonym: "down-regulation of growth" EXACT [] synonym: "downregulation of growth" EXACT [] synonym: "inhibition of growth" NARROW [] is_a: GO:0040008 ! regulation of growth is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0040007 ! growth relationship: negatively_regulates GO:0040007 ! growth [Term] id: GO:0045927 name: positive regulation of growth namespace: biological_process def: "Any process that activates or increases the rate or extent of growth, the increase in size or mass of all or part of an organism." [GOC:go_curators] synonym: "activation of growth" NARROW [] synonym: "stimulation of growth" NARROW [] synonym: "up regulation of growth" EXACT [] synonym: "up-regulation of growth" EXACT [] synonym: "upregulation of growth" EXACT [] is_a: GO:0040008 ! regulation of growth is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0040007 ! growth relationship: positively_regulates GO:0040007 ! growth [Term] id: GO:0045930 name: negative regulation of mitotic cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of progression through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of progression through mitotic cell cycle" EXACT [] synonym: "down-regulation of progression through mitotic cell cycle" EXACT [] synonym: "downregulation of progression through mitotic cell cycle" EXACT [] synonym: "inhibition of progression through mitotic cell cycle" NARROW [] synonym: "negative regulation of mitotic cell cycle progression" EXACT [] synonym: "negative regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0045786 ! negative regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000278 ! mitotic cell cycle relationship: negatively_regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0045931 name: positive regulation of mitotic cell cycle namespace: biological_process def: "Any process that activates or increases the rate or extent of progression through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "activation of progression through mitotic cell cycle" NARROW [] synonym: "positive regulation of mitotic cell cycle progression" EXACT [] synonym: "positive regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of progression through mitotic cell cycle" NARROW [] synonym: "up regulation of progression through mitotic cell cycle" EXACT [] synonym: "up-regulation of progression through mitotic cell cycle" EXACT [] synonym: "upregulation of progression through mitotic cell cycle" EXACT [] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0045787 ! positive regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000278 ! mitotic cell cycle relationship: positively_regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0045934 name: negative regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "down regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "down-regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "downregulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "inhibition of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0045935 name: positive regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "activation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] synonym: "stimulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "up regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "up-regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "upregulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0045936 name: negative regulation of phosphate metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "down regulation of phosphate metabolic process" EXACT [] synonym: "down-regulation of phosphate metabolic process" EXACT [] synonym: "downregulation of phosphate metabolic process" EXACT [] synonym: "inhibition of phosphate metabolic process" NARROW [] synonym: "negative regulation of phosphate metabolism" EXACT [] is_a: GO:0010563 ! negative regulation of phosphorus metabolic process is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0045937 name: positive regulation of phosphate metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "activation of phosphate metabolic process" NARROW [] synonym: "positive regulation of phosphate metabolism" EXACT [] synonym: "stimulation of phosphate metabolic process" NARROW [] synonym: "up regulation of phosphate metabolic process" EXACT [] synonym: "up-regulation of phosphate metabolic process" EXACT [] synonym: "upregulation of phosphate metabolic process" EXACT [] is_a: GO:0010562 ! positive regulation of phosphorus metabolic process is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0045944 name: positive regulation of transcription by RNA polymerase II namespace: biological_process alt_id: GO:0010552 alt_id: GO:0045817 def: "Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:go_curators, GOC:txnOH] synonym: "activation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "activation of transcription from RNA polymerase II promoter" EXACT [] synonym: "positive regulation of gene-specific transcription from RNA polymerase II promoter" RELATED [] synonym: "positive regulation of global transcription from Pol II promoter" RELATED [] synonym: "positive regulation of transcription from Pol II promoter" EXACT [] synonym: "positive regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "positive regulation of transcription from RNA polymerase II promoter, global" RELATED [] synonym: "stimulation of global transcription from RNA polymerase II promoter" NARROW [] synonym: "stimulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "up regulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "up regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "up-regulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "up-regulation of transcription from RNA polymerase II promoter" EXACT [] synonym: "upregulation of global transcription from RNA polymerase II promoter" RELATED [] synonym: "upregulation of transcription from RNA polymerase II promoter" EXACT [] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II is_a: GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006366 ! transcription by RNA polymerase II relationship: positively_regulates GO:0006366 ! transcription by RNA polymerase II [Term] id: GO:0045947 name: negative regulation of translational initiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational initiation." [GOC:go_curators] synonym: "down regulation of translational initiation" EXACT [] synonym: "down-regulation of translational initiation" EXACT [] synonym: "downregulation of translational initiation" EXACT [] synonym: "inhibition of translational initiation" NARROW [] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0017148 ! negative regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006413 ! translational initiation relationship: negatively_regulates GO:0006413 ! translational initiation [Term] id: GO:0045948 name: positive regulation of translational initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational initiation." [GOC:go_curators] synonym: "activation of translational initiation" NARROW [] synonym: "stimulation of translational initiation" NARROW [] synonym: "up regulation of translational initiation" EXACT [] synonym: "up-regulation of translational initiation" EXACT [] synonym: "upregulation of translational initiation" EXACT [] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006413 ! translational initiation relationship: positively_regulates GO:0006413 ! translational initiation [Term] id: GO:0045955 name: negative regulation of calcium ion-dependent exocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of calcium ion-dependent exocytosis." [GOC:go_curators] synonym: "down regulation of calcium ion-dependent exocytosis" EXACT [] synonym: "down-regulation of calcium ion-dependent exocytosis" EXACT [] synonym: "downregulation of calcium ion-dependent exocytosis" EXACT [] synonym: "inhibition of calcium ion-dependent exocytosis" NARROW [] is_a: GO:0017158 ! regulation of calcium ion-dependent exocytosis is_a: GO:1903306 ! negative regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0017156 ! calcium-ion regulated exocytosis relationship: negatively_regulates GO:0017156 ! calcium-ion regulated exocytosis [Term] id: GO:0045956 name: positive regulation of calcium ion-dependent exocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of calcium ion-dependent exocytosis." [GOC:go_curators] synonym: "activation of calcium ion-dependent exocytosis" NARROW [] synonym: "stimulation of calcium ion-dependent exocytosis" NARROW [] synonym: "up regulation of calcium ion-dependent exocytosis" EXACT [] synonym: "up-regulation of calcium ion-dependent exocytosis" EXACT [] synonym: "upregulation of calcium ion-dependent exocytosis" EXACT [] is_a: GO:0017158 ! regulation of calcium ion-dependent exocytosis is_a: GO:1903307 ! positive regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0017156 ! calcium-ion regulated exocytosis relationship: positively_regulates GO:0017156 ! calcium-ion regulated exocytosis [Term] id: GO:0045963 name: negative regulation of dopamine metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving dopamine." [GOC:go_curators] synonym: "down regulation of dopamine metabolic process" EXACT [] synonym: "down-regulation of dopamine metabolic process" EXACT [] synonym: "downregulation of dopamine metabolic process" EXACT [] synonym: "inhibition of dopamine metabolic process" NARROW [] synonym: "negative regulation of dopamine metabolism" EXACT [] is_a: GO:0042053 ! regulation of dopamine metabolic process is_a: GO:0045914 ! negative regulation of catecholamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042417 ! dopamine metabolic process relationship: negatively_regulates GO:0042417 ! dopamine metabolic process [Term] id: GO:0045964 name: positive regulation of dopamine metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving dopamine." [GOC:go_curators] synonym: "activation of dopamine metabolic process" NARROW [] synonym: "positive regulation of dopamine metabolism" EXACT [] synonym: "stimulation of dopamine metabolic process" NARROW [] synonym: "up regulation of dopamine metabolic process" EXACT [] synonym: "up-regulation of dopamine metabolic process" EXACT [] synonym: "upregulation of dopamine metabolic process" EXACT [] is_a: GO:0042053 ! regulation of dopamine metabolic process is_a: GO:0045915 ! positive regulation of catecholamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042417 ! dopamine metabolic process relationship: positively_regulates GO:0042417 ! dopamine metabolic process [Term] id: GO:0045974 name: regulation of translation, ncRNA-mediated namespace: biological_process def: "Any process, mediated by small non-coding RNAs, that modulates the frequency, rate or extent that mRNAs are effectively translated into protein." [GOC:dph, GOC:go_curators, GOC:tb] is_a: GO:0006417 ! regulation of translation [Term] id: GO:0045992 name: negative regulation of embryonic development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of embryonic development." [GOC:go_curators] synonym: "down regulation of embryonic development" EXACT [] synonym: "down-regulation of embryonic development" EXACT [] synonym: "downregulation of embryonic development" EXACT [] synonym: "inhibition of embryonic development" NARROW [] is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009790 ! embryo development relationship: negatively_regulates GO:0009790 ! embryo development [Term] id: GO:0045995 name: regulation of embryonic development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of embryonic development." [GOC:go_curators] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009790 ! embryo development relationship: regulates GO:0009790 ! embryo development [Term] id: GO:0046189 name: phenol-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [CHEBI:33853, GOC:ai] synonym: "phenol-containing compound anabolism" EXACT [GOC:curators] synonym: "phenol-containing compound biosynthesis" EXACT [GOC:curators] synonym: "phenol-containing compound formation" EXACT [GOC:curators] synonym: "phenol-containing compound synthesis" EXACT [GOC:curators] is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process is_a: GO:1901617 ! organic hydroxy compound biosynthetic process [Term] id: GO:0046333 name: octopamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving octopamine, 1-(p-hydroxyphenyl)-2-aminoethanol. The D enantiomer is about one-tenth as active as norepinephrine and is found in the salivary glands of Octopus and Eledone species." [ISBN:0198506732] synonym: "octopamine metabolism" EXACT [] is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0042439 ! ethanolamine-containing compound metabolic process is_a: GO:0097164 ! ammonium ion metabolic process [Term] id: GO:0046483 name: heterocycle metabolic process namespace: biological_process def: "The chemical reactions and pathways involving heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [CHEBI:5686, ISBN:0198506732] subset: goslim_pir synonym: "heterocycle metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0046546 name: development of primary male sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary male sexual characteristics over time, from their formation to the mature structures. The primary male sexual characteristics are the testes, and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0045137 ! development of primary sexual characteristics relationship: part_of GO:0046661 ! male sex differentiation [Term] id: GO:0046661 name: male sex differentiation namespace: biological_process def: "The establishment of the sex of a male organism by physical differentiation." [GOC:bf] is_a: GO:0007548 ! sex differentiation relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0046662 name: regulation of oviposition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the deposition of eggs, either fertilized or not, upon a surface or into a medium." [GOC:ai] is_a: GO:0050795 ! regulation of behavior is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0018991 ! oviposition relationship: regulates GO:0018991 ! oviposition [Term] id: GO:0046700 name: heterocycle catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [GOC:ai] synonym: "heterocycle breakdown" EXACT [] synonym: "heterocycle catabolism" EXACT [] synonym: "heterocycle degradation" EXACT [] is_a: GO:0044248 ! cellular catabolic process is_a: GO:0046483 ! heterocycle metabolic process [Term] id: GO:0046785 name: microtubule polymerization namespace: biological_process def: "The addition of tubulin heterodimers to one or both ends of a microtubule." [GOC:ai, GOC:go_curators] synonym: "microtubule assembly" EXACT [] synonym: "microtubule formation" RELATED [] is_a: GO:0031109 ! microtubule polymerization or depolymerization is_a: GO:0051258 ! protein polymerization is_a: GO:0097435 ! supramolecular fiber organization [Term] id: GO:0046822 name: regulation of nucleocytoplasmic transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances between the nucleus and the cytoplasm." [GOC:bf] is_a: GO:0032386 ! regulation of intracellular transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006913 ! nucleocytoplasmic transport relationship: regulates GO:0006913 ! nucleocytoplasmic transport [Term] id: GO:0046823 name: negative regulation of nucleocytoplasmic transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances between the cytoplasm and the nucleus." [GOC:bf] synonym: "down regulation of nucleocytoplasmic transport" EXACT [] synonym: "down-regulation of nucleocytoplasmic transport" EXACT [] synonym: "downregulation of nucleocytoplasmic transport" EXACT [] synonym: "inhibition of nucleocytoplasmic transport" NARROW [] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0046822 ! regulation of nucleocytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006913 ! nucleocytoplasmic transport relationship: negatively_regulates GO:0006913 ! nucleocytoplasmic transport [Term] id: GO:0046824 name: positive regulation of nucleocytoplasmic transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of substances between the nucleus and the cytoplasm." [GOC:bf] synonym: "activation of nucleocytoplasmic transport" NARROW [] synonym: "stimulation of nucleocytoplasmic transport" NARROW [] synonym: "up regulation of nucleocytoplasmic transport" EXACT [] synonym: "up-regulation of nucleocytoplasmic transport" EXACT [] synonym: "upregulation of nucleocytoplasmic transport" EXACT [] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0046822 ! regulation of nucleocytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006913 ! nucleocytoplasmic transport relationship: positively_regulates GO:0006913 ! nucleocytoplasmic transport [Term] id: GO:0046825 name: regulation of protein export from nucleus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of proteins from the nucleus to the cytoplasm." [GOC:bf] synonym: "regulation of protein export from cell nucleus" EXACT [] synonym: "regulation of protein export out of nucleus" EXACT [] synonym: "regulation of protein transport from nucleus to cytoplasm" EXACT [] synonym: "regulation of protein-nucleus export" EXACT [] is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0046822 ! regulation of nucleocytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006611 ! protein export from nucleus relationship: regulates GO:0006611 ! protein export from nucleus [Term] id: GO:0046826 name: negative regulation of protein export from nucleus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of proteins from the nucleus into the cytoplasm." [GOC:bf] synonym: "down regulation of protein export from nucleus" EXACT [] synonym: "down-regulation of protein export from nucleus" EXACT [] synonym: "downregulation of protein export from nucleus" EXACT [] synonym: "inhibition of protein export from nucleus" NARROW [] synonym: "negative regulation of protein export from cell nucleus" EXACT [] synonym: "negative regulation of protein export out of nucleus" EXACT [] synonym: "negative regulation of protein transport from nucleus to cytoplasm" EXACT [] synonym: "negative regulation of protein-nucleus export" EXACT [] is_a: GO:0046823 ! negative regulation of nucleocytoplasmic transport is_a: GO:0046825 ! regulation of protein export from nucleus is_a: GO:0051457 ! maintenance of protein location in nucleus is_a: GO:0090317 ! negative regulation of intracellular protein transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006611 ! protein export from nucleus relationship: negatively_regulates GO:0006611 ! protein export from nucleus [Term] id: GO:0046827 name: positive regulation of protein export from nucleus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of directed movement of proteins from the nucleus into the cytoplasm." [GOC:bf] synonym: "activation of protein export from nucleus" NARROW [] synonym: "positive regulation of protein export from cell nucleus" EXACT [] synonym: "positive regulation of protein export out of nucleus" EXACT [] synonym: "positive regulation of protein transport from nucleus to cytoplasm" EXACT [] synonym: "positive regulation of protein-nucleus export" EXACT [] synonym: "stimulation of protein export from nucleus" NARROW [] synonym: "up regulation of protein export from nucleus" EXACT [] synonym: "up-regulation of protein export from nucleus" EXACT [] synonym: "upregulation of protein export from nucleus" EXACT [] is_a: GO:0046824 ! positive regulation of nucleocytoplasmic transport is_a: GO:0046825 ! regulation of protein export from nucleus is_a: GO:0090316 ! positive regulation of intracellular protein transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006611 ! protein export from nucleus relationship: positively_regulates GO:0006611 ! protein export from nucleus [Term] id: GO:0046831 name: regulation of RNA export from nucleus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of RNA from the nucleus to the cytoplasm." [GOC:bf] synonym: "regulation of RNA export from cell nucleus" EXACT [] synonym: "regulation of RNA export out of nucleus" EXACT [] synonym: "regulation of RNA transport from nucleus to cytoplasm" EXACT [] synonym: "regulation of RNA-nucleus export" EXACT [] is_a: GO:0032239 ! regulation of nucleobase-containing compound transport is_a: GO:0046822 ! regulation of nucleocytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006405 ! RNA export from nucleus relationship: regulates GO:0006405 ! RNA export from nucleus [Term] id: GO:0046832 name: negative regulation of RNA export from nucleus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of RNA from the nucleus into the cytoplasm." [GOC:bf] synonym: "down regulation of RNA export from nucleus" EXACT [] synonym: "down-regulation of RNA export from nucleus" EXACT [] synonym: "downregulation of RNA export from nucleus" EXACT [] synonym: "inhibition of RNA export from nucleus" NARROW [] synonym: "negative regulation of RNA export from cell nucleus" EXACT [] synonym: "negative regulation of RNA export out of nucleus" EXACT [] synonym: "negative regulation of RNA transport from nucleus to cytoplasm" EXACT [] synonym: "negative regulation of RNA-nucleus export" EXACT [] is_a: GO:0032240 ! negative regulation of nucleobase-containing compound transport is_a: GO:0046823 ! negative regulation of nucleocytoplasmic transport is_a: GO:0046831 ! regulation of RNA export from nucleus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006405 ! RNA export from nucleus relationship: negatively_regulates GO:0006405 ! RNA export from nucleus [Term] id: GO:0046833 name: positive regulation of RNA export from nucleus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of directed movement of RNA from the nucleus into the cytoplasm." [GOC:bf] synonym: "activation of RNA export from nucleus" NARROW [] synonym: "positive regulation of RNA export from cell nucleus" EXACT [] synonym: "positive regulation of RNA export out of nucleus" EXACT [] synonym: "positive regulation of RNA transport from nucleus to cytoplasm" EXACT [] synonym: "positive regulation of RNA-nucleus export" EXACT [] synonym: "stimulation of RNA export from nucleus" NARROW [] synonym: "up regulation of RNA export from nucleus" EXACT [] synonym: "up-regulation of RNA export from nucleus" EXACT [] synonym: "upregulation of RNA export from nucleus" EXACT [] is_a: GO:0032241 ! positive regulation of nucleobase-containing compound transport is_a: GO:0046824 ! positive regulation of nucleocytoplasmic transport is_a: GO:0046831 ! regulation of RNA export from nucleus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006405 ! RNA export from nucleus relationship: positively_regulates GO:0006405 ! RNA export from nucleus [Term] id: GO:0046889 name: positive regulation of lipid biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "activation of lipid biosynthetic process" NARROW [] synonym: "positive regulation of lipid anabolism" EXACT [] synonym: "positive regulation of lipid biosynthesis" EXACT [] synonym: "positive regulation of lipid formation" EXACT [] synonym: "positive regulation of lipid synthesis" EXACT [] synonym: "positive regulation of lipogenesis" EXACT [GOC:sl] synonym: "stimulation of lipid biosynthetic process" NARROW [] synonym: "up regulation of lipid biosynthetic process" EXACT [] synonym: "up-regulation of lipid biosynthetic process" EXACT [] synonym: "upregulation of lipid biosynthetic process" EXACT [] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0045834 ! positive regulation of lipid metabolic process is_a: GO:0046890 ! regulation of lipid biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008610 ! lipid biosynthetic process relationship: positively_regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0046890 name: regulation of lipid biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "regulation of lipid anabolism" EXACT [] synonym: "regulation of lipid biosynthesis" EXACT [] synonym: "regulation of lipid formation" EXACT [] synonym: "regulation of lipid synthesis" EXACT [] synonym: "regulation of lipogenesis" EXACT [GOC:sl] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008610 ! lipid biosynthetic process relationship: regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0046903 name: secretion namespace: biological_process def: "The controlled release of a substance by a cell or a tissue." [GOC:ai] subset: goslim_pir xref: MIPS_funcat:20.09.16 is_a: GO:0006810 ! transport [Term] id: GO:0046907 name: intracellular transport namespace: biological_process alt_id: GO:1902582 def: "The directed movement of substances within a cell." [GOC:ai] synonym: "single organism intracellular transport" RELATED [GOC:TermGenie] synonym: "single-organism intracellular transport" RELATED [] is_a: GO:0006810 ! transport is_a: GO:0051641 ! cellular localization is_a: GO:0051649 ! establishment of localization in cell intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005622 ! intracellular relationship: occurs_in GO:0005622 ! intracellular created_by: jl creation_date: 2013-12-18T14:04:50Z [Term] id: GO:0046928 name: regulation of neurotransmitter secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of a neurotransmitter from a cell." [GOC:ai] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0050804 ! modulation of chemical synaptic transmission is_a: GO:0051588 ! regulation of neurotransmitter transport is_a: GO:0060341 ! regulation of cellular localization is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007269 ! neurotransmitter secretion relationship: regulates GO:0007269 ! neurotransmitter secretion [Term] id: GO:0046929 name: negative regulation of neurotransmitter secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of a neurotransmitter." [GOC:ai] synonym: "conotoxin activity" NARROW [] synonym: "down regulation of neurotransmitter secretion" EXACT [] synonym: "down-regulation of neurotransmitter secretion" EXACT [] synonym: "downregulation of neurotransmitter secretion" EXACT [] synonym: "inhibition of neurotransmitter secretion" NARROW [] is_a: GO:0046928 ! regulation of neurotransmitter secretion is_a: GO:0050805 ! negative regulation of synaptic transmission is_a: GO:0051589 ! negative regulation of neurotransmitter transport is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007269 ! neurotransmitter secretion relationship: negatively_regulates GO:0007269 ! neurotransmitter secretion [Term] id: GO:0046958 name: nonassociative learning namespace: biological_process def: "A simple form of learning whereby the repeated presence of a stimulus leads to a change in the probability or strength of the response to that stimulus. There is no association of one type of stimulus with another, rather it is a generalized response to the environment." [ISBN:0582227089] synonym: "unconditional response" EXACT [] is_a: GO:0007612 ! learning [Term] id: GO:0046959 name: habituation namespace: biological_process def: "A decrease in a behavioral response to a repeated stimulus. This is exemplified by the failure of a person to show a startle response to a loud noise that has been repeatedly presented." [ISBN:0582227089] xref: Wikipedia:Habituation is_a: GO:0046958 ! nonassociative learning [Term] id: GO:0047484 name: regulation of response to osmotic stress namespace: biological_process def: "Any process that modulates the rate or extent of the response to osmotic stress." [GOC:ai] is_a: GO:0080134 ! regulation of response to stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006970 ! response to osmotic stress relationship: regulates GO:0006970 ! response to osmotic stress [Term] id: GO:0047496 name: vesicle transport along microtubule namespace: biological_process def: "The directed movement of a vesicle along a microtubule, mediated by motor proteins. This process begins with the attachment of a vesicle to a microtubule, and ends when the vesicle reaches its final destination." [GOC:ecd, GOC:rl] synonym: "microtubule-based vesicle localization" EXACT [GOC:rl] is_a: GO:0072384 ! organelle transport along microtubule is_a: GO:0099518 ! vesicle cytoskeletal trafficking [Term] id: GO:0048018 name: receptor ligand activity namespace: molecular_function alt_id: GO:0071884 def: "The activity of a gene product that interacts with a receptor to effect a change in the activity of the receptor. Ligands may be produced by the same, or different, cell that expresses the receptor. Ligands may diffuse extracellularly from their point of origin to the receiving cell, or remain attached to an adjacent cell surface (e.g. Notch ligands)." [GOC:kv, GOC:molecular_function_refactoring, GOC:pdt] comment: Definition discussed in https://github.com/geneontology/go-ontology/issues/14220 subset: goslim_chembl synonym: "receptor agonist activity" BROAD [GOC:molecular_function_refactoring] synonym: "signaling molecule" EXACT [] synonym: "signaling receptor ligand activity" EXACT [] synonym: "vitamin D receptor activator activity" NARROW [] is_a: GO:0005102 ! signaling receptor binding is_a: GO:0030546 ! signaling receptor activator activity relationship: part_of GO:0007165 ! signal transduction created_by: midori creation_date: 2010-09-13T04:51:59Z [Term] id: GO:0048066 name: developmental pigmentation namespace: biological_process def: "The developmental process that results in the deposition of coloring matter in an organism, tissue or cell." [ISBN:0582227089] synonym: "pigmentation during development" RELATED [] is_a: GO:0043473 ! pigmentation [Term] id: GO:0048070 name: regulation of developmental pigmentation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "regulation of pigmentation during development" EXACT [GOC:dph, GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048066 ! developmental pigmentation relationship: regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048071 name: sex-specific pigmentation namespace: biological_process def: "Establishment of a pattern of pigment in one sex that is not observed in the other sex." [GOC:jid] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048066 ! developmental pigmentation relationship: part_of GO:0007548 ! sex differentiation [Term] id: GO:0048086 name: negative regulation of developmental pigmentation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "down regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "down-regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "downregulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "inhibition of pigmentation" NARROW [] is_a: GO:0048070 ! regulation of developmental pigmentation is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048066 ! developmental pigmentation relationship: negatively_regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048087 name: positive regulation of developmental pigmentation namespace: biological_process def: "Any process that increases the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "activation of developmental pigmentation" NARROW [GOC:dph, GOC:tb] synonym: "stimulation of developmental pigmentation" NARROW [GOC:dph, GOC:tb] synonym: "up regulation of developmental pigmentation" EXACT [GOC:dph] synonym: "up-regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "upregulation of developmental pigmentation" EXACT [GOC:dph, goc:tb] is_a: GO:0048070 ! regulation of developmental pigmentation is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048066 ! developmental pigmentation relationship: positively_regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048088 name: regulation of male pigmentation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of establishment of a pattern of pigment in males." [GOC:jid] is_a: GO:0048070 ! regulation of developmental pigmentation is_a: GO:2000026 ! regulation of multicellular organismal development is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048094 ! male pigmentation relationship: regulates GO:0048094 ! male pigmentation [Term] id: GO:0048092 name: negative regulation of male pigmentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of establishment of a pattern of pigment in males." [GOC:jid] synonym: "down regulation of male pigmentation" EXACT [] synonym: "down-regulation of male pigmentation" EXACT [] synonym: "downregulation of male pigmentation" EXACT [] synonym: "inhibition of male pigmentation" NARROW [] is_a: GO:0048086 ! negative regulation of developmental pigmentation is_a: GO:0048088 ! regulation of male pigmentation is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048094 ! male pigmentation relationship: negatively_regulates GO:0048094 ! male pigmentation [Term] id: GO:0048093 name: positive regulation of male pigmentation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of establishment of a pattern of pigment in males." [GOC:jid] synonym: "activation of male pigmentation" NARROW [] synonym: "stimulation of male pigmentation" NARROW [] synonym: "up regulation of male pigmentation" EXACT [] synonym: "up-regulation of male pigmentation" EXACT [] synonym: "upregulation of male pigmentation" EXACT [] is_a: GO:0048087 ! positive regulation of developmental pigmentation is_a: GO:0048088 ! regulation of male pigmentation is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048094 ! male pigmentation relationship: positively_regulates GO:0048094 ! male pigmentation [Term] id: GO:0048094 name: male pigmentation namespace: biological_process def: "Establishment of a pattern of pigment in males." [GOC:jid] is_a: GO:0048071 ! sex-specific pigmentation relationship: part_of GO:0046661 ! male sex differentiation [Term] id: GO:0048102 name: autophagic cell death namespace: biological_process def: "A form of programmed cell death that is accompanied by the formation of autophagosomes. Autophagic cell death is characterized by lack of chromatin condensation and massive vacuolization of the cytoplasm, with little or no uptake by phagocytic cells." [GOC:autophagy, GOC:mah, GOC:mtg_apoptosis, PMID:18846107, PMID:23347517] comment: The precise nature of autophagic cell death is still being debated, and the link between autophagy and cell death unclear. As autophagy is often induced under conditions of stress that could also lead to cell death, there has been a propagation of the idea that autophagy can act as a cell death mechanism; but others suggest that autophagy may simply be an attempt of dying cells to adapt to lethal stress rather than a mechanism to execute a cell death program. Further studies are required to resolve this controversy (see e.g. PMID:22082964, PMID:22052193, PMID:25236395). In the meantime, curators should carefully examine the experimental evidence presented in papers concerning autophagic cell death, and annotate accordingly. Recently, an instance of autophagic cell death, termed autosis, was discovered that relies on the plasma membrane Na+/K+-ATPase. Autosis was observed in vivo in the brain of rats subjected to an ischemic insult. It's still unclear if all cases of autophagic cell death require the Na+/K+-ATPase or not. synonym: "autophagic death" BROAD [] synonym: "autosis" RELATED [PMID:25236395] synonym: "programmed cell death by autophagy" BROAD [GOC:pr] synonym: "programmed cell death by macroautophagy" EXACT [GOC:cjm] synonym: "type II programmed cell death" RELATED [GOC:sl] is_a: GO:0012501 ! programmed cell death intersection_of: GO:0012501 ! programmed cell death intersection_of: has_part GO:0016236 ! macroautophagy relationship: has_part GO:0016236 ! macroautophagy [Term] id: GO:0048232 name: male gamete generation namespace: biological_process def: "Generation of the male gamete; specialised haploid cells produced by meiosis and along with a female gamete takes part in sexual reproduction." [GOC:dph, GOC:jid] is_a: GO:0007276 ! gamete generation [Term] id: GO:0048259 name: regulation of receptor-mediated endocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of receptor mediated endocytosis, the uptake of external materials by cells, utilizing receptors to ensure specificity of transport." [GOC:go_curators, GOC:tb] synonym: "regulation of receptor mediated endocytosis" EXACT [GOC:tb] is_a: GO:0030100 ! regulation of endocytosis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006898 ! receptor-mediated endocytosis relationship: regulates GO:0006898 ! receptor-mediated endocytosis [Term] id: GO:0048260 name: positive regulation of receptor-mediated endocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of receptor mediated endocytosis, the uptake of external materials by cells, utilizing receptors to ensure specificity of transport." [GOC:go_curators, GOC:tb] synonym: "activation of receptor mediated endocytosis" NARROW [] synonym: "positive regulation of receptor mediated endocytosis" EXACT [GOC:tb] synonym: "stimulation of receptor mediated endocytosis" NARROW [] synonym: "up regulation of receptor mediated endocytosis" EXACT [] synonym: "up-regulation of receptor mediated endocytosis" EXACT [] synonym: "upregulation of receptor mediated endocytosis" EXACT [] is_a: GO:0045807 ! positive regulation of endocytosis is_a: GO:0048259 ! regulation of receptor-mediated endocytosis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006898 ! receptor-mediated endocytosis relationship: positively_regulates GO:0006898 ! receptor-mediated endocytosis [Term] id: GO:0048261 name: negative regulation of receptor-mediated endocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of receptor mediated endocytosis, the uptake of external materials by cells, utilizing receptors to ensure specificity of transport." [GOC:go_curators] synonym: "down regulation of receptor mediated endocytosis" EXACT [] synonym: "down-regulation of receptor mediated endocytosis" EXACT [] synonym: "downregulation of receptor mediated endocytosis" EXACT [] synonym: "inhibition of receptor mediated endocytosis" NARROW [] synonym: "negative regulation of receptor mediated endocytosis" EXACT [] is_a: GO:0045806 ! negative regulation of endocytosis is_a: GO:0048259 ! regulation of receptor-mediated endocytosis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006898 ! receptor-mediated endocytosis relationship: negatively_regulates GO:0006898 ! receptor-mediated endocytosis [Term] id: GO:0048284 name: organelle fusion namespace: biological_process def: "The creation of a single organelle from two or more organelles." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0006996 ! organelle organization [Term] id: GO:0048285 name: organelle fission namespace: biological_process def: "The creation of two or more organelles by division of one organelle." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0006996 ! organelle organization [Term] id: GO:0048332 name: mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the mesoderm are generated and organized." [GOC:go_curators] is_a: GO:0048729 ! tissue morphogenesis relationship: part_of GO:0007498 ! mesoderm development [Term] id: GO:0048468 name: cell development namespace: biological_process def: "The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:go_curators] subset: goslim_candida synonym: "terminal differentiation" RELATED [GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0030154 ! cell differentiation [Term] id: GO:0048469 name: cell maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state." [GOC:go_curators] subset: goslim_pir synonym: "functional differentiation" RELATED [GOC:dph] is_a: GO:0021700 ! developmental maturation is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0048468 ! cell development [Term] id: GO:0048477 name: oogenesis namespace: biological_process alt_id: GO:0009993 alt_id: GO:0048157 def: "The complete process of formation and maturation of an ovum or female gamete from a primordial female germ cell. Examples of this process are found in Mus musculus and Drosophila melanogaster." [GOC:kmv, GOC:mtg_sensu, GOC:pr] synonym: "ovum development" EXACT systematic_synonym [] xref: Wikipedia:Oogenesis is_a: GO:0007281 ! germ cell development is_a: GO:0007292 ! female gamete generation [Term] id: GO:0048488 name: synaptic vesicle endocytosis namespace: biological_process alt_id: GO:0008099 def: "A vesicle-mediated transport process, in which the synaptic vesicle membrane constituents are retrieved from the presynaptic membrane on the axon terminal after neurotransmitter secretion by exocytosis. Synaptic vesicle endocytosis can occur via clathrin-dependent and clathrin-independent mechanisms." [GOC:aruk, GOC:bc, GOC:jid, GOC:lmg, GOC:mah, PMID:20448150, PMID:26430111] comment: Changed parent as requested in https://github.com/geneontology/synapse/issues/230 subset: goslim_synapse synonym: "synaptic vesicle retrieval" RELATED [] is_a: GO:0140238 ! presynaptic endocytosis relationship: part_of GO:0036465 ! synaptic vesicle recycling [Term] id: GO:0048489 name: synaptic vesicle transport namespace: biological_process alt_id: GO:0016181 def: "The directed movement of synaptic vesicles." [GOC:aruk, GOC:bc, GOC:jid, GOC:lmg, GOC:pr] subset: goslim_synapse synonym: "synaptic vesicle fission" RELATED [] synonym: "synaptic vesicle fusion" RELATED [] synonym: "synaptic vesicle trafficking" RELATED [PMID:15217342] is_a: GO:0006810 ! transport is_a: GO:0051650 ! establishment of vesicle localization is_a: GO:0097479 ! synaptic vesicle localization [Term] id: GO:0048490 name: anterograde synaptic vesicle transport namespace: biological_process def: "The directed movement of synaptic vesicle along axonal microtubules from the cell body to the presynapse." [GOC:jid, GOC:lmg] subset: goslim_synapse synonym: "anterograde axonal transport of synaptic vesicle" EXACT [] is_a: GO:0008089 ! anterograde axonal transport is_a: GO:0099517 ! synaptic vesicle transport along microtubule [Term] id: GO:0048511 name: rhythmic process namespace: biological_process def: "Any process pertinent to the generation and maintenance of rhythms in the physiology of an organism." [GOC:jid] subset: goslim_pir synonym: "rhythm" RELATED [] xref: MIPS_funcat:34.11.11 is_a: GO:0008150 ! biological_process [Term] id: GO:0048512 name: circadian behavior namespace: biological_process def: "The specific behavior of an organism that recurs with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators, GOC:pr] synonym: "circadian rhythm behavior" EXACT [] is_a: GO:0007622 ! rhythmic behavior is_a: GO:0007623 ! circadian rhythm [Term] id: GO:0048513 name: animal organ development namespace: biological_process def: "Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dph, GOC:jid] synonym: "development of an organ" EXACT [] synonym: "organogenesis" EXACT [] xref: Wikipedia:Organogenesis is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0048731 ! system development [Term] id: GO:0048515 name: spermatid differentiation namespace: biological_process def: "The process whose specific outcome is the progression of a spermatid over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:dph, GOC:jid] synonym: "spermatid cell differentiation" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0007283 ! spermatogenesis [Term] id: GO:0048518 name: positive regulation of biological process namespace: biological_process alt_id: GO:0043119 def: "Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid] subset: gocheck_do_not_annotate synonym: "activation of biological process" NARROW [] synonym: "positive regulation of physiological process" EXACT [] synonym: "stimulation of biological process" NARROW [] synonym: "up regulation of biological process" EXACT [] synonym: "up-regulation of biological process" EXACT [] synonym: "upregulation of biological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008150 ! biological_process relationship: positively_regulates GO:0008150 ! biological_process [Term] id: GO:0048519 name: negative regulation of biological process namespace: biological_process alt_id: GO:0043118 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid] subset: gocheck_do_not_annotate synonym: "down regulation of biological process" EXACT [] synonym: "down-regulation of biological process" EXACT [] synonym: "downregulation of biological process" EXACT [] synonym: "inhibition of biological process" NARROW [] synonym: "negative regulation of physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008150 ! biological_process relationship: negatively_regulates GO:0008150 ! biological_process [Term] id: GO:0048520 name: positive regulation of behavior namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of behavior, the internally coordinated responses (actions or inactions) of whole living organisms (individuals or groups) to internal or external stimuli." [GOC:jid, GOC:pr] synonym: "activation of behavior" NARROW [] synonym: "stimulation of behavior" NARROW [] synonym: "up regulation of behavior" EXACT [] synonym: "up-regulation of behavior" EXACT [] synonym: "upregulation of behavior" EXACT [] is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007610 ! behavior relationship: positively_regulates GO:0007610 ! behavior [Term] id: GO:0048521 name: negative regulation of behavior namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of behavior, the internally coordinated responses (actions or inactions) of whole living organisms (individuals or groups) to internal or external stimuli." [GOC:jid, GOC:pr] synonym: "down regulation of behavior" EXACT [] synonym: "down-regulation of behavior" EXACT [] synonym: "downregulation of behavior" EXACT [] synonym: "inhibition of behavior" NARROW [] is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007610 ! behavior relationship: negatively_regulates GO:0007610 ! behavior [Term] id: GO:0048522 name: positive regulation of cellular process namespace: biological_process alt_id: GO:0051242 def: "Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid] synonym: "activation of cellular process" NARROW [] synonym: "positive regulation of cellular physiological process" EXACT [] synonym: "stimulation of cellular process" NARROW [] synonym: "up regulation of cellular process" EXACT [] synonym: "up-regulation of cellular process" EXACT [] synonym: "upregulation of cellular process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009987 ! cellular process relationship: positively_regulates GO:0009987 ! cellular process [Term] id: GO:0048523 name: negative regulation of cellular process namespace: biological_process alt_id: GO:0051243 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid] synonym: "down regulation of cellular process" EXACT [] synonym: "down-regulation of cellular process" EXACT [] synonym: "downregulation of cellular process" EXACT [] synonym: "inhibition of cellular process" NARROW [] synonym: "negative regulation of cellular physiological process" EXACT [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009987 ! cellular process relationship: negatively_regulates GO:0009987 ! cellular process [Term] id: GO:0048534 name: hematopoietic or lymphoid organ development namespace: biological_process def: "The process whose specific outcome is the progression of any organ involved in hematopoiesis (also known as hemopoiesis) or lymphoid cell activation over time, from its formation to the mature structure. Such development includes differentiation of resident cell types (stromal cells) and of migratory cell types dependent on the unique microenvironment afforded by the organ for their proper differentiation." [GOC:add, GOC:rl, ISBN:0781735149] synonym: "haematopoietic or lymphoid organ development" EXACT [] synonym: "haemopoietic or lymphoid organ development" EXACT [] synonym: "hemopoietic or lymphoid organ development" EXACT [] is_a: GO:0048513 ! animal organ development relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0048540 name: bursa of Fabricius development namespace: biological_process def: "The process whose specific outcome is the progression of the bursa of Fabricius over time, from its formation to the mature structure. The bursa of Fabricius is an organ found in birds involved in B cell differentiation." [GOC:add, ISBN:0781735149] is_a: GO:0048534 ! hematopoietic or lymphoid organ development [Term] id: GO:0048565 name: digestive tract development namespace: biological_process def: "The process whose specific outcome is the progression of the digestive tract over time, from its formation to the mature structure. The digestive tract is the anatomical structure through which food passes and is processed." [GOC:go_curators] synonym: "gut development" BROAD [GOC:dph] synonym: "intestinal development" NARROW [] synonym: "intestine development" NARROW [] xref: MIPS_funcat:47.03.11.05 is_a: GO:0035295 ! tube development relationship: part_of GO:0055123 ! digestive system development [Term] id: GO:0048569 name: post-embryonic animal organ development namespace: biological_process def: "Development, taking place during the post-embryonic phase of an animal tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:jid] synonym: "post-embryonic animal organogenesis" EXACT [] is_a: GO:0048513 ! animal organ development [Term] id: GO:0048580 name: regulation of post-embryonic development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009791 ! post-embryonic development relationship: regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048581 name: negative regulation of post-embryonic development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] synonym: "down regulation of post-embryonic development" EXACT [] synonym: "down-regulation of post-embryonic development" EXACT [] synonym: "downregulation of post-embryonic development" EXACT [] synonym: "inhibition of post-embryonic development" NARROW [] is_a: GO:0048580 ! regulation of post-embryonic development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009791 ! post-embryonic development relationship: negatively_regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048582 name: positive regulation of post-embryonic development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] synonym: "activation of post-embryonic development" NARROW [] synonym: "stimulation of post-embryonic development" NARROW [] synonym: "up regulation of post-embryonic development" EXACT [] synonym: "up-regulation of post-embryonic development" EXACT [] synonym: "upregulation of post-embryonic development" EXACT [] is_a: GO:0048580 ! regulation of post-embryonic development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009791 ! post-embryonic development relationship: positively_regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048583 name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0050896 ! response to stimulus relationship: regulates GO:0050896 ! response to stimulus [Term] id: GO:0048584 name: positive regulation of response to stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to stimulus" NARROW [] synonym: "stimulation of response to stimulus" NARROW [] synonym: "up regulation of response to stimulus" EXACT [] synonym: "up-regulation of response to stimulus" EXACT [] synonym: "upregulation of response to stimulus" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0050896 ! response to stimulus relationship: positively_regulates GO:0050896 ! response to stimulus [Term] id: GO:0048585 name: negative regulation of response to stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to stimulus" EXACT [] synonym: "down-regulation of response to stimulus" EXACT [] synonym: "downregulation of response to stimulus" EXACT [] synonym: "inhibition of response to stimulus" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0050896 ! response to stimulus relationship: negatively_regulates GO:0050896 ! response to stimulus [Term] id: GO:0048588 name: developmental cell growth namespace: biological_process def: "The growth of a cell, where growth contributes to the progression of the cell over time from one condition to another." [GOC:go_curators, GOC:isa_complete] synonym: "developmental growth of a unicellular organism" EXACT [] is_a: GO:0016049 ! cell growth is_a: GO:0048589 ! developmental growth relationship: part_of GO:0048468 ! cell development [Term] id: GO:0048589 name: developmental growth namespace: biological_process def: "The increase in size or mass of an entire organism, a part of an organism or a cell, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." [GOC:go_curators] is_a: GO:0032502 ! developmental process is_a: GO:0040007 ! growth [Term] id: GO:0048598 name: embryonic morphogenesis namespace: biological_process alt_id: GO:0048828 def: "The process in which anatomical structures are generated and organized during the embryonic phase. The embryonic phase begins with zygote formation. The end of the embryonic phase is organism-specific. For example, it would be at birth for mammals, larval hatching for insects and seed dormancy in plants." [GOC:jid, GOC:mtg_sensu] synonym: "embryonic anatomical structure morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009790 ! embryo development [Term] id: GO:0048599 name: oocyte development namespace: biological_process def: "The process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:go_curators] is_a: GO:0007281 ! germ cell development relationship: part_of GO:0009994 ! oocyte differentiation [Term] id: GO:0048608 name: reproductive structure development namespace: biological_process def: "The reproductive developmental process whose specific outcome is the progression of structures that will be used in the process of creating new individuals from one or more parents, from their formation to the mature structures." [GOC:dph, GOC:isa_complete, GOC:jid] xref: MIPS_funcat:45.03.15 is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0061458 ! reproductive system development [Term] id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] synonym: "organismal reproductive process" BROAD [GOC:curators] synonym: "reproductive process in a multicellular organism" EXACT [GOC:curators] is_a: GO:0022414 ! reproductive process relationship: part_of GO:0032504 ! multicellular organism reproduction [Term] id: GO:0048634 name: regulation of muscle organ development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle development." [GOC:go_curators] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007517 ! muscle organ development relationship: regulates GO:0007517 ! muscle organ development [Term] id: GO:0048635 name: negative regulation of muscle organ development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle development." [GOC:go_curators] synonym: "down regulation of muscle development" EXACT [] synonym: "down-regulation of muscle development" EXACT [] synonym: "downregulation of muscle development" EXACT [] synonym: "inhibition of muscle development" NARROW [] is_a: GO:0048634 ! regulation of muscle organ development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007517 ! muscle organ development relationship: negatively_regulates GO:0007517 ! muscle organ development [Term] id: GO:0048636 name: positive regulation of muscle organ development namespace: biological_process def: "Any process that activates, maintains or increases the rate of muscle development." [GOC:go_curators] synonym: "activation of muscle development" NARROW [] synonym: "stimulation of muscle development" NARROW [] synonym: "up regulation of muscle development" EXACT [] synonym: "up-regulation of muscle development" EXACT [] synonym: "upregulation of muscle development" EXACT [] is_a: GO:0048634 ! regulation of muscle organ development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007517 ! muscle organ development relationship: positively_regulates GO:0007517 ! muscle organ development [Term] id: GO:0048638 name: regulation of developmental growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of developmental growth." [GOC:go_curators] is_a: GO:0040008 ! regulation of growth is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048589 ! developmental growth relationship: regulates GO:0048589 ! developmental growth [Term] id: GO:0048639 name: positive regulation of developmental growth namespace: biological_process def: "Any process that activates, maintains or increases the rate of developmental growth." [GOC:go_curators] synonym: "activation of developmental growth" NARROW [] synonym: "stimulation of developmental growth" NARROW [] synonym: "up regulation of developmental growth" EXACT [] synonym: "up-regulation of developmental growth" EXACT [] synonym: "upregulation of developmental growth" EXACT [] is_a: GO:0045927 ! positive regulation of growth is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048589 ! developmental growth relationship: positively_regulates GO:0048589 ! developmental growth [Term] id: GO:0048640 name: negative regulation of developmental growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of developmental growth." [GOC:go_curators] synonym: "down regulation of developmental growth" EXACT [] synonym: "down-regulation of developmental growth" EXACT [] synonym: "downregulation of developmental growth" EXACT [] synonym: "inhibition of developmental growth" NARROW [] is_a: GO:0045926 ! negative regulation of growth is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048589 ! developmental growth relationship: negatively_regulates GO:0048589 ! developmental growth [Term] id: GO:0048646 name: anatomical structure formation involved in morphogenesis namespace: biological_process def: "The developmental process pertaining to the initial formation of an anatomical structure from unspecified parts. This process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the structural rudiment is recognizable. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:dph, GOC:jid, GOC:tb] comment: Note that, for example, the formation of a pseudopod in an amoeba would not be considered formation involved in morphogenesis because it would not be thought of as the formation of an anatomical structure that was part of the shaping of the amoeba during its development. The formation of an axon from a neuron would be considered the formation of an anatomical structure involved in morphogenesis because it contributes to the creation of the form of the neuron in a developmental sense. subset: goslim_chembl subset: goslim_generic synonym: "formation of an anatomical structure involved in morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0032502 ! developmental process relationship: part_of GO:0009653 ! anatomical structure morphogenesis [Term] id: GO:0048666 name: neuron development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0030182 ! neuron differentiation [Term] id: GO:0048667 name: cell morphogenesis involved in neuron differentiation namespace: biological_process def: "The process in which the structures of a neuron are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a neuron." [GOC:dph, GOC:tb] synonym: "neuron morphogenesis involved in differentiation" EXACT [GOC:dph, GOC:tb] is_a: GO:0000904 ! cell morphogenesis involved in differentiation intersection_of: GO:0000902 ! cell morphogenesis intersection_of: part_of GO:0030182 ! neuron differentiation relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0048675 name: axon extension namespace: biological_process alt_id: GO:0048676 def: "Long distance growth of a single axon process involved in cellular development." [GOC:BHF, GOC:dgh, GOC:dph, GOC:jid, GOC:lm, GOC:rl] synonym: "axon extension involved in development" EXACT [] is_a: GO:1990138 ! neuron projection extension relationship: part_of GO:0007409 ! axonogenesis [Term] id: GO:0048699 name: generation of neurons namespace: biological_process def: "The process in which nerve cells are generated. This includes the production of neuroblasts and their differentiation into neurons." [GOC:nln] synonym: "neuron generation" EXACT [GOC:curators] xref: MIPS_funcat:41.05.13 is_a: GO:0022008 ! neurogenesis [Term] id: GO:0048729 name: tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tissue are generated and organized." [GOC:dph, GOC:jid] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009888 ! tissue development [Term] id: GO:0048731 name: system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:dph, GOC:jid] subset: goslim_mouse is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0048786 name: presynaptic active zone namespace: cellular_component def: "A specialized region of the plasma membrane and cell cortex of a presynaptic neuron; encompasses a region of the plasma membrane where synaptic vesicles dock and fuse, and a specialized cortical cytoskeletal matrix." [GOC:dh, GOC:dl, GOC:ef, GOC:jid, GOC:pr, PMID:3152289] subset: goslim_synapse synonym: "pre-synaptic active zone" EXACT [] synonym: "pre-synaptic active zone component" NARROW [NIF_Subcellular:sao1911631652] synonym: "presynaptic specialization" EXACT [] xref: NIF_Subcellular:sao792027222 is_a: GO:0044456 ! synapse part is_a: GO:0097458 ! neuron part relationship: part_of GO:0098793 ! presynapse [Term] id: GO:0048812 name: neuron projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a neuron projection are generated and organized. A neuron projection is any process extending from a neural cell, such as axons or dendrites." [GOC:mah] synonym: "neurite biosynthesis" NARROW [] synonym: "neurite formation" NARROW [] synonym: "neurite growth" NARROW [] synonym: "neurite morphogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0120039 ! plasma membrane bounded cell projection morphogenesis relationship: part_of GO:0031175 ! neuron projection development [Term] id: GO:0048841 name: regulation of axon extension involved in axon guidance namespace: biological_process def: "Any process that modulates the frequency, rate or extent of axon extension involved in axon guidance." [GOC:devbiol] is_a: GO:0030516 ! regulation of axon extension is_a: GO:1902667 ! regulation of axon guidance intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048846 ! axon extension involved in axon guidance relationship: regulates GO:0048846 ! axon extension involved in axon guidance [Term] id: GO:0048842 name: positive regulation of axon extension involved in axon guidance namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of axon extension involved in axon guidance." [GOC:devbiol] synonym: "activation of axon extension involved in axon guidance" NARROW [] synonym: "stimulation of axon extension involved in axon guidance" NARROW [] synonym: "up regulation of axon extension involved in axon guidance" EXACT [] synonym: "up-regulation of axon extension involved in axon guidance" EXACT [] synonym: "upregulation of axon extension involved in axon guidance" EXACT [] is_a: GO:0045773 ! positive regulation of axon extension is_a: GO:0048841 ! regulation of axon extension involved in axon guidance is_a: GO:1902669 ! positive regulation of axon guidance intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048846 ! axon extension involved in axon guidance relationship: positively_regulates GO:0048846 ! axon extension involved in axon guidance [Term] id: GO:0048843 name: negative regulation of axon extension involved in axon guidance namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of axon extension involved in axon guidance." [GOC:devbiol] synonym: "down regulation of axon extension involved in axon guidance" EXACT [] synonym: "down-regulation of axon extension involved in axon guidance" EXACT [] synonym: "downregulation of axon extension involved in axon guidance" EXACT [] synonym: "inhibition of axon extension involved in axon guidance" NARROW [] is_a: GO:0030517 ! negative regulation of axon extension is_a: GO:0048841 ! regulation of axon extension involved in axon guidance is_a: GO:1902668 ! negative regulation of axon guidance intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048846 ! axon extension involved in axon guidance relationship: negatively_regulates GO:0048846 ! axon extension involved in axon guidance [Term] id: GO:0048846 name: axon extension involved in axon guidance namespace: biological_process def: "The long distance growth of a single cell process, that is involved in the migration of an axon growth cone, where the migration is directed to a specific target site by a combination of attractive and repulsive cues." [GOC:ef, GOC:jid] is_a: GO:0048675 ! axon extension is_a: GO:1902284 ! neuron projection extension involved in neuron projection guidance intersection_of: GO:0048675 ! axon extension intersection_of: part_of GO:0007411 ! axon guidance relationship: part_of GO:0007411 ! axon guidance [Term] id: GO:0048856 name: anatomical structure development namespace: biological_process def: "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GO_REF:0000021, GOC:mtg_15jun06] comment: This term was added by GO_REF:0000021. subset: goslim_chembl subset: goslim_generic subset: goslim_plant synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process [Term] id: GO:0048858 name: cell projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a cell projection are generated and organized." [GO_REF:0000021, GOC:mtg_15jun06] comment: This term was added by GO_REF:0000021. is_a: GO:0030030 ! cell projection organization is_a: GO:0032990 ! cell part morphogenesis relationship: part_of GO:0000902 ! cell morphogenesis [Term] id: GO:0048869 name: cellular developmental process namespace: biological_process def: "A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition." [GOC:isa_complete] is_a: GO:0009987 ! cellular process is_a: GO:0032502 ! developmental process [Term] id: GO:0048870 name: cell motility namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_generic synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0006928 ! movement of cell or subcellular component is_a: GO:0040011 ! locomotion relationship: part_of GO:0051674 ! localization of cell [Term] id: GO:0048878 name: chemical homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of an internal steady state of a chemical." [GOC:isa_complete] is_a: GO:0042592 ! homeostatic process [Term] id: GO:0048880 name: sensory system development namespace: biological_process def: "The process whose specific outcome is the progression of a sensory system over time from its formation to the mature structure." [GOC:dgh] is_a: GO:0048731 ! system development [Term] id: GO:0050657 name: nucleic acid transport namespace: biological_process def: "The directed movement of nucleic acids, single or double-stranded polynucleotides involved in the storage, transmission and transfer of genetic information, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] is_a: GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0050658 name: RNA transport namespace: biological_process def: "The directed movement of RNA, ribonucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] xref: MIPS_funcat:20.01.21 is_a: GO:0050657 ! nucleic acid transport is_a: GO:0051236 ! establishment of RNA localization [Term] id: GO:0050708 name: regulation of protein secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051223 ! regulation of protein transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009306 ! protein secretion relationship: regulates GO:0009306 ! protein secretion [Term] id: GO:0050709 name: negative regulation of protein secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] synonym: "down regulation of protein secretion" EXACT [] synonym: "down-regulation of protein secretion" EXACT [] synonym: "downregulation of protein secretion" EXACT [] synonym: "inhibition of protein secretion" NARROW [] is_a: GO:0002792 ! negative regulation of peptide secretion is_a: GO:0050708 ! regulation of protein secretion is_a: GO:0051224 ! negative regulation of protein transport is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009306 ! protein secretion relationship: negatively_regulates GO:0009306 ! protein secretion [Term] id: GO:0050714 name: positive regulation of protein secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] synonym: "activation of protein secretion" NARROW [] synonym: "stimulation of protein secretion" NARROW [] synonym: "up regulation of protein secretion" EXACT [] synonym: "up-regulation of protein secretion" EXACT [] synonym: "upregulation of protein secretion" EXACT [] is_a: GO:0002793 ! positive regulation of peptide secretion is_a: GO:0050708 ! regulation of protein secretion is_a: GO:0051222 ! positive regulation of protein transport is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009306 ! protein secretion relationship: positively_regulates GO:0009306 ! protein secretion [Term] id: GO:0050764 name: regulation of phagocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of phagocytosis, the process in which phagocytes engulf external particulate material." [GOC:ai] is_a: GO:0060627 ! regulation of vesicle-mediated transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006909 ! phagocytosis relationship: regulates GO:0006909 ! phagocytosis [Term] id: GO:0050765 name: negative regulation of phagocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of phagocytosis." [GOC:ai] synonym: "down regulation of phagocytosis" EXACT [] synonym: "down-regulation of phagocytosis" EXACT [] synonym: "downregulation of phagocytosis" EXACT [] synonym: "inhibition of phagocytosis" NARROW [] is_a: GO:0050764 ! regulation of phagocytosis is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006909 ! phagocytosis relationship: negatively_regulates GO:0006909 ! phagocytosis [Term] id: GO:0050766 name: positive regulation of phagocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of phagocytosis." [GOC:ai] synonym: "activation of phagocytosis" NARROW [] synonym: "stimulation of phagocytosis" NARROW [] synonym: "up regulation of phagocytosis" EXACT [] synonym: "up-regulation of phagocytosis" EXACT [] synonym: "upregulation of phagocytosis" EXACT [] is_a: GO:0050764 ! regulation of phagocytosis is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006909 ! phagocytosis relationship: positively_regulates GO:0006909 ! phagocytosis [Term] id: GO:0050767 name: regulation of neurogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neurogenesis, the generation of cells in the nervous system." [GOC:ai] is_a: GO:0051960 ! regulation of nervous system development is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0022008 ! neurogenesis relationship: part_of GO:0048699 ! generation of neurons relationship: regulates GO:0022008 ! neurogenesis [Term] id: GO:0050768 name: negative regulation of neurogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neurogenesis, the generation of cells within the nervous system." [GOC:ai] synonym: "down regulation of neurogenesis" EXACT [] synonym: "down-regulation of neurogenesis" EXACT [] synonym: "downregulation of neurogenesis" EXACT [] synonym: "inhibition of neurogenesis" NARROW [] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0050767 ! regulation of neurogenesis is_a: GO:0051961 ! negative regulation of nervous system development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0022008 ! neurogenesis relationship: negatively_regulates GO:0022008 ! neurogenesis [Term] id: GO:0050769 name: positive regulation of neurogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neurogenesis, the generation of cells within the nervous system." [GOC:ai] synonym: "activation of neurogenesis" NARROW [] synonym: "stimulation of neurogenesis" NARROW [] synonym: "up regulation of neurogenesis" EXACT [] synonym: "up-regulation of neurogenesis" EXACT [] synonym: "upregulation of neurogenesis" EXACT [] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0050767 ! regulation of neurogenesis is_a: GO:0051962 ! positive regulation of nervous system development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0022008 ! neurogenesis relationship: positively_regulates GO:0022008 ! neurogenesis [Term] id: GO:0050770 name: regulation of axonogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of axonogenesis, the generation of an axon, the long process of a neuron." [GOC:ai] is_a: GO:0010769 ! regulation of cell morphogenesis involved in differentiation is_a: GO:0010975 ! regulation of neuron projection development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007409 ! axonogenesis relationship: regulates GO:0007409 ! axonogenesis [Term] id: GO:0050771 name: negative regulation of axonogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of axonogenesis." [GOC:ai] synonym: "down regulation of axonogenesis" EXACT [] synonym: "down-regulation of axonogenesis" EXACT [] synonym: "downregulation of axonogenesis" EXACT [] synonym: "inhibition of axonogenesis" NARROW [] is_a: GO:0010771 ! negative regulation of cell morphogenesis involved in differentiation is_a: GO:0010977 ! negative regulation of neuron projection development is_a: GO:0050770 ! regulation of axonogenesis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007409 ! axonogenesis relationship: negatively_regulates GO:0007409 ! axonogenesis [Term] id: GO:0050772 name: positive regulation of axonogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of axonogenesis." [GOC:ai] synonym: "activation of axonogenesis" NARROW [] synonym: "stimulation of axonogenesis" NARROW [] synonym: "up regulation of axonogenesis" EXACT [] synonym: "up-regulation of axonogenesis" EXACT [] synonym: "upregulation of axonogenesis" EXACT [] is_a: GO:0010770 ! positive regulation of cell morphogenesis involved in differentiation is_a: GO:0010976 ! positive regulation of neuron projection development is_a: GO:0050770 ! regulation of axonogenesis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007409 ! axonogenesis relationship: positively_regulates GO:0007409 ! axonogenesis [Term] id: GO:0050773 name: regulation of dendrite development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of dendrite development." [GOC:ai] is_a: GO:0010975 ! regulation of neuron projection development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016358 ! dendrite development relationship: regulates GO:0016358 ! dendrite development [Term] id: GO:0050789 name: regulation of biological process namespace: biological_process alt_id: GO:0050791 def: "Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:ai, GOC:go_curators] subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir synonym: "regulation of physiological process" EXACT [] is_a: GO:0065007 ! biological regulation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0050790 name: regulation of catalytic activity namespace: biological_process alt_id: GO:0048552 def: "Any process that modulates the activity of an enzyme." [GOC:ai, GOC:ebc, GOC:vw] subset: goslim_chembl synonym: "regulation of enzyme activity" EXACT [] synonym: "regulation of metalloenzyme activity" NARROW [] xref: MIPS_funcat:18.02.01 is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0003824 ! catalytic activity relationship: regulates GO:0003824 ! catalytic activity [Term] id: GO:0050793 name: regulation of developmental process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:go_curators] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032502 ! developmental process relationship: regulates GO:0032502 ! developmental process [Term] id: GO:0050794 name: regulation of cellular process namespace: biological_process alt_id: GO:0051244 def: "Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators] synonym: "regulation of cellular physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009987 ! cellular process relationship: regulates GO:0009987 ! cellular process [Term] id: GO:0050795 name: regulation of behavior namespace: biological_process def: "Any process that modulates the frequency, rate or extent of behavior, the internally coordinated responses (actions or inactions) of whole living organisms (individuals or groups) to internal or external stimuli." [GOC:go_curators, GOC:pr] synonym: "regulation of behaviour" EXACT [] is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007610 ! behavior relationship: regulates GO:0007610 ! behavior [Term] id: GO:0050801 name: ion homeostasis namespace: biological_process alt_id: GO:2000021 def: "Any process involved in the maintenance of an internal steady state of ions within an organism or cell." [GOC:ai] synonym: "electrolyte homeostasis" RELATED [] synonym: "negative regulation of crystal formation" RELATED [] synonym: "regulation of ion homeostasis" RELATED [] is_a: GO:0048878 ! chemical homeostasis [Term] id: GO:0050803 name: regulation of synapse structure or activity namespace: biological_process def: "Any process that modulates the physical form or the activity of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0050804 name: modulation of chemical synaptic transmission namespace: biological_process def: "Any process that modulates the frequency or amplitude of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse. Amplitude, in this case, refers to the change in postsynaptic membrane potential due to a single instance of synaptic transmission." [GOC:ai] subset: goslim_synapse synonym: "modulation of synaptic transmission" BROAD [] synonym: "regulation of chemical synaptic transmission" EXACT [] synonym: "regulation of synaptic transmission" EXACT [] is_a: GO:0099177 ! regulation of trans-synaptic signaling intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007268 ! chemical synaptic transmission relationship: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050805 name: negative regulation of synaptic transmission namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse." [GOC:ai] synonym: "down regulation of synaptic transmission" EXACT [] synonym: "down-regulation of synaptic transmission" EXACT [] synonym: "downregulation of synaptic transmission" EXACT [] synonym: "inhibition of synaptic transmission" NARROW [] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007268 ! chemical synaptic transmission relationship: negatively_regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050806 name: positive regulation of synaptic transmission namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse." [GOC:ai] synonym: "activation of synaptic transmission" NARROW [] synonym: "stimulation of synaptic transmission" NARROW [] synonym: "up regulation of synaptic transmission" EXACT [] synonym: "up-regulation of synaptic transmission" EXACT [] synonym: "upregulation of synaptic transmission" EXACT [] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007268 ! chemical synaptic transmission relationship: positively_regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050807 name: regulation of synapse organization namespace: biological_process def: "Any process that modulates the physical form of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_synapse synonym: "regulation of synapse organisation" EXACT [GOC:mah] synonym: "regulation of synapse organization and biogenesis" RELATED [GOC:mah] synonym: "regulation of synapse structure" EXACT [] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0050808 ! synapse organization relationship: part_of GO:0050803 ! regulation of synapse structure or activity relationship: regulates GO:0050808 ! synapse organization [Term] id: GO:0050808 name: synapse organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai, GOC:pr] subset: goslim_synapse synonym: "synapse development" RELATED [GOC:aruk] synonym: "synapse morphogenesis" RELATED [GOC:BHF] synonym: "synapse organisation" EXACT [GOC:curators] synonym: "synapse organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization [Term] id: GO:0050821 name: protein stabilization namespace: biological_process def: "Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation." [GOC:ai] subset: goslim_chembl synonym: "lysosomal protein stabilization" NARROW [] synonym: "positive regulation of protein stability" EXACT [] synonym: "protein sequestering" RELATED [] synonym: "protein stabilisation" EXACT [GOC:ah] synonym: "protein stabilization activity" RELATED [] xref: MIPS_funcat:14.01 is_a: GO:0031647 ! regulation of protein stability [Term] id: GO:0050848 name: regulation of calcium-mediated signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of calcium-mediated signaling, the process in which a cell uses calcium ions to convert an extracellular signal into a response." [GOC:ai] synonym: "regulation of calcium-mediated signalling" EXACT [] is_a: GO:1902531 ! regulation of intracellular signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0019722 ! calcium-mediated signaling relationship: regulates GO:0019722 ! calcium-mediated signaling [Term] id: GO:0050849 name: negative regulation of calcium-mediated signaling namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of calcium-mediated signaling." [GOC:ai, PMID:11696592] synonym: "down regulation of calcium-mediated signaling" EXACT [] synonym: "down-regulation of calcium-mediated signaling" EXACT [] synonym: "downregulation of calcium-mediated signaling" EXACT [] synonym: "inhibition of calcium-mediated signaling" NARROW [] synonym: "negative regulation of calcium-mediated signalling" EXACT [] is_a: GO:0050848 ! regulation of calcium-mediated signaling is_a: GO:1902532 ! negative regulation of intracellular signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0019722 ! calcium-mediated signaling relationship: negatively_regulates GO:0019722 ! calcium-mediated signaling [Term] id: GO:0050850 name: positive regulation of calcium-mediated signaling namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of calcium-mediated signaling." [GOC:ai] synonym: "activation of calcium-mediated signaling" NARROW [] synonym: "positive regulation of calcium-mediated signalling" EXACT [] synonym: "stimulation of calcium-mediated signaling" NARROW [] synonym: "up regulation of calcium-mediated signaling" EXACT [] synonym: "up-regulation of calcium-mediated signaling" EXACT [] synonym: "upregulation of calcium-mediated signaling" EXACT [] is_a: GO:0050848 ! regulation of calcium-mediated signaling is_a: GO:1902533 ! positive regulation of intracellular signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0019722 ! calcium-mediated signaling relationship: positively_regulates GO:0019722 ! calcium-mediated signaling [Term] id: GO:0050877 name: nervous system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of neurological system." [GOC:ai, GOC:mtg_cardio] comment: Discussion of class label and synonyms: https://github.com/geneontology/go-ontology/issues/13824 subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir synonym: "neurological system process" EXACT [] synonym: "neurophysiological process" EXACT [] synonym: "pan-neural process" RELATED [] xref: MIPS_funcat:36.25.03 is_a: GO:0003008 ! system process [Term] id: GO:0050879 name: multicellular organismal movement namespace: biological_process def: "Any physiological process involved in changing the position of a multicellular organism or an anatomical part of a multicellular organism." [GOC:dph, GOC:mtg_muscle, GOC:tb] subset: goslim_pir xref: MIPS_funcat:02.45.11 is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0050890 name: cognition namespace: biological_process def: "The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory." [http://www.onelook.com/, ISBN:0721619908] xref: Wikipedia:Cognition is_a: GO:0050877 ! nervous system process [Term] id: GO:0050896 name: response to stimulus namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "physiological response to stimulus" EXACT [] xref: MIPS_funcat:34.11 is_a: GO:0008150 ! biological_process [Term] id: GO:0050918 name: positive chemotaxis namespace: biological_process def: "The directed movement of a motile cell or organism towards a higher concentration of a chemical." [GOC:ai, GOC:bf, GOC:isa_complete] synonym: "chemoattraction" EXACT [] is_a: GO:0006935 ! chemotaxis [Term] id: GO:0050919 name: negative chemotaxis namespace: biological_process def: "The directed movement of a motile cell or organism towards a lower concentration of a chemical." [GOC:ai, GOC:bf, GOC:isa_complete] synonym: "chemoaversion" EXACT [] synonym: "chemorepulsion" EXACT [] is_a: GO:0006935 ! chemotaxis [Term] id: GO:0050920 name: regulation of chemotaxis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a motile cell or organism in response to a specific chemical concentration gradient." [GOC:ai] is_a: GO:0032101 ! regulation of response to external stimulus is_a: GO:0040012 ! regulation of locomotion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006935 ! chemotaxis relationship: regulates GO:0006935 ! chemotaxis [Term] id: GO:0050921 name: positive regulation of chemotaxis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a motile cell or organism in response to a specific chemical concentration gradient." [GOC:ai] synonym: "activation of chemotaxis" NARROW [] synonym: "stimulation of chemotaxis" NARROW [] synonym: "up regulation of chemotaxis" EXACT [] synonym: "up-regulation of chemotaxis" EXACT [] synonym: "upregulation of chemotaxis" EXACT [] is_a: GO:0032103 ! positive regulation of response to external stimulus is_a: GO:0040017 ! positive regulation of locomotion is_a: GO:0050920 ! regulation of chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006935 ! chemotaxis relationship: positively_regulates GO:0006935 ! chemotaxis [Term] id: GO:0050922 name: negative regulation of chemotaxis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a motile cell or organism in response to a specific chemical concentration gradient." [GOC:ai] synonym: "down regulation of chemotaxis" EXACT [] synonym: "down-regulation of chemotaxis" EXACT [] synonym: "downregulation of chemotaxis" EXACT [] synonym: "inhibition of chemotaxis" NARROW [] is_a: GO:0032102 ! negative regulation of response to external stimulus is_a: GO:0040013 ! negative regulation of locomotion is_a: GO:0050920 ! regulation of chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006935 ! chemotaxis relationship: negatively_regulates GO:0006935 ! chemotaxis [Term] id: GO:0050923 name: regulation of negative chemotaxis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a motile cell or organism towards a lower concentration in a concentration gradient of a specific chemical." [GOC:ai] is_a: GO:0050920 ! regulation of chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0050919 ! negative chemotaxis relationship: regulates GO:0050919 ! negative chemotaxis [Term] id: GO:0050924 name: positive regulation of negative chemotaxis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a motile cell or organism towards a lower concentration in a concentration gradient of a specific chemical." [GOC:ai] synonym: "activation of negative chemotaxis" NARROW [] synonym: "stimulation of negative chemotaxis" NARROW [] synonym: "up regulation of negative chemotaxis" EXACT [] synonym: "up-regulation of negative chemotaxis" EXACT [] synonym: "upregulation of negative chemotaxis" EXACT [] is_a: GO:0050921 ! positive regulation of chemotaxis is_a: GO:0050923 ! regulation of negative chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0050919 ! negative chemotaxis relationship: positively_regulates GO:0050919 ! negative chemotaxis [Term] id: GO:0050925 name: negative regulation of negative chemotaxis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a motile cell or organism towards a lower concentration in a concentration gradient of a specific chemical." [GOC:ai] synonym: "down regulation of negative chemotaxis" EXACT [] synonym: "down-regulation of negative chemotaxis" EXACT [] synonym: "downregulation of negative chemotaxis" EXACT [] synonym: "inhibition of negative chemotaxis" NARROW [] is_a: GO:0050922 ! negative regulation of chemotaxis is_a: GO:0050923 ! regulation of negative chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0050919 ! negative chemotaxis relationship: negatively_regulates GO:0050919 ! negative chemotaxis [Term] id: GO:0050926 name: regulation of positive chemotaxis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a motile cell or organism towards a higher concentration in a concentration gradient of a specific chemical." [GOC:ai] is_a: GO:0050920 ! regulation of chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0050918 ! positive chemotaxis relationship: regulates GO:0050918 ! positive chemotaxis [Term] id: GO:0050927 name: positive regulation of positive chemotaxis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a motile cell or organism towards a higher concentration in a concentration gradient of a specific chemical." [GOC:ai] synonym: "activation of positive chemotaxis" NARROW [] synonym: "stimulation of positive chemotaxis" NARROW [] synonym: "up regulation of positive chemotaxis" EXACT [] synonym: "up-regulation of positive chemotaxis" EXACT [] synonym: "upregulation of positive chemotaxis" EXACT [] is_a: GO:0050921 ! positive regulation of chemotaxis is_a: GO:0050926 ! regulation of positive chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0050918 ! positive chemotaxis relationship: positively_regulates GO:0050918 ! positive chemotaxis [Term] id: GO:0050928 name: negative regulation of positive chemotaxis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a motile cell or organism towards a higher concentration in a concentration gradient of a specific chemical." [GOC:ai] synonym: "down regulation of positive chemotaxis" EXACT [] synonym: "down-regulation of positive chemotaxis" EXACT [] synonym: "downregulation of positive chemotaxis" EXACT [] synonym: "inhibition of positive chemotaxis" NARROW [] is_a: GO:0050922 ! negative regulation of chemotaxis is_a: GO:0050926 ! regulation of positive chemotaxis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0050918 ! positive chemotaxis relationship: negatively_regulates GO:0050918 ! positive chemotaxis [Term] id: GO:0051028 name: mRNA transport namespace: biological_process def: "The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0050658 ! RNA transport [Term] id: GO:0051037 name: regulation of transcription involved in meiotic cell cycle namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription as part of a meiotic cell cycle." [GOC:go_curators] synonym: "meiotic regulation of transcription" EXACT [] synonym: "regulation of transcription, meiotic" EXACT [GOC:mah] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:0022414 ! reproductive process intersection_of: GO:0006355 ! regulation of transcription, DNA-templated intersection_of: part_of GO:0051321 ! meiotic cell cycle relationship: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0051038 name: negative regulation of transcription involved in meiotic cell cycle namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of transcription involved in the meiotic cell cycle." [GOC:ai] synonym: "down regulation of transcription during meiosis" EXACT [GOC:mah] synonym: "down-regulation of transcription during meiosis" EXACT [GOC:mah] synonym: "downregulation of transcription during meiosis" EXACT [GOC:mah] synonym: "inhibition of transcription during meiosis" NARROW [GOC:mah] synonym: "meiotic repression of transcription" EXACT [] synonym: "negative regulation of meiotic transcription" EXACT [] synonym: "negative regulation of transcription, meiotic" EXACT [GOC:mah] is_a: GO:0045892 ! negative regulation of transcription, DNA-templated is_a: GO:0051037 ! regulation of transcription involved in meiotic cell cycle intersection_of: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0051039 name: positive regulation of transcription involved in meiotic cell cycle namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transcription as part of a meiotic cell cycle." [GOC:ai] synonym: "activation of transcription during meiosis" NARROW [GOC:mah] synonym: "positive regulation of meiotic transcription" EXACT [] synonym: "positive regulation of transcription, meiotic" EXACT [GOC:mah] synonym: "stimulation of transcription during meiosis" NARROW [GOC:mah] synonym: "up regulation of transcription during meiosis" EXACT [GOC:mah] synonym: "up-regulation of transcription during meiosis" EXACT [GOC:mah] synonym: "upregulation of transcription during meiosis" EXACT [GOC:mah] is_a: GO:0045893 ! positive regulation of transcription, DNA-templated is_a: GO:0051037 ! regulation of transcription involved in meiotic cell cycle intersection_of: GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0051046 name: regulation of secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0046903 ! secretion relationship: regulates GO:0046903 ! secretion [Term] id: GO:0051047 name: positive regulation of secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] synonym: "activation of secretion" NARROW [] synonym: "stimulation of secretion" NARROW [] synonym: "up regulation of secretion" EXACT [] synonym: "up-regulation of secretion" EXACT [] synonym: "upregulation of secretion" EXACT [] is_a: GO:0051046 ! regulation of secretion is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0046903 ! secretion relationship: positively_regulates GO:0046903 ! secretion [Term] id: GO:0051048 name: negative regulation of secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] synonym: "down regulation of secretion" EXACT [] synonym: "down-regulation of secretion" EXACT [] synonym: "downregulation of secretion" EXACT [] synonym: "inhibition of secretion" NARROW [] is_a: GO:0051046 ! regulation of secretion is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0046903 ! secretion relationship: negatively_regulates GO:0046903 ! secretion [Term] id: GO:0051049 name: regulation of transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_yeast is_a: GO:0032879 ! regulation of localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006810 ! transport relationship: regulates GO:0006810 ! transport [Term] id: GO:0051050 name: positive regulation of transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of transport" NARROW [] synonym: "stimulation of transport" NARROW [] synonym: "up regulation of transport" EXACT [] synonym: "up-regulation of transport" EXACT [] synonym: "upregulation of transport" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006810 ! transport relationship: positively_regulates GO:0006810 ! transport [Term] id: GO:0051051 name: negative regulation of transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of transport" EXACT [] synonym: "down-regulation of transport" EXACT [] synonym: "downregulation of transport" EXACT [] synonym: "inhibition of transport" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006810 ! transport relationship: negatively_regulates GO:0006810 ! transport [Term] id: GO:0051052 name: regulation of DNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] subset: goslim_yeast synonym: "regulation of DNA metabolism" EXACT [] xref: MIPS_funcat:10.01.11 is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006259 ! DNA metabolic process relationship: regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051053 name: negative regulation of DNA metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] synonym: "down regulation of DNA metabolic process" EXACT [] synonym: "down-regulation of DNA metabolic process" EXACT [] synonym: "downregulation of DNA metabolic process" EXACT [] synonym: "inhibition of DNA metabolic process" NARROW [] synonym: "negative regulation of DNA metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006259 ! DNA metabolic process relationship: negatively_regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051054 name: positive regulation of DNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] synonym: "activation of DNA metabolic process" NARROW [] synonym: "positive regulation of DNA metabolism" EXACT [] synonym: "stimulation of DNA metabolic process" NARROW [] synonym: "up regulation of DNA metabolic process" EXACT [] synonym: "up-regulation of DNA metabolic process" EXACT [] synonym: "upregulation of DNA metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006259 ! DNA metabolic process relationship: positively_regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051055 name: negative regulation of lipid biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "down regulation of lipid biosynthetic process" EXACT [] synonym: "down-regulation of lipid biosynthetic process" EXACT [] synonym: "downregulation of lipid biosynthetic process" EXACT [] synonym: "inhibition of lipid biosynthetic process" NARROW [] synonym: "negative regulation of lipid anabolism" EXACT [] synonym: "negative regulation of lipid biosynthesis" EXACT [] synonym: "negative regulation of lipid formation" EXACT [] synonym: "negative regulation of lipid synthesis" EXACT [] synonym: "negative regulation of lipogenesis" EXACT [GOC:sl] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0045833 ! negative regulation of lipid metabolic process is_a: GO:0046890 ! regulation of lipid biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008610 ! lipid biosynthetic process relationship: negatively_regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0051078 name: meiotic nuclear envelope disassembly namespace: biological_process def: "The cell cycle process in which the controlled breakdown of the nuclear envelope during meiotic cell division occurs." [GOC:bf] synonym: "meiotic nuclear envelope breakdown" EXACT [] synonym: "meiotic nuclear envelope catabolism" EXACT [] synonym: "meiotic nuclear envelope degradation" EXACT [] is_a: GO:0051081 ! nuclear envelope disassembly is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0051081 ! nuclear envelope disassembly intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0051079 name: meiosis I nuclear envelope disassembly namespace: biological_process def: "The controlled breakdown of the nuclear envelope during the first division of meiosis." [GOC:bf] synonym: "meiosis I nuclear envelope breakdown" EXACT [] synonym: "meiosis I nuclear envelope catabolism" EXACT [] synonym: "meiosis I nuclear envelope degradation" EXACT [] is_a: GO:0051078 ! meiotic nuclear envelope disassembly intersection_of: GO:0051081 ! nuclear envelope disassembly intersection_of: part_of GO:0007127 ! meiosis I relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0051081 name: nuclear envelope disassembly namespace: biological_process def: "The controlled breakdown of the nuclear envelope in the context of a normal process." [GOC:ai] synonym: "nuclear envelope breakdown" EXACT [] synonym: "nuclear envelope catabolism" EXACT [] synonym: "nuclear envelope degradation" EXACT [] is_a: GO:0006998 ! nuclear envelope organization is_a: GO:0030397 ! membrane disassembly [Term] id: GO:0051093 name: negative regulation of developmental process namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:ai] synonym: "down regulation of developmental process" EXACT [] synonym: "down-regulation of developmental process" EXACT [] synonym: "downregulation of developmental process" EXACT [] synonym: "inhibition of developmental process" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032502 ! developmental process relationship: negatively_regulates GO:0032502 ! developmental process [Term] id: GO:0051094 name: positive regulation of developmental process namespace: biological_process def: "Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:ai] synonym: "activation of developmental process" NARROW [] synonym: "stimulation of developmental process" NARROW [] synonym: "up regulation of developmental process" EXACT [] synonym: "up-regulation of developmental process" EXACT [] synonym: "upregulation of developmental process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032502 ! developmental process relationship: positively_regulates GO:0032502 ! developmental process [Term] id: GO:0051098 name: regulation of binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0005488 ! binding relationship: regulates GO:0005488 ! binding [Term] id: GO:0051099 name: positive regulation of binding namespace: biological_process def: "Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] synonym: "activation of binding" NARROW [] synonym: "stimulation of binding" NARROW [] synonym: "up regulation of binding" EXACT [] synonym: "up-regulation of binding" EXACT [] synonym: "upregulation of binding" EXACT [] is_a: GO:0044093 ! positive regulation of molecular function is_a: GO:0051098 ! regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0005488 ! binding relationship: positively_regulates GO:0005488 ! binding [Term] id: GO:0051100 name: negative regulation of binding namespace: biological_process def: "Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] synonym: "down regulation of binding" EXACT [] synonym: "down-regulation of binding" EXACT [] synonym: "downregulation of binding" EXACT [] synonym: "inhibition of binding" NARROW [] is_a: GO:0044092 ! negative regulation of molecular function is_a: GO:0051098 ! regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0005488 ! binding relationship: negatively_regulates GO:0005488 ! binding [Term] id: GO:0051101 name: regulation of DNA binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:ai, GOC:dph, GOC:tb] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0003677 ! DNA binding relationship: regulates GO:0003677 ! DNA binding [Term] id: GO:0051128 name: regulation of cellular component organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "regulation of cell organisation" RELATED [GOC:mah] synonym: "regulation of cell organization" RELATED [GOC:mah] synonym: "regulation of cellular component organisation" EXACT [GOC:curators] synonym: "regulation of cellular component organization and biogenesis" RELATED [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016043 ! cellular component organization relationship: regulates GO:0016043 ! cellular component organization [Term] id: GO:0051129 name: negative regulation of cellular component organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "down regulation of cell organization" EXACT [] synonym: "down-regulation of cell organization" EXACT [] synonym: "downregulation of cell organization" EXACT [] synonym: "inhibition of cell organization" NARROW [] synonym: "negative regulation of cell organisation" RELATED [GOC:mah] synonym: "negative regulation of cellular component organization and biogenesis" RELATED [GOC:mah] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016043 ! cellular component organization relationship: negatively_regulates GO:0016043 ! cellular component organization [Term] id: GO:0051130 name: positive regulation of cellular component organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "activation of cell organization" NARROW [] synonym: "positive regulation of cell organisation" EXACT [] synonym: "positive regulation of cellular component organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cell organization" NARROW [] synonym: "up regulation of cell organization" EXACT [] synonym: "up-regulation of cell organization" EXACT [] synonym: "upregulation of cell organization" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016043 ! cellular component organization relationship: positively_regulates GO:0016043 ! cellular component organization [Term] id: GO:0051147 name: regulation of muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042692 ! muscle cell differentiation relationship: regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051148 name: negative regulation of muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] synonym: "down regulation of muscle cell differentiation" EXACT [] synonym: "down-regulation of muscle cell differentiation" EXACT [] synonym: "downregulation of muscle cell differentiation" EXACT [] synonym: "inhibition of muscle cell differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042692 ! muscle cell differentiation relationship: negatively_regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051149 name: positive regulation of muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] synonym: "activation of muscle cell differentiation" NARROW [] synonym: "stimulation of muscle cell differentiation" NARROW [] synonym: "up regulation of muscle cell differentiation" EXACT [] synonym: "up-regulation of muscle cell differentiation" EXACT [] synonym: "upregulation of muscle cell differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042692 ! muscle cell differentiation relationship: positively_regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051168 name: nuclear export namespace: biological_process def: "The directed movement of substances out of the nucleus." [GOC:ai] synonym: "export from nucleus" EXACT [] synonym: "nucleus export" EXACT [] synonym: "substance nuclear export" EXACT [] is_a: GO:0006913 ! nucleocytoplasmic transport [Term] id: GO:0051169 name: nuclear transport namespace: biological_process def: "The directed movement of substances into, out of, or within the nucleus." [GOC:ai] subset: goslim_yeast synonym: "nucleus transport" EXACT [] xref: MIPS_funcat:20.09.01 xref: Wikipedia:Nuclear_transport is_a: GO:0046907 ! intracellular transport [Term] id: GO:0051170 name: import into nucleus namespace: biological_process alt_id: GO:1902593 def: "The directed movement of substances into the nucleus." [GOC:ai] synonym: "nuclear import" EXACT [] synonym: "single organism nuclear import" EXACT [GOC:TermGenie] synonym: "single-organism nuclear import" RELATED [] synonym: "substance nuclear import" EXACT [] is_a: GO:0006913 ! nucleocytoplasmic transport created_by: jl creation_date: 2013-12-19T15:26:34Z [Term] id: GO:0051171 name: regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "regulation of nitrogen metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006807 ! nitrogen compound metabolic process relationship: regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051172 name: negative regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "down regulation of nitrogen metabolic process" EXACT [] synonym: "down-regulation of nitrogen metabolic process" EXACT [] synonym: "downregulation of nitrogen metabolic process" EXACT [] synonym: "inhibition of nitrogen metabolic process" NARROW [] synonym: "negative regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "negative regulation of nitrogen metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006807 ! nitrogen compound metabolic process relationship: negatively_regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051173 name: positive regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "activation of nitrogen metabolic process" NARROW [] synonym: "positive regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "positive regulation of nitrogen metabolism" EXACT [] synonym: "stimulation of nitrogen metabolic process" NARROW [] synonym: "up regulation of nitrogen metabolic process" EXACT [] synonym: "up-regulation of nitrogen metabolic process" EXACT [] synonym: "upregulation of nitrogen metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006807 ! nitrogen compound metabolic process relationship: positively_regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051174 name: regulation of phosphorus metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:ai] synonym: "regulation of phosphorus metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006793 ! phosphorus metabolic process relationship: regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0051179 name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] synonym: "establishment and maintenance of position" EXACT [] synonym: "establishment and maintenance of substance location" NARROW [] synonym: "establishment and maintenance of substrate location" NARROW [] synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2013-12-18T13:51:04Z [Term] id: GO:0051222 name: positive regulation of protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of protein transport" NARROW [] synonym: "stimulation of protein transport" NARROW [] synonym: "up regulation of protein transport" EXACT [] synonym: "up-regulation of protein transport" EXACT [] synonym: "upregulation of protein transport" EXACT [] is_a: GO:0051050 ! positive regulation of transport is_a: GO:0051223 ! regulation of protein transport is_a: GO:1904951 ! positive regulation of establishment of protein localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0015031 ! protein transport relationship: positively_regulates GO:0015031 ! protein transport [Term] id: GO:0051223 name: regulation of protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0070201 ! regulation of establishment of protein localization is_a: GO:0090087 ! regulation of peptide transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0015031 ! protein transport relationship: regulates GO:0015031 ! protein transport [Term] id: GO:0051224 name: negative regulation of protein transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of protein transport" EXACT [] synonym: "down-regulation of protein transport" EXACT [] synonym: "downregulation of protein transport" EXACT [] synonym: "inhibition of protein transport" NARROW [] is_a: GO:0051051 ! negative regulation of transport is_a: GO:0051223 ! regulation of protein transport is_a: GO:1904950 ! negative regulation of establishment of protein localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0015031 ! protein transport relationship: negatively_regulates GO:0015031 ! protein transport [Term] id: GO:0051225 name: spindle assembly namespace: biological_process alt_id: GO:0051226 alt_id: GO:0051227 def: "The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart." [GOC:ai, GOC:expert_rg, GOC:mtg_sensu, GOC:tb] synonym: "bipolar spindle biosynthesis" EXACT [] synonym: "bipolar spindle formation" EXACT [] synonym: "spindle biosynthesis" EXACT [] synonym: "spindle formation" EXACT [] is_a: GO:0007051 ! spindle organization is_a: GO:0070925 ! organelle assembly [Term] id: GO:0051231 name: spindle elongation namespace: biological_process def: "The cell cycle process in which the distance is lengthened between poles of the spindle." [GOC:ai] is_a: GO:0007017 ! microtubule-based process is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007051 ! spindle organization relationship: part_of GO:0098813 ! nuclear chromosome segregation [Term] id: GO:0051232 name: meiotic spindle elongation namespace: biological_process def: "The lengthening of the distance between poles of the spindle during a meiotic cell cycle." [GOC:ai] synonym: "spindle elongation during meiosis" EXACT [] is_a: GO:0051231 ! spindle elongation is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0051231 ! spindle elongation intersection_of: part_of GO:0051321 ! meiotic cell cycle relationship: part_of GO:0000212 ! meiotic spindle organization relationship: part_of GO:0045132 ! meiotic chromosome segregation [Term] id: GO:0051234 name: establishment of localization namespace: biological_process def: "Any process that localizes a substance or cellular component. This may occur via movement, tethering or selective degradation." [GOC:ai, GOC:dos] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "establishment of localisation" EXACT [GOC:mah] is_a: GO:0051179 ! localization [Term] id: GO:0051235 name: maintenance of location namespace: biological_process def: "Any process in which a cell, substance or cellular entity, such as a protein complex or organelle, is maintained in a location and prevented from moving elsewhere." [GOC:ai, GOC:dph, GOC:tb] synonym: "maintenance of localization" EXACT [] synonym: "retention" NARROW [] synonym: "sequestering" NARROW [] synonym: "storage" NARROW [] is_a: GO:0051179 ! localization is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0051236 name: establishment of RNA localization namespace: biological_process def: "The directed movement of RNA to a specific location." [GOC:ai] synonym: "establishment of RNA localisation" EXACT [GOC:mah] synonym: "RNA positioning" EXACT [] synonym: "RNA recruitment" EXACT [] is_a: GO:0051234 ! establishment of localization relationship: part_of GO:0006403 ! RNA localization [Term] id: GO:0051239 name: regulation of multicellular organismal process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a multicellular organismal process, the processes pertinent to the function of a multicellular organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai, GOC:dph, GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032501 ! multicellular organismal process relationship: regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051240 name: positive regulation of multicellular organismal process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of an organismal process, any of the processes pertinent to the function of an organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai] synonym: "activation of multicellular organismal process" NARROW [] synonym: "stimulation of multicellular organismal process" NARROW [] synonym: "up regulation of multicellular organismal process" EXACT [] synonym: "up-regulation of multicellular organismal process" EXACT [] synonym: "upregulation of multicellular organismal process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032501 ! multicellular organismal process relationship: positively_regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051241 name: negative regulation of multicellular organismal process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of an organismal process, the processes pertinent to the function of an organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai] synonym: "down regulation of multicellular organismal process" EXACT [] synonym: "down-regulation of multicellular organismal process" EXACT [] synonym: "downregulation of multicellular organismal process" EXACT [] synonym: "inhibition of multicellular organismal process" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032501 ! multicellular organismal process relationship: negatively_regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051246 name: regulation of protein metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein." [GOC:ai] synonym: "regulation of protein metabolism" EXACT [] is_a: GO:0051171 ! regulation of nitrogen compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0019538 ! protein metabolic process relationship: regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051247 name: positive regulation of protein metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein." [GOC:ai] synonym: "activation of protein metabolic process" NARROW [] synonym: "positive regulation of protein metabolism" EXACT [] synonym: "stimulation of protein metabolic process" NARROW [] synonym: "up regulation of protein metabolic process" EXACT [] synonym: "up-regulation of protein metabolic process" EXACT [] synonym: "upregulation of protein metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0019538 ! protein metabolic process relationship: positively_regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051248 name: negative regulation of protein metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chemical reactions and pathways involving a protein." [GOC:ai] synonym: "down regulation of protein metabolic process" EXACT [] synonym: "down-regulation of protein metabolic process" EXACT [] synonym: "downregulation of protein metabolic process" EXACT [] synonym: "inhibition of protein metabolic process" NARROW [] synonym: "negative regulation of protein metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0019538 ! protein metabolic process relationship: negatively_regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051252 name: regulation of RNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "regulation of RNA metabolism" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016070 ! RNA metabolic process relationship: regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051253 name: negative regulation of RNA metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "down regulation of RNA metabolic process" EXACT [] synonym: "down-regulation of RNA metabolic process" EXACT [] synonym: "downregulation of RNA metabolic process" EXACT [] synonym: "inhibition of RNA metabolic process" NARROW [] synonym: "negative regulation of RNA metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016070 ! RNA metabolic process relationship: negatively_regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051254 name: positive regulation of RNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "activation of RNA metabolic process" NARROW [] synonym: "positive regulation of RNA metabolism" EXACT [] synonym: "stimulation of RNA metabolic process" NARROW [] synonym: "up regulation of RNA metabolic process" EXACT [] synonym: "up-regulation of RNA metabolic process" EXACT [] synonym: "upregulation of RNA metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016070 ! RNA metabolic process relationship: positively_regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051258 name: protein polymerization namespace: biological_process def: "The process of creating protein polymers, compounds composed of a large number of component monomers; polymeric proteins may be made up of different or identical monomers. Polymerization occurs by the addition of extra monomers to an existing poly- or oligomeric protein." [GOC:ai] subset: goslim_pir synonym: "protein polymer biosynthesis" EXACT [] synonym: "protein polymer biosynthetic process" EXACT [] synonym: "protein polymer formation" EXACT [] is_a: GO:0034622 ! cellular protein-containing complex assembly [Term] id: GO:0051259 name: protein complex oligomerization namespace: biological_process alt_id: GO:0035786 def: "The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers; protein oligomers may be composed of different or identical monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer." [GOC:ai, PMID:18293929] synonym: "protein multimerization" RELATED [GOC:bf] synonym: "protein oligomer assembly" EXACT [] synonym: "protein oligomer biosynthesis" BROAD [] synonym: "protein oligomer biosynthetic process" BROAD [] synonym: "protein oligomer formation" EXACT [] synonym: "protein oligomerization" EXACT [] is_a: GO:0065003 ! protein-containing complex assembly created_by: rfoulger creation_date: 2011-04-05T09:57:49Z [Term] id: GO:0051261 name: protein depolymerization namespace: biological_process def: "The process in which protein polymers, compounds composed of a large number of component monomers, are broken down. Depolymerization occurs by the successive removal of monomers from an existing poly- or oligomeric protein." [GOC:ai] subset: goslim_pir synonym: "protein polymer breakdown" EXACT [] synonym: "protein polymer catabolic process" EXACT [] synonym: "protein polymer catabolism" EXACT [] synonym: "protein polymer degradation" EXACT [] is_a: GO:0043624 ! cellular protein complex disassembly [Term] id: GO:0051270 name: regulation of cellular component movement namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "regulation of cell movement" RELATED [] synonym: "regulation of cellular component motion" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006928 ! movement of cell or subcellular component relationship: regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051271 name: negative regulation of cellular component movement namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "down regulation of cell motility" EXACT [] synonym: "down-regulation of cell motility" EXACT [] synonym: "downregulation of cell motility" EXACT [] synonym: "inhibition of cell motility" NARROW [] synonym: "negative regulation of cell movement" RELATED [] synonym: "negative regulation of cellular component motion" EXACT [GOC:mah] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006928 ! movement of cell or subcellular component relationship: negatively_regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051272 name: positive regulation of cellular component movement namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "activation of cell motility" NARROW [] synonym: "positive regulation of cell movement" RELATED [] synonym: "positive regulation of cellular component motion" EXACT [GOC:mah] synonym: "stimulation of cell motility" NARROW [] synonym: "up regulation of cell motility" EXACT [] synonym: "up-regulation of cell motility" EXACT [] synonym: "upregulation of cell motility" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006928 ! movement of cell or subcellular component relationship: positively_regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051276 name: chromosome organization namespace: biological_process alt_id: GO:0007001 alt_id: GO:0051277 def: "A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_chembl subset: goslim_generic subset: goslim_pir synonym: "chromosome organisation" EXACT [] synonym: "chromosome organization and biogenesis" RELATED [GOC:mah] synonym: "maintenance of genome integrity" RELATED [] synonym: "nuclear genome maintenance" RELATED [] xref: MIPS_funcat:42.10.03 is_a: GO:0006996 ! organelle organization [Term] id: GO:0051301 name: cell division namespace: biological_process def: "The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells." [GOC:di, GOC:go_curators, GOC:pr] comment: Note that this term differs from 'cytokinesis ; GO:0000910' in that cytokinesis does not include nuclear division. subset: goslim_chembl subset: goslim_generic subset: goslim_pir xref: Wikipedia:Cell_division is_a: GO:0009987 ! cellular process [Term] id: GO:0051302 name: regulation of cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the physical partitioning and separation of a cell into daughter cells." [GOC:go_curators] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051301 ! cell division relationship: regulates GO:0051301 ! cell division [Term] id: GO:0051304 name: chromosome separation namespace: biological_process alt_id: GO:0034500 def: "The cell cycle process in which paired chromosomes are detached from each other. Chromosome separation begins with the release of cohesin complexes from chromosomes; in budding yeast, this includes the cleavage of cohesin complexes along the chromosome arms, followed by the separation of the centromeric regions. Chromosome separation also includes formation of chromatid axes mediated by condensins, and ends with the disentangling of inter-sister catenation catalyzed by topoisomerase II (topo II)." [GOC:ai, GOC:lb, GOC:mah, GOC:mtg_cell_cycle, PMID:20352243] synonym: "chromatid release" RELATED [GOC:lb, GOC:mah, PMID:20352243] synonym: "rDNA separation" NARROW [] is_a: GO:0022402 ! cell cycle process relationship: part_of GO:0007059 ! chromosome segregation [Term] id: GO:0051306 name: mitotic sister chromatid separation namespace: biological_process def: "The process in which sister chromatids are physically detached from each other during mitosis." [GOC:ai] synonym: "chromosome separation during mitosis" RELATED [] synonym: "mitotic chromosome separation" RELATED [] synonym: "mitotic sister chromatid resolution" EXACT [GOC:mah] synonym: "sister chromatid separation during mitosis" EXACT [] is_a: GO:0051304 ! chromosome separation is_a: GO:1903047 ! mitotic cell cycle process relationship: part_of GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0051307 name: meiotic chromosome separation namespace: biological_process def: "The process in which chromosomes are physically detached from each other during meiosis." [GOC:ai] synonym: "chromosome separation during meiosis" EXACT [] synonym: "meiotic chromosome resolution" EXACT [GOC:mah] is_a: GO:0051304 ! chromosome separation is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0051304 ! chromosome separation intersection_of: part_of GO:0051321 ! meiotic cell cycle relationship: part_of GO:0045132 ! meiotic chromosome segregation [Term] id: GO:0051308 name: male meiosis chromosome separation namespace: biological_process def: "The process in which paired chromosomes are physically detached from each other during male meiosis." [GOC:ai] synonym: "chromosome separation during male meiosis" EXACT [] synonym: "male meiosis chromosome resolution" EXACT [GOC:mah] is_a: GO:0007060 ! male meiosis chromosome segregation is_a: GO:0051307 ! meiotic chromosome separation intersection_of: GO:0051304 ! chromosome separation intersection_of: part_of GO:0007140 ! male meiotic nuclear division [Term] id: GO:0051309 name: female meiosis chromosome separation namespace: biological_process def: "The process in which paired chromosomes are physically detached from each other during female meiosis." [GOC:ai] synonym: "chromosome separation during female meiosis" EXACT [] synonym: "female meiosis chromosome resolution" EXACT [GOC:mah] is_a: GO:0016321 ! female meiosis chromosome segregation is_a: GO:0051307 ! meiotic chromosome separation intersection_of: GO:0051304 ! chromosome separation intersection_of: part_of GO:0007143 ! female meiotic nuclear division [Term] id: GO:0051318 name: G1 phase namespace: biological_process def: "The cell cycle 'gap' phase which is the interval between the completion of DNA segregation (usually by mitosis or meiosis) and the beginning of DNA synthesis." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate xref: Wikipedia:G1_phase is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0051325 ! interphase [Term] id: GO:0051321 name: meiotic cell cycle namespace: biological_process alt_id: GO:0007126 def: "Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions." [GOC:ai] subset: goslim_yeast synonym: "meiosis" RELATED [] xref: Wikipedia:Meiosis is_a: GO:0007049 ! cell cycle is_a: GO:0022414 ! reproductive process intersection_of: GO:0007049 ! cell cycle intersection_of: has_part GO:0140013 ! meiotic nuclear division relationship: has_part GO:0140013 ! meiotic nuclear division [Term] id: GO:0051325 name: interphase namespace: biological_process def: "The cell cycle phase following cytokinesis which begins with G1 phase, proceeds through S phase and G2 phase and ends when prophase of meiosis or mitosis begins. During interphase the cell readies itself for meiosis or mitosis and the replication of its DNA occurs." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "karyostasis" EXACT [] synonym: "resting phase" BROAD [] xref: Wikipedia:Interphase is_a: GO:0022403 ! cell cycle phase [Term] id: GO:0051326 name: telophase namespace: biological_process def: "The cell cycle phase which follows anaphase during M phase of mitosis and meiosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle] comment: note that this term should not be used for direct annotation. if you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic s-phase). to capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate xref: Wikipedia:Telophase is_a: GO:0022403 ! cell cycle phase relationship: part_of GO:0000279 ! M phase [Term] id: GO:0051327 name: meiotic M phase namespace: biological_process def: "A cell cycle phase during which nuclear division occurs, and which is comprises the phases: prophase, metaphase, anaphase and telophase and occurs as part of a meiotic cell cycle." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "M phase of meiotic cell cycle" EXACT [] is_a: GO:0000279 ! M phase is_a: GO:0098762 ! meiotic cell cycle phase intersection_of: GO:0000279 ! M phase intersection_of: happens_during GO:0051321 ! meiotic cell cycle [Term] id: GO:0051328 name: meiotic interphase namespace: biological_process def: "The cell cycle phase which begins after cytokinesis and ends when meiotic prophase begins. Meiotic cells have an interphase after each meiotic division, but only interphase I involves replication of the cell's DNA." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "interphase of meiotic cell cycle" EXACT [] is_a: GO:0051325 ! interphase is_a: GO:0098762 ! meiotic cell cycle phase intersection_of: GO:0051325 ! interphase intersection_of: happens_during GO:0051321 ! meiotic cell cycle [Term] id: GO:0051329 name: mitotic interphase namespace: biological_process def: "The cell cycle phase following cytokinesis which begins with G1 phase, proceeds through S phase and G2 phase and ends when mitotic prophase begins. During interphase the cell readies itself for mitosis and the replication of its DNA occurs." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate synonym: "interphase of mitotic cell cycle" EXACT [] is_a: GO:0051325 ! interphase is_a: GO:0098763 ! mitotic cell cycle phase intersection_of: GO:0051325 ! interphase intersection_of: happens_during GO:0000278 ! mitotic cell cycle [Term] id: GO:0051333 name: meiotic nuclear envelope reassembly namespace: biological_process def: "The cell cycle process in which the reformation of the nuclear envelope during meiosis occurs." [GOC:ai] is_a: GO:0031468 ! nuclear envelope reassembly is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0031468 ! nuclear envelope reassembly intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0051334 name: meiosis I nuclear envelope reassembly namespace: biological_process def: "The reformation of the nuclear envelope during meiosis I." [GOC:ai] is_a: GO:0051333 ! meiotic nuclear envelope reassembly intersection_of: GO:0031468 ! nuclear envelope reassembly intersection_of: part_of GO:0007127 ! meiosis I relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0051336 name: regulation of hydrolase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3." [EC:3.-.-.-, GOC:ai] synonym: "hydrolase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016787 ! hydrolase activity relationship: regulates GO:0016787 ! hydrolase activity [Term] id: GO:0051338 name: regulation of transferase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [EC:2.-.-.-, GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "transferase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016740 ! transferase activity relationship: regulates GO:0016740 ! transferase activity [Term] id: GO:0051340 name: regulation of ligase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ligase activity, the catalysis of the ligation of two substances with concomitant breaking of a diphosphate linkage, usually in a nucleoside triphosphate. Ligase is the systematic name for any enzyme of EC class 6." [EC:6.-.-.-, GOC:ai] synonym: "ligase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016874 ! ligase activity relationship: regulates GO:0016874 ! ligase activity [Term] id: GO:0051345 name: positive regulation of hydrolase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds." [GOC:ai] synonym: "activation of hydrolase activity" NARROW [] synonym: "hydrolase activator" EXACT [] synonym: "stimulation of hydrolase activity" NARROW [] synonym: "up regulation of hydrolase activity" EXACT [] synonym: "up-regulation of hydrolase activity" EXACT [] synonym: "upregulation of hydrolase activity" EXACT [] is_a: GO:0043085 ! positive regulation of catalytic activity is_a: GO:0051336 ! regulation of hydrolase activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016787 ! hydrolase activity relationship: positively_regulates GO:0016787 ! hydrolase activity [Term] id: GO:0051346 name: negative regulation of hydrolase activity namespace: biological_process def: "Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds." [GOC:ai] synonym: "down regulation of hydrolase activity" EXACT [] synonym: "down-regulation of hydrolase activity" EXACT [] synonym: "downregulation of hydrolase activity" EXACT [] synonym: "hydrolase inhibitor" EXACT [] synonym: "inhibition of hydrolase activity" NARROW [] is_a: GO:0043086 ! negative regulation of catalytic activity is_a: GO:0051336 ! regulation of hydrolase activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016787 ! hydrolase activity relationship: negatively_regulates GO:0016787 ! hydrolase activity [Term] id: GO:0051347 name: positive regulation of transferase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "activation of transferase activity" NARROW [] synonym: "stimulation of transferase activity" NARROW [] synonym: "transferase activator" EXACT [] synonym: "up regulation of transferase activity" EXACT [] synonym: "up-regulation of transferase activity" EXACT [] synonym: "upregulation of transferase activity" EXACT [] is_a: GO:0043085 ! positive regulation of catalytic activity is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016740 ! transferase activity relationship: positively_regulates GO:0016740 ! transferase activity [Term] id: GO:0051348 name: negative regulation of transferase activity namespace: biological_process def: "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "down regulation of transferase activity" EXACT [] synonym: "down-regulation of transferase activity" EXACT [] synonym: "downregulation of transferase activity" EXACT [] synonym: "inhibition of transferase activity" NARROW [] synonym: "transferase inhibitor" EXACT [] is_a: GO:0043086 ! negative regulation of catalytic activity is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016740 ! transferase activity relationship: negatively_regulates GO:0016740 ! transferase activity [Term] id: GO:0051351 name: positive regulation of ligase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ligase activity, the catalysis of the ligation of two substances with concomitant breaking of a diphosphate linkage, usually in a nucleoside triphosphate." [GOC:ai] synonym: "activation of ligase activity" NARROW [] synonym: "ligase activator" EXACT [] synonym: "stimulation of ligase activity" NARROW [] synonym: "up regulation of ligase activity" EXACT [] synonym: "up-regulation of ligase activity" EXACT [] synonym: "upregulation of ligase activity" EXACT [] is_a: GO:0043085 ! positive regulation of catalytic activity is_a: GO:0051340 ! regulation of ligase activity intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016874 ! ligase activity relationship: positively_regulates GO:0016874 ! ligase activity [Term] id: GO:0051352 name: negative regulation of ligase activity namespace: biological_process def: "Any process that stops or reduces the rate of ligase activity, the catalysis of the ligation of two substances with concomitant breaking of a diphosphate linkage, usually in a nucleoside triphosphate." [GOC:ai] synonym: "down regulation of ligase activity" EXACT [] synonym: "down-regulation of ligase activity" EXACT [] synonym: "downregulation of ligase activity" EXACT [] synonym: "inhibition of ligase activity" NARROW [] synonym: "ligase inhibitor" EXACT [] is_a: GO:0043086 ! negative regulation of catalytic activity is_a: GO:0051340 ! regulation of ligase activity intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016874 ! ligase activity relationship: negatively_regulates GO:0016874 ! ligase activity [Term] id: GO:0051402 name: neuron apoptotic process namespace: biological_process def: "Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [CL:0000540, GOC:mtg_apoptosis, MeSH:A.08.663] synonym: "apoptosis of neuronal cells" EXACT [] synonym: "apoptosis of neurons" EXACT [] synonym: "neuron apoptosis" NARROW [] synonym: "neuron programmed cell death by apoptosis" EXACT [] synonym: "neuronal cell apoptosis" EXACT [] synonym: "neuronal cell programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of neuronal cells by apoptosis" EXACT [] synonym: "programmed cell death of neurons by apoptosis" EXACT [] synonym: "programmed cell death, neuronal cells" EXACT [] synonym: "programmed cell death, neurons" EXACT [] is_a: GO:0006915 ! apoptotic process is_a: GO:0070997 ! neuron death [Term] id: GO:0051445 name: regulation of meiotic cell cycle namespace: biological_process def: "Any process that modulates the rate or extent of progression through the meiotic cell cycle." [GOC:ai, GOC:dph, GOC:tb] synonym: "meiotic cell cycle modulation" EXACT [] synonym: "meiotic cell cycle regulation" EXACT [] synonym: "meiotic cell cycle regulator" RELATED [] synonym: "modulation of meiotic cell cycle progression" EXACT [] synonym: "regulation of meiotic cell cycle progression" EXACT [] synonym: "regulation of progression through meiotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0051726 ! regulation of cell cycle is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051321 ! meiotic cell cycle relationship: regulates GO:0051321 ! meiotic cell cycle [Term] id: GO:0051446 name: positive regulation of meiotic cell cycle namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of progression through the meiotic cell cycle." [GOC:ai, GOC:dph, GOC:tb] synonym: "activation of progression through meiotic cell cycle" NARROW [] synonym: "positive regulation of meiotic cell cycle progression" EXACT [] synonym: "positive regulation of progression through meiotic cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of progression through meiotic cell cycle" NARROW [] synonym: "up regulation of progression through meiotic cell cycle" EXACT [] synonym: "up-regulation of progression through meiotic cell cycle" EXACT [] synonym: "upregulation of progression through meiotic cell cycle" EXACT [] is_a: GO:0045787 ! positive regulation of cell cycle is_a: GO:0051445 ! regulation of meiotic cell cycle is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051321 ! meiotic cell cycle relationship: positively_regulates GO:0051321 ! meiotic cell cycle [Term] id: GO:0051447 name: negative regulation of meiotic cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of progression through the meiotic cell cycle." [GOC:ai, GOC:dph, GOC:tb] synonym: "down regulation of progression through meiotic cell cycle" EXACT [] synonym: "down-regulation of progression through meiotic cell cycle" EXACT [] synonym: "downregulation of progression through meiotic cell cycle" EXACT [] synonym: "inhibition of progression through meiotic cell cycle" NARROW [] synonym: "negative regulation of meiotic cell cycle progression" EXACT [] synonym: "negative regulation of progression through meiotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0045786 ! negative regulation of cell cycle is_a: GO:0051445 ! regulation of meiotic cell cycle is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051321 ! meiotic cell cycle relationship: negatively_regulates GO:0051321 ! meiotic cell cycle [Term] id: GO:0051452 name: intracellular pH reduction namespace: biological_process def: "Any process that reduces the internal pH of a cell, measured by the concentration of the hydrogen ion." [GOC:ai] synonym: "cell pH reduction" EXACT [] synonym: "cellular acidification" EXACT [] synonym: "intracellular acidification" RELATED [] synonym: "reduction of cellular pH" EXACT [] synonym: "reduction of pH in cell" EXACT [] is_a: GO:0045851 ! pH reduction is_a: GO:0051453 ! regulation of intracellular pH [Term] id: GO:0051453 name: regulation of intracellular pH namespace: biological_process def: "Any process that modulates the internal pH of a cell, measured by the concentration of the hydrogen ion." [GOC:ai, GOC:dph, GOC:tb] synonym: "cell pH regulation" EXACT [] synonym: "cellular pH regulation" EXACT [] synonym: "pH regulation in cell" EXACT [] synonym: "regulation of cell pH" EXACT [] is_a: GO:0030641 ! regulation of cellular pH [Term] id: GO:0051454 name: intracellular pH elevation namespace: biological_process def: "Any process that increases the internal pH of a cell, measured by the concentration of the hydrogen ion." [GOC:ai] synonym: "cell pH elevation" EXACT [] synonym: "cellular alkalinization" EXACT [] synonym: "elevation of cellular pH" EXACT [] synonym: "intracellular alkalinization" EXACT [] synonym: "pH elevation in cell" EXACT [] is_a: GO:0045852 ! pH elevation is_a: GO:0051453 ! regulation of intracellular pH [Term] id: GO:0051457 name: maintenance of protein location in nucleus namespace: biological_process def: "Any process in which a protein is maintained in the nucleus and prevented from moving elsewhere. These include sequestration within the nucleus, protein stabilization to prevent transport elsewhere and the active retrieval of proteins that escape the nucleus." [GOC:ai] synonym: "maintenance of nuclear protein localization" EXACT [] synonym: "maintenance of protein localization in nucleus" RELATED [GOC:dph, GOC:tb] synonym: "maintenance of protein location in cell nucleus" EXACT [] synonym: "nuclear protein retention" NARROW [] synonym: "nuclear protein sequestering" NARROW [] synonym: "nuclear protein sequestration" NARROW [] synonym: "protein retention in nucleus" NARROW [] synonym: "protein sequestration in nucleus" NARROW [] synonym: "protein storage in nucleus" NARROW [] synonym: "protein-nuclear retention" NARROW [] synonym: "sequestration of protein in nucleus" NARROW [] synonym: "storage of protein in nucleus" NARROW [] is_a: GO:0072595 ! maintenance of protein localization in organelle intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005634 ! nucleus relationship: occurs_in GO:0005634 ! nucleus relationship: part_of GO:0034504 ! protein localization to nucleus [Term] id: GO:0051493 name: regulation of cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007010 ! cytoskeleton organization relationship: regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051494 name: negative regulation of cytoskeleton organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "down regulation of cytoskeleton organization" EXACT [] synonym: "down-regulation of cytoskeleton organization" EXACT [] synonym: "downregulation of cytoskeleton organization" EXACT [] synonym: "inhibition of cytoskeleton organization" NARROW [] synonym: "negative regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "negative regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007010 ! cytoskeleton organization relationship: negatively_regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051495 name: positive regulation of cytoskeleton organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "activation of cytoskeleton organization" NARROW [] synonym: "positive regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "positive regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cytoskeleton organization" NARROW [] synonym: "up regulation of cytoskeleton organization" EXACT [] synonym: "up-regulation of cytoskeleton organization" EXACT [] synonym: "upregulation of cytoskeleton organization" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007010 ! cytoskeleton organization relationship: positively_regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051588 name: regulation of neurotransmitter transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006836 ! neurotransmitter transport relationship: regulates GO:0006836 ! neurotransmitter transport [Term] id: GO:0051589 name: negative regulation of neurotransmitter transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of neurotransmitter transport" EXACT [] synonym: "down-regulation of neurotransmitter transport" EXACT [] synonym: "downregulation of neurotransmitter transport" EXACT [] synonym: "inhibition of neurotransmitter transport" NARROW [] is_a: GO:0051051 ! negative regulation of transport is_a: GO:0051588 ! regulation of neurotransmitter transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006836 ! neurotransmitter transport relationship: negatively_regulates GO:0006836 ! neurotransmitter transport [Term] id: GO:0051590 name: positive regulation of neurotransmitter transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a neurotransmitter into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of neurotransmitter transport" NARROW [] synonym: "stimulation of neurotransmitter transport" NARROW [] synonym: "up regulation of neurotransmitter transport" EXACT [] synonym: "up-regulation of neurotransmitter transport" EXACT [] synonym: "upregulation of neurotransmitter transport" EXACT [] is_a: GO:0051050 ! positive regulation of transport is_a: GO:0051588 ! regulation of neurotransmitter transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006836 ! neurotransmitter transport relationship: positively_regulates GO:0006836 ! neurotransmitter transport [Term] id: GO:0051603 name: proteolysis involved in cellular protein catabolic process namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein as part of the chemical reactions and pathways resulting in the breakdown of a protein by individual cells." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_yeast synonym: "peptidolysis during cellular protein catabolic process" RELATED [] synonym: "peptidolysis during cellular protein catabolism" RELATED [] synonym: "peptidolysis involved in cellular protein catabolic process" EXACT [] synonym: "peptidolysis involved in cellular protein catabolism" EXACT [] synonym: "proteolysis during cellular protein catabolic process" RELATED [] synonym: "proteolysis during cellular protein catabolism" RELATED [] is_a: GO:0006508 ! proteolysis intersection_of: GO:0006508 ! proteolysis intersection_of: part_of GO:0044257 ! cellular protein catabolic process relationship: part_of GO:0044257 ! cellular protein catabolic process [Term] id: GO:0051640 name: organelle localization namespace: biological_process def: "Any process in which an organelle is transported to, and/or maintained in, a specific location." [GOC:ai] subset: goslim_pir synonym: "establishment and maintenance of organelle localization" EXACT [] synonym: "organelle localisation" EXACT [GOC:mah] is_a: GO:0051641 ! cellular localization [Term] id: GO:0051641 name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] synonym: "establishment and maintenance of localization in cell or cell membrane" EXACT [] synonym: "intracellular localization" NARROW [] synonym: "localization within cell" NARROW [] synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0051179 ! localization created_by: jl creation_date: 2013-12-18T14:04:32Z [Term] id: GO:0051647 name: nucleus localization namespace: biological_process def: "Any process in which the nucleus is transported to, and/or maintained in, a specific location within the cell." [GOC:ai] synonym: "cell nucleus localization" EXACT [] synonym: "establishment and maintenance of nucleus localization" EXACT [] synonym: "localization of nucleus" EXACT [] synonym: "nucleus localisation" EXACT [GOC:mah] is_a: GO:0051640 ! organelle localization [Term] id: GO:0051648 name: vesicle localization namespace: biological_process def: "Any process in which a vesicle or vesicles are transported to, and/or maintained in, a specific location." [GOC:ai] synonym: "cytoplasmic vesicle localization" EXACT [] synonym: "establishment and maintenance of vesicle localization" EXACT [] synonym: "vesicle localisation" EXACT [GOC:mah] is_a: GO:0051640 ! organelle localization [Term] id: GO:0051649 name: establishment of localization in cell namespace: biological_process def: "Any process, occuring in a cell, that localizes a substance or cellular component. This may occur via movement, tethering or selective degradation." [GOC:ai, GOC:dos, GOC:dph, GOC:tb] synonym: "establishment of cellular localization" RELATED [GOC:dph, GOC:tb] synonym: "establishment of intracellular localization" NARROW [] synonym: "establishment of localisation in cell" EXACT [GOC:mah] synonym: "establishment of localization within cell" NARROW [] synonym: "positioning within cell" NARROW [] is_a: GO:0051234 ! establishment of localization intersection_of: GO:0051234 ! establishment of localization intersection_of: occurs_in GO:0005623 ! cell relationship: occurs_in GO:0005623 ! cell relationship: part_of GO:0051641 ! cellular localization [Term] id: GO:0051650 name: establishment of vesicle localization namespace: biological_process def: "The directed movement of a vesicle to a specific location." [GOC:ai] subset: goslim_aspergillus synonym: "establishment of vesicle localisation" EXACT [GOC:mah] is_a: GO:0051648 ! vesicle localization is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0051656 ! establishment of organelle localization [Term] id: GO:0051651 name: maintenance of location in cell namespace: biological_process def: "Any process in which a substance or cellular entity, such as a protein complex or organelle, is maintained in a specific location within, or in the membrane of, a cell, and is prevented from moving elsewhere." [GOC:ai] synonym: "cellular retention" NARROW [] synonym: "cellular sequestering" NARROW [] synonym: "cellular storage" NARROW [] synonym: "intracellular retention" NARROW [] synonym: "intracellular sequestering" NARROW [] synonym: "intracellular storage" NARROW [] synonym: "maintenance of cellular localization" RELATED [GOC:dph, GOC:tb] synonym: "maintenance of intracellular localization" NARROW [] synonym: "maintenance of localization in cell" RELATED [GOC:dph, GOC:tb] synonym: "maintenance of localization within cell" NARROW [] synonym: "retention within cell" NARROW [] synonym: "sequestering within cell" NARROW [] synonym: "storage within cell" NARROW [] is_a: GO:0009987 ! cellular process is_a: GO:0051235 ! maintenance of location relationship: part_of GO:0051641 ! cellular localization [Term] id: GO:0051656 name: establishment of organelle localization namespace: biological_process def: "The directed movement of an organelle to a specific location." [GOC:ai] synonym: "establishment of organelle localisation" EXACT [GOC:mah] is_a: GO:0051234 ! establishment of localization is_a: GO:0051640 ! organelle localization [Term] id: GO:0051668 name: localization within membrane namespace: biological_process def: "Any process in which a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a membrane." [GOC:ai] synonym: "establishment and maintenance of localization in membrane" EXACT [] synonym: "establishment and maintenance of position in membrane" EXACT [] synonym: "localisation within membrane" EXACT [GOC:mah] synonym: "localization to membrane" EXACT [] synonym: "positioning within membrane" NARROW [] is_a: GO:0051641 ! cellular localization intersection_of: GO:0051179 ! localization intersection_of: occurs_in GO:0016020 ! membrane relationship: occurs_in GO:0016020 ! membrane [Term] id: GO:0051674 name: localization of cell namespace: biological_process def: "Any process in which a cell is transported to, and/or maintained in, a specific location." [GOC:ai] synonym: "cell localization" EXACT [] synonym: "establishment and maintenance of cell localization" EXACT [] synonym: "establishment and maintenance of localization of cell" EXACT [] synonym: "localisation of cell" EXACT [GOC:mah] is_a: GO:0051179 ! localization [Term] id: GO:0051703 name: intraspecies interaction between organisms namespace: biological_process def: "Any process in which an organism has an effect on an organism of the same species." [GOC:ai] subset: goslim_pir synonym: "intraspecies interaction with other organisms" EXACT [] is_a: GO:0051704 ! multi-organism process [Term] id: GO:0051704 name: multi-organism process namespace: biological_process alt_id: GO:0051706 def: "A biological process which involves another organism of the same or different species." [GOC:jl] subset: gocheck_do_not_annotate subset: goslim_pir synonym: "interaction between organisms" EXACT [] synonym: "physiological interaction between organisms" EXACT [] synonym: "physiological interaction with other organism" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0051705 name: multi-organism behavior namespace: biological_process alt_id: GO:0023032 alt_id: GO:0044709 def: "Any process in which an organism has a behavioral effect on another organism of the same or different species." [GOC:ai] subset: goslim_pir synonym: "behavioral interaction between organisms" EXACT [] synonym: "behavioral interaction with other organism" EXACT [] synonym: "behavioral signaling" NARROW [] synonym: "behavioral signalling" NARROW [GOC:mah] synonym: "behavioural interaction between organisms" EXACT [] synonym: "behavioural interaction with other organism" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0051704 ! multi-organism process [Term] id: GO:0051716 name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus [Term] id: GO:0051726 name: regulation of cell cycle namespace: biological_process alt_id: GO:0000074 def: "Any process that modulates the rate or extent of progression through the cell cycle." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_yeast synonym: "cell cycle modulation" EXACT [] synonym: "cell cycle regulation" EXACT [] synonym: "cell cycle regulator" RELATED [] synonym: "control of cell cycle progression" EXACT [] synonym: "modulation of cell cycle progression" EXACT [] synonym: "regulation of cell cycle progression" EXACT [] synonym: "regulation of progression through cell cycle" EXACT [] synonym: "tumor suppressor" RELATED [] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007049 ! cell cycle relationship: regulates GO:0007049 ! cell cycle [Term] id: GO:0051781 name: positive regulation of cell division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell division." [GOC:ai] synonym: "activation of cell division" NARROW [] synonym: "stimulation of cell division" NARROW [] synonym: "up regulation of cell division" EXACT [] synonym: "up-regulation of cell division" EXACT [] synonym: "upregulation of cell division" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051301 ! cell division relationship: positively_regulates GO:0051301 ! cell division [Term] id: GO:0051782 name: negative regulation of cell division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell division." [GOC:ai] synonym: "down regulation of cell division" EXACT [] synonym: "down-regulation of cell division" EXACT [] synonym: "downregulation of cell division" EXACT [] synonym: "inhibition of cell division" NARROW [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051301 ! cell division relationship: negatively_regulates GO:0051301 ! cell division [Term] id: GO:0051783 name: regulation of nuclear division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000280 ! nuclear division relationship: regulates GO:0000280 ! nuclear division [Term] id: GO:0051784 name: negative regulation of nuclear division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] synonym: "down regulation of nuclear division" EXACT [] synonym: "down-regulation of nuclear division" EXACT [] synonym: "downregulation of nuclear division" EXACT [] synonym: "inhibition of nuclear division" NARROW [] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000280 ! nuclear division relationship: negatively_regulates GO:0000280 ! nuclear division [Term] id: GO:0051785 name: positive regulation of nuclear division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] synonym: "activation of nuclear division" NARROW [] synonym: "stimulation of nuclear division" NARROW [] synonym: "up regulation of nuclear division" EXACT [] synonym: "up-regulation of nuclear division" EXACT [] synonym: "upregulation of nuclear division" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000280 ! nuclear division relationship: positively_regulates GO:0000280 ! nuclear division [Term] id: GO:0051932 name: synaptic transmission, GABAergic namespace: biological_process def: "The vesicular release of gamma-aminobutyric acid (GABA). from a presynapse, across a chemical synapse, the subsequent activation of GABA receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." [GOC:dos, ISBN:0126603030] synonym: "synaptic transmission, GABA mediated" EXACT [] synonym: "synaptic transmission, gamma-aminobutyric acid mediated" EXACT [] synonym: "synaptic transmission, gamma-aminobutyric acid-ergic" EXACT [] is_a: GO:0007268 ! chemical synaptic transmission [Term] id: GO:0051960 name: regulation of nervous system development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007399 ! nervous system development relationship: regulates GO:0007399 ! nervous system development [Term] id: GO:0051961 name: negative regulation of nervous system development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] synonym: "down regulation of nervous system development" EXACT [] synonym: "down-regulation of nervous system development" EXACT [] synonym: "downregulation of nervous system development" EXACT [] synonym: "inhibition of nervous system development" NARROW [] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0051960 ! regulation of nervous system development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007399 ! nervous system development relationship: negatively_regulates GO:0007399 ! nervous system development [Term] id: GO:0051962 name: positive regulation of nervous system development namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] synonym: "activation of nervous system development" NARROW [] synonym: "stimulation of nervous system development" NARROW [] synonym: "up regulation of nervous system development" EXACT [] synonym: "up-regulation of nervous system development" EXACT [] synonym: "upregulation of nervous system development" EXACT [] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:0051960 ! regulation of nervous system development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007399 ! nervous system development relationship: positively_regulates GO:0007399 ! nervous system development [Term] id: GO:0051963 name: regulation of synapse assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] subset: goslim_synapse synonym: "regulation of synapse biogenesis" EXACT [] synonym: "regulation of synaptogenesis" EXACT [] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0050807 ! regulation of synapse organization is_a: GO:0051960 ! regulation of nervous system development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007416 ! synapse assembly relationship: regulates GO:0007416 ! synapse assembly [Term] id: GO:0051964 name: negative regulation of synapse assembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] synonym: "down regulation of synapse assembly" EXACT [] synonym: "down-regulation of synapse assembly" EXACT [] synonym: "downregulation of synapse assembly" EXACT [] synonym: "inhibition of synapse assembly" NARROW [] synonym: "negative regulation of synapse biogenesis" EXACT [] synonym: "negative regulation of synaptogenesis" EXACT [] is_a: GO:0051961 ! negative regulation of nervous system development is_a: GO:0051963 ! regulation of synapse assembly is_a: GO:1905809 ! negative regulation of synapse organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007416 ! synapse assembly relationship: negatively_regulates GO:0007416 ! synapse assembly [Term] id: GO:0051965 name: positive regulation of synapse assembly namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] synonym: "activation of synapse assembly" NARROW [] synonym: "positive regulation of synapse biogenesis" EXACT [] synonym: "positive regulation of synaptogenesis" EXACT [] synonym: "stimulation of synapse assembly" NARROW [] synonym: "up regulation of synapse assembly" EXACT [] synonym: "up-regulation of synapse assembly" EXACT [] synonym: "upregulation of synapse assembly" EXACT [] is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:0051962 ! positive regulation of nervous system development is_a: GO:0051963 ! regulation of synapse assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007416 ! synapse assembly relationship: positively_regulates GO:0007416 ! synapse assembly [Term] id: GO:0051969 name: regulation of transmission of nerve impulse namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "regulation of conduction of nerve impulse" EXACT [GOC:dph] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling is_a: GO:0031644 ! regulation of nervous system process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0019226 ! transmission of nerve impulse relationship: regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051970 name: negative regulation of transmission of nerve impulse namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "down regulation of transmission of nerve impulse" EXACT [] synonym: "down-regulation of transmission of nerve impulse" EXACT [] synonym: "downregulation of transmission of nerve impulse" EXACT [] synonym: "inhibition of transmission of nerve impulse" NARROW [] synonym: "negative regulation of conduction of nerve impulse" EXACT [GOC:dph] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0031645 ! negative regulation of nervous system process is_a: GO:0051969 ! regulation of transmission of nerve impulse intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0019226 ! transmission of nerve impulse relationship: negatively_regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051971 name: positive regulation of transmission of nerve impulse namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "activation of transmission of nerve impulse" NARROW [] synonym: "positive regulation of conduction of nerve impulse" EXACT [GOC:dph] synonym: "stimulation of transmission of nerve impulse" NARROW [] synonym: "up regulation of transmission of nerve impulse" EXACT [] synonym: "up-regulation of transmission of nerve impulse" EXACT [] synonym: "upregulation of transmission of nerve impulse" EXACT [] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0031646 ! positive regulation of nervous system process is_a: GO:0051969 ! regulation of transmission of nerve impulse intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0019226 ! transmission of nerve impulse relationship: positively_regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051983 name: regulation of chromosome segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007059 ! chromosome segregation relationship: regulates GO:0007059 ! chromosome segregation [Term] id: GO:0051984 name: positive regulation of chromosome segregation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] synonym: "activation of chromosome segregation" NARROW [] synonym: "stimulation of chromosome segregation" NARROW [] synonym: "up regulation of chromosome segregation" EXACT [] synonym: "up-regulation of chromosome segregation" EXACT [] synonym: "upregulation of chromosome segregation" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007059 ! chromosome segregation relationship: positively_regulates GO:0007059 ! chromosome segregation [Term] id: GO:0051985 name: negative regulation of chromosome segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] synonym: "down regulation of chromosome segregation" EXACT [] synonym: "down-regulation of chromosome segregation" EXACT [] synonym: "downregulation of chromosome segregation" EXACT [] synonym: "inhibition of chromosome segregation" NARROW [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007059 ! chromosome segregation relationship: negatively_regulates GO:0007059 ! chromosome segregation [Term] id: GO:0052547 name: regulation of peptidase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of peptidase activity, the hydrolysis of peptide bonds within proteins." [EC:3.4, GOC:ai] synonym: "peptidase regulator activity" RELATED [] is_a: GO:0030162 ! regulation of proteolysis is_a: GO:0051336 ! regulation of hydrolase activity intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008233 ! peptidase activity relationship: regulates GO:0008233 ! peptidase activity [Term] id: GO:0052689 name: carboxylic ester hydrolase activity namespace: molecular_function alt_id: GO:0004091 alt_id: GO:0004302 alt_id: GO:0004759 alt_id: GO:0016789 def: "Catalysis of the hydrolysis of a carboxylic ester bond." [EC:3.1.1, EC:3.1.1.1, GOC:curators] synonym: "Ali-esterase activity" RELATED [EC:3.1.1.1] synonym: "ali-esterase activity" NARROW [EC:3.1.1.1] synonym: "alpha-carboxylesterase activity" NARROW [EC:3.1.1.1] synonym: "B-esterase activity" RELATED [EC:3.1.1.1] synonym: "carboxyesterase activity" EXACT [EC:3.1.1.1] synonym: "carboxyl ester hydrolase activity" EXACT [EC:3.1.1.1] synonym: "carboxylate esterase activity" EXACT [EC:3.1.1.1] synonym: "carboxylesterase activity" EXACT [] synonym: "carboxylic acid esterase activity" EXACT [] synonym: "carboxylic ester hydrolase activity" RELATED [] synonym: "carboxylic esterase activity" EXACT [EC:3.1.1.1] synonym: "cocaine esterase activity" NARROW [EC:3.1.1.1] synonym: "esterase A" RELATED [EC:3.1.1.1] synonym: "esterase B" RELATED [EC:3.1.1.1] synonym: "nonspecific carboxylesterase activity" RELATED [EC:3.1.1.1] synonym: "procaine esterase activity" NARROW [EC:3.1.1.1] synonym: "serine esterase activity" RELATED [] synonym: "triacetin esterase" NARROW [EC:3.1.1.1] synonym: "vitamin A esterase" NARROW [EC:3.1.1.1] xref: EC:3.1.1 xref: EC:3.1.1.1 xref: KEGG:R00630 xref: MetaCyc:CARBOXYLESTERASE-RXN xref: Reactome:R-HSA-5693691 "CES1 trimer.CES2 hydrolyse COCN to BEG" xref: Reactome:R-HSA-8937442 "CES3 hydrolyses CHEST to CHOL and LCFA(-)" xref: Reactome:R-HSA-9619024 "CES1trimer hydrolyses ACEI pro-drugs to ACEIs" xref: UM-BBD_reactionID:r1025 is_a: GO:0016788 ! hydrolase activity, acting on ester bonds [Term] id: GO:0055001 name: muscle cell development namespace: biological_process def: "The process whose specific outcome is the progression of a muscle cell over time, from its formation to the mature structure. Muscle cell development does not include the steps involved in committing an unspecified cell to the muscle cell fate." [CL:0000187, GOC:devbiol] is_a: GO:0048468 ! cell development relationship: part_of GO:0042692 ! muscle cell differentiation [Term] id: GO:0055037 name: recycling endosome namespace: cellular_component def: "An organelle consisting of a network of tubules that functions in targeting molecules, such as receptors transporters and lipids, to the plasma membrane." [GOC:dph, GOC:jid, GOC:kmv, GOC:rph, PMID:10930469, PMID:15601896, PMID:16246101, PMID:21556374, PMID:21562044] synonym: "endosomal recycling compartment" EXACT [PMID:20820847] synonym: "endosome recycling compartment" RELATED [GOC:dph, PMID:12370264] synonym: "ERC" RELATED [GOC:dph, PMID:1237064] is_a: GO:0005768 ! endosome [Term] id: GO:0055067 name: monovalent inorganic cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of monovalent inorganic cations within an organism or cell." [GOC:ai, GOC:jid, GOC:mah] is_a: GO:0055080 ! cation homeostasis is_a: GO:0098771 ! inorganic ion homeostasis [Term] id: GO:0055080 name: cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of cations within an organism or cell." [GOC:ceb, GOC:jid, GOC:mah] is_a: GO:0050801 ! ion homeostasis [Term] id: GO:0055082 name: cellular chemical homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of an internal steady state of a chemical at the level of the cell." [GOC:isa_complete, GOC:jid] is_a: GO:0019725 ! cellular homeostasis is_a: GO:0048878 ! chemical homeostasis [Term] id: GO:0055085 name: transmembrane transport namespace: biological_process alt_id: GO:0090662 def: "The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other." [GOC:dph, GOC:jid] comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. comment: Transmembrane transport requires transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "ATP hydrolysis coupled transmembrane transport" NARROW [] synonym: "membrane transport" EXACT [] is_a: GO:0006810 ! transport created_by: tanyaberardini creation_date: 2015-10-21T13:22:47Z [Term] id: GO:0055115 name: entry into diapause namespace: biological_process def: "The dormancy process that results in entry into diapause. Diapause is a neurohormonally mediated, dynamic state of low metabolic activity. Associated characteristics of this form of dormancy include reduced morphogenesis, increased resistance to environmental extremes, and altered or reduced behavioral activity. Full expression develops in a species-specific manner, usually in response to a number of environmental stimuli that precede unfavorable conditions. Once diapause has begun, metabolic activity is suppressed even if conditions favorable for development prevail. Once initiated, only certain stimuli are capable of releasing the organism from this state, and this characteristic is essential in distinguishing diapause from hibernation." [GOC:ds, GOC:jid, GOC:mah] xref: Wikipedia:Diapause is_a: GO:0022611 ! dormancy process [Term] id: GO:0055123 name: digestive system development namespace: biological_process def: "The process whose specific outcome is the progression of the digestive system over time, from its formation to the mature structure. The digestive system is the entire structure in which digestion takes place. Digestion is all of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:jid] is_a: GO:0048731 ! system development [Term] id: GO:0060089 name: molecular transducer activity namespace: molecular_function def: "A compound molecular function in which an effector function is controlled by one or more regulatory components." [GOC:dos, GOC:pdt] subset: gocheck_do_not_manually_annotate subset: goslim_pir is_a: GO:0003674 ! molecular_function [Term] id: GO:0060090 name: molecular adaptor activity namespace: molecular_function alt_id: GO:0032947 def: "The binding activity of a molecule that brings together two or more molecules through a selective, non-covalent, often stoichiometric interaction, permitting those molecules to function in a coordinated way." [GOC:mtg_MIT_16mar07, GOC:vw] subset: goslim_pir synonym: "binding, bridging" EXACT [] synonym: "protein complex scaffold activity" RELATED [] synonym: "protein-containing complex scaffold activity" RELATED [] is_a: GO:0005488 ! binding [Term] id: GO:0060097 name: cytoskeletal rearrangement involved in phagocytosis, engulfment namespace: biological_process def: "The assembly, arrangement, or disassembly of cytoskeletal structures that is involved in the internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis." [GOC:dph] is_a: GO:0007010 ! cytoskeleton organization intersection_of: GO:0007010 ! cytoskeleton organization intersection_of: part_of GO:0006911 ! phagocytosis, engulfment relationship: part_of GO:0006911 ! phagocytosis, engulfment [Term] id: GO:0060099 name: regulation of phagocytosis, engulfment namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis." [GOC:dph] is_a: GO:0030100 ! regulation of endocytosis is_a: GO:0050764 ! regulation of phagocytosis is_a: GO:1905153 ! regulation of membrane invagination intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006911 ! phagocytosis, engulfment relationship: regulates GO:0006911 ! phagocytosis, engulfment [Term] id: GO:0060100 name: positive regulation of phagocytosis, engulfment namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis." [GOC:dph] is_a: GO:0045807 ! positive regulation of endocytosis is_a: GO:0050766 ! positive regulation of phagocytosis is_a: GO:0060099 ! regulation of phagocytosis, engulfment is_a: GO:1905155 ! positive regulation of membrane invagination intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006911 ! phagocytosis, engulfment relationship: positively_regulates GO:0006911 ! phagocytosis, engulfment [Term] id: GO:0060101 name: negative regulation of phagocytosis, engulfment namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis." [GOC:dph] is_a: GO:0045806 ! negative regulation of endocytosis is_a: GO:0050765 ! negative regulation of phagocytosis is_a: GO:0060099 ! regulation of phagocytosis, engulfment is_a: GO:1905154 ! negative regulation of membrane invagination intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006911 ! phagocytosis, engulfment relationship: negatively_regulates GO:0006911 ! phagocytosis, engulfment [Term] id: GO:0060102 name: collagen and cuticulin-based cuticle extracellular matrix namespace: cellular_component def: "A collagen and cuticulin-based noncellular, multilayered structure that is synthesized by an underlying ectodermal (hypodermal) cell layer. The cuticle serves essential functions in body morphology, locomotion, and environmental protection. An example of this component is found in Caenorhabditis elegans." [GOC:dph, GOC:kmv, ISSN:15518507] synonym: "collagen and cuticulin-based exoskeleton extracellular matrix" RELATED [] is_a: GO:0062023 ! collagen-containing extracellular matrix [Term] id: GO:0060103 name: collagen and cuticulin-based cuticle extracellular matrix part namespace: cellular_component def: "Any constituent part of the collagen and cuticulin-based cuticle extracellular matrix, a collagen and cuticulin-based noncellular, multilayered structure that is synthesized by an underlying ectodermal (hypodermal) cell layer." [GOC:dph] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate is_a: GO:0044420 ! extracellular matrix component intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0060102 ! collagen and cuticulin-based cuticle extracellular matrix relationship: part_of GO:0060102 ! collagen and cuticulin-based cuticle extracellular matrix [Term] id: GO:0060106 name: cortical layer of collagen and cuticulin-based cuticle extracellular matrix namespace: cellular_component def: "The cuticle layer that lies directly beneath the lipid-containing epicuticle. The cortical layer contains collagens and insoluble, non-collagenous cuticulins and is characterized by a distinct annular pattern consisting of regularly spaced annular ridges delineated by annular furrows. An example of this component is found in Caenorhabditis elegans." [GOC:dph, GOC:kmv, ISSN:15518507] is_a: GO:0060103 ! collagen and cuticulin-based cuticle extracellular matrix part [Term] id: GO:0060107 name: annuli extracellular matrix namespace: cellular_component def: "The extracellular matrix that is a regularly spaced circumferential ridge present in the cortical region of the cuticle. Annuli are delineated by annular furrows and are present throughout the cuticle with the exception of lateral regions where longitudinal alae are present." [GOC:dph, GOC:kmv, ISSN:15518507] synonym: "annulae" RELATED [] synonym: "annular rings" RELATED [] synonym: "annule(s)" RELATED [] synonym: "annulus" RELATED [] is_a: GO:0060103 ! collagen and cuticulin-based cuticle extracellular matrix part relationship: part_of GO:0060106 ! cortical layer of collagen and cuticulin-based cuticle extracellular matrix [Term] id: GO:0060109 name: medial layer of collagen and cuticulin-based cuticle extracellular matrix namespace: cellular_component def: "The fluid-filled cuticle layer that lies between the cortical and basal layers and is characterized by the presence of regularly spaced columnar struts that lie on either side of the annular furrows and link the two surrounding layers. In C. elegans, a defined medial layer is found only in adult animals." [GOC:dph, GOC:kmv, ISSN:15518507] synonym: "medial layer struts" RELATED [] is_a: GO:0060103 ! collagen and cuticulin-based cuticle extracellular matrix part [Term] id: GO:0060111 name: alae of collagen and cuticulin-based cuticle extracellular matrix namespace: cellular_component def: "Raised, thickened cuticular ridges that run longitudinally, and in parallel, along the left and right sides of the animal. The alae lie above the hypodermal cells known as the lateral seam cells. In C. elegans, alae are produced in L1 larvae, dauer larvae and adult stage animals, where they consist of three, five, and three ridges of distinct morphology, respectively." [GOC:dph, GOC:kmv, ISSN:15518507] synonym: "alae of collagen and cuticulin-based exoskeleton extracellular matrix" RELATED [] is_a: GO:0060103 ! collagen and cuticulin-based cuticle extracellular matrix part [Term] id: GO:0060142 name: regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0060143 name: positive regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that increases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:0060142 ! regulation of syncytium formation by plasma membrane fusion intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: positively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0060147 name: regulation of posttranscriptional gene silencing namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the inactivation of gene expression by a posttranscriptional mechanism." [GOC:dph] is_a: GO:0060968 ! regulation of gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016441 ! posttranscriptional gene silencing relationship: regulates GO:0016441 ! posttranscriptional gene silencing [Term] id: GO:0060148 name: positive regulation of posttranscriptional gene silencing namespace: biological_process def: "Any process that increases the frequency, rate or extent of the inactivation of gene expression by a posttranscriptional mechanism." [GOC:dph] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0060147 ! regulation of posttranscriptional gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016441 ! posttranscriptional gene silencing relationship: positively_regulates GO:0016441 ! posttranscriptional gene silencing [Term] id: GO:0060149 name: negative regulation of posttranscriptional gene silencing namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the inactivation of gene expression by a posttranscriptional mechanism." [GOC:dph] is_a: GO:0060147 ! regulation of posttranscriptional gene silencing is_a: GO:0060969 ! negative regulation of gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016441 ! posttranscriptional gene silencing relationship: negatively_regulates GO:0016441 ! posttranscriptional gene silencing [Term] id: GO:0060179 name: male mating behavior namespace: biological_process def: "The specific behavior of a male organism that is associated with reproduction." [GOC:dph, GOC:pr, GOC:tb] is_a: GO:0007617 ! mating behavior [Term] id: GO:0060236 name: regulation of mitotic spindle organization namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a mitotic cell cycle." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "regulation of mitotic spindle organisation" EXACT [GOC:mah] synonym: "regulation of mitotic spindle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0090224 ! regulation of spindle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007052 ! mitotic spindle organization relationship: regulates GO:0007052 ! mitotic spindle organization [Term] id: GO:0060249 name: anatomical structure homeostasis namespace: biological_process def: "A homeostatic process involved in the maintenance of an internal steady state within a defined anatomical structure of an organism, including control of cellular proliferation and death and control of metabolic function. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:dph] synonym: "anatomical structure maintenance" EXACT [GOC:dph] is_a: GO:0042592 ! homeostatic process [Term] id: GO:0060255 name: regulation of macromolecule metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043170 ! macromolecule metabolic process relationship: regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0060259 name: regulation of feeding behavior namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the behavior associated with the intake of food." [GOC:BHF, GOC:dph, GOC:tb] synonym: "regulation of feeding behaviour" EXACT [GOC:dph, GOC:tb] is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007631 ! feeding behavior relationship: regulates GO:0007631 ! feeding behavior [Term] id: GO:0060278 name: regulation of ovulation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ovulation, the release of a mature ovum/oocyte from an ovary." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030728 ! ovulation relationship: regulates GO:0030728 ! ovulation [Term] id: GO:0060279 name: positive regulation of ovulation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ovulation, the release of a mature ovum/oocyte from an ovary." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:0060278 ! regulation of ovulation is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030728 ! ovulation relationship: positively_regulates GO:0030728 ! ovulation [Term] id: GO:0060280 name: negative regulation of ovulation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of ovulation, the release of a mature ovum/oocyte from an ovary." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0060278 ! regulation of ovulation is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030728 ! ovulation relationship: negatively_regulates GO:0030728 ! ovulation [Term] id: GO:0060281 name: regulation of oocyte development namespace: biological_process def: "Any process that modulates the rate or extent of the process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:dph, GOC:tb, PMID:2394318] is_a: GO:1905879 ! regulation of oogenesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048599 ! oocyte development relationship: regulates GO:0048599 ! oocyte development [Term] id: GO:0060282 name: positive regulation of oocyte development namespace: biological_process def: "Any process that increases the rate or extent of the process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:dph, GOC:tb] is_a: GO:0060281 ! regulation of oocyte development is_a: GO:1905881 ! positive regulation of oogenesis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048599 ! oocyte development relationship: positively_regulates GO:0048599 ! oocyte development [Term] id: GO:0060283 name: negative regulation of oocyte development namespace: biological_process def: "Any process that decreases the rate or extent of the process whose specific outcome is the progression of an oocyte over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:dph, GOC:tb] is_a: GO:0060281 ! regulation of oocyte development is_a: GO:1905880 ! negative regulation of oogenesis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048599 ! oocyte development relationship: negatively_regulates GO:0048599 ! oocyte development [Term] id: GO:0060284 name: regulation of cell development namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:dph, GOC:tb] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048468 ! cell development relationship: regulates GO:0048468 ! cell development [Term] id: GO:0060293 name: germ plasm namespace: cellular_component def: "Differentiated cytoplasm associated with a pole of an oocyte, egg or early embryo that will be inherited by the cells that will give rise to the germ line." [GOC:dph] xref: Wikipedia:Germ_plasm is_a: GO:0045495 ! pole plasm [Term] id: GO:0060322 name: head development namespace: biological_process def: "The biological process whose specific outcome is the progression of a head from an initial condition to its mature state. The head is the anterior-most division of the body." [GOC:dph] is_a: GO:0048856 ! anatomical structure development [Term] id: GO:0060341 name: regulation of cellular localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process in which a cell, a substance, or a cellular entity is transported to, or maintained in a specific location within or in the membrane of a cell." [GOC:dph, GOC:tb] synonym: "regulation of cellular localisation" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051641 ! cellular localization relationship: regulates GO:0051641 ! cellular localization [Term] id: GO:0060404 name: axonemal microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of an axonemal microtubule. An axonemal microtubule is a microtubule in the axoneme of a cilium or flagellum; an axoneme contains nine modified doublet microtubules surrounding a pair of single microtubules." [GOC:cilia, GOC:dph, GOC:krc, GOC:tb] is_a: GO:0010938 ! cytoplasmic microtubule depolymerization is_a: GO:0061523 ! cilium disassembly intersection_of: GO:0007019 ! microtubule depolymerization intersection_of: occurs_in GO:0005930 ! axoneme relationship: occurs_in GO:0005930 ! axoneme [Term] id: GO:0060408 name: regulation of acetylcholine metabolic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:dph, GOC:tb] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0032350 ! regulation of hormone metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008291 ! acetylcholine metabolic process relationship: regulates GO:0008291 ! acetylcholine metabolic process [Term] id: GO:0060409 name: positive regulation of acetylcholine metabolic process namespace: biological_process def: "Any process that increases the rate, frequency or extent of the chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:dph, GOC:tb] is_a: GO:0032352 ! positive regulation of hormone metabolic process is_a: GO:0033240 ! positive regulation of cellular amine metabolic process is_a: GO:0060408 ! regulation of acetylcholine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008291 ! acetylcholine metabolic process relationship: positively_regulates GO:0008291 ! acetylcholine metabolic process [Term] id: GO:0060410 name: negative regulation of acetylcholine metabolic process namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the chemical reactions and pathways involving acetylcholine, the acetic acid ester of the organic base choline. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:dph, GOC:tb] is_a: GO:0032351 ! negative regulation of hormone metabolic process is_a: GO:0033239 ! negative regulation of cellular amine metabolic process is_a: GO:0060408 ! regulation of acetylcholine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008291 ! acetylcholine metabolic process relationship: negatively_regulates GO:0008291 ! acetylcholine metabolic process [Term] id: GO:0060429 name: epithelium development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." [GOC:dph, GOC:mtg_lung] is_a: GO:0009888 ! tissue development [Term] id: GO:0060465 name: pharynx development namespace: biological_process def: "The biological process whose specific outcome is the progression of a pharynx from an initial condition to its mature state. The pharynx is the part of the digestive system immediately posterior to the mouth." [GOC:dph, GOC:rk] synonym: "pharyngeal development" RELATED [] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0048565 ! digestive tract development [Term] id: GO:0060467 name: negative regulation of fertilization namespace: biological_process def: "Any process that decreases the rate, frequency or extent of fertilization. Fertilization is the union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:dph] is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0080154 ! regulation of fertilization is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0009566 ! fertilization relationship: negatively_regulates GO:0009566 ! fertilization [Term] id: GO:0060491 name: regulation of cell projection assembly namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of cell projection assembly." [GOC:dph, GOC:tb] synonym: "regulation of cell projection formation" RELATED [GOC:dph, GOC:tb] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030031 ! cell projection assembly relationship: regulates GO:0030031 ! cell projection assembly [Term] id: GO:0060538 name: skeletal muscle organ development namespace: biological_process def: "The progression of a skeletal muscle organ over time from its initial formation to its mature state. A skeletal muscle organ includes the skeletal muscle tissue and its associated connective tissue." [GOC:dph] is_a: GO:0007517 ! muscle organ development created_by: dph creation_date: 2009-04-10T08:25:12Z [Term] id: GO:0060547 name: negative regulation of necrotic cell death namespace: biological_process def: "Any process that decreases the rate, frequency or extent of necrotic cell death. Necrotic cell death is a cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010939 ! regulation of necrotic cell death is_a: GO:0060548 ! negative regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070265 ! necrotic cell death relationship: negatively_regulates GO:0070265 ! necrotic cell death created_by: dph creation_date: 2009-04-13T01:51:25Z [Term] id: GO:0060548 name: negative regulation of cell death namespace: biological_process def: "Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010941 ! regulation of cell death is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008219 ! cell death relationship: negatively_regulates GO:0008219 ! cell death created_by: dph creation_date: 2009-04-13T01:56:10Z [Term] id: GO:0060560 name: developmental growth involved in morphogenesis namespace: biological_process def: "The increase in size or mass of an anatomical structure that contributes to the structure attaining its shape." [GOC:dph] synonym: "differential growth" EXACT [GOC:dph] is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009653 ! anatomical structure morphogenesis created_by: dph creation_date: 2009-04-28T08:42:53Z [Term] id: GO:0060561 name: apoptotic process involved in morphogenesis namespace: biological_process def: "Any apoptotic process that contributes to the shaping of an anatomical structure." [GOC:dph, GOC:mtg_apoptosis] synonym: "apoptosis involved in development" RELATED [] synonym: "apoptosis involved in morphogenesis" NARROW [] synonym: "morphogenetic apoptosis" RELATED [GOC:dph] is_a: GO:1902742 ! apoptotic process involved in development intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009653 ! anatomical structure morphogenesis created_by: dph creation_date: 2009-04-28T09:17:27Z [Term] id: GO:0060623 name: regulation of chromosome condensation namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of chromosome condensation, the progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells." [GOC:dph, GOC:tb] is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030261 ! chromosome condensation relationship: regulates GO:0030261 ! chromosome condensation created_by: dph creation_date: 2009-05-18T02:12:13Z [Term] id: GO:0060627 name: regulation of vesicle-mediated transport namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of vesicle-mediated transport, the directed movement of substances, either within a vesicle or in the vesicle membrane, into, out of or within a cell." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016192 ! vesicle-mediated transport relationship: regulates GO:0016192 ! vesicle-mediated transport created_by: dph creation_date: 2009-05-18T02:29:43Z [Term] id: GO:0060629 name: regulation of homologous chromosome segregation namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of homologous chromosome segregation, the cell cycle process in which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the first division of the meiotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner; this pairing off, referred to as synapsis, permits genetic recombination. One homolog (both sister chromatids) of each morphologic type goes into each of the resulting chromosome sets." [GOC:dph, GOC:tb] is_a: GO:0051983 ! regulation of chromosome segregation is_a: GO:0060631 ! regulation of meiosis I intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0045143 ! homologous chromosome segregation relationship: regulates GO:0045143 ! homologous chromosome segregation created_by: dph creation_date: 2009-05-18T02:41:02Z [Term] id: GO:0060631 name: regulation of meiosis I namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of meiosis I, a cell cycle process comprising the steps by which a cell progresses through the first phase of meiosis, in which cells divide and homologous chromosomes are paired and segregated from each other, producing two daughter cells." [GOC:dph, GOC:tb] is_a: GO:0040020 ! regulation of meiotic nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007127 ! meiosis I relationship: regulates GO:0007127 ! meiosis I created_by: dph creation_date: 2009-05-18T02:55:19Z [Term] id: GO:0060632 name: regulation of microtubule-based movement namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of microtubule-based movement, the movement of organelles, other microtubules and other particles along microtubules, mediated by motor proteins." [GOC:dph, GOC:tb] is_a: GO:0032886 ! regulation of microtubule-based process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007018 ! microtubule-based movement relationship: regulates GO:0007018 ! microtubule-based movement created_by: dph creation_date: 2009-05-18T03:07:02Z [Term] id: GO:0060756 name: foraging behavior namespace: biological_process def: "Behavior by which an organism locates food." [GOC:dph, GOC:tb] is_a: GO:0007610 ! behavior created_by: dph creation_date: 2009-06-22T02:46:25Z [Term] id: GO:0060795 name: cell fate commitment involved in formation of primary germ layer namespace: biological_process def: "The commitment of cells to specific cell fates of the endoderm, ectoderm, or mesoderm as a part of gastrulation." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0045165 ! cell fate commitment intersection_of: GO:0045165 ! cell fate commitment intersection_of: part_of GO:0001704 ! formation of primary germ layer relationship: part_of GO:0001704 ! formation of primary germ layer created_by: dph creation_date: 2009-08-04T03:11:22Z [Term] id: GO:0060796 name: regulation of transcription involved in primary germ layer cell fate commitment namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter that results in cells adopting an endoderm, ectoderm or mesoderm cell fate." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0060850 ! regulation of transcription involved in cell fate commitment intersection_of: GO:0006357 ! regulation of transcription by RNA polymerase II intersection_of: part_of GO:0060795 ! cell fate commitment involved in formation of primary germ layer relationship: part_of GO:0060795 ! cell fate commitment involved in formation of primary germ layer created_by: dph creation_date: 2009-08-04T03:40:21Z [Term] id: GO:0060850 name: regulation of transcription involved in cell fate commitment namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter that contributes to the commitment of a cell to a specific fate." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II intersection_of: GO:0006357 ! regulation of transcription by RNA polymerase II intersection_of: part_of GO:0045165 ! cell fate commitment relationship: part_of GO:0045165 ! cell fate commitment created_by: dph creation_date: 2009-08-12T11:40:09Z [Term] id: GO:0060903 name: positive regulation of meiosis I namespace: biological_process def: "Any process that increases the rate, frequency, or extent of meiosis I, a cell cycle process comprising the steps by which a cell progresses through the first phase of meiosis, in which cells divide and homologous chromosomes are paired and segregated from each other, producing two daughter cells." [GOC:dph, GOC:tb] is_a: GO:0045836 ! positive regulation of meiotic nuclear division is_a: GO:0060631 ! regulation of meiosis I intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007127 ! meiosis I relationship: positively_regulates GO:0007127 ! meiosis I created_by: dph creation_date: 2009-08-14T01:06:57Z [Term] id: GO:0060966 name: regulation of gene silencing by RNA namespace: biological_process def: "Any process that regulates the rate, frequency, or extent of gene silencing by RNA. Gene silencing by RNA is the process in which RNA molecules inactivate expression of target genes." [GOC:dph, GOC:tb] is_a: GO:0060968 ! regulation of gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031047 ! gene silencing by RNA relationship: regulates GO:0031047 ! gene silencing by RNA created_by: dph creation_date: 2009-10-05T03:17:02Z [Term] id: GO:0060967 name: negative regulation of gene silencing by RNA namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of gene silencing by RNA. Gene silencing by RNA is the process in which RNA molecules inactivate expression of target genes." [GOC:dph, GOC:tb] is_a: GO:0060966 ! regulation of gene silencing by RNA is_a: GO:0060969 ! negative regulation of gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031047 ! gene silencing by RNA relationship: negatively_regulates GO:0031047 ! gene silencing by RNA created_by: dph creation_date: 2009-10-05T03:21:05Z [Term] id: GO:0060968 name: regulation of gene silencing namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of gene silencing, the transcriptional or post-transcriptional process carried out at the cellular level that results in long-term gene inactivation." [GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016458 ! gene silencing relationship: regulates GO:0016458 ! gene silencing created_by: dph creation_date: 2009-10-05T03:23:56Z [Term] id: GO:0060969 name: negative regulation of gene silencing namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of gene silencing, the transcriptional or post-transcriptional process carried out at the cellular level that results in long-term gene inactivation." [GOC:dph, GOC:tb] is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0060968 ! regulation of gene silencing intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016458 ! gene silencing relationship: negatively_regulates GO:0016458 ! gene silencing created_by: dph creation_date: 2009-10-05T03:26:19Z [Term] id: GO:0061013 name: regulation of mRNA catabolic process namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of a mRNA catabolic process, the chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "regulation of mRNA decay" RELATED [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0031329 ! regulation of cellular catabolic process is_a: GO:1903311 ! regulation of mRNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006402 ! mRNA catabolic process relationship: regulates GO:0006402 ! mRNA catabolic process created_by: dph creation_date: 2010-01-29T01:48:10Z [Term] id: GO:0061014 name: positive regulation of mRNA catabolic process namespace: biological_process def: "Any process that increases the rate, frequency, or extent of a mRNA catabolic process, the chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "positive regulation of mRNA decay" RELATED [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0031331 ! positive regulation of cellular catabolic process is_a: GO:0061013 ! regulation of mRNA catabolic process is_a: GO:1903313 ! positive regulation of mRNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006402 ! mRNA catabolic process relationship: positively_regulates GO:0006402 ! mRNA catabolic process created_by: dph creation_date: 2010-01-29T01:58:03Z [Term] id: GO:0061024 name: membrane organization namespace: biological_process alt_id: GO:0016044 alt_id: GO:0044802 def: "A process which results in the assembly, arrangement of constituent parts, or disassembly of a membrane. A membrane is a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." [GOC:dph, GOC:tb] subset: goslim_chembl subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "cellular membrane organisation" EXACT [GOC:curators] synonym: "cellular membrane organization" EXACT [] synonym: "membrane organisation" EXACT [GOC:mah] synonym: "membrane organization and biogenesis" RELATED [GOC:mah] synonym: "single-organism membrane organization" RELATED [] is_a: GO:0016043 ! cellular component organization created_by: janelomax creation_date: 2010-02-08T02:43:11Z [Term] id: GO:0061025 name: membrane fusion namespace: biological_process alt_id: GO:0006944 alt_id: GO:0044801 def: "The membrane organization process that joins two lipid bilayers to form a single membrane." [GOC:dph, GOC:tb] subset: goslim_yeast synonym: "cellular membrane fusion" EXACT [] synonym: "single-organism membrane fusion" RELATED [] xref: Wikipedia:Lipid_bilayer_fusion is_a: GO:0061024 ! membrane organization created_by: janelomax creation_date: 2010-02-08T02:48:06Z [Term] id: GO:0061061 name: muscle structure development namespace: biological_process def: "The progression of a muscle structure over time, from its formation to its mature state. Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms." [GOC:dph] is_a: GO:0048856 ! anatomical structure development created_by: dph creation_date: 2010-03-09T08:55:14Z [Term] id: GO:0061062 name: regulation of nematode larval development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of nematode larval development, the process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:dph, GOC:kmv] is_a: GO:0048580 ! regulation of post-embryonic development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002119 ! nematode larval development relationship: regulates GO:0002119 ! nematode larval development created_by: dph creation_date: 2010-03-11T12:59:21Z [Term] id: GO:0061063 name: positive regulation of nematode larval development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of nematode larval development, the process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:dph, GOC:kmv] is_a: GO:0048582 ! positive regulation of post-embryonic development is_a: GO:0061062 ! regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002119 ! nematode larval development relationship: positively_regulates GO:0002119 ! nematode larval development created_by: dph creation_date: 2010-03-11T01:03:34Z [Term] id: GO:0061064 name: negative regulation of nematode larval development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of nematode larval development, the process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:dph, GOC:kmv] is_a: GO:0048581 ! negative regulation of post-embryonic development is_a: GO:0061062 ! regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002119 ! nematode larval development relationship: negatively_regulates GO:0002119 ! nematode larval development created_by: dph creation_date: 2010-03-11T01:04:39Z [Term] id: GO:0061065 name: regulation of dauer larval development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of dauer larval development, the process whose specific outcome is the progression of the dauer larva over time, through the facultative diapause of the dauer (enduring) larval stage, with specialized traits adapted for dispersal and long-term survival, with elevated stress resistance and without feeding." [GOC:dph, GOC:kmv] is_a: GO:0061062 ! regulation of nematode larval development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0040024 ! dauer larval development relationship: regulates GO:0040024 ! dauer larval development created_by: dph creation_date: 2010-03-11T01:07:07Z [Term] id: GO:0061066 name: positive regulation of dauer larval development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of dauer larval development, the process whose specific outcome is the progression of the dauer larva over time, through the facultative diapause of the dauer (enduring) larval stage, with specialized traits adapted for dispersal and long-term survival, with elevated stress resistance and without feeding." [GOC:dph, GOC:kmv] is_a: GO:0061063 ! positive regulation of nematode larval development is_a: GO:0061065 ! regulation of dauer larval development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0040024 ! dauer larval development relationship: positively_regulates GO:0040024 ! dauer larval development created_by: dph creation_date: 2010-03-11T01:09:11Z [Term] id: GO:0061067 name: negative regulation of dauer larval development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of dauer larval development, the process whose specific outcome is the progression of the dauer larva over time, through the facultative diapause of the dauer (enduring) larval stage, with specialized traits adapted for dispersal and long-term survival, with elevated stress resistance and without feeding." [GOC:dph, GOC:kmv] is_a: GO:0061064 ! negative regulation of nematode larval development is_a: GO:0061065 ! regulation of dauer larval development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0040024 ! dauer larval development relationship: negatively_regulates GO:0040024 ! dauer larval development created_by: dph creation_date: 2010-03-11T01:10:23Z [Term] id: GO:0061387 name: regulation of extent of cell growth namespace: biological_process def: "Any process that modulates the extent of cell growth." [GOC:mah, GOC:vw] is_a: GO:0001558 ! regulation of cell growth relationship: part_of GO:0008361 ! regulation of cell size created_by: dph creation_date: 2011-07-14T10:15:42Z [Term] id: GO:0061424 name: positive regulation of peroxisome organization by positive regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter and activates or increases the frequency, rate or extent of peroxisome organization." [GOC:dph, PMID:7500953] synonym: "positive regulation of peroxisome organisation by positive regulation of transcription from RNA polymerase II promoter" EXACT [GOC:mah] is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II is_a: GO:1900064 ! positive regulation of peroxisome organization intersection_of: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: positively_regulates GO:0007031 ! peroxisome organization created_by: dph creation_date: 2012-02-02T12:50:36Z [Term] id: GO:0061458 name: reproductive system development namespace: biological_process def: "The progression of the reproductive system over time from its formation to the mature structure. The reproductive system consists of the organs that function in reproduction." [GOC:dph] is_a: GO:0048731 ! system development created_by: dph creation_date: 2012-08-22T17:47:53Z [Term] id: GO:0061523 name: cilium disassembly namespace: biological_process def: "A cellular process that results in the breakdown of a cilium." [GOC:cilia, GOC:dph, PMID:17604723, PMID:27350441] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "cilium resorption" EXACT [GOC:dph] is_a: GO:0044782 ! cilium organization is_a: GO:1903008 ! organelle disassembly created_by: dph creation_date: 2013-04-18T14:59:59Z [Term] id: GO:0061564 name: axon development namespace: biological_process def: "The progression of an axon over time. Covers axonogenesis (de novo generation of an axon) and axon regeneration (regrowth), as well as processes pertaining to the progression of the axon over time (fasciculation and defasciculation)." [GOC:dph, GOC:pg, GOC:pr] is_a: GO:0031175 ! neuron projection development created_by: dph creation_date: 2013-07-18T14:43:01Z [Term] id: GO:0061640 name: cytoskeleton-dependent cytokinesis namespace: biological_process def: "A cytokinesis that involves the function of a set of proteins that are part of the microfilament or microtubule cytoskeleton." [GOC:dph] is_a: GO:0000910 ! cytokinesis created_by: dph creation_date: 2014-08-22T14:21:35Z [Term] id: GO:0061642 name: chemoattraction of axon namespace: biological_process def: "The process in which a neuron growth cone is directed to a specific target site in response to an attractive chemical signal." [GOC:dph, GOC:krc] is_a: GO:0050918 ! positive chemotaxis intersection_of: GO:0050918 ! positive chemotaxis intersection_of: part_of GO:0007411 ! axon guidance relationship: part_of GO:0007411 ! axon guidance relationship: part_of GO:0070887 ! cellular response to chemical stimulus created_by: dph creation_date: 2014-08-29T08:21:24Z [Term] id: GO:0061643 name: chemorepulsion of axon namespace: biological_process def: "The process in which a neuron growth cone is directed to a specific target site in response to a repulsive chemical cue." [GOC:dph, GOC:krc] is_a: GO:0050919 ! negative chemotaxis intersection_of: GO:0050919 ! negative chemotaxis intersection_of: part_of GO:0007411 ! axon guidance relationship: part_of GO:0007411 ! axon guidance relationship: part_of GO:0070887 ! cellular response to chemical stimulus created_by: dph creation_date: 2014-08-29T08:35:40Z [Term] id: GO:0061650 name: ubiquitin-like protein conjugating enzyme activity namespace: molecular_function def: "Isoenergetic transfer of a ubiquitin-like protein (ULP) from one protein to another via the reaction X-SCP + Y -> Y-SCP + X, where both the X-SCP and Y-SCP linkages are thioester bonds between the C-terminal amino acid of SCP and a sulfhydryl side group of a cysteine residue." [GOC:dph] synonym: "E2" RELATED [] synonym: "small conjugating protein conjugating enzyme activity" EXACT [GOC:dph] is_a: GO:0019787 ! ubiquitin-like protein transferase activity created_by: dph creation_date: 2014-11-06T13:15:27Z [Term] id: GO:0061651 name: Atg12 conjugating enzyme activity namespace: molecular_function def: "Isoenergetic transfer of Atg12 from one protein to another via the reaction X-Atg12 + Y -> Y-Atg12 + X, where both the X-Atg12 and Y-Atg12 linkages are thioester bonds between the C-terminal amino acid of Atg12 and a sulfhydryl side group of a cysteine residue." [GOC:dph] synonym: "E2" RELATED [GOC:dph] is_a: GO:0019777 ! Atg12 transferase activity is_a: GO:0061650 ! ubiquitin-like protein conjugating enzyme activity created_by: dph creation_date: 2014-11-06T13:17:36Z [Term] id: GO:0061659 name: ubiquitin-like protein ligase activity namespace: molecular_function def: "Catalysis of the transfer of a ubiquitin-like protein (ULP) to a substrate protein via the reaction X-ULP + S --> X + S-ULP, where X is either an E2 or E3 enzyme, the X-ULP linkage is a thioester bond, and the S-ULP linkage is an isopeptide bond between the C-terminal glycine of ULP and the epsilon-amino group of lysine residues in the substrate." [GOC:dph] synonym: "E3" RELATED [GOC:dph] synonym: "small conjugating protein ligase activity" EXACT [GOC:dph] is_a: GO:0019787 ! ubiquitin-like protein transferase activity created_by: dph creation_date: 2014-11-06T13:46:23Z [Term] id: GO:0061660 name: Atg12 ligase activity namespace: molecular_function def: "Catalysis of the transfer of Atg12 to a substrate protein via the reaction X-Atg12 + S --> X + S-Atg12, where X is either an E2 or E3 enzyme, the X-Atg12 linkage is a thioester bond, and the S-Atg12 linkage is an isopeptide bond between the C-terminal amino acid of Atg12 and the epsilon-amino group of lysine residues in the substrate." [GOC:dph] synonym: "E3" RELATED [GOC:dph] is_a: GO:0019777 ! Atg12 transferase activity is_a: GO:0061659 ! ubiquitin-like protein ligase activity created_by: dph creation_date: 2014-11-06T13:50:42Z [Term] id: GO:0061736 name: engulfment of target by autophagosome namespace: biological_process def: "The membrane invagination process by which an autophagosomal membrane surrounds an object that will be degraded by macroautophagy." [GOC:autophagy, GOC:dph, GOC:pad, GOC:PARL] is_a: GO:0010324 ! membrane invagination intersection_of: GO:0010324 ! membrane invagination intersection_of: part_of GO:0000045 ! autophagosome assembly relationship: part_of GO:0000045 ! autophagosome assembly created_by: dph creation_date: 2015-09-14T14:10:24Z [Term] id: GO:0061919 name: process utilizing autophagic mechanism namespace: biological_process def: "A cellular process involving delivery of a portion of the cytoplasm to lysosomes or to the plant or fungal vacuole that does not involve direct transport through the endocytic or vacuolar protein sorting (Vps) pathways. This process typically leads to degradation of the cargo; however, it can also be used to deliver resident proteins, such as in the cytoplasm-to-vacuole targeting (Cvt) pathway." [PMID:21997368, PMID:22966490, PMID:28596378] subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process created_by: dph creation_date: 2017-07-13T19:42:14Z [Term] id: GO:0061982 name: meiosis I cell cycle process namespace: biological_process def: "A process that contributes to the first meiotic division. The first meiotic division is the reductive division resulting in the separation of homologous chromosome pairs." [PMID:29385397] synonym: "first meiotic cell division" EXACT [PMID:29385397] is_a: GO:1903046 ! meiotic cell cycle process created_by: dph creation_date: 2018-02-14T22:27:20Z [Term] id: GO:0062012 name: regulation of small molecule metabolic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of a small molecule metabolic process." [GOC:vw] synonym: "regulation of small molecule metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044281 ! small molecule metabolic process relationship: regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:11:54Z [Term] id: GO:0062013 name: positive regulation of small molecule metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a small molecule metabolic process." [GOC:vw] synonym: "positive regulation of small molecule metabolism" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044281 ! small molecule metabolic process relationship: positively_regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:25:10Z [Term] id: GO:0062014 name: negative regulation of small molecule metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a small molecule metabolic process." [GOC:vw] synonym: "negative regulation of small molecule metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044281 ! small molecule metabolic process relationship: negatively_regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:27:23Z [Term] id: GO:0062023 name: collagen-containing extracellular matrix namespace: cellular_component def: "An extracellular matrix consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that provides not only essential physical scaffolding for the cellular constituents but can also initiate crucial biochemical and biomechanical cues required for tissue morphogenesis, differentiation and homeostasis. The components are secreted by cells in the vicinity and form a sheet underlying or overlying cells such as endothelial and epithelial cells." [GOC:BHF, GOC:rph, PMID:21123617] is_a: GO:0031012 ! extracellular matrix created_by: dph creation_date: 2018-04-13T12:47:21Z [Term] id: GO:0062033 name: positive regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that starts or increases the frequency, rate or extent of sister chromatid segregation during mitosis." [PMID:12773390] is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:0045840 ! positive regulation of mitotic nuclear division is_a: GO:0051984 ! positive regulation of chromosome segregation is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000070 ! mitotic sister chromatid segregation relationship: positively_regulates GO:0000070 ! mitotic sister chromatid segregation created_by: dph creation_date: 2018-04-23T14:32:23Z [Term] id: GO:0062125 name: regulation of mitochondrial gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitochondrial gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA)." [PMID:28285835] is_a: GO:0010468 ! regulation of gene expression intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0140053 ! mitochondrial gene expression relationship: regulates GO:0140053 ! mitochondrial gene expression created_by: dph creation_date: 2019-05-30T16:45:04Z [Term] id: GO:0065003 name: protein-containing complex assembly namespace: biological_process alt_id: GO:0006461 def: "The aggregation, arrangement and bonding together of a set of macromolecules to form a protein-containing complex." [GOC:jl] subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe synonym: "chaperone activity" RELATED [] synonym: "macromolecular complex assembly" RELATED [] synonym: "macromolecule complex assembly" RELATED [] synonym: "protein complex assembly" RELATED [] synonym: "protein complex formation" RELATED [] is_a: GO:0022607 ! cellular component assembly is_a: GO:0043933 ! protein-containing complex subunit organization [Term] id: GO:0065004 name: protein-DNA complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex." [GOC:jl] synonym: "DNA-protein complex assembly" EXACT [GOC:mah] is_a: GO:0034622 ! cellular protein-containing complex assembly is_a: GO:0071824 ! protein-DNA complex subunit organization [Term] id: GO:0065007 name: biological regulation namespace: biological_process def: "Any process that modulates a measurable attribute of any biological process, quality or function." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: gocheck_do_not_annotate subset: goslim_pir synonym: "regulation" BROAD [] is_a: GO:0008150 ! biological_process [Term] id: GO:0065008 name: regulation of biological quality namespace: biological_process def: "Any process that modulates a qualitative or quantitative trait of a biological quality. A biological quality is a measurable attribute of an organism or part of an organism, such as size, mass, shape, color, etc." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: goslim_pir synonym: "regulation of biological attribute" EXACT [] synonym: "regulation of biological characteristic" EXACT [] is_a: GO:0065007 ! biological regulation [Term] id: GO:0065009 name: regulation of molecular function namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GOC:isa_complete] subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_pir subset: goslim_plant synonym: "regulation of a molecular function" EXACT [] is_a: GO:0065007 ! biological regulation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0003674 ! molecular_function relationship: regulates GO:0003674 ! molecular_function [Term] id: GO:0070011 name: peptidase activity, acting on L-amino acid peptides namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds formed between L-amino acids." [GOC:mah] xref: Reactome:R-HSA-3065958 "An unknown protease degrades ACACA" xref: Reactome:R-HSA-3065959 "An unknown protease degrades hCBXs" xref: Reactome:R-HSA-4167501 "An unknown protease degrades ACACB" xref: Reactome:R-HSA-6803060 "DCD(63-110) is processed to DCD(63-109)" is_a: GO:0008233 ! peptidase activity [Term] id: GO:0070013 name: intracellular organelle lumen namespace: cellular_component def: "An organelle lumen that is part of an intracellular organelle." [GOC:mah] subset: goslim_mouse is_a: GO:0043233 ! organelle lumen is_a: GO:0044424 ! intracellular part intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0043229 ! intracellular organelle relationship: part_of GO:0043229 ! intracellular organelle [Term] id: GO:0070124 name: mitochondrial translational initiation namespace: biological_process def: "The process preceding formation of the peptide bond between the first two amino acids of a protein in a mitochondrion. This includes the formation of a complex of the ribosome, mRNA, and an initiation complex that contains the first aminoacyl-tRNA." [GOC:mah] synonym: "mitochondrial translation initiation" EXACT [GOC:mah] is_a: GO:0006413 ! translational initiation intersection_of: GO:0006413 ! translational initiation intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0032543 ! mitochondrial translation [Term] id: GO:0070125 name: mitochondrial translational elongation namespace: biological_process def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis in a mitochondrion." [GOC:mah] synonym: "mitochondrial translation elongation" EXACT [GOC:mah] is_a: GO:0006414 ! translational elongation intersection_of: GO:0006414 ! translational elongation intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0032543 ! mitochondrial translation [Term] id: GO:0070126 name: mitochondrial translational termination namespace: biological_process def: "The process resulting in the release of a polypeptide chain from the ribosome in a mitochondrion, usually in response to a termination codon (note that mitochondria use variants of the universal genetic code that differ between different taxa)." [GOC:mah, http://mitogenome.org/index.php/Genetic_Code_of_mitochondria] synonym: "mitochondrial translation termination" EXACT [GOC:mah] is_a: GO:0006415 ! translational termination intersection_of: GO:0006415 ! translational termination intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0032543 ! mitochondrial translation [Term] id: GO:0070129 name: regulation of mitochondrial translation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA in a mitochondrion." [GOC:mah] synonym: "regulation of mitochondrial protein anabolism" EXACT [GOC:mah] synonym: "regulation of mitochondrial protein biosynthesis" EXACT [GOC:mah] synonym: "regulation of mitochondrial protein formation" EXACT [GOC:mah] synonym: "regulation of mitochondrial protein synthesis" EXACT [GOC:mah] is_a: GO:0006417 ! regulation of translation is_a: GO:0062125 ! regulation of mitochondrial gene expression intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032543 ! mitochondrial translation relationship: regulates GO:0032543 ! mitochondrial translation [Term] id: GO:0070130 name: negative regulation of mitochondrial translation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA in a mitochondrion." [GOC:mah] synonym: "negative regulation of mitochondrial protein anabolism" EXACT [GOC:mah] synonym: "negative regulation of mitochondrial protein biosynthesis" EXACT [GOC:mah] synonym: "negative regulation of mitochondrial protein formation" EXACT [GOC:mah] synonym: "negative regulation of mitochondrial protein synthesis" EXACT [GOC:mah] is_a: GO:0017148 ! negative regulation of translation is_a: GO:0070129 ! regulation of mitochondrial translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032543 ! mitochondrial translation relationship: negatively_regulates GO:0032543 ! mitochondrial translation [Term] id: GO:0070131 name: positive regulation of mitochondrial translation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA in a mitochondrion." [GOC:mah] synonym: "positive regulation of mitochondrial protein anabolism" EXACT [GOC:mah] synonym: "positive regulation of mitochondrial protein biosynthesis" EXACT [GOC:mah] synonym: "positive regulation of mitochondrial protein formation" EXACT [GOC:mah] synonym: "positive regulation of mitochondrial protein synthesis" EXACT [GOC:mah] is_a: GO:0045727 ! positive regulation of translation is_a: GO:0070129 ! regulation of mitochondrial translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032543 ! mitochondrial translation relationship: positively_regulates GO:0032543 ! mitochondrial translation [Term] id: GO:0070132 name: regulation of mitochondrial translational initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the process preceding formation of the peptide bond between the first two amino acids of a protein in a mitochondrion." [GOC:mah] synonym: "regulation of mitochondrial translation initiation" EXACT [GOC:mah] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0070129 ! regulation of mitochondrial translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070124 ! mitochondrial translational initiation relationship: regulates GO:0070124 ! mitochondrial translational initiation [Term] id: GO:0070133 name: negative regulation of mitochondrial translational initiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the process preceding formation of the peptide bond between the first two amino acids of a protein in a mitochondrion." [GOC:mah] synonym: "negative regulation of mitochondrial translation initiation" EXACT [GOC:mah] is_a: GO:0045947 ! negative regulation of translational initiation is_a: GO:0070130 ! negative regulation of mitochondrial translation is_a: GO:0070132 ! regulation of mitochondrial translational initiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070124 ! mitochondrial translational initiation relationship: negatively_regulates GO:0070124 ! mitochondrial translational initiation [Term] id: GO:0070134 name: positive regulation of mitochondrial translational initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the process preceding formation of the peptide bond between the first two amino acids of a protein in a mitochondrion." [GOC:mah] synonym: "positive regulation of mitochondrial translation initiation" EXACT [GOC:mah] is_a: GO:0045948 ! positive regulation of translational initiation is_a: GO:0070131 ! positive regulation of mitochondrial translation is_a: GO:0070132 ! regulation of mitochondrial translational initiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070124 ! mitochondrial translational initiation relationship: positively_regulates GO:0070124 ! mitochondrial translational initiation [Term] id: GO:0070160 name: tight junction namespace: cellular_component def: "A cell-cell junction that seals cells together in an epithelium in a way that prevents even small molecules from leaking from one side of the sheet to the other." [ISBN:0815332181] synonym: "occluding cell junction" EXACT [GOC:mah] synonym: "occluding junction" EXACT [GOC:mah] xref: Wikipedia:Tight_junction is_a: GO:0005911 ! cell-cell junction [Term] id: GO:0070161 name: anchoring junction namespace: cellular_component def: "A cell junction that mechanically attaches a cell (and its cytoskeleton) to neighboring cells or to the extracellular matrix." [ISBN:0815332181] synonym: "anchoring cell junction" EXACT [GOC:mah] is_a: GO:0030054 ! cell junction [Term] id: GO:0070192 name: chromosome organization involved in meiotic cell cycle namespace: biological_process def: "A process of chromosome organization that is involved in a meiotic cell cycle." [GOC:mah] synonym: "chromosome organisation involved in meiosis" EXACT [GOC:mah] synonym: "meiotic chromosome organization" EXACT [GOC:mah] is_a: GO:0051276 ! chromosome organization is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0051276 ! chromosome organization intersection_of: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0070201 name: regulation of establishment of protein localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a protein to a specific location." [GOC:BHF, GOC:mah] synonym: "regulation of establishment of protein localisation" EXACT [GOC:mah] is_a: GO:0032880 ! regulation of protein localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0045184 ! establishment of protein localization relationship: regulates GO:0045184 ! establishment of protein localization [Term] id: GO:0070265 name: necrotic cell death namespace: biological_process def: "A type of cell death that is morphologically characterized by an increasingly translucent cytoplasm, swelling of organelles, minor ultrastructural modifications of the nucleus (specifically, dilatation of the nuclear membrane and condensation of chromatin into small, irregular, circumscribed patches) and increased cell volume (oncosis), culminating in the disruption of the plasma membrane and subsequent loss of intracellular contents. Necrotic cells do not fragment into discrete corpses as their apoptotic counterparts do. Moreover, their nuclei remain intact and can aggregate and accumulate in necrotic tissues." [GOC:mtg_apoptosis, PMID:18846107, PMID:20823910] comment: Note that the word necrosis has been widely used in earlier literature to describe forms of cell death which are now known by more precise terms, such as apoptosis. Necrosis can occur in a regulated fashion, involving a precise sequence of signals; in this case, consider annotating to GO:0097300 'programmed necrotic cell death' or to its more specific child GO:0070266 'necroptotic process'. synonym: "cellular necrosis" EXACT [GOC:add] synonym: "necrosis" BROAD [GOC:mah] is_a: GO:0008219 ! cell death [Term] id: GO:0070382 name: exocytic vesicle namespace: cellular_component def: "A transport vesicle that mediates transport from an intracellular compartment to the plasma membrane, and fuses with the plasma membrane to release various cargo molecules, such as proteins or hormones, by exocytosis." [GOC:kad, GOC:mah] synonym: "exocytic constitutive secretory pathway transport vesicle" EXACT [] synonym: "exocytotic vesicle" EXACT [GOC:kad] is_a: GO:0030133 ! transport vesicle is_a: GO:0099503 ! secretory vesicle [Term] id: GO:0070507 name: regulation of microtubule cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] synonym: "regulation of microtubule cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of microtubule dynamics" EXACT [GOC:dph, GOC:tb] is_a: GO:0032886 ! regulation of microtubule-based process is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000226 ! microtubule cytoskeleton organization relationship: regulates GO:0000226 ! microtubule cytoskeleton organization [Term] id: GO:0070549 name: negative regulation of translation involved in RNA interference namespace: biological_process def: "A process of negative regulation of translation that is mediated by the association of small interfering RNAs (siRNAs) with a cognate target mRNA." [GOC:mah, PMID:18771919] synonym: "down regulation of translation involved in RNA interference" EXACT [GOC:mah] synonym: "down-regulation of translation involved in RNA interference" EXACT [GOC:mah] synonym: "downregulation of translation involved in RNA interference" EXACT [GOC:mah] synonym: "inhibition of translation involved in RNA interference" NARROW [GOC:mah] synonym: "RNA interference, negative regulation of translation" EXACT [GOC:mah] is_a: GO:0040033 ! negative regulation of translation, ncRNA-mediated intersection_of: GO:0017148 ! negative regulation of translation intersection_of: part_of GO:0016246 ! RNA interference relationship: part_of GO:0016246 ! RNA interference [Term] id: GO:0070585 name: protein localization to mitochondrion namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within the mitochondrion." [GOC:ecd] synonym: "protein localisation in mitochondrion" EXACT [GOC:mah] synonym: "protein localization in mitochondrion" EXACT [GOC:curators] is_a: GO:0033365 ! protein localization to organelle created_by: midori creation_date: 2009-04-24T02:31:18Z [Term] id: GO:0070727 name: cellular macromolecule localization namespace: biological_process def: "Any process in which a macromolecule is transported to, and/or maintained in, a specific location at the level of a cell. Localization at the cellular level encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GOC:mah] synonym: "cellular macromolecule localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization is_a: GO:0051641 ! cellular localization created_by: midori creation_date: 2009-06-16T04:08:29Z [Term] id: GO:0070887 name: cellular response to chemical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0042221 ! response to chemical is_a: GO:0051716 ! cellular response to stimulus created_by: midori creation_date: 2009-08-27T04:41:45Z [Term] id: GO:0070925 name: organelle assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an organelle. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] subset: goslim_yeast is_a: GO:0006996 ! organelle organization is_a: GO:0022607 ! cellular component assembly created_by: midori creation_date: 2009-09-15T03:00:51Z [Term] id: GO:0070972 name: protein localization to endoplasmic reticulum namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within the endoplasmic reticulum." [GOC:mah] synonym: "protein localisation in endoplasmic reticulum" EXACT [GOC:mah] synonym: "protein localization in endoplasmic reticulum" EXACT [GOC:curators] synonym: "protein localization in ER" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle created_by: midori creation_date: 2009-10-02T12:43:34Z [Term] id: GO:0070997 name: neuron death namespace: biological_process def: "The process of cell death in a neuron." [GOC:BHF, GOC:mah] comment: This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide or use of neuron-specific markers) show that neuron death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the neuron death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'), and the cell type captured as an annotation extension; or the term GO:0051402 'neuron apoptotic process' may be considered, if appropriate. synonym: "neuron cell death" EXACT [GOC:mah, GOC:rl] synonym: "neuronal cell death" EXACT [GOC:mah] is_a: GO:0008219 ! cell death created_by: midori creation_date: 2009-11-03T02:37:17Z [Term] id: GO:0071103 name: DNA conformation change namespace: biological_process def: "A cellular process that results in a change in the spatial configuration of a DNA molecule. A conformation change can bend DNA, or alter the, twist, writhe, or linking number of a DNA molecule." [GOC:mah] subset: goslim_metagenomics synonym: "DNA conformation modification" EXACT [GOC:mah] is_a: GO:0051276 ! chromosome organization created_by: midori creation_date: 2009-11-09T11:36:34Z [Term] id: GO:0071166 name: ribonucleoprotein complex localization namespace: biological_process def: "Any process in which a ribonucleoprotein complex is transported to, or maintained in, a specific location within a cell." [GOC:mah] synonym: "cellular ribonucleoprotein complex localization" EXACT [GOC:mah] synonym: "establishment and maintenance of ribonucleoprotein complex localization" EXACT [GOC:mah] synonym: "ribonucleoprotein complex localisation" EXACT [GOC:mah] synonym: "RNP localization" EXACT [GOC:mah] is_a: GO:0051641 ! cellular localization created_by: midori creation_date: 2009-11-19T04:46:05Z [Term] id: GO:0071173 name: spindle assembly checkpoint namespace: biological_process def: "A cell cycle checkpoint that delays the metaphase/anaphase transition until the spindle is correctly assembled and chromosomes are attached to the spindle." [GOC:mah] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of spindle assembly checkpoint (mitotic or meiotic). subset: gocheck_do_not_manually_annotate synonym: "SAC" BROAD [GOC:mah] is_a: GO:0031577 ! spindle checkpoint created_by: midori creation_date: 2009-11-23T12:36:57Z [Term] id: GO:0071174 name: mitotic spindle checkpoint namespace: biological_process def: "A mitotic cell cycle checkpoint that originates from the spindle and delays the metaphase/anaphase transition of a mitotic nuclear division until the spindle is correctly assembled and oriented, the completion of anaphase until chromosomes are attached to the spindle, or mitotic exit and cytokinesis when the spindle does not form." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of spindle checkpoint (assembly, orientation or Dma1-dependent). subset: gocheck_do_not_manually_annotate synonym: "mitotic cell cycle spindle checkpoint" EXACT [] is_a: GO:0007093 ! mitotic cell cycle checkpoint is_a: GO:0031577 ! spindle checkpoint intersection_of: GO:0031577 ! spindle checkpoint intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: midori creation_date: 2009-11-23T12:41:36Z [Term] id: GO:0071214 name: cellular response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (non-living) stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "cellular response to abiotic stress" NARROW [GOC:mah] is_a: GO:0009628 ! response to abiotic stimulus is_a: GO:0104004 ! cellular response to environmental stimulus created_by: midori creation_date: 2009-12-03T01:02:11Z [Term] id: GO:0071216 name: cellular response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "cellular response to biotic stress" NARROW [GOC:mah] is_a: GO:0009607 ! response to biotic stimulus is_a: GO:0051716 ! cellular response to stimulus created_by: midori creation_date: 2009-12-03T01:09:08Z [Term] id: GO:0071310 name: cellular response to organic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus." [GOC:mah] is_a: GO:0010033 ! response to organic substance is_a: GO:0070887 ! cellular response to chemical stimulus created_by: midori creation_date: 2009-12-10T04:46:04Z [Term] id: GO:0071426 name: ribonucleoprotein complex export from nucleus namespace: biological_process def: "The directed movement of a ribonucleoprotein complex from the nucleus to the cytoplasm." [GOC:mah] synonym: "ribonucleoprotein complex export from cell nucleus" EXACT [GOC:mah] synonym: "ribonucleoprotein complex nucleus export" EXACT [GOC:mah] synonym: "ribonucleoprotein complex transport from nucleus to cytoplasm" EXACT [GOC:mah] synonym: "RNP export from nucleus" EXACT [GOC:mah] is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0006611 ! protein export from nucleus is_a: GO:0031503 ! protein-containing complex localization relationship: part_of GO:0071166 ! ribonucleoprotein complex localization created_by: midori creation_date: 2009-12-16T10:13:01Z [Term] id: GO:0071427 name: mRNA-containing ribonucleoprotein complex export from nucleus namespace: biological_process def: "The directed movement of a ribonucleoprotein complex that contains messenger RNA from the nucleus to the cytoplasm." [GOC:mah] synonym: "mRNA-containing ribonucleoprotein complex export from cell nucleus" EXACT [GOC:mah] synonym: "mRNA-containing ribonucleoprotein complex nucleus export" EXACT [GOC:mah] synonym: "mRNA-containing ribonucleoprotein complex transport from nucleus to cytoplasm" EXACT [GOC:mah] synonym: "mRNA-containing RNP export from nucleus" EXACT [GOC:mah] is_a: GO:0071426 ! ribonucleoprotein complex export from nucleus created_by: midori creation_date: 2009-12-16T10:13:59Z [Term] id: GO:0071478 name: cellular response to radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." [GOC:mah] comment: Note that 'radiation' refers to electromagnetic radiation of any wavelength. synonym: "cellular response to electromagnetic radiation stimulus" EXACT [GOC:mah] synonym: "cellular response to radiation stimulus" EXACT [GOC:mah] is_a: GO:0009314 ! response to radiation is_a: GO:0071214 ! cellular response to abiotic stimulus created_by: midori creation_date: 2009-12-18T01:59:37Z [Term] id: GO:0071479 name: cellular response to ionizing radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a ionizing radiation stimulus. Ionizing radiation is radiation with sufficient energy to remove electrons from atoms and may arise from spontaneous decay of unstable isotopes, resulting in alpha and beta particles and gamma rays. Ionizing radiation also includes X-rays." [GOC:mah] synonym: "cellular response to ionising radiation" EXACT [GOC:mah] synonym: "cellular response to ionizing radiation stimulus" EXACT [GOC:mah] is_a: GO:0010212 ! response to ionizing radiation is_a: GO:0071478 ! cellular response to radiation created_by: midori creation_date: 2009-12-18T02:00:31Z [Term] id: GO:0071480 name: cellular response to gamma radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a gamma radiation stimulus. Gamma radiation is a form of electromagnetic radiation (EMR) or light emission of a specific frequency produced from sub-atomic particle interaction, such as electron-positron annihilation and radioactive decay. Gamma rays are generally characterized as EMR having the highest frequency and energy, and also the shortest wavelength, within the electromagnetic radiation spectrum." [GOC:mah] synonym: "cellular response to gamma ray" RELATED [GOC:mah] synonym: "cellular response to gamma-ray photon" RELATED [GOC:mah] is_a: GO:0010332 ! response to gamma radiation is_a: GO:0071479 ! cellular response to ionizing radiation created_by: midori creation_date: 2009-12-18T02:00:50Z [Term] id: GO:0071482 name: cellular response to light stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:mah] is_a: GO:0009416 ! response to light stimulus is_a: GO:0071478 ! cellular response to radiation created_by: midori creation_date: 2009-12-18T02:03:49Z [Term] id: GO:0071684 name: organism emergence from protective structure namespace: biological_process def: "The developmental process in which an organism emerges from a surrounding protective structure such as an egg or pupa case." [GOC:mah] is_a: GO:0032501 ! multicellular organismal process created_by: midori creation_date: 2010-02-19T04:23:55Z [Term] id: GO:0071692 name: protein localization to extracellular region namespace: biological_process def: "Any process in which a protein is transported from one specific location in the extracellular region to another, or maintained in a specific extracellular location." [GOC:mah] synonym: "protein localisation in extracellular region" EXACT [GOC:mah] synonym: "protein localization in extracellular region" EXACT [GOC:curators] is_a: GO:0008104 ! protein localization created_by: midori creation_date: 2010-02-25T04:00:13Z [Term] id: GO:0071695 name: anatomical structure maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an anatomical structure to attain its fully functional state." [GOC:mah] is_a: GO:0021700 ! developmental maturation relationship: part_of GO:0048856 ! anatomical structure development created_by: midori creation_date: 2010-03-02T11:43:38Z [Term] id: GO:0071702 name: organic substance transport namespace: biological_process def: "The directed movement of organic substances into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore. An organic substance is a molecular entity that contains carbon." [CHEBI:50860, GOC:mah] is_a: GO:0006810 ! transport created_by: midori creation_date: 2010-03-08T02:15:14Z [Term] id: GO:0071704 name: organic substance metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon." [CHEBI:50860, GOC:mah] synonym: "organic molecular entity metabolic process" EXACT [] synonym: "organic molecular entity metabolism" EXACT [] synonym: "organic substance metabolism" EXACT [] is_a: GO:0008152 ! metabolic process created_by: midori creation_date: 2010-03-08T03:32:18Z [Term] id: GO:0071705 name: nitrogen compound transport namespace: biological_process def: "The directed movement of nitrogen-containing compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [CHEBI:51143, GOC:mah] is_a: GO:0006810 ! transport created_by: midori creation_date: 2010-03-08T03:56:28Z [Term] id: GO:0071824 name: protein-DNA complex subunit organization namespace: biological_process def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex." [GOC:mah] synonym: "DNA-protein complex subunit organization" EXACT [GOC:mah] synonym: "protein-DNA complex subunit organisation" EXACT [GOC:mah] is_a: GO:0043933 ! protein-containing complex subunit organization created_by: midori creation_date: 2010-09-08T10:03:26Z [Term] id: GO:0071826 name: ribonucleoprotein complex subunit organization namespace: biological_process def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex." [GOC:mah] synonym: "protein-RNA complex subunit organization" EXACT [GOC:mah] synonym: "ribonucleoprotein complex subunit organisation" EXACT [GOC:mah] synonym: "RNA-protein complex subunit organization" EXACT [GOC:mah] is_a: GO:0043933 ! protein-containing complex subunit organization created_by: midori creation_date: 2010-09-08T10:10:35Z [Term] id: GO:0071840 name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0008150 ! biological_process created_by: midori creation_date: 2010-09-10T01:39:16Z [Term] id: GO:0071897 name: DNA biosynthetic process namespace: biological_process def: "The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one." [GOC:mah] synonym: "DNA anabolism" EXACT [GOC:mah] synonym: "DNA biosynthesis" EXACT [GOC:mah] synonym: "DNA formation" EXACT [GOC:mah] synonym: "DNA synthesis" EXACT [GOC:mah] is_a: GO:0006259 ! DNA metabolic process is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0034654 ! nucleobase-containing compound biosynthetic process created_by: midori creation_date: 2010-09-15T02:14:33Z [Term] id: GO:0071930 name: negative regulation of transcription involved in G1/S transition of mitotic cell cycle namespace: biological_process def: "Any process that stop, prevents or decreases transcription as part of the G1/S transition of the mitotic cell cycle." [GOC:mah, GOC:vw] synonym: "negative regulation of transcription from RNA polymerase II promoter during G1/S phase of mitotic cell cycle" RELATED [GOC:mah] synonym: "negative regulation of transcription from RNA polymerase II promoter involved in G1/S transition of mitotic cell cycle" EXACT [GOC:mah] is_a: GO:0000083 ! regulation of transcription involved in G1/S transition of mitotic cell cycle is_a: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: part_of GO:0000082 ! G1/S transition of mitotic cell cycle created_by: midori creation_date: 2010-09-29T11:12:11Z [Term] id: GO:0071931 name: positive regulation of transcription involved in G1/S transition of mitotic cell cycle namespace: biological_process def: "Any process that activates or increases transcription as part of the G1/S transition of the mitotic cell cycle." [GOC:mah, GOC:vw] synonym: "positive regulation of transcription from RNA polymerase II promoter during G1/S phase of mitotic cell cycle" RELATED [GOC:mah] synonym: "positive regulation of transcription from RNA polymerase II promoter involved in G1/S transition of mitotic cell cycle" EXACT [GOC:mah] is_a: GO:0000083 ! regulation of transcription involved in G1/S transition of mitotic cell cycle is_a: GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: part_of GO:0000082 ! G1/S transition of mitotic cell cycle created_by: midori creation_date: 2010-09-29T11:15:34Z [Term] id: GO:0071944 name: cell periphery namespace: cellular_component def: "The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures." [GOC:mah] subset: goslim_flybase_ribbon is_a: GO:0044464 ! cell part created_by: midori creation_date: 2010-10-04T01:51:47Z [Term] id: GO:0071965 name: multicellular organismal locomotion namespace: biological_process def: "Locomotion in a multicellular organism, i.e. self-propelled movement of a multicellular organism from one location to another." [GOC:mah] is_a: GO:0040011 ! locomotion is_a: GO:0050879 ! multicellular organismal movement created_by: midori creation_date: 2010-10-14T10:34:35Z [Term] id: GO:0071981 name: exit from diapause namespace: biological_process def: "The dormancy process that results in exit from diapause. Diapause is a neurohormonally mediated, dynamic state of low metabolic activity. Associated characteristics of this form of dormancy include reduced morphogenesis, increased resistance to environmental extremes, and altered or reduced behavioral activity. Full expression develops in a species-specific manner, usually in response to a number of environmental stimuli that precede unfavorable conditions. Once diapause has begun, metabolic activity is suppressed even if conditions favorable for development prevail. Once initiated, only certain stimuli are capable of releasing the organism from this state, and this characteristic is essential in distinguishing diapause from hibernation." [GOC:mah] is_a: GO:0022611 ! dormancy process created_by: midori creation_date: 2010-10-21T04:45:40Z [Term] id: GO:0072347 name: response to anesthetic namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an anesthetic stimulus. An anesthetic is a substance that causes loss of feeling, awareness, or sensation." [CHEBI:38867, GOC:sart] synonym: "response to anaesthetic" EXACT [GOC:mah] is_a: GO:0042493 ! response to drug created_by: midori creation_date: 2010-11-10T01:26:18Z [Term] id: GO:0072384 name: organelle transport along microtubule namespace: biological_process def: "The directed movement of an organelle along a microtubule, mediated by motor proteins. This process begins with the attachment of an organelle to a microtubule, and ends when the organelle reaches its final destination." [GOC:mah] synonym: "microtubule-based organelle localization" EXACT [GOC:rl] is_a: GO:0010970 ! transport along microtubule is_a: GO:0051656 ! establishment of organelle localization created_by: midori creation_date: 2010-12-01T04:59:11Z [Term] id: GO:0072395 name: signal transduction involved in cell cycle checkpoint namespace: biological_process alt_id: GO:0072404 alt_id: GO:0072407 def: "A signal transduction process that contributes to a cell cycle checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in G2/M transition checkpoint" EXACT [] is_a: GO:0035556 ! intracellular signal transduction intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0000075 ! cell cycle checkpoint relationship: part_of GO:0000075 ! cell cycle checkpoint created_by: midori creation_date: 2010-12-08T02:59:45Z [Term] id: GO:0072401 name: signal transduction involved in DNA integrity checkpoint namespace: biological_process def: "A signal transduction process that contributes to a DNA integrity checkpoint." [GOC:mah] is_a: GO:0072395 ! signal transduction involved in cell cycle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031570 ! DNA integrity checkpoint relationship: part_of GO:0031570 ! DNA integrity checkpoint created_by: midori creation_date: 2010-12-08T03:31:56Z [Term] id: GO:0072411 name: signal transduction involved in meiotic cell cycle checkpoint namespace: biological_process def: "A signal transduction process that contributes to a meiotic cell cycle checkpoint." [GOC:mah] is_a: GO:0072395 ! signal transduction involved in cell cycle checkpoint is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0033313 ! meiotic cell cycle checkpoint relationship: part_of GO:0033313 ! meiotic cell cycle checkpoint created_by: midori creation_date: 2010-12-08T03:48:45Z [Term] id: GO:0072413 name: signal transduction involved in mitotic cell cycle checkpoint namespace: biological_process alt_id: GO:0072456 alt_id: GO:0072474 def: "A signal transduction process that contributes to a mitotic cell cycle checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in mitotic cell cycle G1/S checkpoint" RELATED [] synonym: "signal transduction involved in mitotic G2/M transition checkpoint" RELATED [] is_a: GO:0072395 ! signal transduction involved in cell cycle checkpoint is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0007093 ! mitotic cell cycle checkpoint relationship: part_of GO:0007093 ! mitotic cell cycle checkpoint created_by: midori creation_date: 2010-12-08T03:50:28Z [Term] id: GO:0072416 name: signal transduction involved in spindle checkpoint namespace: biological_process def: "A signal transduction process that contributes to a spindle checkpoint." [GOC:mah] is_a: GO:0072395 ! signal transduction involved in cell cycle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031577 ! spindle checkpoint relationship: part_of GO:0031577 ! spindle checkpoint created_by: midori creation_date: 2010-12-08T03:55:51Z [Term] id: GO:0072422 name: signal transduction involved in DNA damage checkpoint namespace: biological_process def: "A signal transduction process that contributes to a DNA damage checkpoint." [GOC:mah] is_a: GO:0042770 ! signal transduction in response to DNA damage is_a: GO:0072401 ! signal transduction involved in DNA integrity checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0000077 ! DNA damage checkpoint relationship: part_of GO:0000077 ! DNA damage checkpoint created_by: midori creation_date: 2010-12-08T04:18:11Z [Term] id: GO:0072425 name: signal transduction involved in G2 DNA damage checkpoint namespace: biological_process def: "A signal transduction process that contributes to a G2/M transition DNA damage checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in G2/M transition DNA damage checkpoint" EXACT [] is_a: GO:0072422 ! signal transduction involved in DNA damage checkpoint is_a: GO:1902750 ! negative regulation of cell cycle G2/M phase transition intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031572 ! G2 DNA damage checkpoint relationship: part_of GO:0031572 ! G2 DNA damage checkpoint created_by: midori creation_date: 2010-12-08T04:25:26Z [Term] id: GO:0072428 name: signal transduction involved in intra-S DNA damage checkpoint namespace: biological_process def: "A signal transduction process that contributes to an intra-S DNA damage checkpoint." [GOC:mah] is_a: GO:1902402 ! signal transduction involved in mitotic DNA damage checkpoint is_a: GO:1903464 ! negative regulation of mitotic cell cycle DNA replication intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031573 ! intra-S DNA damage checkpoint relationship: part_of GO:0031573 ! intra-S DNA damage checkpoint created_by: midori creation_date: 2010-12-08T04:31:08Z [Term] id: GO:0072431 name: signal transduction involved in mitotic G1 DNA damage checkpoint namespace: biological_process def: "A signal transduction process that contributes to a mitotic cell cycle G1/S transition DNA damage checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in mitotic cell cycle G1/S transition DNA damage checkpoint" EXACT [] is_a: GO:1902400 ! intracellular signal transduction involved in G1 DNA damage checkpoint is_a: GO:1902402 ! signal transduction involved in mitotic DNA damage checkpoint is_a: GO:2000134 ! negative regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031571 ! mitotic G1 DNA damage checkpoint relationship: part_of GO:0031571 ! mitotic G1 DNA damage checkpoint created_by: midori creation_date: 2010-12-08T04:37:55Z [Term] id: GO:0072434 name: signal transduction involved in mitotic G2 DNA damage checkpoint namespace: biological_process def: "A signal transduction process that contributes to a mitotic G2/M transition DNA damage checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [] is_a: GO:0010972 ! negative regulation of G2/M transition of mitotic cell cycle is_a: GO:0072425 ! signal transduction involved in G2 DNA damage checkpoint is_a: GO:1902402 ! signal transduction involved in mitotic DNA damage checkpoint intersection_of: GO:0007165 ! signal transduction intersection_of: part_of GO:0007095 ! mitotic G2 DNA damage checkpoint relationship: part_of GO:0007095 ! mitotic G2 DNA damage checkpoint created_by: midori creation_date: 2010-12-08T04:43:48Z [Term] id: GO:0072450 name: signal transduction involved in G1 cell size control checkpoint namespace: biological_process def: "A signal transduction process that contributes to a cell size control checkpoint during the G1/S transition of mitosis." [GOC:mah] synonym: "signal transduction involved in mitotic cell cycle G1/S transition size control checkpoint" EXACT [] is_a: GO:0072471 ! signal transduction involved in cell size control checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031568 ! G1 cell size control checkpoint relationship: part_of GO:0031568 ! G1 cell size control checkpoint created_by: midori creation_date: 2010-12-09T10:56:44Z [Term] id: GO:0072465 name: signal transduction involved in meiotic spindle assembly checkpoint namespace: biological_process def: "A signal transduction process that contributes to a meiotic spindle assembly checkpoint." [GOC:mtg_cell_cycle] is_a: GO:0072486 ! signal transduction involved in spindle assembly checkpoint is_a: GO:1902398 ! intracellular signal transduction involved in meiotic spindle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0033316 ! meiotic spindle assembly checkpoint relationship: part_of GO:0033316 ! meiotic spindle assembly checkpoint created_by: midori creation_date: 2010-12-09T11:37:54Z [Term] id: GO:0072471 name: signal transduction involved in cell size control checkpoint namespace: biological_process def: "A signal transduction process that contributes to a cell size control checkpoint during mitosis." [GOC:mtg_cell_cycle] is_a: GO:0072413 ! signal transduction involved in mitotic cell cycle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0031567 ! mitotic cell size control checkpoint relationship: part_of GO:0031567 ! mitotic cell size control checkpoint created_by: midori creation_date: 2010-12-09T11:46:18Z [Term] id: GO:0072477 name: signal transduction involved in mitotic spindle checkpoint namespace: biological_process def: "A signal transduction process that contributes to a mitotic cell cycle spindle checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in mitotic cell cycle spindle checkpoint" EXACT [] is_a: GO:0072413 ! signal transduction involved in mitotic cell cycle checkpoint is_a: GO:0072416 ! signal transduction involved in spindle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0071174 ! mitotic spindle checkpoint relationship: part_of GO:0071174 ! mitotic spindle checkpoint created_by: midori creation_date: 2010-12-09T11:50:16Z [Term] id: GO:0072480 name: signal transduction involved in mitotic spindle assembly checkpoint namespace: biological_process alt_id: GO:1902420 def: "A signal transduction process that contributes to a mitotic cell cycle spindle assembly checkpoint." [GOC:mtg_cell_cycle] synonym: "signal transduction involved in Dma1-dependent checkpoint" NARROW [] synonym: "signal transduction involved in mitotic cell cycle spindle assembly checkpoint" EXACT [] synonym: "signal transduction involved in SAC-independent checkpoint" NARROW [GOC:TermGenie] synonym: "signaling cascade involved in Dma1-dependent checkpoint" NARROW [GOC:TermGenie] synonym: "signaling cascade involved in SAC-independent checkpoint" NARROW [GOC:TermGenie] synonym: "signaling pathway involved in Dma1-dependent checkpoint" RELATED [GOC:TermGenie] synonym: "signaling pathway involved in SAC-independent checkpoint" RELATED [GOC:TermGenie] synonym: "signalling cascade involved in Dma1-dependent checkpoint" NARROW [GOC:TermGenie] synonym: "signalling cascade involved in SAC-independent checkpoint" NARROW [GOC:TermGenie] synonym: "signalling pathway involved in Dma1-dependent checkpoint" RELATED [GOC:TermGenie] synonym: "signalling pathway involved in SAC-independent checkpoint" RELATED [GOC:TermGenie] is_a: GO:0072477 ! signal transduction involved in mitotic spindle checkpoint is_a: GO:0072486 ! signal transduction involved in spindle assembly checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0007094 ! mitotic spindle assembly checkpoint relationship: part_of GO:0007094 ! mitotic spindle assembly checkpoint created_by: midori creation_date: 2010-12-09T12:11:42Z [Term] id: GO:0072486 name: signal transduction involved in spindle assembly checkpoint namespace: biological_process def: "A signal transduction process that contributes to a spindle assembly checkpoint." [GOC:mtg_cell_cycle] is_a: GO:0072416 ! signal transduction involved in spindle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0071173 ! spindle assembly checkpoint relationship: part_of GO:0071173 ! spindle assembly checkpoint created_by: midori creation_date: 2010-12-09T12:19:51Z [Term] id: GO:0072595 name: maintenance of protein localization in organelle namespace: biological_process def: "Any process in which a protein is maintained in a specific location a specific location on or in an organelle, and is prevented from moving elsewhere. Encompasses establishment of localization in the membrane or lumen of a membrane-bounded organelle." [GOC:mah] synonym: "maintenance of protein localisation to organelle" EXACT [GOC:mah] synonym: "maintenance of protein localization to organelle" EXACT [GOC:curators] is_a: GO:0032507 ! maintenance of protein location in cell intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0043226 ! organelle relationship: occurs_in GO:0043226 ! organelle relationship: part_of GO:0033365 ! protein localization to organelle created_by: midori creation_date: 2011-02-14T02:09:13Z [Term] id: GO:0072656 name: maintenance of protein location in mitochondrion namespace: biological_process def: "Any process in which a protein is maintained in a specific location in a mitochondrion, and is prevented from moving elsewhere." [GOC:mah] is_a: GO:0072595 ! maintenance of protein localization in organelle intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0070585 ! protein localization to mitochondrion created_by: midori creation_date: 2011-02-14T02:30:43Z [Term] id: GO:0072662 name: protein localization to peroxisome namespace: biological_process def: "A process in which a protein is transported to, or maintained at, a location in a peroxisome." [GOC:ecd] synonym: "protein localisation to peroxisome" EXACT [GOC:mah] is_a: GO:0007031 ! peroxisome organization is_a: GO:0033365 ! protein localization to organelle created_by: midori creation_date: 2011-02-14T02:50:04Z [Term] id: GO:0072664 name: maintenance of protein location in peroxisome namespace: biological_process def: "Any process in which a protein is maintained in a specific location in a peroxisome, and is prevented from moving elsewhere." [GOC:mah] is_a: GO:0072595 ! maintenance of protein localization in organelle intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005777 ! peroxisome relationship: occurs_in GO:0005777 ! peroxisome relationship: part_of GO:0072662 ! protein localization to peroxisome created_by: midori creation_date: 2011-02-14T02:51:51Z [Term] id: GO:0072665 name: protein localization to vacuole namespace: biological_process def: "A process in which a protein is transported to, or maintained at, a location in a vacuole." [GOC:ecd] synonym: "protein localisation to vacuole" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle created_by: midori creation_date: 2011-02-14T02:55:35Z [Term] id: GO:0072667 name: maintenance of protein location in vacuole namespace: biological_process def: "Any process in which a protein is maintained in a specific location in a vacuole, and is prevented from moving elsewhere." [GOC:mah] is_a: GO:0072595 ! maintenance of protein localization in organelle intersection_of: GO:0045185 ! maintenance of protein location intersection_of: occurs_in GO:0005773 ! vacuole relationship: occurs_in GO:0005773 ! vacuole relationship: part_of GO:0072665 ! protein localization to vacuole created_by: midori creation_date: 2011-02-14T02:56:57Z [Term] id: GO:0072691 name: initiation of premeiotic DNA replication namespace: biological_process def: "A process of DNA-dependent DNA replication initiation that occurs as part of premeiotic DNA replication." [GOC:mah, PMID:10888871] synonym: "initiation of meiotic DNA synthesis" RELATED [GOC:mah] synonym: "initiation of premeiotic DNA synthesis" RELATED [GOC:mah] synonym: "meiotic DNA replication initiation" RELATED [GOC:mah] synonym: "premeiotic DNA replication initiation" EXACT [GOC:mah] is_a: GO:1902974 ! meiotic DNA replication initiation intersection_of: GO:0006270 ! DNA replication initiation intersection_of: part_of GO:0006279 ! premeiotic DNA replication relationship: part_of GO:0006279 ! premeiotic DNA replication created_by: midori creation_date: 2011-08-19T03:16:20Z [Term] id: GO:0080090 name: regulation of primary metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism involving those compounds formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [PMID:19211694] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044238 ! primary metabolic process relationship: regulates GO:0044238 ! primary metabolic process created_by: donghui creation_date: 2009-04-22T04:30:52Z [Term] id: GO:0080134 name: regulation of response to stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to stress. Response to stress is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:dhl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006950 ! response to stress relationship: regulates GO:0006950 ! response to stress created_by: donghui creation_date: 2009-05-06T04:51:28Z [Term] id: GO:0080135 name: regulation of cellular response to stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a cellular response to stress. Cellular response to stress is a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:dhl] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0080134 ! regulation of response to stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0033554 ! cellular response to stress relationship: regulates GO:0033554 ! cellular response to stress created_by: donghui creation_date: 2009-05-06T05:02:52Z [Term] id: GO:0080154 name: regulation of fertilization namespace: biological_process def: "Any process that modulates the rate, frequency or extent of fertilization. Fertilization is the union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:DHL, PMID:20478994] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0009566 ! fertilization relationship: regulates GO:0009566 ! fertilization created_by: donghui creation_date: 2010-09-01T03:44:27Z [Term] id: GO:0080171 name: lytic vacuole organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a lytic vacuole." [PMID:20729380] synonym: "lytic vacuolar assembly" NARROW [] synonym: "lytic vacuole biogenesis" RELATED [] synonym: "lytic vacuole organisation" EXACT [] synonym: "lytic vacuole organization and biogenesis" RELATED [] is_a: GO:0007033 ! vacuole organization created_by: donghui creation_date: 2011-04-25T04:40:46Z [Term] id: GO:0090063 name: positive regulation of microtubule nucleation namespace: biological_process def: "Any process that increases the rate, frequency or extent of microtubule nucleation. Microtubule nucleation is the 'de novo' formation of a microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule. Microtubule nucleation usually occurs from a specific site within a cell." [GOC:dph, GOC:tb] is_a: GO:0010968 ! regulation of microtubule nucleation is_a: GO:0031116 ! positive regulation of microtubule polymerization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007020 ! microtubule nucleation relationship: positively_regulates GO:0007020 ! microtubule nucleation created_by: tanyaberardini creation_date: 2009-08-12T11:33:09Z [Term] id: GO:0090066 name: regulation of anatomical structure size namespace: biological_process def: "Any process that modulates the size of an anatomical structure." [GOC:dph, GOC:tb] is_a: GO:0065008 ! regulation of biological quality created_by: tanyaberardini creation_date: 2009-09-02T11:00:08Z [Term] id: GO:0090068 name: positive regulation of cell cycle process namespace: biological_process def: "Any process that increases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0045787 ! positive regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0022402 ! cell cycle process relationship: positively_regulates GO:0022402 ! cell cycle process created_by: tanyaberardini creation_date: 2009-09-09T11:39:52Z [Term] id: GO:0090087 name: regulation of peptide transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:dph, GOC:tb] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0015833 ! peptide transport relationship: regulates GO:0015833 ! peptide transport created_by: tanyaberardini creation_date: 2009-10-23T11:21:38Z [Term] id: GO:0090138 name: regulation of actin cytoskeleton organization by cell-cell adhesion namespace: biological_process def: "Any cell-cell adhesion process that modulates the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "regulation of actin cytoskeleton organisation by cell-cell adhesion" EXACT [GOC:mah] is_a: GO:0032956 ! regulation of actin cytoskeleton organization is_a: GO:0098609 ! cell-cell adhesion intersection_of: GO:0098609 ! cell-cell adhesion intersection_of: regulates GO:0030036 ! actin cytoskeleton organization created_by: tanyaberardini creation_date: 2009-12-08T02:05:00Z [Term] id: GO:0090139 name: mitochondrial DNA packaging namespace: biological_process def: "Any process in which mitochondrial DNA and associated proteins are formed into a compact, orderly structure." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0036385 ! nucleoid DNA packaging intersection_of: GO:0006323 ! DNA packaging intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion created_by: tanyaberardini creation_date: 2009-12-08T02:12:19Z [Term] id: GO:0090148 name: membrane fission namespace: biological_process def: "A process that is carried out at the cellular level which results in the separation of a single continuous membrane into two membranes." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "membrane scission" EXACT [] is_a: GO:0061024 ! membrane organization created_by: tanyaberardini creation_date: 2009-12-08T03:06:36Z [Term] id: GO:0090169 name: regulation of spindle assembly namespace: biological_process def: "Any process that modulates the rate, frequency or extent of spindle assembly. Spindle assembly is the aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "regulation of spindle formation" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0090224 ! regulation of spindle organization is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051225 ! spindle assembly relationship: regulates GO:0051225 ! spindle assembly created_by: tanyaberardini creation_date: 2009-12-11T10:17:51Z [Term] id: GO:0090172 name: microtubule cytoskeleton organization involved in homologous chromosome segregation namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins that contributes to chromosomal pairing and precedes synapsis." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "microtubule cytoskeleton organisation involved in homologous chromosome segregation" EXACT [GOC:mah] synonym: "microtubule organization involved in chromosome pairing" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0000226 ! microtubule cytoskeleton organization intersection_of: part_of GO:0045143 ! homologous chromosome segregation relationship: part_of GO:0045143 ! homologous chromosome segregation created_by: tanyaberardini creation_date: 2009-12-11T11:07:42Z [Term] id: GO:0090174 name: organelle membrane fusion namespace: biological_process def: "The joining of two lipid bilayers to form a single organelle membrane." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048284 ! organelle fusion is_a: GO:0061025 ! membrane fusion created_by: tanyaberardini creation_date: 2009-12-11T11:44:58Z [Term] id: GO:0090224 name: regulation of spindle organization namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "regulation of spindle organisation" EXACT [GOC:mah] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0070507 ! regulation of microtubule cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007051 ! spindle organization relationship: regulates GO:0007051 ! spindle organization created_by: tanyaberardini creation_date: 2010-01-13T11:04:53Z [Term] id: GO:0090231 name: regulation of spindle checkpoint namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the spindle checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition until the spindle is correctly assembled and oriented, and chromosomes are attached to the spindle." [GOC:ascb_2009, GOC:dph, GOC:tb] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of checkpoint (i.e mitotic spindle or DNA damage etc). subset: gocheck_do_not_manually_annotate is_a: GO:1901976 ! regulation of cell cycle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031577 ! spindle checkpoint relationship: regulates GO:0031577 ! spindle checkpoint created_by: tanyaberardini creation_date: 2010-01-20T10:29:43Z [Term] id: GO:0090232 name: positive regulation of spindle checkpoint namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the spindle checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition until the spindle is correctly assembled and oriented, and chromosomes are attached to the spindle." [GOC:ascb_2009, GOC:dph, GOC:tb] subset: gocheck_do_not_manually_annotate synonym: "spindle checkpoint activation" NARROW [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0090231 ! regulation of spindle checkpoint is_a: GO:1901978 ! positive regulation of cell cycle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0031577 ! spindle checkpoint relationship: positively_regulates GO:0031577 ! spindle checkpoint created_by: tanyaberardini creation_date: 2010-01-20T10:29:43Z [Term] id: GO:0090233 name: negative regulation of spindle checkpoint namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the spindle checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition until the spindle is correctly assembled and oriented, and chromosomes are attached to the spindle." [GOC:ascb_2009, GOC:dph, GOC:tb] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of checkpoint (i.e mitotic spindle or DNA damage etc). subset: gocheck_do_not_manually_annotate synonym: "spindle checkpoint silencing" NARROW [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0090231 ! regulation of spindle checkpoint is_a: GO:1901977 ! negative regulation of cell cycle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031577 ! spindle checkpoint relationship: negatively_regulates GO:0031577 ! spindle checkpoint created_by: tanyaberardini creation_date: 2010-01-20T10:29:43Z [Term] id: GO:0090266 name: regulation of mitotic cell cycle spindle assembly checkpoint namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the mitotic cell cycle spindle assembly checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition of a mitotic nuclear division until the spindle is correctly assembled and chromosomes are attached to the spindle." [GOC:mtg_cell_cycle] is_a: GO:0030071 ! regulation of mitotic metaphase/anaphase transition is_a: GO:1903504 ! regulation of mitotic spindle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007094 ! mitotic spindle assembly checkpoint relationship: regulates GO:0007094 ! mitotic spindle assembly checkpoint created_by: tanyaberardini creation_date: 2010-02-05T02:06:37Z [Term] id: GO:0090267 name: positive regulation of mitotic cell cycle spindle assembly checkpoint namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the mitotic cell cycle spindle assembly checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition of a mitotic nuclear division until the spindle is correctly assembled and chromosomes are attached to the spindle." [GOC:mah, GOC:vw] is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:0090232 ! positive regulation of spindle checkpoint is_a: GO:0090266 ! regulation of mitotic cell cycle spindle assembly checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007094 ! mitotic spindle assembly checkpoint relationship: positively_regulates GO:0007094 ! mitotic spindle assembly checkpoint created_by: tanyaberardini creation_date: 2010-02-05T02:09:44Z [Term] id: GO:0090282 name: positive regulation of transcription involved in G2/M transition of mitotic cell cycle namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transcription of target genes that are transcribed as part of the G2/M transition of the mitotic cell cycle." [GOC:rn, PMID:10747051, PMID:10894548, PMID:10899128, PMID:10959837] synonym: "activation of G2/M-specific transcription in the mitotic cell cycle" EXACT [GOC:rn] synonym: "activation of transcription from RNA polymerase II promoter during G2/M-phase of the mitotic cell cycle" EXACT [GOC:rn] synonym: "activation of transcription involved in G2/M transition of mitotic cell cycle" EXACT [GOC:rn] synonym: "positive regulation of G2/M-specific transcription in the mitotic cell cycle" EXACT [GOC:rn] synonym: "positive regulation of transcription from RNA polymerase II promoter during G2/M-phase of the mitotic cell cycle" EXACT [GOC:rn] synonym: "up-regulation of G2/M-specific transcription in the mitotic cell cycle" EXACT [GOC:rn] synonym: "up-regulation of transcription from RNA polymerase II promoter during G2/M transition of the mitotic cell cycle" EXACT [GOC:rn] synonym: "up-regulation of transcription involved in G2/M transition of mitotic cell cycle" EXACT [GOC:rn] is_a: GO:0000117 ! regulation of transcription involved in G2/M transition of mitotic cell cycle is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: GO:0045893 ! positive regulation of transcription, DNA-templated intersection_of: part_of GO:0000086 ! G2/M transition of mitotic cell cycle created_by: tanyaberardini creation_date: 2010-02-09T02:13:26Z [Term] id: GO:0090296 name: regulation of mitochondrial DNA replication namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the process in which new strands of DNA are synthesized in the mitochondrion." [GOC:tb] synonym: "regulation of mitochondrial DNA synthesis" RELATED [GOC:tb] is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006264 ! mitochondrial DNA replication relationship: regulates GO:0006264 ! mitochondrial DNA replication created_by: tanyaberardini creation_date: 2010-03-12T03:58:25Z [Term] id: GO:0090297 name: positive regulation of mitochondrial DNA replication namespace: biological_process def: "Any process that increases the rate, frequency or extent of the process in which new strands of DNA are synthesized in the mitochondrion." [GOC:tb] synonym: "positive regulation of mitochondrial DNA synthesis" RELATED [GOC:tb] is_a: GO:0090296 ! regulation of mitochondrial DNA replication is_a: GO:2000105 ! positive regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006264 ! mitochondrial DNA replication relationship: positively_regulates GO:0006264 ! mitochondrial DNA replication created_by: tanyaberardini creation_date: 2010-03-12T03:58:25Z [Term] id: GO:0090298 name: negative regulation of mitochondrial DNA replication namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the process in which new strands of DNA are synthesized in the mitochondrion." [GOC:tb] synonym: "negative regulation of mitochondrial DNA synthesis" RELATED [GOC:tb] is_a: GO:0090296 ! regulation of mitochondrial DNA replication is_a: GO:2000104 ! negative regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006264 ! mitochondrial DNA replication relationship: negatively_regulates GO:0006264 ! mitochondrial DNA replication created_by: tanyaberardini creation_date: 2010-03-12T03:58:25Z [Term] id: GO:0090304 name: nucleic acid metabolic process namespace: biological_process def: "Any cellular metabolic process involving nucleic acids." [GOC:dph, GOC:tb] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0043170 ! macromolecule metabolic process created_by: tanyaberardini creation_date: 2010-04-07T10:18:47Z [Term] id: GO:0090306 name: spindle assembly involved in meiosis namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the spindle that contributes to the process of meiosis." [GOC:tb, GOC:vw] synonym: "meiotic spindle assembly" EXACT [GOC:vw] is_a: GO:0000212 ! meiotic spindle organization is_a: GO:0051225 ! spindle assembly intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0140013 ! meiotic nuclear division relationship: part_of GO:0140013 ! meiotic nuclear division created_by: tanyaberardini creation_date: 2010-04-09T11:21:56Z [Term] id: GO:0090307 name: mitotic spindle assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form the spindle that contributes to the process of mitosis." [GOC:tb, GOC:vw] synonym: "spindle assembly involved in mitosis" EXACT [] is_a: GO:0007052 ! mitotic spindle organization is_a: GO:0051225 ! spindle assembly intersection_of: GO:0051225 ! spindle assembly intersection_of: part_of GO:0140014 ! mitotic nuclear division relationship: part_of GO:0140014 ! mitotic nuclear division created_by: tanyaberardini creation_date: 2010-04-09T11:31:28Z [Term] id: GO:0090316 name: positive regulation of intracellular protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of proteins within cells." [GOC:tb] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0051222 ! positive regulation of protein transport is_a: GO:1903829 ! positive regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006886 ! intracellular protein transport relationship: positively_regulates GO:0006886 ! intracellular protein transport created_by: tanyaberardini creation_date: 2010-04-16T03:45:07Z [Term] id: GO:0090317 name: negative regulation of intracellular protein transport namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the directed movement of proteins within cells." [GOC:tb] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0051224 ! negative regulation of protein transport is_a: GO:1903828 ! negative regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006886 ! intracellular protein transport relationship: negatively_regulates GO:0006886 ! intracellular protein transport created_by: tanyaberardini creation_date: 2010-04-16T03:45:07Z [Term] id: GO:0090325 name: regulation of locomotion involved in locomotory behavior namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031987 ! locomotion involved in locomotory behavior relationship: regulates GO:0031987 ! locomotion involved in locomotory behavior created_by: tanyaberardini creation_date: 2010-05-14T10:24:29Z [Term] id: GO:0090326 name: positive regulation of locomotion involved in locomotory behavior namespace: biological_process def: "Any process that increases the frequency, rate, or extent of the self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0040017 ! positive regulation of locomotion is_a: GO:0048520 ! positive regulation of behavior is_a: GO:0090325 ! regulation of locomotion involved in locomotory behavior intersection_of: GO:0050789 ! regulation of biological process intersection_of: positively_regulates GO:0031987 ! locomotion involved in locomotory behavior relationship: positively_regulates GO:0031987 ! locomotion involved in locomotory behavior created_by: tanyaberardini creation_date: 2010-05-14T10:26:58Z [Term] id: GO:0090327 name: negative regulation of locomotion involved in locomotory behavior namespace: biological_process def: "Any process that decreases the frequency, rate, or extent of the self-propelled movement of a cell or organism from one location to another in a behavioral context; the aspect of locomotory behavior having to do with movement." [GOC:dph, GOC:kmv, GOC:tb] is_a: GO:0040013 ! negative regulation of locomotion is_a: GO:0048521 ! negative regulation of behavior is_a: GO:0090325 ! regulation of locomotion involved in locomotory behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031987 ! locomotion involved in locomotory behavior relationship: negatively_regulates GO:0031987 ! locomotion involved in locomotory behavior created_by: tanyaberardini creation_date: 2010-05-14T10:26:58Z [Term] id: GO:0090329 name: regulation of DNA-dependent DNA replication namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of DNA-dependent DNA replication, the process in which new strands of DNA are synthesized, using parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands." [GOC:dph, GOC:tb] is_a: GO:0006275 ! regulation of DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006261 ! DNA-dependent DNA replication relationship: regulates GO:0006261 ! DNA-dependent DNA replication created_by: tanyaberardini creation_date: 2010-05-14T10:42:04Z [Term] id: GO:0090419 name: negative regulation of transcription involved in G2/M transition of mitotic cell cycle namespace: biological_process def: "Any process that inhibits or decreases the frequency, rate or extent of transcription of target genes that are transcribed as part of the G2/M transition of the mitotic cell cycle." [GOC:mtg_cell_cycle, PMID:10747051] synonym: "down-regulation of transcription from RNA polymerase II promoter during the G2/M transition of the mitotic cell cycle" RELATED [] synonym: "negative regulation of transcription from RNA polymerase II promoter during G2/M transition of the mitotic cell cycle" RELATED [] is_a: GO:0000117 ! regulation of transcription involved in G2/M transition of mitotic cell cycle is_a: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: GO:0045892 ! negative regulation of transcription, DNA-templated intersection_of: part_of GO:0000086 ! G2/M transition of mitotic cell cycle created_by: tanyaberardini creation_date: 2011-10-26T03:59:41Z [Term] id: GO:0090527 name: actin filament reorganization namespace: biological_process def: "A process that is carried out at the cellular level which results in dynamic structural changes to the arrangement of actin filaments." [GOC:dph, GOC:tb] is_a: GO:0007015 ! actin filament organization relationship: part_of GO:0031532 ! actin cytoskeleton reorganization created_by: tanyaberardini creation_date: 2013-01-23T10:27:44Z [Term] id: GO:0090592 name: DNA synthesis involved in DNA replication namespace: biological_process def: "Synthesis of DNA that is a part of the process of duplicating one or more molecules of DNA." [GOC:vw] is_a: GO:0071897 ! DNA biosynthetic process intersection_of: GO:0071897 ! DNA biosynthetic process intersection_of: part_of GO:0006260 ! DNA replication relationship: part_of GO:0006260 ! DNA replication created_by: tanyaberardini creation_date: 2014-06-06T13:54:36Z [Term] id: GO:0097014 name: ciliary plasm namespace: cellular_component def: "All of the contents of a cilium, excluding the plasma membrane surrounding the cilium." [GOC:BHF, GOC:cilia, GOC:dos, PMID:17895364] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. Also, researchers consider the composition of both the plasm and the membrane of the cilium to be detectably different from that in the non-ciliary cytosol and plasma membrane (e.g. in terms of calcium ion concentration, membrane lipid composition, and more). For this reason, the term "ciliary plasm" is not linked to "cytoplasm". synonym: "cilial cytoplasm" RELATED [] synonym: "ciliary cytoplasm" RELATED [] synonym: "cilium cytoplasm" RELATED [] synonym: "cilium plasm" EXACT [] synonym: "microtubule-based flagellar cytoplasm" RELATED [] synonym: "microtubule-based flagellar matrix" NARROW [] synonym: "microtubule-based flagellum cytoplasm" RELATED [] synonym: "microtubule-based flagellum matrix" NARROW [] is_a: GO:0032838 ! plasma membrane bounded cell projection cytoplasm is_a: GO:0044441 ! ciliary part intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0005929 ! cilium created_by: paola creation_date: 2011-03-23T01:52:31Z [Term] id: GO:0097060 name: synaptic membrane namespace: cellular_component def: "A specialized area of membrane on either the presynaptic or the postsynaptic side of a synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell." [GOC:BHF, PMID:20410104] subset: goslim_synapse is_a: GO:0044456 ! synapse part is_a: GO:0098590 ! plasma membrane region intersection_of: GO:0098590 ! plasma membrane region intersection_of: part_of GO:0045202 ! synapse created_by: paola creation_date: 2011-06-07T11:22:09Z [Term] id: GO:0097159 name: organic cyclic compound binding namespace: molecular_function def: "Interacting selectively and non-covalently with an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure." [CHEBI:33832, GOC:sjw, PMID:7583672] is_a: GO:0005488 ! binding created_by: paola creation_date: 2011-09-23T02:31:01Z [Term] id: GO:0097164 name: ammonium ion metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the ammonium ion." [CHEBI:35274, GOC:dhl, GOC:tb, PMID:14671018] synonym: "ammonium ion metabolism" EXACT [] synonym: "ammonium metabolic process" RELATED [] is_a: GO:0006807 ! nitrogen compound metabolic process created_by: paola creation_date: 2011-09-28T04:21:30Z [Term] id: GO:0097190 name: apoptotic signaling pathway namespace: biological_process alt_id: GO:0008624 def: "A series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered." [GOC:mtg_apoptosis] comment: This term can be used to annotate gene products involved in apoptotic events happening downstream of the cross-talk point between the extrinsic and intrinsic apoptotic pathways. The cross-talk starts when caspase-8 cleaves Bid and truncated Bid interacts with mitochondria. From this point on it is not possible to distinguish between extrinsic and intrinsic pathways. synonym: "apoptotic signalling pathway" EXACT [GOC:mah] synonym: "induction of apoptosis by extracellular signals" EXACT [] is_a: GO:0007165 ! signal transduction relationship: part_of GO:0006915 ! apoptotic process created_by: paola creation_date: 2011-11-23T09:30:23Z [Term] id: GO:0097193 name: intrinsic apoptotic signaling pathway namespace: biological_process alt_id: GO:0008629 def: "A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway starts with reception of an intracellular signal (e.g. DNA damage, endoplasmic reticulum stress, oxidative stress etc.), and ends when the execution phase of apoptosis is triggered. The intrinsic apoptotic signaling pathway is crucially regulated by permeabilization of the mitochondrial outer membrane (MOMP)." [GOC:mtg_apoptosis, GOC:yaf, PMID:11919192, PMID:17340152, PMID:18852119] comment: The signals that start intrinsic apoptosis may come from extracellular sources (e.g. oxidative stress, UV exposure), but the reception of the signal and thus the signaling pathway start inside the cell (as a result of DNA damage, redox imbalance, etc.). Examples are ZPR9 (ZNF622) and ASK1 (MAP3K5) (UniProt symbols Q969S3 and Q99683) in PMID:21771788. A diagram of the intrinsic apoptotic pathway including examples of molecular players can be found in Figure 2 in PMID:21760595. synonym: "induction of apoptosis by intracellular signals" RELATED [] synonym: "intrinsic apoptosis" NARROW [] synonym: "intrinsic apoptotic pathway" EXACT [] synonym: "intrinsic apoptotic signalling pathway" EXACT [GOC:mah] synonym: "mitochondrial-mediated apoptotic pathway" EXACT [] is_a: GO:0035556 ! intracellular signal transduction is_a: GO:0097190 ! apoptotic signaling pathway created_by: paola creation_date: 2011-11-23T09:40:50Z [Term] id: GO:0097194 name: execution phase of apoptosis namespace: biological_process def: "A stage of the apoptotic process that starts with the controlled breakdown of the cell through the action of effector caspases or other effector molecules (e.g. cathepsins, calpains etc.). Key steps of the execution phase are rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." [GOC:mtg_apoptosis, PMID:21760595] synonym: "apoptosis" NARROW [] synonym: "execution phase of apoptotic process" EXACT [] is_a: GO:0009987 ! cellular process relationship: has_part GO:0032060 ! bleb assembly relationship: part_of GO:0006915 ! apoptotic process created_by: paola creation_date: 2011-11-23T09:45:24Z [Term] id: GO:0097435 name: supramolecular fiber organization namespace: biological_process alt_id: GO:0043206 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a supramolecular fiber, a polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." [GOC:pr] synonym: "extracellular fibril organisation" NARROW [GOC:curators] synonym: "extracellular fibril organization" NARROW [] synonym: "extracellular fibril organization and biogenesis" NARROW [GOC:mah] synonym: "fibril organisation" RELATED [] synonym: "fibril organization" RELATED [] is_a: GO:0016043 ! cellular component organization created_by: paola creation_date: 2012-11-27T15:46:25Z [Term] id: GO:0097447 name: dendritic tree namespace: cellular_component def: "The entire complement of dendrites for a neuron, consisting of each primary dendrite and all its branches." [GOC:aruk, GOC:bc, NIF_Subcellular:sao172297168] xref: NIF_Subcellular:sao172297168 is_a: GO:0043005 ! neuron projection relationship: has_part GO:0030425 ! dendrite relationship: part_of GO:0036477 ! somatodendritic compartment created_by: paola creation_date: 2012-12-17T12:31:49Z [Term] id: GO:0097458 name: neuron part namespace: cellular_component def: "Any constituent part of a neuron, the basic cellular unit of nervous tissue. A typical neuron consists of a cell body (often called the soma), an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [GOC:pr, http://en.wikipedia.org/wiki/Neuron] subset: gocheck_do_not_annotate subset: goslim_flybase_ribbon is_a: GO:0044464 ! cell part created_by: paola creation_date: 2012-12-19T16:53:50Z [Term] id: GO:0097479 name: synaptic vesicle localization namespace: biological_process def: "Any process in which a synaptic vesicle or vesicles are transported to, and/or maintained in, a specific location." [GOC:pr] synonym: "establishment and maintenance of synaptic vesicle localization" EXACT [] synonym: "establishment and maintenance of synaptic vesicle position" EXACT [] synonym: "synaptic vesicle localisation" EXACT [] is_a: GO:0051648 ! vesicle localization created_by: paola creation_date: 2013-05-22T14:29:55Z [Term] id: GO:0097480 name: establishment of synaptic vesicle localization namespace: biological_process def: "The directed movement of a synaptic vesicle or vesicles to a specific location." [GOC:pr] synonym: "establishment of synaptic vesicle localisation" EXACT [] is_a: GO:0051650 ! establishment of vesicle localization relationship: part_of GO:0097479 ! synaptic vesicle localization created_by: paola creation_date: 2013-05-22T14:32:12Z [Term] id: GO:0097485 name: neuron projection guidance namespace: biological_process def: "The process in which the migration of a neuron projection is directed to a specific target site in response to a combination of attractive and repulsive cues." [GOC:BHF, GOC:rl, PMID:22790009] synonym: "neurite guidance" NARROW [] synonym: "neuron process guidance" EXACT [] synonym: "neuron protrusion guidance" EXACT [] synonym: "neuronal cell projection guidance" EXACT [] is_a: GO:0006928 ! movement of cell or subcellular component relationship: part_of GO:0006935 ! chemotaxis relationship: part_of GO:0048812 ! neuron projection morphogenesis created_by: paola creation_date: 2013-07-08T13:32:37Z [Term] id: GO:0097659 name: nucleic acid-templated transcription namespace: biological_process def: "The cellular synthesis of RNA on a template of nucleic acid (DNA or RNA)." [GOC:pr, GOC:txnOH, GOC:vw] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_mouse is_a: GO:0032774 ! RNA biosynthetic process created_by: paola creation_date: 2014-10-01T13:49:27Z [Term] id: GO:0097708 name: intracellular vesicle namespace: cellular_component def: "Any vesicle that is part of the intracellular region." [GOC:vesicles] is_a: GO:0031982 ! vesicle is_a: GO:0043229 ! intracellular organelle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005622 ! intracellular created_by: paola creation_date: 2016-03-29T17:39:45Z [Term] id: GO:0098590 name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. subset: gocheck_do_not_manually_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane is_a: GO:0044459 ! plasma membrane part intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0005886 ! plasma membrane created_by: davidos creation_date: 2014-03-06T11:55:32Z [Term] id: GO:0098609 name: cell-cell adhesion namespace: biological_process alt_id: GO:0016337 def: "The attachment of one cell to another cell via adhesion molecules." [GOC:dos] synonym: "single organismal cell-cell adhesion" RELATED [] is_a: GO:0007155 ! cell adhesion created_by: davidos creation_date: 2014-04-16T13:40:03Z [Term] id: GO:0098631 name: cell adhesion mediator activity namespace: molecular_function def: "The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to the external substrate or to another cell." [Wikipedia:Cell_adhesion] synonym: "cell adhesion molecule" EXACT [] synonym: "protein binding involved in cell adhesion" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: part_of GO:0007155 ! cell adhesion relationship: part_of GO:0007155 ! cell adhesion [Term] id: GO:0098632 name: cell-cell adhesion mediator activity namespace: molecular_function def: "The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell." [Wikipedia:Cell_adhesion] synonym: "cell-cell adhesion molecule" EXACT [] synonym: "protein binding involved in cell-cell adhesion" EXACT [] is_a: GO:0005515 ! protein binding is_a: GO:0098631 ! cell adhesion mediator activity intersection_of: GO:0005515 ! protein binding intersection_of: part_of GO:0098609 ! cell-cell adhesion relationship: part_of GO:0098609 ! cell-cell adhesion [Term] id: GO:0098657 name: import into cell namespace: biological_process def: "The directed movement of some substance from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." [GOC:dos] def: "The directed movement of some substance from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis." [GOC:dos] synonym: "uptake" BROAD [] synonym: "uptake" EXACT [] is_a: GO:0006810 ! transport [Term] id: GO:0098687 name: chromosomal region namespace: cellular_component def: "Any subdivision of a chromosome along its length." [GOC:dos] comment: Chromosomal regions include parts that are not part of the chromatin. Examples include the kinetochore. synonym: "chromosome region" EXACT [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0098693 name: regulation of synaptic vesicle cycle namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the synaptic vesicle cycle." [GOC:dos] subset: goslim_synapse is_a: GO:0060341 ! regulation of cellular localization is_a: GO:0060627 ! regulation of vesicle-mediated transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0099504 ! synaptic vesicle cycle relationship: regulates GO:0099504 ! synaptic vesicle cycle created_by: dos creation_date: 2017-03-21T16:06:48Z [Term] id: GO:0098762 name: meiotic cell cycle phase namespace: biological_process def: "One of the distinct periods or stages into which the meiotic cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GOC:dos] comment: This term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation should be to 'regulation of x/y phase transition' or to a process which occurs during the reported phase (e.g. mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate is_a: GO:0022403 ! cell cycle phase intersection_of: GO:0022403 ! cell cycle phase intersection_of: happens_during GO:0051321 ! meiotic cell cycle relationship: happens_during GO:0051321 ! meiotic cell cycle [Term] id: GO:0098763 name: mitotic cell cycle phase namespace: biological_process def: "One of the distinct periods or stages into which the mitotic cell cycle is divided. Each phase is characterized by the occurrence of specific biochemical and morphological events." [GOC:dos] comment: This term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation should be to 'regulation of x/y phase transition' or to a process which occurs during the reported phase (e.g. mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate is_a: GO:0022403 ! cell cycle phase intersection_of: GO:0022403 ! cell cycle phase intersection_of: happens_during GO:0000278 ! mitotic cell cycle relationship: happens_during GO:0000278 ! mitotic cell cycle [Term] id: GO:0098764 name: meiosis I cell cycle phase namespace: biological_process def: "A meiotic cell cycle phase prior to a during which some part of meiosis I nuclear division or the proceeding cytokinesis occurs." [GOC:dos] comment: This term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation should be to 'regulation of x/y phase transition' or to a process which occurs during the reported phase (e.g. mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during). subset: gocheck_do_not_annotate is_a: GO:0098762 ! meiotic cell cycle phase [Term] id: GO:0098771 name: inorganic ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of inorganic ions within an organism or cell." [GOC:dos] is_a: GO:0050801 ! ion homeostasis [Term] id: GO:0098772 name: molecular function regulator namespace: molecular_function def: "A molecular function that modulates the activity of a gene product or complex. Examples include enzyme regulators and channel regulators." [GOC:dos, GOC:pt] subset: goslim_flybase_ribbon is_a: GO:0003674 ! molecular_function relationship: part_of GO:0065009 ! regulation of molecular function [Term] id: GO:0098793 name: presynapse namespace: cellular_component def: "The part of a synapse that is part of the presynaptic cell." [GOC:dos] subset: goslim_synapse synonym: "presynaptic terminal" EXACT [] is_a: GO:0044456 ! synapse part is_a: GO:0097458 ! neuron part [Term] id: GO:0098796 name: membrane protein complex namespace: cellular_component def: "Any protein complex that is part of a membrane." [GOC:dos] subset: goslim_metagenomics is_a: GO:0032991 ! protein-containing complex is_a: GO:0044425 ! membrane part intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0016020 ! membrane [Term] id: GO:0098797 name: plasma membrane protein complex namespace: cellular_component def: "Any protein complex that is part of the plasma membrane." [GOC:dos] is_a: GO:0044459 ! plasma membrane part is_a: GO:0098796 ! membrane protein complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0005886 ! plasma membrane [Term] id: GO:0098798 name: mitochondrial protein complex namespace: cellular_component def: "A protein complex that is part of a mitochondrion." [GOC:dos] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0032991 ! protein-containing complex is_a: GO:0044429 ! mitochondrial part intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0005739 ! mitochondrion [Term] id: GO:0098813 name: nuclear chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of nuclear chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. Nuclear chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles." [GOC:dos] is_a: GO:0007059 ! chromosome segregation is_a: GO:0022402 ! cell cycle process [Term] id: GO:0098840 name: protein transport along microtubule namespace: biological_process def: "The directed movement of a protein along a microtubule, mediated by motor proteins." [PMID:25987607] synonym: "microtubule-based protein transport" BROAD [] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0010970 ! transport along microtubule is_a: GO:0099118 ! microtubule-based protein transport [Term] id: GO:0098900 name: regulation of action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:dos, GOC:dph, GOC:go_curators, GOC:tb, ISBN:978-0-07-139011-8] comment: The ion channels through which current flows during an action potential should be annotated to the process 'action potential'. Gene products involved in modulating the characteristics of an action potential via changing the expression levels or the activity of these channels (e.g. modulating their kinetics or voltage sensitivity) should be annotated to this regulation term. is_a: GO:0042391 ! regulation of membrane potential is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0001508 ! action potential relationship: regulates GO:0001508 ! action potential [Term] id: GO:0098916 name: anterograde trans-synaptic signaling namespace: biological_process def: "Cell-cell signaling from pre to post-synapse, across the synaptic cleft" [GOC:dos] is_a: GO:0099537 ! trans-synaptic signaling [Term] id: GO:0098930 name: axonal transport namespace: biological_process def: "The directed movement of organelles or molecules along microtubules in axons." [ISBN:0815316194] subset: goslim_synapse synonym: "axon cargo transport" EXACT [] synonym: "axoplasmic transport" EXACT [] xref: Wikipedia:Axoplasmic_transport is_a: GO:0008088 ! axo-dendritic transport relationship: occurs_in GO:0030424 ! axon [Term] id: GO:0099003 name: vesicle-mediated transport in synapse namespace: biological_process def: "Any vesicle-mediated transport that occurs in a synapse" [GOC:dos] subset: goslim_synapse is_a: GO:0016192 ! vesicle-mediated transport intersection_of: GO:0016192 ! vesicle-mediated transport intersection_of: occurs_in GO:0045202 ! synapse relationship: occurs_in GO:0045202 ! synapse [Term] id: GO:0099024 name: plasma membrane invagination namespace: biological_process def: "An infolding of the plasma membrane." [GOC:dos, GOC:vw] is_a: GO:0010324 ! membrane invagination [Term] id: GO:0099080 name: supramolecular complex namespace: cellular_component def: "A cellular component that consists of an indeterminate number of proteins or macromolecular complexes, organized into a regular, higher-order structure such as a polymer, sheet, network or a fiber." [GOC:dos] is_a: GO:0005575 ! cellular_component [Term] id: GO:0099081 name: supramolecular polymer namespace: cellular_component def: "A polymeric supramolecular structure." [GOC:dos] is_a: GO:0099080 ! supramolecular complex [Term] id: GO:0099098 name: microtubule polymerization based movement namespace: biological_process def: "The movement of a cellular component as a result of microtubule polymerization." [GOC:cjm, ISBN:0815316194] is_a: GO:0007018 ! microtubule-based movement intersection_of: GO:0007018 ! microtubule-based movement intersection_of: has_part GO:0046785 ! microtubule polymerization relationship: has_part GO:0046785 ! microtubule polymerization [Term] id: GO:0099111 name: microtubule-based transport namespace: biological_process def: "A microtubule-based process that results in the transport of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." [GOC:cjm, ISBN:0815316194] is_a: GO:0006810 ! transport is_a: GO:0007018 ! microtubule-based movement [Term] id: GO:0099118 name: microtubule-based protein transport namespace: biological_process def: "A microtubule-based process that results in the transport of proteins." [GOC:vw] is_a: GO:0015031 ! protein transport is_a: GO:0099111 ! microtubule-based transport [Term] id: GO:0099143 name: presynaptic actin cytoskeleton namespace: cellular_component def: "The actin cytoskeleton that is part of a presynapse" [GOC:dos] subset: goslim_synapse is_a: GO:0015629 ! actin cytoskeleton is_a: GO:0099569 ! presynaptic cytoskeleton intersection_of: GO:0015629 ! actin cytoskeleton intersection_of: part_of GO:0098793 ! presynapse created_by: dos creation_date: 2017-06-09T18:36:19Z [Term] id: GO:0099171 name: presynaptic modulation of chemical synaptic transmission namespace: biological_process def: "Any process, acting in the presynapse that results in modulation of chemical synaptic transmission." [GOC:dos] subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse created_by: dos creation_date: 2017-09-11T17:09:31Z [Term] id: GO:0099177 name: regulation of trans-synaptic signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of trans-synaptic signaling." [GOC:dos] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0099537 ! trans-synaptic signaling relationship: regulates GO:0099537 ! trans-synaptic signaling [Term] id: GO:0099500 name: vesicle fusion to plasma membrane namespace: biological_process def: "Fusion of the membrane of a vesicle with the plasma membrane, thereby releasing its contents into the extracellular space." [GOC:aruk, GOC:bc, ISBN:0071120009, PMID:18618940] is_a: GO:0006906 ! vesicle fusion is_a: GO:0140029 ! exocytic process [Term] id: GO:0099503 name: secretory vesicle namespace: cellular_component def: "A cytoplasmic, membrane bound vesicle that is capable of fusing to the plasma membrane to release its contents into the extracellular space." [GOC:dos] is_a: GO:0031410 ! cytoplasmic vesicle [Term] id: GO:0099504 name: synaptic vesicle cycle namespace: biological_process def: "A biological process in which synaptic vesicles are loaded with neurotransmitters, move to the active zone, exocytose and are then recycled via endocytosis, ultimately leading to reloading with neurotransmitters." [GOC:aruk, GOC:bc, PMID:15217342] subset: goslim_synapse is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0099003 ! vesicle-mediated transport in synapse relationship: occurs_in GO:0098793 ! presynapse [Term] id: GO:0099512 name: supramolecular fiber namespace: cellular_component alt_id: GO:0043205 def: "A polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." [GOC:dos] synonym: "fibril" RELATED [] is_a: GO:0099081 ! supramolecular polymer [Term] id: GO:0099513 name: polymeric cytoskeletal fiber namespace: cellular_component def: "A component of the cytoskeleton consisting of a homo or heteropolymeric fiber constructed from an indeterminate number of protein subunits." [GOC:dos] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0099512 ! supramolecular fiber [Term] id: GO:0099514 name: synaptic vesicle cytoskeletal transport namespace: biological_process def: "The directed movement of synaptic vesicles along cytoskeletal fibers such as microfilaments or microtubules within a cell, powered by molecular motors." [GOC:dos] subset: goslim_synapse is_a: GO:0048489 ! synaptic vesicle transport is_a: GO:0099518 ! vesicle cytoskeletal trafficking [Term] id: GO:0099517 name: synaptic vesicle transport along microtubule namespace: biological_process def: "The directed movement of synaptic vesicles along microtubules within a cell, powered by molecular motors." [GOC:dos] subset: goslim_synapse is_a: GO:0047496 ! vesicle transport along microtubule is_a: GO:0099514 ! synaptic vesicle cytoskeletal transport [Term] id: GO:0099518 name: vesicle cytoskeletal trafficking namespace: biological_process def: "The directed movement of a vesicle along a cytoskeletal fiber such as a microtubule or and actin filament, mediated by motor proteins." [GOC:ecd, GOC:rl] synonym: "cytoskeletal fiber-based vesicle localization" EXACT [GOC:rl] synonym: "vesicle cytoskeletal transport" EXACT [] is_a: GO:0030705 ! cytoskeleton-dependent intracellular transport is_a: GO:0051650 ! establishment of vesicle localization [Term] id: GO:0099522 name: region of cytosol namespace: cellular_component def: "Any (proper) part of the cytosol of a single cell of sufficient size to still be considered cytosol" [GOC:dos] is_a: GO:0005829 ! cytosol is_a: GO:0044445 ! cytosolic part intersection_of: GO:0005829 ! cytosol intersection_of: part_of GO:0005829 ! cytosol [Term] id: GO:0099523 name: presynaptic cytosol namespace: cellular_component def: "The region of the cytosol consisting of all cytosol that is part of the presynapse." [GOC:dos] subset: goslim_synapse is_a: GO:0044456 ! synapse part is_a: GO:0097458 ! neuron part is_a: GO:0099522 ! region of cytosol intersection_of: GO:0005829 ! cytosol intersection_of: part_of GO:0005829 ! cytosol intersection_of: part_of GO:0098793 ! presynapse relationship: part_of GO:0098793 ! presynapse [Term] id: GO:0099531 name: presynaptic process involved in chemical synaptic transmission namespace: biological_process def: "The pathway leading to secretion of a neurotransmitter from the presynapse as part of synaptic transmission." [GOC:dos] subset: gocheck_do_not_annotate subset: goslim_synapse is_a: GO:0050877 ! nervous system process intersection_of: GO:0050877 ! nervous system process intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: part_of GO:0007268 ! chemical synaptic transmission relationship: occurs_in GO:0098793 ! presynapse relationship: part_of GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099536 name: synaptic signaling namespace: biological_process def: "Cell-cell signaling to, from or or within a synapse." [GOC:dos] subset: goslim_synapse is_a: GO:0007267 ! cell-cell signaling [Term] id: GO:0099537 name: trans-synaptic signaling namespace: biological_process def: "Cell-cell signaling in either direction across the synaptic cleft." [GOC:dos] subset: goslim_synapse is_a: GO:0099536 ! synaptic signaling [Term] id: GO:0099547 name: regulation of translation at synapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating translation occurring at the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission is_a: GO:0140243 ! regulation of translation at synapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0045202 ! synapse intersection_of: regulates GO:0006412 ! translation intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099550 name: trans-synaptic signaling, modulating synaptic transmission namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse, across the synaptic cleft, that modulates the synaptic transmission properties of the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099568 name: cytoplasmic region namespace: cellular_component def: "Any (proper) part of the cytoplasm of a single cell of sufficient size to still be considered cytoplasm\"" [GOC:dos] is_a: GO:0005737 ! cytoplasm is_a: GO:0044444 ! cytoplasmic part intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0005737 ! cytoplasm [Term] id: GO:0099569 name: presynaptic cytoskeleton namespace: cellular_component def: "The portion of the cytoskeleton contained within the presynapse." [GOC:dos] subset: goslim_synapse is_a: GO:0005856 ! cytoskeleton is_a: GO:0044456 ! synapse part is_a: GO:0097458 ! neuron part intersection_of: GO:0005856 ! cytoskeleton intersection_of: part_of GO:0098793 ! presynapse relationship: part_of GO:0098793 ! presynapse [Term] id: GO:0099575 name: regulation of protein catabolic process at presynapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating a catabolic process occurring at a presynapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0042176 ! regulation of protein catabolic process is_a: GO:0099171 ! presynaptic modulation of chemical synaptic transmission intersection_of: GO:0042176 ! regulation of protein catabolic process intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099577 name: regulation of translation at presynapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating translation occurring at the presynapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099171 ! presynaptic modulation of chemical synaptic transmission is_a: GO:0099547 ! regulation of translation at synapse, modulating synaptic transmission is_a: GO:0140244 ! regulation of translation at presynapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0006412 ! translation intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099643 name: signal release from synapse namespace: biological_process def: "Any signal release from a synapse." [GOC:dos] subset: goslim_synapse is_a: GO:0023061 ! signal release intersection_of: GO:0023061 ! signal release intersection_of: occurs_in GO:0045202 ! synapse relationship: occurs_in GO:0045202 ! synapse relationship: part_of GO:0099536 ! synaptic signaling [Term] id: GO:0100004 name: positive regulation of peroxisome organization by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that positively_regulates peroxisome organization" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:1900064 ! positive regulation of peroxisome organization intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: positively_regulates GO:0007031 ! peroxisome organization created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100017 name: negative regulation of cell-cell adhesion by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that negatively_regulates single organismal cell-cell adhesion" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:0022408 ! negative regulation of cell-cell adhesion intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: negatively_regulates GO:0098609 ! cell-cell adhesion created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100020 name: regulation of transport by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that regulates transport" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:0051049 ! regulation of transport intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: regulates GO:0006810 ! transport created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100023 name: regulation of meiotic nuclear division by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that regulates meiotic nuclear division" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:0040020 ! regulation of meiotic nuclear division intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: regulates GO:0140013 ! meiotic nuclear division created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100051 name: positive regulation of meiotic nuclear division by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that positively_regulates meiotic nuclear division" [GOC:cjm, GOC:obol] is_a: GO:0045836 ! positive regulation of meiotic nuclear division is_a: GO:0100023 ! regulation of meiotic nuclear division by transcription from RNA polymerase II promoter intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: positively_regulates GO:0140013 ! meiotic nuclear division created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100052 name: negative regulation of G1/S transition of mitotic cell cycle by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that negatively_regulates G1/S transition of mitotic cell cycle" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:2000134 ! negative regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0100069 name: negative regulation of neuron apoptotic process by transcription from RNA polymerase II promoter namespace: biological_process def: "Any transcription from RNA polymerase II promoter process that negatively_regulates neuron apoptotic process" [GOC:cjm, GOC:obol] is_a: GO:0006366 ! transcription by RNA polymerase II is_a: GO:0043524 ! negative regulation of neuron apoptotic process intersection_of: GO:0006366 ! transcription by RNA polymerase II intersection_of: negatively_regulates GO:0051402 ! neuron apoptotic process created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0104004 name: cellular response to environmental stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an environmental stimulus." [GOC:dos] is_a: GO:0051716 ! cellular response to stimulus created_by: dos creation_date: 2017-02-17T16:02:42Z [Term] id: GO:0106030 name: neuron projection fasciculation namespace: biological_process def: "The collection of neuronal projections into a bundle of rods, known as a fascicle." [GOC:aruk, GOC:bc., PMID:12761826] is_a: GO:0031175 ! neuron projection development created_by: hjd creation_date: 2017-06-26T19:43:23Z [Term] id: GO:0110028 name: positive regulation of mitotic spindle organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic spindle organization." [GOC:bhm, PMID:17576815] is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:0051495 ! positive regulation of cytoskeleton organization is_a: GO:0060236 ! regulation of mitotic spindle organization is_a: GO:0090068 ! positive regulation of cell cycle process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007052 ! mitotic spindle organization relationship: positively_regulates GO:0007052 ! mitotic spindle organization created_by: kmv creation_date: 2017-07-06T14:14:08Z [Term] id: GO:0110029 name: negative regulation of meiosis I namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of meiosis I, a cell cycle process comprising the steps by which a cell progresses through the first phase of meiosis, in which cells divide and homologous chromosomes are paired and segregated from each other, producing two daughter cells." [GOC:vw] is_a: GO:0045835 ! negative regulation of meiotic nuclear division is_a: GO:0060631 ! regulation of meiosis I intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007127 ! meiosis I relationship: negatively_regulates GO:0007127 ! meiosis I created_by: kmv creation_date: 2017-07-12T18:47:33Z [Term] id: GO:0110053 name: regulation of actin filament organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of actin filament organization." [GOC:kmv] is_a: GO:0032956 ! regulation of actin cytoskeleton organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007015 ! actin filament organization relationship: regulates GO:0007015 ! actin filament organization created_by: kmv creation_date: 2017-09-20T19:52:57Z [Term] id: GO:0120025 name: plasma membrane bounded cell projection namespace: cellular_component def: "A prolongation or process extending from a cell and that is bounded by plasma membrane, e.g. a cilium, lamellipodium, or axon." [GOC:krc] is_a: GO:0042995 ! cell projection intersection_of: GO:0042995 ! cell projection intersection_of: has_part GO:0098590 ! plasma membrane region relationship: has_part GO:0098590 ! plasma membrane region created_by: kchris creation_date: 2017-03-21T17:26:07Z [Term] id: GO:0120031 name: plasma membrane bounded cell projection assembly namespace: biological_process def: "Formation of a prolongation or process extending and that is bounded by plasma membrane, e.g. a cilium, lamellipodium, or axon." [GOC:krc] is_a: GO:0030031 ! cell projection assembly is_a: GO:0120036 ! plasma membrane bounded cell projection organization created_by: kchris creation_date: 2017-04-24T23:56:08Z [Term] id: GO:0120032 name: regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0060491 ! regulation of cell projection assembly is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: regulates GO:0120031 ! plasma membrane bounded cell projection assembly created_by: kchris creation_date: 2017-04-26T04:27:04Z [Term] id: GO:0120033 name: negative regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0031345 ! negative regulation of cell projection organization is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: negatively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly created_by: kchris creation_date: 2017-04-26T04:34:31Z [Term] id: GO:0120034 name: positive regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0031346 ! positive regulation of cell projection organization is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: positively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly created_by: kchris creation_date: 2017-04-26T04:34:45Z [Term] id: GO:0120035 name: regulation of plasma membrane bounded cell projection organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of plasma membrane bounded cell projections." [GOC:krc] is_a: GO:0031344 ! regulation of cell projection organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0120036 ! plasma membrane bounded cell projection organization relationship: regulates GO:0120036 ! plasma membrane bounded cell projection organization created_by: kchris creation_date: 2017-04-26T16:02:06Z [Term] id: GO:0120036 name: plasma membrane bounded cell projection organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a plasma membrane bounded prolongation or process extending from a cell, e.g. a cilium or axon." [GOC:krc] is_a: GO:0030030 ! cell projection organization created_by: kchris creation_date: 2017-04-26T16:07:02Z [Term] id: GO:0120038 name: plasma membrane bounded cell projection part namespace: cellular_component def: "Any constituent part of a plasma membrane bounded cell projection, a prolongation or process extending from a cell, e.g. a cilium or axon." [GOC:krc] is_a: GO:0044463 ! cell projection part intersection_of: GO:0005575 ! cellular_component intersection_of: part_of GO:0120025 ! plasma membrane bounded cell projection relationship: part_of GO:0120025 ! plasma membrane bounded cell projection created_by: kchris creation_date: 2017-04-28T17:20:43Z [Term] id: GO:0120039 name: plasma membrane bounded cell projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a plasma membrane bounded cell projection are generated and organized." [GOC:krc] is_a: GO:0048858 ! cell projection morphogenesis created_by: kchris creation_date: 2017-04-28T23:39:37Z [Term] id: GO:0120111 name: neuron projection cytoplasm namespace: cellular_component def: "All of the contents of a plasma membrane bounded neuron projection, excluding the plasma membrane surrounding the projection." [GOC:ha] is_a: GO:0032838 ! plasma membrane bounded cell projection cytoplasm is_a: GO:0097458 ! neuron part intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0043005 ! neuron projection relationship: part_of GO:0043005 ! neuron projection created_by: kchris creation_date: 2017-11-01T18:58:12Z [Term] id: GO:0140013 name: meiotic nuclear division namespace: biological_process def: "One of the two nuclear divisions that occur as part of the meiotic cell cycle." [PMID:9334324] subset: goslim_pombe is_a: GO:0000280 ! nuclear division is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: pg creation_date: 2017-03-23T09:40:00Z [Term] id: GO:0140014 name: mitotic nuclear division namespace: biological_process def: "A mitotic cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell." [ISBN:0198547684] subset: goslim_chembl subset: goslim_generic is_a: GO:0000280 ! nuclear division is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: pg creation_date: 2017-03-23T14:44:23Z [Term] id: GO:0140029 name: exocytic process namespace: biological_process def: "The cellular processes that contribute to exocytosis." [Wikipedia:Exocytosis] subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0006887 ! exocytosis relationship: part_of GO:0006887 ! exocytosis created_by: pg creation_date: 2017-05-15T13:20:45Z [Term] id: GO:0140053 name: mitochondrial gene expression namespace: biological_process def: "The process in which a mitochondrial gene's sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form." [PMID:27058308] subset: goslim_pombe is_a: GO:0010467 ! gene expression intersection_of: GO:0010467 ! gene expression intersection_of: occurs_in GO:0005739 ! mitochondrion relationship: occurs_in GO:0005739 ! mitochondrion created_by: pg creation_date: 2017-06-26T10:57:45Z [Term] id: GO:0140096 name: catalytic activity, acting on a protein namespace: molecular_function def: "Catalytic activity that acts to modify a protein." [GOC:pdt] comment: https://github.com/geneontology/go-ontology/issues/14225 is_a: GO:0003824 ! catalytic activity created_by: pg creation_date: 2017-09-14T10:32:59Z [Term] id: GO:0140236 name: translation at presynapse namespace: biological_process def: "Translation that occurs at the presynapse." [PMID:27321671] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Discussion for term creation is here: https://github.com/geneontology/synapse/issues/216 subset: goslim_synapse is_a: GO:0140241 ! translation at synapse intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse created_by: pg creation_date: 2018-07-13T13:00:33Z [Term] id: GO:0140237 name: translation at presynapse, modulating chemical synaptic transmission namespace: biological_process def: "Translation that occurs at the presynapse, and that modulates chemical synaptic transmission." [PMID:27321671] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Discussion for term creation is here: https://github.com/geneontology/synapse/issues/216 subset: goslim_synapse is_a: GO:0099171 ! presynaptic modulation of chemical synaptic transmission is_a: GO:0140236 ! translation at presynapse intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0007268 ! chemical synaptic transmission created_by: pg creation_date: 2018-07-13T13:07:23Z [Term] id: GO:0140238 name: presynaptic endocytosis namespace: biological_process def: "A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle." [PMID:24719103] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Term request: https://github.com/geneontology/synapse/issues/230 subset: goslim_synapse is_a: GO:0006897 ! endocytosis is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0099003 ! vesicle-mediated transport in synapse intersection_of: GO:0006897 ! endocytosis intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse created_by: pg creation_date: 2018-07-15T07:33:55Z [Term] id: GO:0140241 name: translation at synapse namespace: biological_process def: "Translation that occurs at the synapse." [PMID:23083742] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Discussion for term creation is here: https://github.com/geneontology/synapse/issues/210. subset: goslim_synapse is_a: GO:0006412 ! translation intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0045202 ! synapse relationship: occurs_in GO:0045202 ! synapse created_by: pg creation_date: 2018-07-15T09:23:12Z [Term] id: GO:0140243 name: regulation of translation at synapse namespace: biological_process def: "Any process that regulates translation occurring at the synapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Discussion for term creation is here: https://github.com/geneontology/synapse/issues/210. subset: goslim_synapse is_a: GO:0006417 ! regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0045202 ! synapse intersection_of: regulates GO:0006412 ! translation relationship: occurs_in GO:0045202 ! synapse created_by: pg creation_date: 2018-07-15T09:38:26Z [Term] id: GO:0140244 name: regulation of translation at presynapse namespace: biological_process def: "Any process that regulates translation occurring at the presynapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. Discussion for term creation is here: https://github.com/geneontology/synapse/issues/210. subset: goslim_synapse is_a: GO:0140243 ! regulation of translation at synapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0006412 ! translation relationship: occurs_in GO:0098793 ! presynapse created_by: pg creation_date: 2018-07-15T09:38:33Z [Term] id: GO:0140253 name: cell-cell fusion namespace: biological_process def: "A cellular process in which two or more cells combine together, their plasma membrane fusing, producing a single cell. In some cases, nuclei fuse, producing a polyploid cell, while in other cases, nuclei remain separate, producing a syncytium." [Wikipedia:Cell_fusion] comment: Created new term, see https://github.com/geneontology/go-ontology/issues/15939. synonym: "cell cell fusion" EXACT [] synonym: "cell fusion" BROAD [] is_a: GO:0009987 ! cellular process relationship: has_part GO:0045026 ! plasma membrane fusion created_by: pg creation_date: 2018-08-13T18:38:18Z [Term] id: GO:0140352 name: export from cell namespace: biological_process def: "The directed movement of some substance from a cell, into the extracellular region. This may occur via transport across the plasma membrane or via exocytosis." [GOC:pg] synonym: "efflux" BROAD [] is_a: GO:0006810 ! transport is_a: GO:0009987 ! cellular process created_by: pg creation_date: 2019-05-22T11:20:45Z [Term] id: GO:1900006 name: positive regulation of dendrite development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of dendrite development." [GOC:TermGenie] synonym: "up regulation of dendrite development" RELATED [GOC:TermGenie] is_a: GO:0010976 ! positive regulation of neuron projection development is_a: GO:0050773 ! regulation of dendrite development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016358 ! dendrite development relationship: positively_regulates GO:0016358 ! dendrite development created_by: hjd creation_date: 2012-01-09T10:41:31Z [Term] id: GO:1900063 name: regulation of peroxisome organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of peroxisome organization." [GOC:TermGenie, PMID:7500953] synonym: "regulation of peroxisome organisation" EXACT [GOC:TermGenie] synonym: "regulation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "regulation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007031 ! peroxisome organization relationship: regulates GO:0007031 ! peroxisome organization created_by: dph creation_date: 2012-01-26T01:49:05Z [Term] id: GO:1900064 name: positive regulation of peroxisome organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of peroxisome organization." [GOC:TermGenie, PMID:7500953] synonym: "activation of peroxisome organisation" NARROW [GOC:TermGenie] synonym: "activation of peroxisome organization" NARROW [GOC:TermGenie] synonym: "activation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "activation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] synonym: "positive regulation of peroxisome organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "positive regulation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] synonym: "up regulation of peroxisome organisation" EXACT [GOC:TermGenie] synonym: "up regulation of peroxisome organization" RELATED [GOC:TermGenie] synonym: "up regulation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] synonym: "up-regulation of peroxisome organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of peroxisome organization" RELATED [GOC:TermGenie] synonym: "up-regulation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up-regulation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] synonym: "upregulation of peroxisome organisation" EXACT [GOC:TermGenie] synonym: "upregulation of peroxisome organization" RELATED [GOC:TermGenie] synonym: "upregulation of peroxisome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "upregulation of peroxisome-assembly ATPase activity" RELATED [GOC:TermGenie] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:1900063 ! regulation of peroxisome organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007031 ! peroxisome organization relationship: positively_regulates GO:0007031 ! peroxisome organization created_by: dph creation_date: 2012-01-26T01:49:09Z [Term] id: GO:1900073 name: regulation of neuromuscular synaptic transmission namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuromuscular synaptic transmission." [GOC:kmv, GOC:TermGenie] is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007274 ! neuromuscular synaptic transmission relationship: regulates GO:0007274 ! neuromuscular synaptic transmission created_by: kmv creation_date: 2012-01-26T10:14:10Z [Term] id: GO:1900074 name: negative regulation of neuromuscular synaptic transmission namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuromuscular synaptic transmission." [GOC:kmv, GOC:TermGenie] synonym: "down regulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "down-regulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "downregulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "inhibition of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] is_a: GO:0050805 ! negative regulation of synaptic transmission is_a: GO:1900073 ! regulation of neuromuscular synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007274 ! neuromuscular synaptic transmission relationship: negatively_regulates GO:0007274 ! neuromuscular synaptic transmission created_by: kmv creation_date: 2012-01-26T10:14:18Z [Term] id: GO:1900075 name: positive regulation of neuromuscular synaptic transmission namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuromuscular synaptic transmission." [GOC:kmv, GOC:TermGenie] synonym: "activation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "up regulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "up-regulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] synonym: "upregulation of neuromuscular synaptic transmission" RELATED [GOC:TermGenie] is_a: GO:0050806 ! positive regulation of synaptic transmission is_a: GO:1900073 ! regulation of neuromuscular synaptic transmission intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007274 ! neuromuscular synaptic transmission relationship: positively_regulates GO:0007274 ! neuromuscular synaptic transmission created_by: kmv creation_date: 2012-01-26T10:14:22Z [Term] id: GO:1900087 name: positive regulation of G1/S transition of mitotic cell cycle namespace: biological_process def: "Any signalling pathway that increases or activates a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the mitotic cell cycle." [GOC:mtg_cell_cycle] synonym: "activation of G1/S transition of mitotic cell cycle" NARROW [GOC:TermGenie] synonym: "up regulation of G1/S transition of mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "up-regulation of G1/S transition of mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "upregulation of G1/S transition of mitotic cell cycle" EXACT [GOC:TermGenie] is_a: GO:1901992 ! positive regulation of mitotic cell cycle phase transition is_a: GO:1902808 ! positive regulation of cell cycle G1/S phase transition is_a: GO:2000045 ! regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle relationship: positively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle created_by: rph creation_date: 2012-02-08T12:24:39Z [Term] id: GO:1900101 name: regulation of endoplasmic reticulum unfolded protein response namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endoplasmic reticulum unfolded protein response." [GOC:TermGenie] synonym: "regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "regulation of erUPR" EXACT [GOC:TermGenie] synonym: "regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:1905897 ! regulation of response to endoplasmic reticulum stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030968 ! endoplasmic reticulum unfolded protein response relationship: regulates GO:0030968 ! endoplasmic reticulum unfolded protein response created_by: ppm creation_date: 2012-02-15T11:15:27Z [Term] id: GO:1900102 name: negative regulation of endoplasmic reticulum unfolded protein response namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of endoplasmic reticulum unfolded protein response." [GOC:TermGenie] synonym: "down regulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "down regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "down regulation of erUPR" EXACT [GOC:TermGenie] synonym: "down regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "down-regulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "down-regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "down-regulation of erUPR" EXACT [GOC:TermGenie] synonym: "down-regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "downregulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "downregulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "downregulation of erUPR" EXACT [GOC:TermGenie] synonym: "downregulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "inhibition of endoplasmic reticulum unfolded protein response" NARROW [GOC:TermGenie] synonym: "inhibition of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "inhibition of erUPR" EXACT [GOC:TermGenie] synonym: "inhibition of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "negative regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "negative regulation of erUPR" EXACT [GOC:TermGenie] synonym: "negative regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:1900101 ! regulation of endoplasmic reticulum unfolded protein response is_a: GO:1903573 ! negative regulation of response to endoplasmic reticulum stress intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030968 ! endoplasmic reticulum unfolded protein response relationship: negatively_regulates GO:0030968 ! endoplasmic reticulum unfolded protein response created_by: ppm creation_date: 2012-02-15T11:15:31Z [Term] id: GO:1900103 name: positive regulation of endoplasmic reticulum unfolded protein response namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endoplasmic reticulum unfolded protein response." [GOC:TermGenie] synonym: "activation of endoplasmic reticulum unfolded protein response" NARROW [GOC:TermGenie] synonym: "activation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "activation of erUPR" EXACT [GOC:TermGenie] synonym: "activation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "positive regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "positive regulation of erUPR" EXACT [GOC:TermGenie] synonym: "positive regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "up regulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "up regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "up regulation of erUPR" EXACT [GOC:TermGenie] synonym: "up regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "up-regulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "up-regulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "up-regulation of erUPR" EXACT [GOC:TermGenie] synonym: "up-regulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] synonym: "upregulation of endoplasmic reticulum unfolded protein response" EXACT [GOC:TermGenie] synonym: "upregulation of ER unfolded protein response" EXACT [GOC:TermGenie] synonym: "upregulation of erUPR" EXACT [GOC:TermGenie] synonym: "upregulation of SREBP-mediated signalling pathway" RELATED [GOC:TermGenie] is_a: GO:0009967 ! positive regulation of signal transduction is_a: GO:1900101 ! regulation of endoplasmic reticulum unfolded protein response is_a: GO:1905898 ! positive regulation of response to endoplasmic reticulum stress intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030968 ! endoplasmic reticulum unfolded protein response relationship: positively_regulates GO:0030968 ! endoplasmic reticulum unfolded protein response created_by: ppm creation_date: 2012-02-15T11:15:35Z [Term] id: GO:1900115 name: extracellular regulation of signal transduction namespace: biological_process def: "Any regulation of signal transduction that takes place in the extracellular region." [GOC:signaling, GOC:TermGenie] synonym: "regulation of signaling pathway in extracellular region" EXACT [GOC:TermGenie] synonym: "regulation of signalling pathway in extracellular region" EXACT [GOC:TermGenie] is_a: GO:0009966 ! regulation of signal transduction intersection_of: GO:0009966 ! regulation of signal transduction intersection_of: occurs_in GO:0005576 ! extracellular region relationship: occurs_in GO:0005576 ! extracellular region created_by: bf creation_date: 2012-02-22T10:21:48Z [Term] id: GO:1900116 name: extracellular negative regulation of signal transduction namespace: biological_process def: "Any negative regulation of signal transduction that takes place in extracellular region." [GOC:signaling, GOC:TermGenie] synonym: "down regulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "down-regulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "downregulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "extracellular inhibition of signaling pathway" NARROW [GOC:bf] synonym: "inhibition of signal transduction in extracellular region" NARROW [GOC:TermGenie] synonym: "negative regulation of signaling pathway in extracellular region" EXACT [GOC:TermGenie] synonym: "negative regulation of signalling pathway in extracellular region" EXACT [GOC:TermGenie] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:1900115 ! extracellular regulation of signal transduction intersection_of: GO:0009968 ! negative regulation of signal transduction intersection_of: occurs_in GO:0005576 ! extracellular region created_by: bf creation_date: 2012-02-22T10:27:56Z [Term] id: GO:1900117 name: regulation of execution phase of apoptosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0097194 ! execution phase of apoptosis relationship: regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:20Z [Term] id: GO:1900118 name: negative regulation of execution phase of apoptosis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] synonym: "down regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "down-regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "downregulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "inhibition of execution phase of apoptosis" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:1900117 ! regulation of execution phase of apoptosis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0097194 ! execution phase of apoptosis relationship: negatively_regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:24Z [Term] id: GO:1900119 name: positive regulation of execution phase of apoptosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] synonym: "activation of execution phase of apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "up-regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "upregulation of execution phase of apoptosis" EXACT [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:1900117 ! regulation of execution phase of apoptosis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0097194 ! execution phase of apoptosis relationship: positively_regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:27Z [Term] id: GO:1900120 name: regulation of receptor binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "regulation of receptor ligand" NARROW [GOC:TermGenie] is_a: GO:0043393 ! regulation of protein binding intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0005102 ! signaling receptor binding relationship: regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:40:53Z [Term] id: GO:1900121 name: negative regulation of receptor binding namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "down regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "down regulation of receptor-associated protein activity" RELATED [GOC:TermGenie] synonym: "down-regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "downregulation of receptor binding" EXACT [GOC:TermGenie] synonym: "inhibition of receptor binding" NARROW [GOC:TermGenie] synonym: "inhibition of receptor ligand" NARROW [GOC:TermGenie] is_a: GO:0032091 ! negative regulation of protein binding is_a: GO:1900120 ! regulation of receptor binding intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0005102 ! signaling receptor binding relationship: negatively_regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:40:57Z [Term] id: GO:1900122 name: positive regulation of receptor binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "activation of receptor binding" NARROW [GOC:TermGenie] synonym: "up regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "upregulation of receptor binding" EXACT [GOC:TermGenie] is_a: GO:0032092 ! positive regulation of protein binding is_a: GO:1900120 ! regulation of receptor binding intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0005102 ! signaling receptor binding relationship: positively_regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:41:00Z [Term] id: GO:1900180 name: regulation of protein localization to nucleus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in nucleus" EXACT [GOC:TermGenie] is_a: GO:1903827 ! regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0034504 ! protein localization to nucleus relationship: regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:44Z [Term] id: GO:1900181 name: negative regulation of protein localization to nucleus namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "down regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation to nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in cell nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to nucleus" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in nucleus" EXACT [GOC:TermGenie] is_a: GO:1900180 ! regulation of protein localization to nucleus is_a: GO:1903828 ! negative regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0034504 ! protein localization to nucleus relationship: negatively_regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:48Z [Term] id: GO:1900182 name: positive regulation of protein localization to nucleus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "activation of protein localisation to nucleus" NARROW [GOC:TermGenie] synonym: "activation of protein localization in cell nucleus" NARROW [GOC:TermGenie] synonym: "activation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "activation of protein localization to nucleus" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to nucleus" EXACT [GOC:TermGenie] is_a: GO:1900180 ! regulation of protein localization to nucleus is_a: GO:1903829 ! positive regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0034504 ! protein localization to nucleus relationship: positively_regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:52Z [Term] id: GO:1900242 name: regulation of synaptic vesicle endocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synaptic vesicle endocytosis." [GOC:BHF, GOC:TermGenie] subset: goslim_synapse synonym: "regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] is_a: GO:0030100 ! regulation of endocytosis is_a: GO:1903421 ! regulation of synaptic vesicle recycling intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048488 ! synaptic vesicle endocytosis relationship: regulates GO:0048488 ! synaptic vesicle endocytosis created_by: rl creation_date: 2012-03-28T01:40:26Z [Term] id: GO:1900243 name: negative regulation of synaptic vesicle endocytosis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synaptic vesicle endocytosis." [GOC:BHF, GOC:TermGenie] synonym: "down regulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "down regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "downregulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "downregulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "inhibition of synaptic vesicle endocytosis" NARROW [GOC:TermGenie] synonym: "inhibition of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "negative regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] is_a: GO:0045806 ! negative regulation of endocytosis is_a: GO:1900242 ! regulation of synaptic vesicle endocytosis is_a: GO:1903422 ! negative regulation of synaptic vesicle recycling intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048488 ! synaptic vesicle endocytosis relationship: negatively_regulates GO:0048488 ! synaptic vesicle endocytosis created_by: rl creation_date: 2012-03-28T01:40:36Z [Term] id: GO:1900244 name: positive regulation of synaptic vesicle endocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic vesicle endocytosis." [GOC:BHF, GOC:TermGenie] synonym: "activation of synaptic vesicle endocytosis" NARROW [GOC:TermGenie] synonym: "activation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "positive regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "up regulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "up regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] synonym: "upregulation of synaptic vesicle endocytosis" EXACT [GOC:TermGenie] synonym: "upregulation of synaptic vesicle retrieval" RELATED [GOC:TermGenie] is_a: GO:0045807 ! positive regulation of endocytosis is_a: GO:1900242 ! regulation of synaptic vesicle endocytosis is_a: GO:1903423 ! positive regulation of synaptic vesicle recycling intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048488 ! synaptic vesicle endocytosis relationship: positively_regulates GO:0048488 ! synaptic vesicle endocytosis created_by: rl creation_date: 2012-03-28T01:40:44Z [Term] id: GO:1900247 name: regulation of cytoplasmic translational elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic translational elongation." [GOC:TermGenie] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:2000765 ! regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002182 ! cytoplasmic translational elongation relationship: regulates GO:0002182 ! cytoplasmic translational elongation created_by: vw creation_date: 2012-04-03T05:07:02Z [Term] id: GO:1900248 name: negative regulation of cytoplasmic translational elongation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cytoplasmic translational elongation." [GOC:TermGenie] synonym: "down regulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] synonym: "down-regulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] synonym: "downregulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] synonym: "inhibition of cytoplasmic translational elongation" NARROW [GOC:TermGenie] is_a: GO:0045900 ! negative regulation of translational elongation is_a: GO:1900247 ! regulation of cytoplasmic translational elongation is_a: GO:2000766 ! negative regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002182 ! cytoplasmic translational elongation relationship: negatively_regulates GO:0002182 ! cytoplasmic translational elongation created_by: vw creation_date: 2012-04-03T05:07:14Z [Term] id: GO:1900249 name: positive regulation of cytoplasmic translational elongation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cytoplasmic translational elongation." [GOC:TermGenie] synonym: "activation of cytoplasmic translational elongation" NARROW [GOC:TermGenie] synonym: "up regulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] synonym: "up-regulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] synonym: "upregulation of cytoplasmic translational elongation" EXACT [GOC:TermGenie] is_a: GO:0045901 ! positive regulation of translational elongation is_a: GO:1900247 ! regulation of cytoplasmic translational elongation is_a: GO:2000767 ! positive regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002182 ! cytoplasmic translational elongation relationship: positively_regulates GO:0002182 ! cytoplasmic translational elongation created_by: vw creation_date: 2012-04-03T05:07:24Z [Term] id: GO:1900368 name: regulation of RNA interference namespace: biological_process def: "Any process that modulates the frequency, rate or extent of RNA interference." [GOC:kmv, GOC:TermGenie, PMID:22412382] synonym: "regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "regulation of RNAi" EXACT [GOC:TermGenie] is_a: GO:0060147 ! regulation of posttranscriptional gene silencing is_a: GO:0060966 ! regulation of gene silencing by RNA intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016246 ! RNA interference relationship: regulates GO:0016246 ! RNA interference created_by: kmv creation_date: 2012-04-13T08:28:39Z [Term] id: GO:1900369 name: negative regulation of RNA interference namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA interference." [GOC:kmv, GOC:TermGenie, PMID:22412382] synonym: "down regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "down regulation of RNA interference" EXACT [GOC:TermGenie] synonym: "down regulation of RNAi" EXACT [GOC:TermGenie] synonym: "down-regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA interference" EXACT [GOC:TermGenie] synonym: "down-regulation of RNAi" EXACT [GOC:TermGenie] synonym: "downregulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "downregulation of RNA interference" EXACT [GOC:TermGenie] synonym: "downregulation of RNAi" EXACT [GOC:TermGenie] synonym: "inhibition of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "inhibition of RNA interference" NARROW [GOC:TermGenie] synonym: "inhibition of RNAi" EXACT [GOC:TermGenie] synonym: "negative regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "negative regulation of RNAi" EXACT [GOC:TermGenie] is_a: GO:0060149 ! negative regulation of posttranscriptional gene silencing is_a: GO:0060967 ! negative regulation of gene silencing by RNA is_a: GO:1900368 ! regulation of RNA interference intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016246 ! RNA interference relationship: negatively_regulates GO:0016246 ! RNA interference created_by: kmv creation_date: 2012-04-13T08:28:50Z [Term] id: GO:1900370 name: positive regulation of RNA interference namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of RNA interference." [GOC:kmv, GOC:TermGenie, PMID:22412382] synonym: "activation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "activation of RNA interference" NARROW [GOC:TermGenie] synonym: "activation of RNAi" EXACT [GOC:TermGenie] synonym: "positive regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "positive regulation of RNAi" EXACT [GOC:TermGenie] synonym: "up regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "up regulation of RNA interference" EXACT [GOC:TermGenie] synonym: "up regulation of RNAi" EXACT [GOC:TermGenie] synonym: "up-regulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA interference" EXACT [GOC:TermGenie] synonym: "up-regulation of RNAi" EXACT [GOC:TermGenie] synonym: "upregulation of posttranscriptional gene silencing by siRNA" EXACT [GOC:TermGenie] synonym: "upregulation of RNA interference" EXACT [GOC:TermGenie] synonym: "upregulation of RNAi" EXACT [GOC:TermGenie] is_a: GO:0060148 ! positive regulation of posttranscriptional gene silencing is_a: GO:1900368 ! regulation of RNA interference intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016246 ! RNA interference relationship: positively_regulates GO:0016246 ! RNA interference created_by: kmv creation_date: 2012-04-13T08:29:00Z [Term] id: GO:1900387 name: negative regulation of cell-cell adhesion by negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "A negative regulation of transcription from RNA polymerase II promoter that results in negative regulation of cell-cell adhesion." [GOC:BHF, GOC:TermGenie, PMID:15737616] is_a: GO:0000122 ! negative regulation of transcription by RNA polymerase II is_a: GO:0022408 ! negative regulation of cell-cell adhesion intersection_of: GO:0000122 ! negative regulation of transcription by RNA polymerase II intersection_of: negatively_regulates GO:0098609 ! cell-cell adhesion created_by: pr creation_date: 2012-04-18T12:01:19Z [Term] id: GO:1900392 name: regulation of transport by negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "A negative regulation of transcription from RNA polymerase II promoter that results in regulation of transport." [GOC:mah, GOC:TermGenie, PMID:17446861] is_a: GO:0000122 ! negative regulation of transcription by RNA polymerase II is_a: GO:0051049 ! regulation of transport intersection_of: GO:0050789 ! regulation of biological process intersection_of: negatively_regulates GO:0100020 ! regulation of transport by transcription from RNA polymerase II promoter relationship: negatively_regulates GO:0100020 ! regulation of transport by transcription from RNA polymerase II promoter created_by: mah creation_date: 2012-04-18T04:20:25Z [Term] id: GO:1900477 name: negative regulation of G1/S transition of mitotic cell cycle by negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of G1/S transition of mitotic cell cycle by stopping, preventing, or reducing the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:dgf, GOC:TermGenie, PMID:19841732] is_a: GO:0000122 ! negative regulation of transcription by RNA polymerase II is_a: GO:2000134 ! negative regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0000122 ! negative regulation of transcription by RNA polymerase II intersection_of: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle created_by: dianna.fisk creation_date: 2012-05-01T09:01:04Z [Term] id: GO:1900619 name: acetate ester metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an acetate ester, any carboxylic ester where the carboxylic acid component is acetic acid." [GOC:TermGenie] synonym: "acetate ester metabolism" EXACT [GOC:TermGenie] synonym: "acetyl ester metabolic process" EXACT [CHEBI:47622] synonym: "acetyl ester metabolism" EXACT [CHEBI:47622] is_a: GO:0071704 ! organic substance metabolic process created_by: bf creation_date: 2012-05-16T12:29:51Z [Term] id: GO:1900621 name: regulation of transcription from RNA polymerase II promoter by calcium-mediated signaling namespace: biological_process def: "Calcium-mediated signaling that results in regulation of transcription from an RNA polymerase II promoter." [GOC:BHF, GOC:TermGenie] synonym: "regulation of gene-specific transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "regulation of global transcription from Pol II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "regulation of transcription from Pol II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "regulation of transcription from RNA polymerase II promoter, global by calcium-mediated signaling" RELATED [GOC:TermGenie] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II is_a: GO:0019722 ! calcium-mediated signaling intersection_of: GO:0019722 ! calcium-mediated signaling intersection_of: regulates GO:0006366 ! transcription by RNA polymerase II created_by: bf creation_date: 2012-05-18T01:00:39Z [Term] id: GO:1900622 name: positive regulation of transcription from RNA polymerase II promoter by calcium-mediated signaling namespace: biological_process def: "Calcium-mediated signaling that results in positive regulation of transcription from an RNA polymerase II promoter." [GOC:bf, GOC:BHF, GOC:dgf, GOC:TermGenie, PMID:9407035, PMID:9407036] synonym: "activation of global transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "activation of transcription from RNA polymerase II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "calcineurin-dependent transcription activation" NARROW [PMID:9407036] synonym: "calcineurin-dependent transcriptional induction" NARROW [PMID:9407035] synonym: "calcineurin-mediated activation of transcription" NARROW [PMID:9407035] synonym: "positive regulation of gene-specific transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "positive regulation of global transcription from Pol II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "positive regulation of transcription from Pol II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "positive regulation of transcription from RNA polymerase II promoter, global by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "stimulation of global transcription from RNA polymerase II promoter by calcium-mediated signaling" NARROW [GOC:TermGenie] synonym: "stimulation of transcription from RNA polymerase II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "up regulation of global transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "up regulation of transcription from RNA polymerase II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "up-regulation of global transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "up-regulation of transcription from RNA polymerase II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] synonym: "upregulation of global transcription from RNA polymerase II promoter by calcium-mediated signaling" RELATED [GOC:TermGenie] synonym: "upregulation of transcription from RNA polymerase II promoter by calcium-mediated signaling" EXACT [GOC:TermGenie] is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II is_a: GO:1900621 ! regulation of transcription from RNA polymerase II promoter by calcium-mediated signaling intersection_of: GO:0019722 ! calcium-mediated signaling intersection_of: positively_regulates GO:0006366 ! transcription by RNA polymerase II created_by: bf creation_date: 2012-05-18T01:01:04Z [Term] id: GO:1901045 name: negative regulation of oviposition namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of oviposition." [GOC:kmv, GOC:TermGenie] synonym: "down regulation of egg laying" BROAD [GOC:TermGenie] synonym: "down regulation of egg-laying" BROAD [GOC:TermGenie] synonym: "down regulation of oviposition" EXACT [GOC:TermGenie] synonym: "down-regulation of egg laying" BROAD [GOC:TermGenie] synonym: "down-regulation of egg-laying" BROAD [GOC:TermGenie] synonym: "down-regulation of oviposition" EXACT [GOC:TermGenie] synonym: "downregulation of egg laying" BROAD [GOC:TermGenie] synonym: "downregulation of egg-laying" BROAD [GOC:TermGenie] synonym: "downregulation of oviposition" EXACT [GOC:TermGenie] synonym: "inhibition of egg laying" BROAD [GOC:TermGenie] synonym: "inhibition of egg-laying" BROAD [GOC:TermGenie] synonym: "inhibition of oviposition" NARROW [GOC:TermGenie] synonym: "negative regulation of egg laying" BROAD [GOC:TermGenie] synonym: "negative regulation of egg-laying" BROAD [GOC:TermGenie] is_a: GO:0046662 ! regulation of oviposition is_a: GO:0048521 ! negative regulation of behavior is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0018991 ! oviposition relationship: negatively_regulates GO:0018991 ! oviposition created_by: kmv creation_date: 2012-06-27T06:19:58Z [Term] id: GO:1901046 name: positive regulation of oviposition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of oviposition." [GOC:kmv, GOC:TermGenie] synonym: "activation of egg laying" BROAD [GOC:TermGenie] synonym: "activation of egg-laying" BROAD [GOC:TermGenie] synonym: "activation of oviposition" NARROW [GOC:TermGenie] synonym: "positive regulation of egg laying" BROAD [GOC:TermGenie] synonym: "positive regulation of egg-laying" BROAD [GOC:TermGenie] synonym: "up regulation of egg laying" BROAD [GOC:TermGenie] synonym: "up regulation of egg-laying" BROAD [GOC:TermGenie] synonym: "up regulation of oviposition" EXACT [GOC:TermGenie] synonym: "up-regulation of egg laying" BROAD [GOC:TermGenie] synonym: "up-regulation of egg-laying" BROAD [GOC:TermGenie] synonym: "up-regulation of oviposition" EXACT [GOC:TermGenie] synonym: "upregulation of egg laying" BROAD [GOC:TermGenie] synonym: "upregulation of egg-laying" BROAD [GOC:TermGenie] synonym: "upregulation of oviposition" EXACT [GOC:TermGenie] is_a: GO:0046662 ! regulation of oviposition is_a: GO:0048520 ! positive regulation of behavior is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0018991 ! oviposition relationship: positively_regulates GO:0018991 ! oviposition created_by: kmv creation_date: 2012-06-27T06:20:20Z [Term] id: GO:1901074 name: regulation of engulfment of apoptotic cell namespace: biological_process def: "Any process that modulates the frequency, rate or extent of engulfment of apoptotic cell." [GO:kmv, GOC:TermGenie, PMID:19402756] synonym: "regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] is_a: GO:0060099 ! regulation of phagocytosis, engulfment is_a: GO:2000425 ! regulation of apoptotic cell clearance intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043652 ! engulfment of apoptotic cell relationship: regulates GO:0043652 ! engulfment of apoptotic cell created_by: kmv creation_date: 2012-07-02T07:32:21Z [Term] id: GO:1901075 name: negative regulation of engulfment of apoptotic cell namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of engulfment of apoptotic cell." [GO:kmv, GOC:TermGenie, PMID:19402756] synonym: "down regulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "down regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "down regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "down-regulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "down-regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "down-regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "downregulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "downregulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "downregulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "inhibition of engulfment of apoptotic cell" NARROW [GOC:TermGenie] synonym: "inhibition of engulfment of apoptotic cell corpse" NARROW [GOC:TermGenie] synonym: "inhibition of engulfment of cell corpse" NARROW [GOC:TermGenie] synonym: "negative regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "negative regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] is_a: GO:0060101 ! negative regulation of phagocytosis, engulfment is_a: GO:1901074 ! regulation of engulfment of apoptotic cell is_a: GO:2000426 ! negative regulation of apoptotic cell clearance intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043652 ! engulfment of apoptotic cell relationship: negatively_regulates GO:0043652 ! engulfment of apoptotic cell created_by: kmv creation_date: 2012-07-02T07:32:43Z [Term] id: GO:1901076 name: positive regulation of engulfment of apoptotic cell namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of engulfment of apoptotic cell." [GO:kmv, GOC:TermGenie, PMID:19402756] synonym: "activation of engulfment of apoptotic cell" NARROW [GOC:TermGenie] synonym: "activation of engulfment of apoptotic cell corpse" NARROW [GOC:TermGenie] synonym: "activation of engulfment of cell corpse" NARROW [GOC:TermGenie] synonym: "positive regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "positive regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "up regulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "up regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "up regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "up-regulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "up-regulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "up-regulation of engulfment of cell corpse" EXACT [GOC:TermGenie] synonym: "upregulation of engulfment of apoptotic cell" EXACT [GOC:TermGenie] synonym: "upregulation of engulfment of apoptotic cell corpse" EXACT [GOC:TermGenie] synonym: "upregulation of engulfment of cell corpse" EXACT [GOC:TermGenie] is_a: GO:0060100 ! positive regulation of phagocytosis, engulfment is_a: GO:1901074 ! regulation of engulfment of apoptotic cell is_a: GO:2000427 ! positive regulation of apoptotic cell clearance intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043652 ! engulfment of apoptotic cell relationship: positively_regulates GO:0043652 ! engulfment of apoptotic cell created_by: kmv creation_date: 2012-07-02T07:32:51Z [Term] id: GO:1901160 name: primary amino compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving primary amino compound." [GOC:TermGenie] synonym: "primary amino compound metabolism" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process created_by: bf creation_date: 2012-07-18T04:44:39Z [Term] id: GO:1901161 name: primary amino compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of primary amino compound." [GOC:TermGenie] synonym: "primary amino compound breakdown" EXACT [GOC:TermGenie] synonym: "primary amino compound catabolism" EXACT [GOC:TermGenie] synonym: "primary amino compound degradation" EXACT [GOC:TermGenie] is_a: GO:1901160 ! primary amino compound metabolic process is_a: GO:1901565 ! organonitrogen compound catabolic process created_by: bf creation_date: 2012-07-18T04:45:06Z [Term] id: GO:1901162 name: primary amino compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of primary amino compound." [GOC:TermGenie] synonym: "primary amino compound anabolism" EXACT [GOC:TermGenie] synonym: "primary amino compound biosynthesis" EXACT [GOC:TermGenie] synonym: "primary amino compound formation" EXACT [GOC:TermGenie] synonym: "primary amino compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901160 ! primary amino compound metabolic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process created_by: bf creation_date: 2012-07-18T04:45:14Z [Term] id: GO:1901190 name: regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that modulates the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0043254 ! regulation of protein complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0001677 ! formation of translation initiation ternary complex relationship: regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:26:58Z [Term] id: GO:1901191 name: negative regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "down regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "down regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "down-regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "downregulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "inhibition of formation of translation initiation ternary complex" NARROW [GOC:TermGenie] synonym: "inhibition of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0031333 ! negative regulation of protein complex assembly is_a: GO:0045947 ! negative regulation of translational initiation is_a: GO:1901190 ! regulation of formation of translation initiation ternary complex intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0001677 ! formation of translation initiation ternary complex relationship: negatively_regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:27:21Z [Term] id: GO:1901192 name: positive regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "activation of formation of translation initiation ternary complex" NARROW [GOC:TermGenie] synonym: "activation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "up regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "up-regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "upregulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0031334 ! positive regulation of protein complex assembly is_a: GO:0045948 ! positive regulation of translational initiation is_a: GO:1901190 ! regulation of formation of translation initiation ternary complex intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0001677 ! formation of translation initiation ternary complex relationship: positively_regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:27:29Z [Term] id: GO:1901214 name: regulation of neuron death namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "regulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0010941 ! regulation of cell death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070997 ! neuron death relationship: regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:57:41Z [Term] id: GO:1901215 name: negative regulation of neuron death namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "down regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "down regulation of neuron death" EXACT [GOC:TermGenie] synonym: "down regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuron death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "downregulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "downregulation of neuron death" EXACT [GOC:TermGenie] synonym: "downregulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "inhibition of neuron cell death" NARROW [GOC:TermGenie] synonym: "inhibition of neuron death" NARROW [GOC:TermGenie] synonym: "inhibition of neuronal cell death" NARROW [GOC:TermGenie] synonym: "negative regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "negative regulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0060548 ! negative regulation of cell death is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070997 ! neuron death relationship: negatively_regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:58:07Z [Term] id: GO:1901216 name: positive regulation of neuron death namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "activation of neuron cell death" NARROW [GOC:TermGenie] synonym: "activation of neuron death" NARROW [GOC:TermGenie] synonym: "activation of neuronal cell death" NARROW [GOC:TermGenie] synonym: "positive regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "positive regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "up regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "up regulation of neuron death" EXACT [GOC:TermGenie] synonym: "up regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuron death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron death" EXACT [GOC:TermGenie] synonym: "upregulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0010942 ! positive regulation of cell death is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070997 ! neuron death relationship: positively_regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:58:15Z [Term] id: GO:1901360 name: organic cyclic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process created_by: bf creation_date: 2012-09-14T09:03:51Z [Term] id: GO:1901361 name: organic cyclic compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound breakdown" EXACT [GOC:TermGenie] synonym: "organic cyclic compound catabolism" EXACT [GOC:TermGenie] synonym: "organic cyclic compound degradation" EXACT [GOC:TermGenie] is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901575 ! organic substance catabolic process created_by: bf creation_date: 2012-09-14T09:05:04Z [Term] id: GO:1901362 name: organic cyclic compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound anabolism" EXACT [GOC:TermGenie] synonym: "organic cyclic compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organic cyclic compound formation" EXACT [GOC:TermGenie] synonym: "organic cyclic compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process created_by: bf creation_date: 2012-09-14T09:05:22Z [Term] id: GO:1901363 name: heterocyclic compound binding namespace: molecular_function def: "Interacting selectively and non-covalently with heterocyclic compound." [GOC:TermGenie] is_a: GO:0005488 ! binding created_by: bf creation_date: 2012-09-14T13:53:50Z [Term] id: GO:1901522 name: positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus namespace: biological_process def: "Any positive regulation of transcription from RNA polymerase II promoter that is involved in cellular response to chemical stimulus." [GOC:TermGenie, PMID:22840777] synonym: "activation of global transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "activation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" NARROW [GOC:TermGenie] synonym: "positive regulation of gene-specific transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "positive regulation of global transcription from Pol II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "positive regulation of transcription from Pol II promoter involved in cellular response to chemical stimulus" EXACT [GOC:TermGenie] synonym: "stimulation of global transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" NARROW [GOC:TermGenie] synonym: "stimulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" EXACT [GOC:TermGenie] synonym: "up regulation of global transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "up regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" EXACT [GOC:TermGenie] synonym: "up-regulation of global transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "up-regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" EXACT [GOC:TermGenie] synonym: "upregulation of global transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" RELATED [GOC:TermGenie] synonym: "upregulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus" EXACT [GOC:TermGenie] is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: part_of GO:0070887 ! cellular response to chemical stimulus relationship: part_of GO:0070887 ! cellular response to chemical stimulus created_by: al creation_date: 2012-10-19T08:25:05Z [Term] id: GO:1901564 name: organonitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organonitrogen compound." [GOC:pr, GOC:TermGenie] synonym: "organonitrogen compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0071704 ! organic substance metabolic process created_by: pr creation_date: 2012-11-04T15:17:52Z [Term] id: GO:1901565 name: organonitrogen compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of organonitrogen compound." [GOC:pr, GOC:TermGenie] synonym: "organonitrogen compound breakdown" EXACT [GOC:TermGenie] synonym: "organonitrogen compound catabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound degradation" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process is_a: GO:1901575 ! organic substance catabolic process created_by: pr creation_date: 2012-11-04T15:17:56Z [Term] id: GO:1901566 name: organonitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organonitrogen compound." [GOC:pr, GOC:TermGenie] synonym: "organonitrogen compound anabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organonitrogen compound formation" EXACT [GOC:TermGenie] synonym: "organonitrogen compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process created_by: pr creation_date: 2012-11-04T15:18:00Z [Term] id: GO:1901575 name: organic substance catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] synonym: "organic molecular entity breakdown" EXACT [GOC:TermGenie] synonym: "organic molecular entity catabolic process" EXACT [] synonym: "organic molecular entity catabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity degradation" EXACT [GOC:TermGenie] synonym: "organic substance breakdown" EXACT [] synonym: "organic substance catabolism" EXACT [] synonym: "organic substance degradation" EXACT [] is_a: GO:0009056 ! catabolic process is_a: GO:0071704 ! organic substance metabolic process created_by: pr creation_date: 2012-11-05T11:04:36Z [Term] id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] synonym: "organic molecular entity formation" EXACT [GOC:TermGenie] synonym: "organic molecular entity synthesis" EXACT [GOC:TermGenie] synonym: "organic substance anabolism" EXACT [] synonym: "organic substance biosynthesis" EXACT [] synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process created_by: pr creation_date: 2012-11-05T11:04:40Z [Term] id: GO:1901588 name: dendritic microtubule namespace: cellular_component def: "Any microtubule in a dendrite, a neuron projection." [GOC:TermGenie, NIF_Subcellular:sao110773650] synonym: "microtubule of dendrite" EXACT [GOC:TermGenie] synonym: "microtubulus of dendrite" EXACT [GOC:TermGenie] xref: NIF_Subcellular:sao110773650 is_a: GO:0005874 ! microtubule is_a: GO:0097458 ! neuron part is_a: GO:0120038 ! plasma membrane bounded cell projection part intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0030425 ! dendrite relationship: part_of GO:0030425 ! dendrite created_by: pr creation_date: 2012-11-07T14:37:30Z [Term] id: GO:1901608 name: regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] is_a: GO:1902513 ! regulation of organelle transport along microtubule intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0047496 ! vesicle transport along microtubule relationship: regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:44Z [Term] id: GO:1901609 name: negative regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "down regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "down regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "down-regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "downregulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "inhibition of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "inhibition of vesicle transport along microtubule" NARROW [GOC:TermGenie] synonym: "negative regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:1901608 ! regulation of vesicle transport along microtubule intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0047496 ! vesicle transport along microtubule relationship: negatively_regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:48Z [Term] id: GO:1901610 name: positive regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "activation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "activation of vesicle transport along microtubule" NARROW [GOC:TermGenie] synonym: "positive regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up-regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "upregulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:1901608 ! regulation of vesicle transport along microtubule intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0047496 ! vesicle transport along microtubule relationship: positively_regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:53Z [Term] id: GO:1901615 name: organic hydroxy compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic hydroxy compound." [GOC:pr, GOC:TermGenie] synonym: "organic hydroxy compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process created_by: pr creation_date: 2012-11-13T12:54:27Z [Term] id: GO:1901616 name: organic hydroxy compound catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of organic hydroxy compound." [GOC:pr, GOC:TermGenie] synonym: "organic hydroxy compound breakdown" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound catabolism" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound degradation" EXACT [GOC:TermGenie] is_a: GO:1901575 ! organic substance catabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process created_by: pr creation_date: 2012-11-13T12:54:31Z [Term] id: GO:1901617 name: organic hydroxy compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic hydroxy compound." [GOC:pr, GOC:TermGenie] synonym: "organic hydroxy compound anabolism" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound formation" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901576 ! organic substance biosynthetic process is_a: GO:1901615 ! organic hydroxy compound metabolic process created_by: pr creation_date: 2012-11-13T12:54:36Z [Term] id: GO:1901673 name: regulation of mitotic spindle assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic spindle assembly." [GOC:TermGenie] synonym: "regulation of spindle assembly involved in mitosis" EXACT [] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0060236 ! regulation of mitotic spindle organization is_a: GO:0090169 ! regulation of spindle assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0090307 ! mitotic spindle assembly relationship: regulates GO:0090307 ! mitotic spindle assembly created_by: al creation_date: 2012-11-22T09:50:00Z [Term] id: GO:1901858 name: regulation of mitochondrial DNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitochondrial DNA metabolic process." [GOC:TermGenie, GOC:yaf, PMID:23150719] synonym: "regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "regulation of mtDNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0010821 ! regulation of mitochondrion organization is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032042 ! mitochondrial DNA metabolic process relationship: regulates GO:0032042 ! mitochondrial DNA metabolic process created_by: yaf creation_date: 2013-02-01T10:05:04Z [Term] id: GO:1901859 name: negative regulation of mitochondrial DNA metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitochondrial DNA metabolic process." [GOC:TermGenie, GOC:yaf, PMID:23150719] synonym: "down regulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "down regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "inhibition of mitochondrial DNA metabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "inhibition of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "negative regulation of mtDNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0010823 ! negative regulation of mitochondrion organization is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:1901858 ! regulation of mitochondrial DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032042 ! mitochondrial DNA metabolic process relationship: negatively_regulates GO:0032042 ! mitochondrial DNA metabolic process created_by: yaf creation_date: 2013-02-01T10:05:09Z [Term] id: GO:1901860 name: positive regulation of mitochondrial DNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitochondrial DNA metabolic process." [GOC:TermGenie, GOC:yaf, PMID:23150719] synonym: "activation of mitochondrial DNA metabolic process" NARROW [GOC:TermGenie] synonym: "activation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "activation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "activation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "positive regulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "up regulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "up regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of mtDNA metabolism" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial DNA metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial DNA metabolism" EXACT [GOC:TermGenie] synonym: "upregulation of mtDNA metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of mtDNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0010822 ! positive regulation of mitochondrion organization is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:1901858 ! regulation of mitochondrial DNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032042 ! mitochondrial DNA metabolic process relationship: positively_regulates GO:0032042 ! mitochondrial DNA metabolic process created_by: yaf creation_date: 2013-02-01T10:05:14Z [Term] id: GO:1901879 name: regulation of protein depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043244 ! regulation of protein complex disassembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051261 ! protein depolymerization relationship: regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:23Z [Term] id: GO:1901880 name: negative regulation of protein depolymerization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "down regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "downregulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "inhibition of protein depolymerization" NARROW [GOC:TermGenie] synonym: "inhibition of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043242 ! negative regulation of protein complex disassembly is_a: GO:1901879 ! regulation of protein depolymerization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051261 ! protein depolymerization relationship: negatively_regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:28Z [Term] id: GO:1901881 name: positive regulation of protein depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "activation of protein depolymerization" NARROW [GOC:TermGenie] synonym: "activation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "activation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "activation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "activation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "up regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "upregulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043243 ! positive regulation of protein complex disassembly is_a: GO:1901879 ! regulation of protein depolymerization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051261 ! protein depolymerization relationship: positively_regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:32Z [Term] id: GO:1901970 name: positive regulation of mitotic sister chromatid separation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic sister chromatid separation." [GOC:TermGenie, PMID:1846086] synonym: "activation of chromosome separation during mitosis" RELATED [GOC:TermGenie] synonym: "activation of mitotic chromosome separation" RELATED [GOC:TermGenie] synonym: "activation of mitotic sister chromatid resolution" EXACT [GOC:TermGenie] synonym: "activation of mitotic sister chromatid separation" NARROW [GOC:TermGenie] synonym: "activation of sister chromatid separation during mitosis" EXACT [GOC:TermGenie] synonym: "positive regulation of chromosome separation during mitosis" RELATED [GOC:TermGenie] synonym: "positive regulation of mitotic chromosome separation" RELATED [GOC:TermGenie] synonym: "positive regulation of mitotic sister chromatid resolution" EXACT [GOC:TermGenie] synonym: "positive regulation of sister chromatid separation during mitosis" EXACT [GOC:TermGenie] synonym: "up regulation of chromosome separation during mitosis" RELATED [GOC:TermGenie] synonym: "up regulation of mitotic chromosome separation" RELATED [GOC:TermGenie] synonym: "up regulation of mitotic sister chromatid resolution" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic sister chromatid separation" EXACT [GOC:TermGenie] synonym: "up regulation of sister chromatid separation during mitosis" EXACT [GOC:TermGenie] synonym: "up-regulation of chromosome separation during mitosis" RELATED [GOC:TermGenie] synonym: "up-regulation of mitotic chromosome separation" RELATED [GOC:TermGenie] synonym: "up-regulation of mitotic sister chromatid resolution" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic sister chromatid separation" EXACT [GOC:TermGenie] synonym: "up-regulation of sister chromatid separation during mitosis" EXACT [GOC:TermGenie] synonym: "upregulation of chromosome separation during mitosis" RELATED [GOC:TermGenie] synonym: "upregulation of mitotic chromosome separation" RELATED [GOC:TermGenie] synonym: "upregulation of mitotic sister chromatid resolution" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic sister chromatid separation" EXACT [GOC:TermGenie] synonym: "upregulation of sister chromatid separation during mitosis" EXACT [GOC:TermGenie] is_a: GO:0010965 ! regulation of mitotic sister chromatid separation is_a: GO:0062033 ! positive regulation of mitotic sister chromatid segregation is_a: GO:1905820 ! positive regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051306 ! mitotic sister chromatid separation relationship: positively_regulates GO:0051306 ! mitotic sister chromatid separation created_by: al creation_date: 2013-02-22T19:06:19Z [Term] id: GO:1901976 name: regulation of cell cycle checkpoint namespace: biological_process alt_id: GO:2001047 def: "Any process that modulates the frequency, rate or extent of cell cycle checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:23028116] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of checkpoint (i.e mitotic spindle or DNA damage etc). subset: gocheck_do_not_manually_annotate synonym: "regulation of G1/S checkpoint" RELATED [GOC:obol] synonym: "regulation of G1/S transition checkpoint" RELATED [] is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000075 ! cell cycle checkpoint relationship: regulates GO:0000075 ! cell cycle checkpoint created_by: jl creation_date: 2013-03-06T15:10:20Z [Term] id: GO:1901977 name: negative regulation of cell cycle checkpoint namespace: biological_process alt_id: GO:2001048 def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell cycle checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:23028116] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of checkpoint (i.e mitotic spindle or DNA damage etc). subset: gocheck_do_not_manually_annotate synonym: "down regulation of cell cycle checkpoint" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle checkpoint" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle checkpoint" EXACT [GOC:TermGenie] synonym: "inhibition of cell cycle checkpoint" NARROW [GOC:TermGenie] synonym: "negative regulation of G1/S checkpoint" RELATED [GOC:obol] synonym: "negative regulation of G1/S transition checkpoint" RELATED [] is_a: GO:0045787 ! positive regulation of cell cycle is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1901976 ! regulation of cell cycle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000075 ! cell cycle checkpoint relationship: negatively_regulates GO:0000075 ! cell cycle checkpoint created_by: jl creation_date: 2013-03-06T15:10:29Z [Term] id: GO:1901978 name: positive regulation of cell cycle checkpoint namespace: biological_process alt_id: GO:2001052 def: "Any process that activates or increases the frequency, rate or extent of cell cycle checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:23028116] synonym: "activation of cell cycle checkpoint" NARROW [GOC:TermGenie] synonym: "positive regulation of G1/S checkpoint" RELATED [GOC:obol] synonym: "positive regulation of G1/S transition checkpoint" RELATED [] synonym: "up regulation of cell cycle checkpoint" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle checkpoint" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle checkpoint" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1901976 ! regulation of cell cycle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000075 ! cell cycle checkpoint relationship: positively_regulates GO:0000075 ! cell cycle checkpoint created_by: jl creation_date: 2013-03-06T15:10:34Z [Term] id: GO:1901987 name: regulation of cell cycle phase transition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "cell cycle control" EXACT [GOC:vw] synonym: "regulation of cell cycle transition" EXACT [GOC:TermGenie] is_a: GO:0010564 ! regulation of cell cycle process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044770 ! cell cycle phase transition relationship: regulates GO:0044770 ! cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:11:27Z [Term] id: GO:1901988 name: negative regulation of cell cycle phase transition namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "down regulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "down regulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "inhibition of cell cycle phase transition" NARROW [GOC:TermGenie] synonym: "inhibition of cell cycle transition" EXACT [GOC:TermGenie] synonym: "negative regulation of cell cycle transition" EXACT [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044770 ! cell cycle phase transition relationship: negatively_regulates GO:0044770 ! cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:11:32Z [Term] id: GO:1901989 name: positive regulation of cell cycle phase transition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "activation of cell cycle phase transition" NARROW [GOC:TermGenie] synonym: "activation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "positive regulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "up regulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "up regulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle transition" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle transition" EXACT [GOC:TermGenie] is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044770 ! cell cycle phase transition relationship: positively_regulates GO:0044770 ! cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:11:37Z [Term] id: GO:1901990 name: regulation of mitotic cell cycle phase transition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] subset: goslim_pombe synonym: "mitotic cell cycle control" EXACT [GOC:vw] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044772 ! mitotic cell cycle phase transition relationship: regulates GO:0044772 ! mitotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:14:38Z [Term] id: GO:1901991 name: negative regulation of mitotic cell cycle phase transition namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "down regulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "inhibition of mitotic cell cycle phase transition" NARROW [GOC:TermGenie] is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:1901988 ! negative regulation of cell cycle phase transition is_a: GO:1901990 ! regulation of mitotic cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044772 ! mitotic cell cycle phase transition relationship: negatively_regulates GO:0044772 ! mitotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:14:46Z [Term] id: GO:1901992 name: positive regulation of mitotic cell cycle phase transition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "activation of mitotic cell cycle phase transition" NARROW [GOC:TermGenie] synonym: "up regulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic cell cycle phase transition" EXACT [GOC:TermGenie] is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:1901989 ! positive regulation of cell cycle phase transition is_a: GO:1901990 ! regulation of mitotic cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044772 ! mitotic cell cycle phase transition relationship: positively_regulates GO:0044772 ! mitotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:14:51Z [Term] id: GO:1901993 name: regulation of meiotic cell cycle phase transition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of meiotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "meiotic cell cycle control" EXACT [GOC:vw] synonym: "regulation of cell cycle transition" BROAD [GOC:TermGenie] is_a: GO:0051445 ! regulation of meiotic cell cycle is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044771 ! meiotic cell cycle phase transition relationship: regulates GO:0044771 ! meiotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:14:58Z [Term] id: GO:1901994 name: negative regulation of meiotic cell cycle phase transition namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of meiotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "down regulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "down regulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "down-regulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "downregulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "inhibition of cell cycle transition" BROAD [GOC:TermGenie] synonym: "inhibition of meiotic cell cycle phase transition" NARROW [GOC:TermGenie] synonym: "negative regulation of cell cycle transition" BROAD [GOC:TermGenie] is_a: GO:0051447 ! negative regulation of meiotic cell cycle is_a: GO:1901988 ! negative regulation of cell cycle phase transition is_a: GO:1901993 ! regulation of meiotic cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044771 ! meiotic cell cycle phase transition relationship: negatively_regulates GO:0044771 ! meiotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:15:03Z [Term] id: GO:1901995 name: positive regulation of meiotic cell cycle phase transition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of meiotic cell cycle phase transition." [GOC:mtg_cell_cycle, GOC:TermGenie, PMID:22841721] synonym: "activation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "activation of meiotic cell cycle phase transition" NARROW [GOC:TermGenie] synonym: "positive regulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "up regulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "up regulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "up-regulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle transition" BROAD [GOC:TermGenie] synonym: "upregulation of meiotic cell cycle phase transition" EXACT [GOC:TermGenie] is_a: GO:0051446 ! positive regulation of meiotic cell cycle is_a: GO:1901989 ! positive regulation of cell cycle phase transition is_a: GO:1901993 ! regulation of meiotic cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044771 ! meiotic cell cycle phase transition relationship: positively_regulates GO:0044771 ! meiotic cell cycle phase transition created_by: jl creation_date: 2013-03-19T16:15:08Z [Term] id: GO:1902064 name: regulation of transcription from RNA polymerase II promoter involved in spermatogenesis namespace: biological_process def: "Any regulation of transcription from RNA polymerase II promoter that is involved in spermatogenesis." [GOC:kmv, GOC:TermGenie, PMID:22570621] synonym: "global transcription regulation from Pol II promoter involved in generation of spermatozoa" RELATED [GOC:TermGenie] synonym: "global transcription regulation from Pol II promoter involved in spermatogenesis" RELATED [GOC:TermGenie] synonym: "regulation of gene-specific transcription from RNA polymerase II promoter involved in generation of spermatozoa" RELATED [GOC:TermGenie] synonym: "regulation of gene-specific transcription from RNA polymerase II promoter involved in spermatogenesis" RELATED [GOC:TermGenie] synonym: "regulation of global transcription from Pol II promoter involved in generation of spermatozoa" RELATED [GOC:TermGenie] synonym: "regulation of global transcription from Pol II promoter involved in spermatogenesis" RELATED [GOC:TermGenie] synonym: "regulation of transcription from Pol II promoter involved in generation of spermatozoa" EXACT [GOC:TermGenie] synonym: "regulation of transcription from Pol II promoter involved in spermatogenesis" EXACT [GOC:TermGenie] synonym: "regulation of transcription from RNA polymerase II promoter involved in generation of spermatozoa" EXACT [GOC:TermGenie] synonym: "regulation of transcription from RNA polymerase II promoter, global involved in generation of spermatozoa" RELATED [GOC:TermGenie] synonym: "regulation of transcription from RNA polymerase II promoter, global involved in spermatogenesis" RELATED [GOC:TermGenie] is_a: GO:0006357 ! regulation of transcription by RNA polymerase II is_a: GO:0022414 ! reproductive process intersection_of: GO:0006357 ! regulation of transcription by RNA polymerase II intersection_of: part_of GO:0007283 ! spermatogenesis relationship: part_of GO:0007283 ! spermatogenesis created_by: kmv creation_date: 2013-04-16T20:27:18Z [Term] id: GO:1902099 name: regulation of metaphase/anaphase transition of cell cycle namespace: biological_process def: "Any process that modulates the frequency, rate or extent of metaphase/anaphase transition of cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] is_a: GO:0033045 ! regulation of sister chromatid segregation is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044784 ! metaphase/anaphase transition of cell cycle relationship: regulates GO:0044784 ! metaphase/anaphase transition of cell cycle created_by: jl creation_date: 2013-05-02T12:45:15Z [Term] id: GO:1902100 name: negative regulation of metaphase/anaphase transition of cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of metaphase/anaphase transition of cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "down regulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] synonym: "down-regulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] synonym: "downregulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] synonym: "inhibition of metaphase/anaphase transition of cell cycle" NARROW [GOC:TermGenie] is_a: GO:1901988 ! negative regulation of cell cycle phase transition is_a: GO:1902099 ! regulation of metaphase/anaphase transition of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044784 ! metaphase/anaphase transition of cell cycle relationship: negatively_regulates GO:0044784 ! metaphase/anaphase transition of cell cycle created_by: jl creation_date: 2013-05-02T12:45:20Z [Term] id: GO:1902101 name: positive regulation of metaphase/anaphase transition of cell cycle namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of metaphase/anaphase transition of cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "activation of metaphase/anaphase transition of cell cycle" NARROW [GOC:TermGenie] synonym: "up regulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] synonym: "up-regulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] synonym: "upregulation of metaphase/anaphase transition of cell cycle" EXACT [GOC:TermGenie] is_a: GO:1901989 ! positive regulation of cell cycle phase transition is_a: GO:1902099 ! regulation of metaphase/anaphase transition of cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044784 ! metaphase/anaphase transition of cell cycle relationship: positively_regulates GO:0044784 ! metaphase/anaphase transition of cell cycle created_by: jl creation_date: 2013-05-02T12:45:30Z [Term] id: GO:1902102 name: regulation of metaphase/anaphase transition of meiotic cell cycle namespace: biological_process def: "Any process that modulates the frequency, rate or extent of metaphase/anaphase transition of meiotic cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] is_a: GO:1901993 ! regulation of meiotic cell cycle phase transition is_a: GO:1902099 ! regulation of metaphase/anaphase transition of cell cycle is_a: GO:1905132 ! regulation of meiotic chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle relationship: regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle created_by: jl creation_date: 2013-05-02T12:45:38Z [Term] id: GO:1902103 name: negative regulation of metaphase/anaphase transition of meiotic cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of metaphase/anaphase transition of meiotic cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "down regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "down regulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "down-regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "downregulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "downregulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "inhibition of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "inhibition of metaphase/anaphase transition of meiotic cell cycle" NARROW [GOC:TermGenie] synonym: "negative regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] is_a: GO:1901994 ! negative regulation of meiotic cell cycle phase transition is_a: GO:1902100 ! negative regulation of metaphase/anaphase transition of cell cycle is_a: GO:1902102 ! regulation of metaphase/anaphase transition of meiotic cell cycle is_a: GO:1905133 ! negative regulation of meiotic chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle relationship: negatively_regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle created_by: jl creation_date: 2013-05-02T12:45:43Z [Term] id: GO:1902104 name: positive regulation of metaphase/anaphase transition of meiotic cell cycle namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of metaphase/anaphase transition of meiotic cell cycle." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "activation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "activation of metaphase/anaphase transition of meiotic cell cycle" NARROW [GOC:TermGenie] synonym: "positive regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "up regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "up regulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "up-regulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] synonym: "upregulation of meiotic metaphase/anaphase transition" EXACT [GOC:TermGenie] synonym: "upregulation of metaphase/anaphase transition of meiotic cell cycle" EXACT [GOC:TermGenie] is_a: GO:1901995 ! positive regulation of meiotic cell cycle phase transition is_a: GO:1902101 ! positive regulation of metaphase/anaphase transition of cell cycle is_a: GO:1902102 ! regulation of metaphase/anaphase transition of meiotic cell cycle is_a: GO:1905134 ! positive regulation of meiotic chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle relationship: positively_regulates GO:0044785 ! metaphase/anaphase transition of meiotic cell cycle created_by: jl creation_date: 2013-05-02T12:45:48Z [Term] id: GO:1902115 name: regulation of organelle assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070925 ! organelle assembly relationship: regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:21Z [Term] id: GO:1902116 name: negative regulation of organelle assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] synonym: "down regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "downregulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "inhibition of organelle assembly" NARROW [GOC:TermGenie] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070925 ! organelle assembly relationship: negatively_regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:31Z [Term] id: GO:1902117 name: positive regulation of organelle assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] synonym: "activation of organelle assembly" NARROW [GOC:TermGenie] synonym: "up regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "upregulation of organelle assembly" EXACT [GOC:TermGenie] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070925 ! organelle assembly relationship: positively_regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:36Z [Term] id: GO:1902119 name: regulation of meiotic spindle elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of meiotic spindle elongation." [GOC:TermGenie, PMID:23370392] synonym: "regulation of spindle elongation during meiosis" EXACT [GOC:TermGenie] is_a: GO:0032887 ! regulation of spindle elongation is_a: GO:0040020 ! regulation of meiotic nuclear division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051232 ! meiotic spindle elongation relationship: regulates GO:0051232 ! meiotic spindle elongation created_by: al creation_date: 2013-05-15T15:15:48Z [Term] id: GO:1902120 name: negative regulation of meiotic spindle elongation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of meiotic spindle elongation." [GOC:TermGenie, PMID:23370392] synonym: "down regulation of meiotic spindle elongation" EXACT [GOC:TermGenie] synonym: "down regulation of spindle elongation during meiosis" EXACT [GOC:TermGenie] synonym: "down-regulation of meiotic spindle elongation" EXACT [GOC:TermGenie] synonym: "down-regulation of spindle elongation during meiosis" EXACT [GOC:TermGenie] synonym: "downregulation of meiotic spindle elongation" EXACT [GOC:TermGenie] synonym: "downregulation of spindle elongation during meiosis" EXACT [GOC:TermGenie] synonym: "inhibition of meiotic spindle elongation" NARROW [GOC:TermGenie] synonym: "inhibition of spindle elongation during meiosis" EXACT [GOC:TermGenie] synonym: "negative regulation of spindle elongation during meiosis" EXACT [GOC:TermGenie] is_a: GO:0045835 ! negative regulation of meiotic nuclear division is_a: GO:0051494 ! negative regulation of cytoskeleton organization is_a: GO:0051985 ! negative regulation of chromosome segregation is_a: GO:1902119 ! regulation of meiotic spindle elongation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051232 ! meiotic spindle elongation relationship: negatively_regulates GO:0051232 ! meiotic spindle elongation created_by: al creation_date: 2013-05-15T15:15:53Z [Term] id: GO:1902229 name: regulation of intrinsic apoptotic signaling pathway in response to DNA damage namespace: biological_process def: "Any process that modulates the frequency, rate or extent of intrinsic apoptotic signaling pathway in response to DNA damage." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:15314165] synonym: "regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] is_a: GO:2001020 ! regulation of response to DNA damage stimulus is_a: GO:2001242 ! regulation of intrinsic apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage relationship: regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage created_by: rl creation_date: 2013-06-14T09:39:52Z [Term] id: GO:1902230 name: negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of intrinsic apoptotic signaling pathway in response to DNA damage." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:15314165] synonym: "down regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "down regulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "down-regulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] synonym: "downregulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "downregulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] synonym: "inhibition of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "inhibition of intrinsic apoptotic signaling pathway in response to DNA damage" NARROW [GOC:TermGenie] synonym: "negative regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] is_a: GO:1902229 ! regulation of intrinsic apoptotic signaling pathway in response to DNA damage is_a: GO:2001021 ! negative regulation of response to DNA damage stimulus is_a: GO:2001243 ! negative regulation of intrinsic apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage relationship: negatively_regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage created_by: rl creation_date: 2013-06-14T09:39:58Z [Term] id: GO:1902231 name: positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of intrinsic apoptotic signaling pathway in response to DNA damage." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:15314165] synonym: "activation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "activation of intrinsic apoptotic signaling pathway in response to DNA damage" NARROW [GOC:TermGenie] synonym: "positive regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "up regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "up regulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] synonym: "up-regulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "up-regulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] synonym: "upregulation of DNA damage response, signal transduction resulting in induction of apoptosis" RELATED [GOC:TermGenie] synonym: "upregulation of intrinsic apoptotic signaling pathway in response to DNA damage" EXACT [GOC:TermGenie] is_a: GO:1902229 ! regulation of intrinsic apoptotic signaling pathway in response to DNA damage is_a: GO:2001022 ! positive regulation of response to DNA damage stimulus is_a: GO:2001244 ! positive regulation of intrinsic apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage relationship: positively_regulates GO:0008630 ! intrinsic apoptotic signaling pathway in response to DNA damage created_by: rl creation_date: 2013-06-14T09:40:03Z [Term] id: GO:1902284 name: neuron projection extension involved in neuron projection guidance namespace: biological_process def: "Any neuron projection extension that is involved in neuron projection guidance." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:22790009] synonym: "neurite extension involved in neurite guidance" NARROW [GOC:TermGenie] synonym: "neurite extension involved in neuron process guidance" NARROW [GOC:TermGenie] synonym: "neurite extension involved in neuron projection guidance" NARROW [GOC:TermGenie] synonym: "neurite extension involved in neuron protrusion guidance" NARROW [GOC:TermGenie] synonym: "neurite extension involved in neuronal cell projection guidance" NARROW [GOC:TermGenie] synonym: "neuron process extension involved in neurite guidance" NARROW [GOC:TermGenie] synonym: "neuron process extension involved in neuron process guidance" EXACT [GOC:TermGenie] synonym: "neuron process extension involved in neuron projection guidance" EXACT [GOC:TermGenie] synonym: "neuron process extension involved in neuron protrusion guidance" EXACT [GOC:TermGenie] synonym: "neuron process extension involved in neuronal cell projection guidance" EXACT [GOC:TermGenie] synonym: "neuron projection extension involved in neurite guidance" NARROW [GOC:TermGenie] synonym: "neuron projection extension involved in neuron process guidance" EXACT [GOC:TermGenie] synonym: "neuron projection extension involved in neuron protrusion guidance" EXACT [GOC:TermGenie] synonym: "neuron projection extension involved in neuronal cell projection guidance" EXACT [GOC:TermGenie] synonym: "neuron protrusion extension involved in neurite guidance" NARROW [GOC:TermGenie] synonym: "neuron protrusion extension involved in neuron process guidance" EXACT [GOC:TermGenie] synonym: "neuron protrusion extension involved in neuron projection guidance" EXACT [GOC:TermGenie] synonym: "neuron protrusion extension involved in neuron protrusion guidance" EXACT [GOC:TermGenie] synonym: "neuron protrusion extension involved in neuronal cell projection guidance" EXACT [GOC:TermGenie] synonym: "neuronal cell projection extension involved in neurite guidance" NARROW [GOC:TermGenie] synonym: "neuronal cell projection extension involved in neuron process guidance" EXACT [GOC:TermGenie] synonym: "neuronal cell projection extension involved in neuron projection guidance" EXACT [GOC:TermGenie] synonym: "neuronal cell projection extension involved in neuron protrusion guidance" EXACT [GOC:TermGenie] synonym: "neuronal cell projection extension involved in neuronal cell projection guidance" EXACT [GOC:TermGenie] is_a: GO:1990138 ! neuron projection extension intersection_of: GO:1990138 ! neuron projection extension intersection_of: part_of GO:0097485 ! neuron projection guidance relationship: part_of GO:0097485 ! neuron projection guidance created_by: pr creation_date: 2013-07-08T15:55:17Z [Term] id: GO:1902292 name: cell cycle DNA replication initiation namespace: biological_process def: "Any DNA replication initiation that is involved in cell cycle DNA replication." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "DNA endoreduplication initiation involved in cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "DNA re-replication initiation involved in cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "DNA replication initiation involved in cell cycle DNA replication" EXACT [] synonym: "DNA-dependent DNA replication initiation involved in cell cycle DNA replication" EXACT [GOC:TermGenie] is_a: GO:0006270 ! DNA replication initiation is_a: GO:0022402 ! cell cycle process intersection_of: GO:0006270 ! DNA replication initiation intersection_of: part_of GO:0044786 ! cell cycle DNA replication relationship: part_of GO:0044786 ! cell cycle DNA replication created_by: jl creation_date: 2013-07-09T16:05:54Z [Term] id: GO:1902315 name: nuclear cell cycle DNA replication initiation namespace: biological_process def: "Any DNA replication initiation that is involved in nuclear cell cycle DNA replication." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "DNA endoreduplication initiation involved in nuclear cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "DNA re-replication initiation involved in nuclear cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "DNA replication initiation involved in nuclear cell cycle DNA replication" EXACT [] is_a: GO:1902292 ! cell cycle DNA replication initiation intersection_of: GO:0006270 ! DNA replication initiation intersection_of: part_of GO:0033260 ! nuclear DNA replication relationship: part_of GO:0033260 ! nuclear DNA replication created_by: jl creation_date: 2013-07-23T14:00:01Z [Term] id: GO:1902337 name: regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:16Z [Term] id: GO:1902338 name: negative regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "down regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:1902337 ! regulation of apoptotic process involved in morphogenesis is_a: GO:1904746 ! negative regulation of apoptotic process involved in development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: negatively_regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:25Z [Term] id: GO:1902339 name: positive regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "activation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "activation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:1902337 ! regulation of apoptotic process involved in morphogenesis is_a: GO:1904747 ! positive regulation of apoptotic process involved in development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: positively_regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:33Z [Term] id: GO:1902340 name: negative regulation of chromosome condensation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome condensation." [GOC:TermGenie, PMID:23219725] synonym: "down regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "down regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "inhibition of chromosome condensation" NARROW [GOC:TermGenie] synonym: "inhibition of eukaryotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear chromosome condensation" NARROW [GOC:TermGenie] synonym: "negative regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "negative regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0060623 ! regulation of chromosome condensation is_a: GO:2001251 ! negative regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030261 ! chromosome condensation relationship: negatively_regulates GO:0030261 ! chromosome condensation created_by: dgf creation_date: 2013-07-29T20:54:14Z [Term] id: GO:1902369 name: negative regulation of RNA catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA catabolic process." [GOC:bf, GOC:TermGenie, PMID:16640457] synonym: "down regulation of RNA breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of RNA catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of RNA catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of RNA degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA degradation" EXACT [GOC:TermGenie] synonym: "downregulation of RNA breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of RNA catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of RNA catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of RNA degradation" EXACT [GOC:TermGenie] synonym: "inhibition of RNA breakdown" NARROW [GOC:TermGenie] synonym: "inhibition of RNA catabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of RNA catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of RNA degradation" NARROW [GOC:TermGenie] synonym: "negative regulation of RNA breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA degradation" EXACT [GOC:TermGenie] is_a: GO:0031330 ! negative regulation of cellular catabolic process is_a: GO:0051253 ! negative regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006401 ! RNA catabolic process relationship: negatively_regulates GO:0006401 ! RNA catabolic process created_by: bf creation_date: 2013-08-22T14:59:39Z [Term] id: GO:1902373 name: negative regulation of mRNA catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mRNA catabolic process." [GOC:bf, GOC:TermGenie, PMID:22626865] synonym: "down regulation of mRNA breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of mRNA catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of mRNA decay" RELATED [GOC:TermGenie] synonym: "down regulation of mRNA degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA decay" RELATED [GOC:TermGenie] synonym: "down-regulation of mRNA degradation" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA decay" RELATED [GOC:TermGenie] synonym: "downregulation of mRNA degradation" EXACT [GOC:TermGenie] synonym: "inhibition of mRNA breakdown" NARROW [GOC:TermGenie] synonym: "inhibition of mRNA catabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of mRNA catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of mRNA decay" RELATED [GOC:TermGenie] synonym: "inhibition of mRNA degradation" NARROW [GOC:TermGenie] synonym: "negative regulation of mRNA breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of mRNA catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of mRNA decay" RELATED [GOC:TermGenie] synonym: "negative regulation of mRNA degradation" EXACT [GOC:TermGenie] is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0061013 ! regulation of mRNA catabolic process is_a: GO:1902369 ! negative regulation of RNA catabolic process is_a: GO:1903312 ! negative regulation of mRNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006402 ! mRNA catabolic process relationship: negatively_regulates GO:0006402 ! mRNA catabolic process created_by: bf creation_date: 2013-08-22T15:16:19Z [Term] id: GO:1902398 name: intracellular signal transduction involved in meiotic spindle checkpoint namespace: biological_process def: "Any intracellular signal transduction that is involved in meiotic spindle checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in meiotic spindle checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in meiotic spindle checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in meiotic spindle checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in meiotic spindle checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in meiotic spindle checkpoint" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in meiotic spindle checkpoint" NARROW [GOC:TermGenie] is_a: GO:0072411 ! signal transduction involved in meiotic cell cycle checkpoint is_a: GO:0072416 ! signal transduction involved in spindle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0044779 ! meiotic spindle checkpoint relationship: part_of GO:0044779 ! meiotic spindle checkpoint created_by: jl creation_date: 2013-09-12T12:01:41Z [Term] id: GO:1902400 name: intracellular signal transduction involved in G1 DNA damage checkpoint namespace: biological_process def: "Any intracellular signal transduction that is involved in G1 DNA damage checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "intracellular signal transduction involved in G1/S DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in G1 DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in G1/S DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in G1 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling cascade involved in G1/S DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in G1 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in G1/S DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in G1 DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in G1/S DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in G1 DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in G1/S DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in G1 DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in G1/S DNA damage checkpoint" NARROW [GOC:TermGenie] is_a: GO:0072422 ! signal transduction involved in DNA damage checkpoint is_a: GO:1902807 ! negative regulation of cell cycle G1/S phase transition intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0044783 ! G1 DNA damage checkpoint relationship: part_of GO:0044783 ! G1 DNA damage checkpoint created_by: jl creation_date: 2013-09-12T12:01:58Z [Term] id: GO:1902402 name: signal transduction involved in mitotic DNA damage checkpoint namespace: biological_process def: "Any intracellular signal transduction that is involved in mitotic DNA damage checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in mitotic DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in mitotic DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in mitotic DNA damage checkpoint" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in mitotic DNA damage checkpoint" NARROW [GOC:TermGenie] is_a: GO:0072422 ! signal transduction involved in DNA damage checkpoint is_a: GO:1902403 ! signal transduction involved in mitotic DNA integrity checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0044773 ! mitotic DNA damage checkpoint relationship: part_of GO:0044773 ! mitotic DNA damage checkpoint created_by: jl creation_date: 2013-09-12T12:07:20Z [Term] id: GO:1902403 name: signal transduction involved in mitotic DNA integrity checkpoint namespace: biological_process def: "Any intracellular signal transduction that is involved in mitotic DNA integrity checkpoint." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "intracellular signal transduction involved in mitotic cell cycle G2/M transition decatenation checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in topo II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in topoisomerase II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in mitotic cell cycle G2/M transition decatenation checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in mitotic DNA integrity checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in topo II checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in topoisomerase II checkpoint" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in mitotic cell cycle G2/M transition decatenation checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling cascade involved in mitotic DNA integrity checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling cascade involved in topo II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling cascade involved in topoisomerase II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in mitotic cell cycle G2/M transition decatenation checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in mitotic DNA integrity checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in topo II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in topoisomerase II checkpoint" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in mitotic cell cycle G2/M transition decatenation checkpoint" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in mitotic DNA integrity checkpoint" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in topo II checkpoint" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in topoisomerase II checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in mitotic cell cycle G2/M transition decatenation checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in mitotic DNA integrity checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in topo II checkpoint" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in topoisomerase II checkpoint" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in mitotic cell cycle G2/M transition decatenation checkpoint" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in mitotic DNA integrity checkpoint" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in topo II checkpoint" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in topoisomerase II checkpoint" NARROW [GOC:TermGenie] is_a: GO:0072401 ! signal transduction involved in DNA integrity checkpoint is_a: GO:0072413 ! signal transduction involved in mitotic cell cycle checkpoint intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0044774 ! mitotic DNA integrity checkpoint relationship: part_of GO:0044774 ! mitotic DNA integrity checkpoint created_by: jl creation_date: 2013-09-12T12:07:28Z [Term] id: GO:1902412 name: regulation of mitotic cytokinesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic cytokinesis." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0032465 ! regulation of cytokinesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000281 ! mitotic cytokinesis relationship: regulates GO:0000281 ! mitotic cytokinesis created_by: jl creation_date: 2013-09-12T14:11:49Z [Term] id: GO:1902413 name: negative regulation of mitotic cytokinesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic cytokinesis." [GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "down regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic cytokinesis" EXACT [GOC:TermGenie] synonym: "down-regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic cytokinesis" EXACT [GOC:TermGenie] synonym: "downregulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic cytokinesis" EXACT [GOC:TermGenie] synonym: "inhibition of cytokinesis after mitosis" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic cytokinesis" NARROW [GOC:TermGenie] synonym: "negative regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] is_a: GO:0032466 ! negative regulation of cytokinesis is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:1902412 ! regulation of mitotic cytokinesis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000281 ! mitotic cytokinesis relationship: negatively_regulates GO:0000281 ! mitotic cytokinesis created_by: jl creation_date: 2013-09-12T14:11:59Z [Term] id: GO:1902435 name: regulation of male mating behavior namespace: biological_process def: "Any process that modulates the frequency, rate or extent of male mating behavior." [GOC:TermGenie, PMID:24089208] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0050795 ! regulation of behavior is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0060179 ! male mating behavior relationship: regulates GO:0060179 ! male mating behavior created_by: mm2 creation_date: 2013-10-09T15:49:56Z [Term] id: GO:1902436 name: negative regulation of male mating behavior namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of male mating behavior." [GOC:TermGenie, PMID:24089208] synonym: "down regulation of male mating behavior" EXACT [GOC:TermGenie] synonym: "down-regulation of male mating behavior" EXACT [GOC:TermGenie] synonym: "downregulation of male mating behavior" EXACT [GOC:TermGenie] synonym: "inhibition of male mating behavior" NARROW [GOC:TermGenie] is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0048521 ! negative regulation of behavior is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1902435 ! regulation of male mating behavior is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0060179 ! male mating behavior relationship: negatively_regulates GO:0060179 ! male mating behavior created_by: mm2 creation_date: 2013-10-09T15:50:05Z [Term] id: GO:1902437 name: positive regulation of male mating behavior namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of male mating behavior." [GOC:TermGenie, PMID:24089208] synonym: "activation of male mating behavior" NARROW [GOC:TermGenie] synonym: "up regulation of male mating behavior" EXACT [GOC:TermGenie] synonym: "up-regulation of male mating behavior" EXACT [GOC:TermGenie] synonym: "upregulation of male mating behavior" EXACT [GOC:TermGenie] is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0048520 ! positive regulation of behavior is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1902435 ! regulation of male mating behavior is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0060179 ! male mating behavior relationship: positively_regulates GO:0060179 ! male mating behavior created_by: mm2 creation_date: 2013-10-09T15:50:14Z [Term] id: GO:1902504 name: regulation of signal transduction involved in mitotic G2 DNA damage checkpoint namespace: biological_process def: "Any process that modulates the frequency, rate or extent of signal transduction involved in mitotic G2 DNA damage checkpoint." [GOC:TermGenie, PMID:16299494] synonym: "regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] is_a: GO:0010389 ! regulation of G2/M transition of mitotic cell cycle is_a: GO:1902531 ! regulation of intracellular signal transduction is_a: GO:1904289 ! regulation of mitotic DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint relationship: regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint created_by: vw creation_date: 2013-11-14T15:26:46Z [Term] id: GO:1902505 name: negative regulation of signal transduction involved in mitotic G2 DNA damage checkpoint namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of signal transduction involved in mitotic G2 DNA damage checkpoint." [GOC:TermGenie, PMID:16299494] synonym: "down regulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "down regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "down-regulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "down-regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "downregulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "downregulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "inhibition of signal transduction involved in mitotic G2 DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "inhibition of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "negative regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] is_a: GO:0010971 ! positive regulation of G2/M transition of mitotic cell cycle is_a: GO:1902504 ! regulation of signal transduction involved in mitotic G2 DNA damage checkpoint is_a: GO:1902532 ! negative regulation of intracellular signal transduction is_a: GO:1904290 ! negative regulation of mitotic DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint relationship: negatively_regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint created_by: vw creation_date: 2013-11-14T15:26:55Z [Term] id: GO:1902506 name: positive regulation of signal transduction involved in mitotic G2 DNA damage checkpoint namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of signal transduction involved in mitotic G2 DNA damage checkpoint." [GOC:TermGenie, PMID:16299494] synonym: "activation of signal transduction involved in mitotic G2 DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "activation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "positive regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "up regulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "up regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "up-regulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "up-regulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "upregulation of signal transduction involved in mitotic G2 DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "upregulation of signal transduction involved in mitotic G2/M transition DNA damage checkpoint" EXACT [GOC:TermGenie] is_a: GO:1902504 ! regulation of signal transduction involved in mitotic G2 DNA damage checkpoint is_a: GO:1902533 ! positive regulation of intracellular signal transduction is_a: GO:1904291 ! positive regulation of mitotic DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint relationship: positively_regulates GO:0072434 ! signal transduction involved in mitotic G2 DNA damage checkpoint created_by: vw creation_date: 2013-11-14T15:27:04Z [Term] id: GO:1902513 name: regulation of organelle transport along microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of organelle transport along microtubule." [GOC:dph, GOC:TermGenie, PMID:21147087] synonym: "regulation of microtubule-based organelle localization" EXACT [GOC:TermGenie] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0060632 ! regulation of microtubule-based movement intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0072384 ! organelle transport along microtubule relationship: regulates GO:0072384 ! organelle transport along microtubule created_by: dph creation_date: 2013-11-15T20:15:17Z [Term] id: GO:1902531 name: regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010627 def: "Any process that modulates the frequency, rate or extent of intracellular signal transduction." [GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "regulation of intracellular protein kinase cascade" NARROW [] synonym: "regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "regulation of intracellular signaling cascade" EXACT [GOC:TermGenie] synonym: "regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009966 ! regulation of signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0035556 ! intracellular signal transduction relationship: regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:32:52Z [Term] id: GO:1902532 name: negative regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010741 def: "Any process that stops, prevents or reduces the frequency, rate or extent of intracellular signal transduction." [GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "down regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "down regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "down regulation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "down regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "down regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "down regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "down-regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "down-regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "down-regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down-regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "down-regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "down-regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down-regulation of signal transmission via intracellular cascade" RELATED [GOC:TermGenie] synonym: "downregulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "downregulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "downregulation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "downregulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "downregulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "downregulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "downregulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signal transduction" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling chain" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "inhibition of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "inhibition of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "negative regulation of intracellular protein kinase cascade" EXACT [] synonym: "negative regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "negative regulation of intracellular signaling cascade" EXACT [GOC:TermGenie] synonym: "negative regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "negative regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "negative regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "negative regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:1902531 ! regulation of intracellular signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0035556 ! intracellular signal transduction relationship: negatively_regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:33:01Z [Term] id: GO:1902533 name: positive regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010740 def: "Any process that activates or increases the frequency, rate or extent of intracellular signal transduction." [GOC:BHF, GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "activation of intracellular signal transduction" NARROW [GOC:TermGenie] synonym: "activation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling chain" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "activation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "activation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "positive regulation of intracellular protein kinase cascade" NARROW [] synonym: "positive regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "positive regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "positive regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "positive regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "positive regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "positive regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "up regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "up regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "up regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "up regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "up regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "up-regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "up-regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "up-regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up-regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "up-regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "up-regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up-regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "upregulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "upregulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "upregulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "upregulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "upregulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "upregulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "upregulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009967 ! positive regulation of signal transduction is_a: GO:1902531 ! regulation of intracellular signal transduction intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0035556 ! intracellular signal transduction relationship: positively_regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:33:10Z [Term] id: GO:1902576 name: negative regulation of nuclear cell cycle DNA replication namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of nuclear cell cycle DNA replication." [GOC:TermGenie, PMID:19033384] synonym: "down regulation of DNA replication during S phase" RELATED [GOC:TermGenie] synonym: "down regulation of DNA replication involved in S phase" EXACT [GOC:TermGenie] synonym: "down regulation of DNA replication involved in S-phase" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA replication during S phase" RELATED [GOC:TermGenie] synonym: "down-regulation of DNA replication involved in S phase" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA replication involved in S-phase" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of DNA replication during S phase" RELATED [GOC:TermGenie] synonym: "downregulation of DNA replication involved in S phase" EXACT [GOC:TermGenie] synonym: "downregulation of DNA replication involved in S-phase" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "inhibition of DNA replication during S phase" RELATED [GOC:TermGenie] synonym: "inhibition of DNA replication involved in S phase" NARROW [GOC:TermGenie] synonym: "inhibition of DNA replication involved in S-phase" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "negative regulation of DNA replication during S phase" RELATED [GOC:TermGenie] synonym: "negative regulation of DNA replication involved in S phase" EXACT [GOC:TermGenie] synonym: "negative regulation of DNA replication involved in S-phase" EXACT [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0033262 ! regulation of nuclear cell cycle DNA replication is_a: GO:2000104 ! negative regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0033260 ! nuclear DNA replication relationship: negatively_regulates GO:0033260 ! nuclear DNA replication created_by: mah creation_date: 2013-12-17T14:03:02Z [Term] id: GO:1902667 name: regulation of axon guidance namespace: biological_process def: "Any process that modulates the frequency, rate or extent of axon guidance." [GO_REF:0000058, GOC:hjd, GOC:TermGenie, PMID:23006775] synonym: "regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "regulation of axon pathfinding" EXACT [GOC:TermGenie] is_a: GO:0050770 ! regulation of axonogenesis is_a: GO:0050920 ! regulation of chemotaxis is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007411 ! axon guidance relationship: regulates GO:0007411 ! axon guidance created_by: hjd creation_date: 2014-01-31T18:50:10Z [Term] id: GO:1902668 name: negative regulation of axon guidance namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of axon guidance." [GO_REF:0000058, GOC:hjd, GOC:TermGenie, PMID:23006775] synonym: "down regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "down regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "down regulation of axon guidance" EXACT [GOC:TermGenie] synonym: "down regulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "down-regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "down-regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "down-regulation of axon guidance" EXACT [GOC:TermGenie] synonym: "down-regulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "downregulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "downregulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "downregulation of axon guidance" EXACT [GOC:TermGenie] synonym: "downregulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "inhibition of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "inhibition of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "inhibition of axon guidance" NARROW [GOC:TermGenie] synonym: "inhibition of axon pathfinding" NARROW [GOC:TermGenie] synonym: "negative regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "negative regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "negative regulation of axon pathfinding" EXACT [GOC:TermGenie] is_a: GO:0050771 ! negative regulation of axonogenesis is_a: GO:0050922 ! negative regulation of chemotaxis is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:1902667 ! regulation of axon guidance intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007411 ! axon guidance relationship: negatively_regulates GO:0007411 ! axon guidance created_by: hjd creation_date: 2014-01-31T18:50:19Z [Term] id: GO:1902669 name: positive regulation of axon guidance namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of axon guidance." [GO_REF:0000058, GOC:hjd, GOC:TermGenie, PMID:23006775] synonym: "activation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "activation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "activation of axon guidance" NARROW [GOC:TermGenie] synonym: "activation of axon pathfinding" NARROW [GOC:TermGenie] synonym: "positive regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "positive regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "positive regulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "up regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "up regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "up regulation of axon guidance" EXACT [GOC:TermGenie] synonym: "up regulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "up-regulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "up-regulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "up-regulation of axon guidance" EXACT [GOC:TermGenie] synonym: "up-regulation of axon pathfinding" EXACT [GOC:TermGenie] synonym: "upregulation of axon chemotaxis" RELATED [GOC:TermGenie] synonym: "upregulation of axon growth cone guidance" NARROW [GOC:TermGenie] synonym: "upregulation of axon guidance" EXACT [GOC:TermGenie] synonym: "upregulation of axon pathfinding" EXACT [GOC:TermGenie] is_a: GO:0050772 ! positive regulation of axonogenesis is_a: GO:0050921 ! positive regulation of chemotaxis is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:1902667 ! regulation of axon guidance intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007411 ! axon guidance relationship: positively_regulates GO:0007411 ! axon guidance created_by: hjd creation_date: 2014-01-31T18:50:29Z [Term] id: GO:1902679 name: negative regulation of RNA biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA biosynthetic process." [GO:jl, GO_REF:0000058, GOC:TermGenie] synonym: "down regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "down regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of RNA formation" EXACT [GOC:TermGenie] synonym: "downregulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of RNA anabolism" NARROW [GOC:TermGenie] synonym: "inhibition of RNA biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of RNA biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of RNA formation" NARROW [GOC:TermGenie] synonym: "inhibition of RNA synthesis" NARROW [GOC:TermGenie] synonym: "negative regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA synthesis" EXACT [GOC:TermGenie] is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0051253 ! negative regulation of RNA metabolic process is_a: GO:2001141 ! regulation of RNA biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032774 ! RNA biosynthetic process relationship: negatively_regulates GO:0032774 ! RNA biosynthetic process created_by: jl creation_date: 2014-02-05T16:32:01Z [Term] id: GO:1902680 name: positive regulation of RNA biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of RNA biosynthetic process." [GO:jl, GO_REF:0000058, GOC:TermGenie] synonym: "activation of RNA anabolism" NARROW [GOC:TermGenie] synonym: "activation of RNA biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of RNA biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of RNA formation" NARROW [GOC:TermGenie] synonym: "activation of RNA synthesis" NARROW [GOC:TermGenie] synonym: "positive regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "up regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of RNA formation" EXACT [GOC:TermGenie] synonym: "upregulation of RNA synthesis" EXACT [GOC:TermGenie] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0051254 ! positive regulation of RNA metabolic process is_a: GO:2001141 ! regulation of RNA biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032774 ! RNA biosynthetic process relationship: positively_regulates GO:0032774 ! RNA biosynthetic process created_by: jl creation_date: 2014-02-05T16:32:10Z [Term] id: GO:1902742 name: apoptotic process involved in development namespace: biological_process def: "Any apoptotic process that is involved in anatomical structure development." [GO_REF:0000060, GOC:mtg_apoptosis, GOC:pg, GOC:TermGenie] synonym: "activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "apoptotic process involved in anatomical structure development" EXACT [] synonym: "apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0048856 ! anatomical structure development relationship: part_of GO:0048856 ! anatomical structure development created_by: pr creation_date: 2014-02-28T13:09:43Z [Term] id: GO:1902749 name: regulation of cell cycle G2/M phase transition namespace: biological_process def: "Any signalling pathway that modulates the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the cell cycle." [GO_REF:0000058, GOC:jl, GOC:TermGenie] is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044839 ! cell cycle G2/M phase transition relationship: regulates GO:0044839 ! cell cycle G2/M phase transition created_by: jl creation_date: 2014-03-05T15:38:15Z [Term] id: GO:1902750 name: negative regulation of cell cycle G2/M phase transition namespace: biological_process def: "Any signalling pathway that decreases or inhibits the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the cell cycle." [GO_REF:0000058, GOC:jl, GOC:TermGenie] synonym: "down regulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] synonym: "inhibition of cell cycle G2/M phase transition" NARROW [GOC:TermGenie] is_a: GO:1901988 ! negative regulation of cell cycle phase transition is_a: GO:1902749 ! regulation of cell cycle G2/M phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044839 ! cell cycle G2/M phase transition relationship: negatively_regulates GO:0044839 ! cell cycle G2/M phase transition created_by: jl creation_date: 2014-03-05T15:38:21Z [Term] id: GO:1902751 name: positive regulation of cell cycle G2/M phase transition namespace: biological_process def: "Any signalling pathway that activates or increases the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the cell cycle." [GO_REF:0000058, GOC:jl, GOC:TermGenie] synonym: "activation of cell cycle G2/M phase transition" NARROW [GOC:TermGenie] synonym: "up regulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle G2/M phase transition" EXACT [GOC:TermGenie] is_a: GO:1901989 ! positive regulation of cell cycle phase transition is_a: GO:1902749 ! regulation of cell cycle G2/M phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044839 ! cell cycle G2/M phase transition relationship: positively_regulates GO:0044839 ! cell cycle G2/M phase transition created_by: jl creation_date: 2014-03-05T15:38:27Z [Term] id: GO:1902803 name: regulation of synaptic vesicle transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:23527112] synonym: "regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] is_a: GO:0051049 ! regulation of transport is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048489 ! synaptic vesicle transport relationship: regulates GO:0048489 ! synaptic vesicle transport created_by: kmv creation_date: 2014-03-25T14:56:34Z [Term] id: GO:1902804 name: negative regulation of synaptic vesicle transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:23527112] synonym: "down regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "down regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "down regulation of synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "downregulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "downregulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "downregulation of synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "inhibition of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "inhibition of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "inhibition of synaptic vesicle transport" NARROW [GOC:TermGenie] synonym: "negative regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "negative regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] is_a: GO:0051051 ! negative regulation of transport is_a: GO:1902803 ! regulation of synaptic vesicle transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048489 ! synaptic vesicle transport relationship: negatively_regulates GO:0048489 ! synaptic vesicle transport created_by: kmv creation_date: 2014-03-25T14:56:40Z [Term] id: GO:1902805 name: positive regulation of synaptic vesicle transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:23527112] synonym: "activation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "activation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "activation of synaptic vesicle transport" NARROW [GOC:TermGenie] synonym: "positive regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "positive regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "up regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "up regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "up regulation of synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "upregulation of synaptic vesicle fission" RELATED [GOC:TermGenie] synonym: "upregulation of synaptic vesicle fusion" RELATED [GOC:TermGenie] synonym: "upregulation of synaptic vesicle transport" EXACT [GOC:TermGenie] is_a: GO:0051050 ! positive regulation of transport is_a: GO:1902803 ! regulation of synaptic vesicle transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048489 ! synaptic vesicle transport relationship: positively_regulates GO:0048489 ! synaptic vesicle transport created_by: kmv creation_date: 2014-03-25T14:56:46Z [Term] id: GO:1902806 name: regulation of cell cycle G1/S phase transition namespace: biological_process def: "Any signalling pathway that modulates the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the cell cycle." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie] is_a: GO:1901987 ! regulation of cell cycle phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044843 ! cell cycle G1/S phase transition relationship: regulates GO:0044843 ! cell cycle G1/S phase transition created_by: jl creation_date: 2014-03-26T16:36:14Z [Term] id: GO:1902807 name: negative regulation of cell cycle G1/S phase transition namespace: biological_process def: "Any signalling pathway that decreases or inhibits the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the cell cycle." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "down regulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] synonym: "down-regulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] synonym: "downregulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] synonym: "inhibition of cell cycle G1/S phase transition" NARROW [GOC:TermGenie] is_a: GO:1901988 ! negative regulation of cell cycle phase transition is_a: GO:1902806 ! regulation of cell cycle G1/S phase transition intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044843 ! cell cycle G1/S phase transition relationship: negatively_regulates GO:0044843 ! cell cycle G1/S phase transition created_by: jl creation_date: 2014-03-26T16:36:20Z [Term] id: GO:1902808 name: positive regulation of cell cycle G1/S phase transition namespace: biological_process def: "Any signalling pathway that activates or increases the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the cell cycle." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie] synonym: "activation of cell cycle G1/S phase transition" NARROW [GOC:TermGenie] synonym: "up regulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] synonym: "up-regulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] synonym: "upregulation of cell cycle G1/S phase transition" EXACT [GOC:TermGenie] is_a: GO:1901989 ! positive regulation of cell cycle phase transition is_a: GO:1902806 ! regulation of cell cycle G1/S phase transition intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044843 ! cell cycle G1/S phase transition relationship: positively_regulates GO:0044843 ! cell cycle G1/S phase transition created_by: jl creation_date: 2014-03-26T16:36:32Z [Term] id: GO:1902845 name: negative regulation of mitotic spindle elongation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic spindle elongation." [GO_REF:0000058, GOC:TermGenie, PMID:23087209] synonym: "down regulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "down regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "down-regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "downregulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "inhibition of mitotic spindle elongation" NARROW [GOC:TermGenie] synonym: "inhibition of spindle elongation during mitosis" NARROW [GOC:TermGenie] synonym: "negative regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] is_a: GO:0032888 ! regulation of mitotic spindle elongation is_a: GO:0033048 ! negative regulation of mitotic sister chromatid segregation is_a: GO:0051494 ! negative regulation of cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000022 ! mitotic spindle elongation relationship: negatively_regulates GO:0000022 ! mitotic spindle elongation created_by: vw creation_date: 2014-04-02T08:43:28Z [Term] id: GO:1902846 name: positive regulation of mitotic spindle elongation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic spindle elongation." [GO_REF:0000058, GOC:TermGenie, PMID:23087209] synonym: "activation of mitotic spindle elongation" NARROW [GOC:TermGenie] synonym: "activation of spindle elongation during mitosis" NARROW [GOC:TermGenie] synonym: "positive regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "up regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "up-regulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic spindle elongation" EXACT [GOC:TermGenie] synonym: "upregulation of spindle elongation during mitosis" EXACT [GOC:TermGenie] is_a: GO:0032888 ! regulation of mitotic spindle elongation is_a: GO:0062033 ! positive regulation of mitotic sister chromatid segregation is_a: GO:0110028 ! positive regulation of mitotic spindle organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000022 ! mitotic spindle elongation relationship: positively_regulates GO:0000022 ! mitotic spindle elongation created_by: vw creation_date: 2014-04-02T08:43:34Z [Term] id: GO:1902850 name: microtubule cytoskeleton organization involved in mitosis namespace: biological_process def: "Any microtubule cytoskeleton organization that is involved in mitosis." [GO_REF:0000060, GOC:TermGenie, PMID:18799626] synonym: "microtubule cytoskeleton organisation involved in mitosis" EXACT [GOC:TermGenie] synonym: "microtubule cytoskeleton organization and biogenesis involved in mitosis" RELATED [GOC:TermGenie] synonym: "microtubule dynamics involved in mitosis" EXACT [GOC:TermGenie] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0000226 ! microtubule cytoskeleton organization intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: vw creation_date: 2014-04-02T14:19:38Z [Term] id: GO:1902882 name: regulation of response to oxidative stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to oxidative stress." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16899554] is_a: GO:0080134 ! regulation of response to stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006979 ! response to oxidative stress relationship: regulates GO:0006979 ! response to oxidative stress created_by: kmv creation_date: 2014-04-03T20:29:52Z [Term] id: GO:1902883 name: negative regulation of response to oxidative stress namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of response to oxidative stress." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16899554] synonym: "down regulation of response to oxidative stress" EXACT [GOC:TermGenie] synonym: "down-regulation of response to oxidative stress" EXACT [GOC:TermGenie] synonym: "downregulation of response to oxidative stress" EXACT [GOC:TermGenie] synonym: "inhibition of response to oxidative stress" NARROW [GOC:TermGenie] is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:1902882 ! regulation of response to oxidative stress intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006979 ! response to oxidative stress relationship: negatively_regulates GO:0006979 ! response to oxidative stress created_by: kmv creation_date: 2014-04-03T20:30:20Z [Term] id: GO:1902884 name: positive regulation of response to oxidative stress namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of response to oxidative stress." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16899554] synonym: "activation of response to oxidative stress" NARROW [GOC:TermGenie] synonym: "up regulation of response to oxidative stress" EXACT [GOC:TermGenie] synonym: "up-regulation of response to oxidative stress" EXACT [GOC:TermGenie] synonym: "upregulation of response to oxidative stress" EXACT [GOC:TermGenie] is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:1902882 ! regulation of response to oxidative stress intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006979 ! response to oxidative stress relationship: positively_regulates GO:0006979 ! response to oxidative stress created_by: kmv creation_date: 2014-04-03T20:30:47Z [Term] id: GO:1902902 name: negative regulation of autophagosome assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of autophagosome assembly." [GO_REF:0000058, GOC:als, GOC:autophagy, GOC:TermGenie, PMID:21975012] synonym: "down regulation of autophagic vacuole assembly" EXACT [GOC:TermGenie] synonym: "down regulation of autophagic vacuole formation" RELATED [GOC:TermGenie] synonym: "down regulation of autophagosome biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of autophagosome formation" EXACT [GOC:TermGenie] synonym: "down regulation of PAS formation" NARROW [GOC:TermGenie] synonym: "down-regulation of autophagic vacuole assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of autophagic vacuole formation" RELATED [GOC:TermGenie] synonym: "down-regulation of autophagosome biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of autophagosome formation" EXACT [GOC:TermGenie] synonym: "down-regulation of PAS formation" NARROW [GOC:TermGenie] synonym: "downregulation of autophagic vacuole assembly" EXACT [GOC:TermGenie] synonym: "downregulation of autophagic vacuole formation" RELATED [GOC:TermGenie] synonym: "downregulation of autophagosome biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of autophagosome formation" EXACT [GOC:TermGenie] synonym: "downregulation of PAS formation" NARROW [GOC:TermGenie] synonym: "inhibition of autophagic vacuole assembly" NARROW [GOC:TermGenie] synonym: "inhibition of autophagic vacuole formation" RELATED [GOC:TermGenie] synonym: "inhibition of autophagosome biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of autophagosome formation" NARROW [GOC:TermGenie] synonym: "inhibition of PAS formation" NARROW [GOC:TermGenie] synonym: "negative regulation of autophagic vacuole assembly" EXACT [GOC:autophagy] synonym: "negative regulation of autophagic vacuole formation" RELATED [GOC:TermGenie] synonym: "negative regulation of autophagosome biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of autophagosome formation" EXACT [GOC:TermGenie] synonym: "negative regulation of PAS formation" NARROW [GOC:TermGenie] is_a: GO:0016242 ! negative regulation of macroautophagy is_a: GO:1902116 ! negative regulation of organelle assembly is_a: GO:2000785 ! regulation of autophagosome assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000045 ! autophagosome assembly relationship: negatively_regulates GO:0000045 ! autophagosome assembly created_by: als creation_date: 2014-04-15T10:37:40Z [Term] id: GO:1902903 name: regulation of supramolecular fiber organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of supramolecular fiber organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "regulation of fibril organisation" RELATED [GOC:TermGenie] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0097435 ! supramolecular fiber organization relationship: regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:36Z [Term] id: GO:1902904 name: negative regulation of supramolecular fiber organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of fibril organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "down regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "down regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "down-regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "down-regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "downregulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "downregulation of fibril organization" RELATED [GOC:TermGenie] synonym: "inhibition of fibril organisation" NARROW [GOC:TermGenie] synonym: "inhibition of fibril organization" NARROW [GOC:TermGenie] synonym: "negative regulation of fibril organisation" RELATED [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0097435 ! supramolecular fiber organization relationship: negatively_regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:42Z [Term] id: GO:1902905 name: positive regulation of supramolecular fiber organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of supramolecular fiber organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "activation of fibril organisation" NARROW [GOC:TermGenie] synonym: "activation of fibril organization" NARROW [GOC:TermGenie] synonym: "positive regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "up-regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up-regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "upregulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "upregulation of fibril organization" RELATED [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0097435 ! supramolecular fiber organization relationship: positively_regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:48Z [Term] id: GO:1902969 name: mitotic DNA replication namespace: biological_process def: "Any nuclear DNA replication that is involved in a mitotic cell cycle." [GO_REF:0000060, GOC:TermGenie] synonym: "DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "mitotic cell cycle DNA replication" EXACT [] synonym: "mitotic nuclear cell cycle DNA replication" EXACT [] synonym: "nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [] is_a: GO:0033260 ! nuclear DNA replication is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0033260 ! nuclear DNA replication intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: jl creation_date: 2014-05-06T15:03:03Z [Term] id: GO:1902974 name: meiotic DNA replication initiation namespace: biological_process def: "Any DNA replication initiation involved in meiotic cell cycle DNA replication." [GO_REF:0000060, GOC:TermGenie] synonym: "DNA replication initiation involved in meiotic cell cycle DNA replication" EXACT [] synonym: "DNA replication initiation involved in meiotic DNA replication" EXACT [] is_a: GO:1902315 ! nuclear cell cycle DNA replication initiation is_a: GO:1903046 ! meiotic cell cycle process intersection_of: GO:1902315 ! nuclear cell cycle DNA replication initiation intersection_of: part_of GO:0051321 ! meiotic cell cycle created_by: jl creation_date: 2014-05-06T15:21:06Z [Term] id: GO:1902975 name: mitotic DNA replication initiation namespace: biological_process def: "Any DNA replication initiation involved in mitotic cell cycle DNA replication." [GO_REF:0000060, GOC:TermGenie] synonym: "DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [] is_a: GO:1902315 ! nuclear cell cycle DNA replication initiation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:1902315 ! nuclear cell cycle DNA replication initiation intersection_of: part_of GO:1902969 ! mitotic DNA replication relationship: part_of GO:1902969 ! mitotic DNA replication created_by: jl creation_date: 2014-05-06T15:21:11Z [Term] id: GO:1903008 name: organelle disassembly namespace: biological_process def: "The disaggregation of an organelle into its constituent components." [GO_REF:0000079, GOC:TermGenie] synonym: "organelle degradation" EXACT [] is_a: GO:0006996 ! organelle organization is_a: GO:0022411 ! cellular component disassembly created_by: jl creation_date: 2014-05-13T12:36:03Z [Term] id: GO:1903046 name: meiotic cell cycle process namespace: biological_process def: "A process that is part of the meiotic cell cycle." [GO_REF:0000060, GOC:mtg_cell_cycle, GOC:TermGenie] subset: gocheck_do_not_annotate is_a: GO:0022402 ! cell cycle process is_a: GO:0022414 ! reproductive process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0051321 ! meiotic cell cycle disjoint_from: GO:1903047 ! mitotic cell cycle process relationship: part_of GO:0051321 ! meiotic cell cycle created_by: jl creation_date: 2014-05-22T14:22:28Z [Term] id: GO:1903047 name: mitotic cell cycle process namespace: biological_process def: "A process that is part of the mitotic cell cycle." [GO_REF:0000060, GOC:mtg_cell_cycle, GOC:TermGenie] subset: gocheck_do_not_annotate is_a: GO:0022402 ! cell cycle process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0000278 ! mitotic cell cycle relationship: part_of GO:0000278 ! mitotic cell cycle created_by: jl creation_date: 2014-05-22T14:22:34Z [Term] id: GO:1903050 name: regulation of proteolysis involved in cellular protein catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of proteolysis involved in cellular protein catabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:18307834] comment: overexpression of cathepsin C propeptide significantly increased the degradation of of intestinal alkaline phosphatase (IAP) synonym: "regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] is_a: GO:0030162 ! regulation of proteolysis is_a: GO:1903362 ! regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process relationship: regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process created_by: rl creation_date: 2014-05-22T18:00:45Z [Term] id: GO:1903051 name: negative regulation of proteolysis involved in cellular protein catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of proteolysis involved in cellular protein catabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:18307834] comment: Overexpression of cathepsin C propeptide significantly increased the degradation of intestinal alkaline phosphatase (IAP). synonym: "down regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "down regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "down regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "down regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "down regulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "down-regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "down-regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "down-regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "down-regulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "downregulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "downregulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "downregulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "downregulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "inhibition of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "inhibition of peptidolysis involved in cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of peptidolysis involved in cellular protein catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "inhibition of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "inhibition of proteolysis involved in cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "negative regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "negative regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "negative regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "negative regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "negative regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] is_a: GO:0045861 ! negative regulation of proteolysis is_a: GO:1903050 ! regulation of proteolysis involved in cellular protein catabolic process is_a: GO:1903363 ! negative regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process relationship: negatively_regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process created_by: rl creation_date: 2014-05-22T18:00:51Z [Term] id: GO:1903052 name: positive regulation of proteolysis involved in cellular protein catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of proteolysis involved in cellular protein catabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:18307834] comment: overexpression of cathepsin C propeptide significantly increased the degradation of of intestinal alkaline phosphatase (IAP) synonym: "activation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "activation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "activation of peptidolysis involved in cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "activation of peptidolysis involved in cellular protein catabolism" NARROW [GOC:TermGenie] synonym: "activation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "activation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "activation of proteolysis involved in cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "positive regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "positive regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "positive regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "positive regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "positive regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "up regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "up regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "up regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "up regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "up regulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "up-regulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "up-regulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "up-regulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "up-regulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of peptidolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "upregulation of peptidolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "upregulation of peptidolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of peptidolysis involved in cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of proteolysis during cellular protein catabolic process" RELATED [GOC:TermGenie] synonym: "upregulation of proteolysis during cellular protein catabolism" RELATED [GOC:TermGenie] synonym: "upregulation of proteolysis involved in cellular protein catabolic process" EXACT [GOC:TermGenie] is_a: GO:0045862 ! positive regulation of proteolysis is_a: GO:1903050 ! regulation of proteolysis involved in cellular protein catabolic process is_a: GO:1903364 ! positive regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process relationship: positively_regulates GO:0051603 ! proteolysis involved in cellular protein catabolic process created_by: rl creation_date: 2014-05-22T18:00:57Z [Term] id: GO:1903108 name: regulation of mitochondrial transcription namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription occuring in the mitochondrion." [GO_REF:0000058, GOC:TermGenie, PMID:21357609] synonym: "regulation of mitochondrial transcription" EXACT [GOC:TermGenie] synonym: "regulation of transcription from mitochondrial promoter" EXACT [] is_a: GO:0006355 ! regulation of transcription, DNA-templated is_a: GO:0062125 ! regulation of mitochondrial gene expression intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006390 ! mitochondrial transcription relationship: regulates GO:0006390 ! mitochondrial transcription created_by: al creation_date: 2014-06-09T11:53:14Z [Term] id: GO:1903109 name: positive regulation of mitochondrial transcription namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transcription occuring in the mitochondrion." [GO_REF:0000058, GOC:TermGenie, PMID:21357609] synonym: "activation of mitochondrial transcription" NARROW [GOC:TermGenie] synonym: "activation of transcription from mitochondrial promoter" NARROW [GOC:TermGenie] synonym: "positive regulation of mitochondrial transcription" EXACT [GOC:TermGenie] synonym: "positive regulation of transcription from mitochondrial promoter" EXACT [] synonym: "up regulation of mitochondrial transcription" EXACT [GOC:TermGenie] synonym: "up regulation of transcription from mitochondrial promoter" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial transcription" EXACT [GOC:TermGenie] synonym: "up-regulation of transcription from mitochondrial promoter" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial transcription" EXACT [GOC:TermGenie] synonym: "upregulation of transcription from mitochondrial promoter" EXACT [GOC:TermGenie] is_a: GO:0045893 ! positive regulation of transcription, DNA-templated is_a: GO:1903108 ! regulation of mitochondrial transcription intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006390 ! mitochondrial transcription relationship: positively_regulates GO:0006390 ! mitochondrial transcription created_by: al creation_date: 2014-06-09T11:53:20Z [Term] id: GO:1903179 name: regulation of dopamine biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of dopamine biosynthetic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "regulation of dopamine synthesis" EXACT [GOC:TermGenie] is_a: GO:0031326 ! regulation of cellular biosynthetic process is_a: GO:0042053 ! regulation of dopamine metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042416 ! dopamine biosynthetic process relationship: regulates GO:0042416 ! dopamine biosynthetic process created_by: bf creation_date: 2014-07-14T12:17:41Z [Term] id: GO:1903180 name: negative regulation of dopamine biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of dopamine biosynthetic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "down regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "down regulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "down-regulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "downregulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of dopamine anabolism" NARROW [GOC:TermGenie] synonym: "inhibition of dopamine biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of dopamine biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of dopamine formation" NARROW [GOC:TermGenie] synonym: "inhibition of dopamine synthesis" NARROW [GOC:TermGenie] synonym: "negative regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "negative regulation of dopamine synthesis" EXACT [GOC:TermGenie] is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0045963 ! negative regulation of dopamine metabolic process is_a: GO:1903179 ! regulation of dopamine biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042416 ! dopamine biosynthetic process relationship: negatively_regulates GO:0042416 ! dopamine biosynthetic process created_by: bf creation_date: 2014-07-14T12:17:47Z [Term] id: GO:1903181 name: positive regulation of dopamine biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of dopamine biosynthetic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:19703902] synonym: "activation of dopamine anabolism" NARROW [GOC:TermGenie] synonym: "activation of dopamine biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of dopamine biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of dopamine formation" NARROW [GOC:TermGenie] synonym: "activation of dopamine synthesis" NARROW [GOC:TermGenie] synonym: "positive regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "positive regulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "up regulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "up-regulation of dopamine synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of dopamine anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of dopamine biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of dopamine biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of dopamine formation" EXACT [GOC:TermGenie] synonym: "upregulation of dopamine synthesis" EXACT [GOC:TermGenie] is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0045964 ! positive regulation of dopamine metabolic process is_a: GO:1903179 ! regulation of dopamine biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042416 ! dopamine biosynthetic process relationship: positively_regulates GO:0042416 ! dopamine biosynthetic process created_by: bf creation_date: 2014-07-14T12:17:53Z [Term] id: GO:1903186 name: regulation of vitellogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vitellogenesis." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:19467235] synonym: "regulation of yolk production" EXACT [GOC:TermGenie] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0051128 ! regulation of cellular component organization is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007296 ! vitellogenesis relationship: regulates GO:0007296 ! vitellogenesis created_by: mr creation_date: 2014-07-14T19:28:00Z [Term] id: GO:1903187 name: negative regulation of vitellogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vitellogenesis." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:19467235] synonym: "down regulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of yolk production" EXACT [GOC:TermGenie] synonym: "down-regulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of yolk production" EXACT [GOC:TermGenie] synonym: "downregulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of yolk production" EXACT [GOC:TermGenie] synonym: "inhibition of vitellogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of yolk production" NARROW [GOC:TermGenie] synonym: "negative regulation of yolk production" EXACT [GOC:TermGenie] is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903186 ! regulation of vitellogenesis is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007296 ! vitellogenesis relationship: negatively_regulates GO:0007296 ! vitellogenesis created_by: mr creation_date: 2014-07-14T19:28:06Z [Term] id: GO:1903188 name: positive regulation of vitellogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vitellogenesis." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:19467235] synonym: "activation of vitellogenesis" NARROW [GOC:TermGenie] synonym: "activation of yolk production" NARROW [GOC:TermGenie] synonym: "positive regulation of yolk production" EXACT [GOC:TermGenie] synonym: "up regulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of yolk production" EXACT [GOC:TermGenie] synonym: "up-regulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of yolk production" EXACT [GOC:TermGenie] synonym: "upregulation of vitellogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of yolk production" EXACT [GOC:TermGenie] is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1903186 ! regulation of vitellogenesis is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007296 ! vitellogenesis relationship: positively_regulates GO:0007296 ! vitellogenesis created_by: mr creation_date: 2014-07-14T19:28:12Z [Term] id: GO:1903305 name: regulation of regulated secretory pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of regulated secretory pathway." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:12526776] comment: An example of this is protein domain-specific expression of Synaptotagmin 1 in rat (P21707) in PMID:12526776 inferred from mutant phenotype. is_a: GO:0017157 ! regulation of exocytosis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0045055 ! regulated exocytosis relationship: regulates GO:0045055 ! regulated exocytosis created_by: pad creation_date: 2014-08-18T10:04:53Z [Term] id: GO:1903306 name: negative regulation of regulated secretory pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of regulated secretory pathway." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:12526776] comment: An example of this is protein domain-specific expression of Synaptotagmin 1 in rat (P21707) in PMID:12526776 inferred from mutant phenotype. synonym: "down regulation of regulated secretory pathway" EXACT [GOC:TermGenie] synonym: "down-regulation of regulated secretory pathway" EXACT [GOC:TermGenie] synonym: "downregulation of regulated secretory pathway" EXACT [GOC:TermGenie] synonym: "inhibition of regulated secretory pathway" NARROW [GOC:TermGenie] is_a: GO:0045920 ! negative regulation of exocytosis is_a: GO:1903305 ! regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0045055 ! regulated exocytosis relationship: negatively_regulates GO:0045055 ! regulated exocytosis created_by: pad creation_date: 2014-08-18T10:05:02Z [Term] id: GO:1903307 name: positive regulation of regulated secretory pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of regulated secretory pathway." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:12526776] comment: An example of this is protein domain-specific expression of Synaptotagmin 1 in rat (P21707) in PMID:12526776 inferred from mutant phenotype. synonym: "activation of regulated secretory pathway" NARROW [GOC:TermGenie] synonym: "up regulation of regulated secretory pathway" EXACT [GOC:TermGenie] synonym: "up-regulation of regulated secretory pathway" EXACT [GOC:TermGenie] synonym: "upregulation of regulated secretory pathway" EXACT [GOC:TermGenie] is_a: GO:0045921 ! positive regulation of exocytosis is_a: GO:1903305 ! regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0045055 ! regulated exocytosis relationship: positively_regulates GO:0045055 ! regulated exocytosis created_by: pad creation_date: 2014-08-18T10:05:10Z [Term] id: GO:1903311 name: regulation of mRNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mRNA metabolic process." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "regulation of mRNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016071 ! mRNA metabolic process relationship: regulates GO:0016071 ! mRNA metabolic process created_by: vw creation_date: 2014-08-18T11:52:26Z [Term] id: GO:1903312 name: negative regulation of mRNA metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mRNA metabolic process." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "down regulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "inhibition of mRNA metabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of mRNA metabolism" NARROW [GOC:TermGenie] synonym: "negative regulation of mRNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0051253 ! negative regulation of RNA metabolic process is_a: GO:1903311 ! regulation of mRNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016071 ! mRNA metabolic process relationship: negatively_regulates GO:0016071 ! mRNA metabolic process created_by: vw creation_date: 2014-08-18T11:52:34Z [Term] id: GO:1903313 name: positive regulation of mRNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mRNA metabolic process." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "activation of mRNA metabolic process" NARROW [GOC:TermGenie] synonym: "activation of mRNA metabolism" NARROW [GOC:TermGenie] synonym: "positive regulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "up regulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of mRNA metabolism" EXACT [GOC:TermGenie] synonym: "upregulation of mRNA metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of mRNA metabolism" EXACT [GOC:TermGenie] is_a: GO:0051254 ! positive regulation of RNA metabolic process is_a: GO:1903311 ! regulation of mRNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016071 ! mRNA metabolic process relationship: positively_regulates GO:0016071 ! mRNA metabolic process created_by: vw creation_date: 2014-08-18T11:52:42Z [Term] id: GO:1903353 name: regulation of nucleus organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nucleus organization." [GO_REF:0000058, GOC:TermGenie, PMID:16943282] synonym: "regulation of nuclear morphology" RELATED [GOC:TermGenie] synonym: "regulation of nuclear organisation" EXACT [GOC:TermGenie] synonym: "regulation of nuclear organization" EXACT [GOC:TermGenie] synonym: "regulation of nuclear organization and biogenesis" RELATED [GOC:TermGenie] synonym: "regulation of nucleus organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006997 ! nucleus organization relationship: regulates GO:0006997 ! nucleus organization created_by: hjd creation_date: 2014-08-20T19:36:16Z [Term] id: GO:1903362 name: regulation of cellular protein catabolic process namespace: biological_process alt_id: GO:2000598 def: "Any process that modulates the frequency, rate or extent of cellular protein catabolic process." [GO_REF:0000058, GOC:kmv, GOC:obol, GOC:TermGenie, PMID:24785082] synonym: "regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "regulation of cyclin breakdown" NARROW [GOC:obol] synonym: "regulation of cyclin catabolic process" NARROW [] synonym: "regulation of cyclin catabolism" NARROW [GOC:obol] synonym: "regulation of cyclin degradation" NARROW [GOC:obol] synonym: "regulation of degradation of cyclin" NARROW [GOC:obol] is_a: GO:0031329 ! regulation of cellular catabolic process is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0042176 ! regulation of protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044257 ! cellular protein catabolic process relationship: regulates GO:0044257 ! cellular protein catabolic process created_by: kmv creation_date: 2014-08-21T15:05:45Z [Term] id: GO:1903363 name: negative regulation of cellular protein catabolic process namespace: biological_process alt_id: GO:2000599 def: "Any process that stops, prevents or reduces the frequency, rate or extent of cellular protein catabolic process." [GO_REF:0000058, GOC:kmv, GOC:obol, GOC:TermGenie, PMID:24785082] synonym: "down regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "inhibition of cellular protein breakdown" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein degradation" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "negative regulation of cyclin breakdown" NARROW [GOC:obol] synonym: "negative regulation of cyclin catabolic process" NARROW [] synonym: "negative regulation of cyclin catabolism" NARROW [GOC:obol] synonym: "negative regulation of cyclin degradation" NARROW [GOC:obol] synonym: "negative regulation of degradation of cyclin" NARROW [GOC:obol] is_a: GO:0031330 ! negative regulation of cellular catabolic process is_a: GO:0032269 ! negative regulation of cellular protein metabolic process is_a: GO:0042177 ! negative regulation of protein catabolic process is_a: GO:1903362 ! regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044257 ! cellular protein catabolic process relationship: negatively_regulates GO:0044257 ! cellular protein catabolic process created_by: kmv creation_date: 2014-08-21T15:05:53Z [Term] id: GO:1903364 name: positive regulation of cellular protein catabolic process namespace: biological_process alt_id: GO:2000600 def: "Any process that activates or increases the frequency, rate or extent of cellular protein catabolic process." [GO_REF:0000058, GOC:kmv, GOC:obol, GOC:TermGenie, PMID:24785082] synonym: "activation of cellular protein breakdown" NARROW [GOC:TermGenie] synonym: "activation of cellular protein catabolic process" NARROW [GOC:TermGenie] synonym: "activation of cellular protein catabolism" NARROW [GOC:TermGenie] synonym: "activation of cellular protein degradation" NARROW [GOC:TermGenie] synonym: "positive regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "positive regulation of cyclin breakdown" NARROW [GOC:obol] synonym: "positive regulation of cyclin catabolic process" NARROW [] synonym: "positive regulation of cyclin catabolism" NARROW [GOC:obol] synonym: "positive regulation of cyclin degradation" NARROW [GOC:obol] synonym: "positive regulation of degradation of cyclin" NARROW [GOC:obol] synonym: "up regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein degradation" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein breakdown" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein degradation" EXACT [GOC:TermGenie] is_a: GO:0031331 ! positive regulation of cellular catabolic process is_a: GO:0032270 ! positive regulation of cellular protein metabolic process is_a: GO:0045732 ! positive regulation of protein catabolic process is_a: GO:1903362 ! regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044257 ! cellular protein catabolic process relationship: positively_regulates GO:0044257 ! cellular protein catabolic process created_by: kmv creation_date: 2014-08-21T15:06:01Z [Term] id: GO:1903368 name: regulation of foraging behavior namespace: biological_process def: "Any process that modulates the frequency, rate or extent of foraging behavior." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:8677262] is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0060756 ! foraging behavior relationship: regulates GO:0060756 ! foraging behavior created_by: mr creation_date: 2014-08-22T03:03:04Z [Term] id: GO:1903369 name: negative regulation of foraging behavior namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of foraging behavior." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:8677262] synonym: "down regulation of foraging behavior" EXACT [GOC:TermGenie] synonym: "down-regulation of foraging behavior" EXACT [GOC:TermGenie] synonym: "downregulation of foraging behavior" EXACT [GOC:TermGenie] synonym: "inhibition of foraging behavior" NARROW [GOC:TermGenie] is_a: GO:0048521 ! negative regulation of behavior is_a: GO:1903368 ! regulation of foraging behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0060756 ! foraging behavior relationship: negatively_regulates GO:0060756 ! foraging behavior created_by: mr creation_date: 2014-08-22T03:03:12Z [Term] id: GO:1903370 name: positive regulation of foraging behavior namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of foraging behavior." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:8677262] synonym: "activation of foraging behavior" NARROW [GOC:TermGenie] synonym: "up regulation of foraging behavior" EXACT [GOC:TermGenie] synonym: "up-regulation of foraging behavior" EXACT [GOC:TermGenie] synonym: "upregulation of foraging behavior" EXACT [GOC:TermGenie] is_a: GO:0048520 ! positive regulation of behavior is_a: GO:1903368 ! regulation of foraging behavior intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0060756 ! foraging behavior relationship: positively_regulates GO:0060756 ! foraging behavior created_by: mr creation_date: 2014-08-22T03:03:20Z [Term] id: GO:1903379 name: regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:9490640] is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:0060623 ! regulation of chromosome condensation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007076 ! mitotic chromosome condensation relationship: regulates GO:0007076 ! mitotic chromosome condensation created_by: al creation_date: 2014-08-26T13:57:13Z [Term] id: GO:1903380 name: positive regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:9490640] synonym: "activation of mitotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "up regulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0062033 ! positive regulation of mitotic sister chromatid segregation is_a: GO:1903379 ! regulation of mitotic chromosome condensation is_a: GO:1905821 ! positive regulation of chromosome condensation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007076 ! mitotic chromosome condensation relationship: positively_regulates GO:0007076 ! mitotic chromosome condensation created_by: al creation_date: 2014-08-26T13:57:29Z [Term] id: GO:1903421 name: regulation of synaptic vesicle recycling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synaptic vesicle recycling." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:22745285] comment: An example of this is mouse LRRK2 (Q5S006) in PMID:21307259 inferred from mutant phenotype synonym: "regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] is_a: GO:0098693 ! regulation of synaptic vesicle cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0036465 ! synaptic vesicle recycling relationship: regulates GO:0036465 ! synaptic vesicle recycling created_by: pad creation_date: 2014-09-09T15:27:50Z [Term] id: GO:1903422 name: negative regulation of synaptic vesicle recycling namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synaptic vesicle recycling." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:22745285] comment: An example of this is mouse LRRK2 (Q5S006) in PMID:21307259 inferred from mutant phenotype synonym: "down regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "down regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "down regulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] synonym: "down-regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "down-regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "down-regulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] synonym: "downregulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "downregulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "downregulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] synonym: "inhibition of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "inhibition of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "inhibition of synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "negative regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "negative regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] is_a: GO:0051051 ! negative regulation of transport is_a: GO:1903421 ! regulation of synaptic vesicle recycling intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0036465 ! synaptic vesicle recycling relationship: negatively_regulates GO:0036465 ! synaptic vesicle recycling created_by: pad creation_date: 2014-09-09T15:27:59Z [Term] id: GO:1903423 name: positive regulation of synaptic vesicle recycling namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic vesicle recycling." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:22745285] comment: An example of this is mouse LRRK2 (Q5S006) in PMID:21307259 inferred from mutant phenotype synonym: "activation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "activation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "activation of synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "positive regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "positive regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "up regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "up regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "up regulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] synonym: "up-regulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "up-regulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "up-regulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] synonym: "upregulation of kiss-and-run synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "upregulation of kiss-and-stay synaptic vesicle recycling" NARROW [GOC:TermGenie] synonym: "upregulation of synaptic vesicle recycling" EXACT [GOC:TermGenie] is_a: GO:0051050 ! positive regulation of transport is_a: GO:1903421 ! regulation of synaptic vesicle recycling intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0036465 ! synaptic vesicle recycling relationship: positively_regulates GO:0036465 ! synaptic vesicle recycling created_by: pad creation_date: 2014-09-09T15:28:07Z [Term] id: GO:1903429 name: regulation of cell maturation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell maturation." [GO_REF:0000058, GOC:TermGenie, PMID:17459944] synonym: "regulation of functional differentiation" RELATED [GOC:TermGenie] is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048469 ! cell maturation relationship: regulates GO:0048469 ! cell maturation created_by: jl creation_date: 2014-09-15T13:31:23Z [Term] id: GO:1903430 name: negative regulation of cell maturation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell maturation." [GO_REF:0000058, GOC:TermGenie, PMID:17459944] synonym: "down regulation of cell maturation" EXACT [GOC:TermGenie] synonym: "down regulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "down-regulation of cell maturation" EXACT [GOC:TermGenie] synonym: "down-regulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "downregulation of cell maturation" EXACT [GOC:TermGenie] synonym: "downregulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "inhibition of cell maturation" NARROW [GOC:TermGenie] synonym: "inhibition of functional differentiation" RELATED [GOC:TermGenie] synonym: "negative regulation of functional differentiation" RELATED [GOC:TermGenie] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:1903429 ! regulation of cell maturation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048469 ! cell maturation relationship: negatively_regulates GO:0048469 ! cell maturation created_by: jl creation_date: 2014-09-15T13:31:32Z [Term] id: GO:1903431 name: positive regulation of cell maturation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell maturation." [GO_REF:0000058, GOC:TermGenie, PMID:17459944] synonym: "activation of cell maturation" NARROW [GOC:TermGenie] synonym: "activation of functional differentiation" RELATED [GOC:TermGenie] synonym: "positive regulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "up regulation of cell maturation" EXACT [GOC:TermGenie] synonym: "up regulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "up-regulation of cell maturation" EXACT [GOC:TermGenie] synonym: "up-regulation of functional differentiation" RELATED [GOC:TermGenie] synonym: "upregulation of cell maturation" EXACT [GOC:TermGenie] synonym: "upregulation of functional differentiation" RELATED [GOC:TermGenie] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:1903429 ! regulation of cell maturation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048469 ! cell maturation relationship: positively_regulates GO:0048469 ! cell maturation created_by: jl creation_date: 2014-09-15T13:31:41Z [Term] id: GO:1903463 name: regulation of mitotic cell cycle DNA replication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic cell cycle DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0033262 ! regulation of nuclear cell cycle DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:1902969 ! mitotic DNA replication relationship: regulates GO:1902969 ! mitotic DNA replication created_by: vw creation_date: 2014-09-23T13:38:25Z [Term] id: GO:1903464 name: negative regulation of mitotic cell cycle DNA replication namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic cell cycle DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "down regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "down regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "down regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "down-regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "down-regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "downregulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "downregulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "downregulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "inhibition of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "inhibition of DNA replication involved in S phase involved in mitotic cell cycle" NARROW [GOC:TermGenie] synonym: "inhibition of DNA replication involved in S-phase involved in mitotic cell cycle" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "negative regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "negative regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "negative regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "negative regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:1902576 ! negative regulation of nuclear cell cycle DNA replication is_a: GO:1903463 ! regulation of mitotic cell cycle DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:1902969 ! mitotic DNA replication relationship: negatively_regulates GO:1902969 ! mitotic DNA replication created_by: vw creation_date: 2014-09-23T13:38:33Z [Term] id: GO:1903465 name: positive regulation of mitotic cell cycle DNA replication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic cell cycle DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "activation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "activation of DNA replication involved in S phase involved in mitotic cell cycle" NARROW [GOC:TermGenie] synonym: "activation of DNA replication involved in S-phase involved in mitotic cell cycle" NARROW [GOC:TermGenie] synonym: "activation of mitotic cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "activation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "positive regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "positive regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "positive regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "positive regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "up regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "up regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "up regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "up-regulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "up-regulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "up-regulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up-regulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "upregulation of DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "upregulation of DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "upregulation of DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "upregulation of nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] is_a: GO:0010571 ! positive regulation of nuclear cell cycle DNA replication is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:1903463 ! regulation of mitotic cell cycle DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:1902969 ! mitotic DNA replication relationship: positively_regulates GO:1902969 ! mitotic DNA replication created_by: vw creation_date: 2014-09-23T13:38:41Z [Term] id: GO:1903466 name: regulation of mitotic DNA replication initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA replication initiation involved in mitotic DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] is_a: GO:0030174 ! regulation of DNA-dependent DNA replication initiation is_a: GO:1903463 ! regulation of mitotic cell cycle DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:1902975 ! mitotic DNA replication initiation relationship: regulates GO:1902975 ! mitotic DNA replication initiation created_by: vw creation_date: 2014-09-23T13:38:49Z [Term] id: GO:1903467 name: negative regulation of mitotic DNA replication initiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA replication initiation involved in mitotic DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "down regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down regulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "inhibition of DNA replication initiation involved in mitotic cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "inhibition of DNA replication initiation involved in mitotic DNA replication" NARROW [GOC:TermGenie] synonym: "negative regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] is_a: GO:0032297 ! negative regulation of DNA-dependent DNA replication initiation is_a: GO:1903464 ! negative regulation of mitotic cell cycle DNA replication is_a: GO:1903466 ! regulation of mitotic DNA replication initiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:1902975 ! mitotic DNA replication initiation relationship: negatively_regulates GO:1902975 ! mitotic DNA replication initiation created_by: vw creation_date: 2014-09-23T13:38:58Z [Term] id: GO:1903468 name: positive regulation of DNA replication initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA replication initiation involved in mitotic DNA replication." [GO_REF:0000058, GOC:mtg_cell_cycle, GOC:TermGenie, PMID:1234] synonym: "activation of DNA replication initiation involved in mitotic cell cycle DNA replication" NARROW [GOC:TermGenie] synonym: "activation of DNA replication initiation involved in mitotic DNA replication" NARROW [GOC:TermGenie] synonym: "positive regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up regulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "up-regulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "up-regulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "upregulation of DNA replication initiation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "upregulation of DNA replication initiation involved in mitotic DNA replication" EXACT [GOC:TermGenie] is_a: GO:0032298 ! positive regulation of DNA-dependent DNA replication initiation is_a: GO:1903465 ! positive regulation of mitotic cell cycle DNA replication is_a: GO:1903466 ! regulation of mitotic DNA replication initiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:1902975 ! mitotic DNA replication initiation relationship: positively_regulates GO:1902975 ! mitotic DNA replication initiation created_by: vw creation_date: 2014-09-23T13:39:06Z [Term] id: GO:1903490 name: positive regulation of mitotic cytokinesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic cytokinesis." [GO_REF:0000058, GOC:TermGenie, PMID:24920823] synonym: "activation of cytokinesis after mitosis" NARROW [GOC:TermGenie] synonym: "activation of mitotic cytokinesis" NARROW [GOC:TermGenie] synonym: "positive regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "up regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic cytokinesis" EXACT [GOC:TermGenie] synonym: "up-regulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic cytokinesis" EXACT [GOC:TermGenie] synonym: "upregulation of cytokinesis after mitosis" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic cytokinesis" EXACT [GOC:TermGenie] is_a: GO:0032467 ! positive regulation of cytokinesis is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:1902412 ! regulation of mitotic cytokinesis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000281 ! mitotic cytokinesis relationship: positively_regulates GO:0000281 ! mitotic cytokinesis created_by: al creation_date: 2014-09-25T09:00:35Z [Term] id: GO:1903504 name: regulation of mitotic spindle checkpoint namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic spindle checkpoint." [GO_REF:0000058, GOC:TermGenie, PMID:23442800] comment: Note that this term should not be used for direct manual annotation as it should always be possible to specify the type of spindle checkpoint (assembly, orientation or Dma1-dependent). subset: gocheck_do_not_manually_annotate synonym: "regulation of mitotic cell cycle spindle checkpoint" EXACT [GOC:TermGenie] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0090231 ! regulation of spindle checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0071174 ! mitotic spindle checkpoint relationship: regulates GO:0071174 ! mitotic spindle checkpoint created_by: al creation_date: 2014-10-01T13:52:57Z [Term] id: GO:1903506 name: regulation of nucleic acid-templated transcription namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nucleic acid-templated transcription." [GO_REF:0000058, GOC:pr, GOC:TermGenie, GOC:txnOH, GOC:vw] is_a: GO:2001141 ! regulation of RNA biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0097659 ! nucleic acid-templated transcription relationship: regulates GO:0097659 ! nucleic acid-templated transcription created_by: pr creation_date: 2014-10-01T14:44:47Z [Term] id: GO:1903507 name: negative regulation of nucleic acid-templated transcription namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of nucleic acid-templated transcription." [GO_REF:0000058, GOC:pr, GOC:TermGenie, GOC:txnOH, GOC:vw] synonym: "down regulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] synonym: "down-regulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] synonym: "downregulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] synonym: "inhibition of nucleic acid-templated transcription" NARROW [GOC:TermGenie] is_a: GO:1902679 ! negative regulation of RNA biosynthetic process is_a: GO:1903506 ! regulation of nucleic acid-templated transcription intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0097659 ! nucleic acid-templated transcription relationship: negatively_regulates GO:0097659 ! nucleic acid-templated transcription created_by: pr creation_date: 2014-10-01T14:44:56Z [Term] id: GO:1903508 name: positive regulation of nucleic acid-templated transcription namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of nucleic acid-templated transcription." [GO_REF:0000058, GOC:pr, GOC:TermGenie, GOC:txnOH, GOC:vw] synonym: "activation of nucleic acid-templated transcription" NARROW [GOC:TermGenie] synonym: "up regulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] synonym: "up-regulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] synonym: "upregulation of nucleic acid-templated transcription" EXACT [GOC:TermGenie] is_a: GO:1902680 ! positive regulation of RNA biosynthetic process is_a: GO:1903506 ! regulation of nucleic acid-templated transcription intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0097659 ! nucleic acid-templated transcription relationship: positively_regulates GO:0097659 ! nucleic acid-templated transcription created_by: pr creation_date: 2014-10-01T14:45:04Z [Term] id: GO:1903530 name: regulation of secretion by cell namespace: biological_process def: "Any process that modulates the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "regulation of cellular secretion" EXACT [GOC:TermGenie] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0051046 ! regulation of secretion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032940 ! secretion by cell relationship: regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:24:59Z [Term] id: GO:1903531 name: negative regulation of secretion by cell namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "down regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "down regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "down-regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "downregulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "downregulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "inhibition of cellular secretion" NARROW [GOC:TermGenie] synonym: "inhibition of secretion by cell" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular secretion" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051048 ! negative regulation of secretion is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032940 ! secretion by cell relationship: negatively_regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:25:08Z [Term] id: GO:1903532 name: positive regulation of secretion by cell namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "activation of cellular secretion" NARROW [GOC:TermGenie] synonym: "activation of secretion by cell" NARROW [GOC:TermGenie] synonym: "positive regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up-regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "upregulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "upregulation of secretion by cell" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051047 ! positive regulation of secretion is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032940 ! secretion by cell relationship: positively_regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:25:17Z [Term] id: GO:1903561 name: extracellular vesicle namespace: cellular_component def: "Any vesicle that is part of the extracellular region." [GO_REF:0000064, GOC:pm, GOC:TermGenie, PMID:24769233] synonym: "microparticle" RELATED [GOC:vesicles] is_a: GO:0031982 ! vesicle is_a: GO:0043230 ! extracellular organelle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005576 ! extracellular region created_by: jl creation_date: 2014-10-22T14:26:11Z [Term] id: GO:1903573 name: negative regulation of response to endoplasmic reticulum stress namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a response to endoplasmic reticulum stress." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:11381086] synonym: "down regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "down regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "down regulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "down regulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "down-regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "down-regulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "down-regulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "downregulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "downregulation of ER stress response" EXACT [GOC:TermGenie] synonym: "downregulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "downregulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "inhibition of cellular response to endoplasmic reticulum stress" NARROW [GOC:TermGenie] synonym: "inhibition of ER stress response" NARROW [GOC:TermGenie] synonym: "inhibition of response to endoplasmic reticulum stress" NARROW [GOC:TermGenie] synonym: "inhibition of response to ER stress" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "negative regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "negative regulation of response to ER stress" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:1905897 ! regulation of response to endoplasmic reticulum stress intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0034976 ! response to endoplasmic reticulum stress relationship: negatively_regulates GO:0034976 ! response to endoplasmic reticulum stress created_by: bf creation_date: 2014-10-27T16:15:30Z [Term] id: GO:1903649 name: regulation of cytoplasmic transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic transport." [GO_REF:0000058, GOC:TermGenie, PMID:25049409] synonym: "regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] is_a: GO:0032386 ! regulation of intracellular transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016482 ! cytosolic transport relationship: regulates GO:0016482 ! cytosolic transport created_by: jl creation_date: 2014-11-24T13:38:17Z [Term] id: GO:1903650 name: negative regulation of cytoplasmic transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cytoplasmic transport." [GO_REF:0000058, GOC:TermGenie, PMID:25049409] synonym: "down regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "down regulation of cytoplasmic transport" EXACT [GOC:TermGenie] synonym: "down-regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "down-regulation of cytoplasmic transport" EXACT [GOC:TermGenie] synonym: "downregulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "downregulation of cytoplasmic transport" EXACT [GOC:TermGenie] synonym: "inhibition of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "inhibition of cytoplasmic transport" NARROW [GOC:TermGenie] synonym: "negative regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:1903649 ! regulation of cytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016482 ! cytosolic transport relationship: negatively_regulates GO:0016482 ! cytosolic transport created_by: jl creation_date: 2014-11-24T13:38:26Z [Term] id: GO:1903651 name: positive regulation of cytoplasmic transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cytoplasmic transport." [GO_REF:0000058, GOC:TermGenie, PMID:25049409] synonym: "activation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "activation of cytoplasmic transport" NARROW [GOC:TermGenie] synonym: "positive regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "up regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "up regulation of cytoplasmic transport" EXACT [GOC:TermGenie] synonym: "up-regulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "up-regulation of cytoplasmic transport" EXACT [GOC:TermGenie] synonym: "upregulation of cytoplasmic streaming" NARROW [GOC:TermGenie] synonym: "upregulation of cytoplasmic transport" EXACT [GOC:TermGenie] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:1903649 ! regulation of cytoplasmic transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016482 ! cytosolic transport relationship: positively_regulates GO:0016482 ! cytosolic transport created_by: jl creation_date: 2014-11-24T13:38:34Z [Term] id: GO:1903742 name: regulation of anterograde synaptic vesicle transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of anterograde synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, pmid:25329901] subset: goslim_synapse is_a: GO:1901608 ! regulation of vesicle transport along microtubule is_a: GO:1902803 ! regulation of synaptic vesicle transport intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048490 ! anterograde synaptic vesicle transport relationship: regulates GO:0048490 ! anterograde synaptic vesicle transport created_by: kmv creation_date: 2014-12-12T16:28:27Z [Term] id: GO:1903743 name: negative regulation of anterograde synaptic vesicle transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of anterograde synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, pmid:25329901] synonym: "down regulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "down-regulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "downregulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "inhibition of anterograde synaptic vesicle transport" NARROW [GOC:TermGenie] is_a: GO:1901609 ! negative regulation of vesicle transport along microtubule is_a: GO:1902804 ! negative regulation of synaptic vesicle transport is_a: GO:1903742 ! regulation of anterograde synaptic vesicle transport intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048490 ! anterograde synaptic vesicle transport relationship: negatively_regulates GO:0048490 ! anterograde synaptic vesicle transport created_by: kmv creation_date: 2014-12-12T16:28:37Z [Term] id: GO:1903744 name: positive regulation of anterograde synaptic vesicle transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of anterograde synaptic vesicle transport." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, pmid:25329901] synonym: "activation of anterograde synaptic vesicle transport" NARROW [GOC:TermGenie] synonym: "up regulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "up-regulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] synonym: "upregulation of anterograde synaptic vesicle transport" EXACT [GOC:TermGenie] is_a: GO:1901610 ! positive regulation of vesicle transport along microtubule is_a: GO:1902805 ! positive regulation of synaptic vesicle transport is_a: GO:1903742 ! regulation of anterograde synaptic vesicle transport intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048490 ! anterograde synaptic vesicle transport relationship: positively_regulates GO:0048490 ! anterograde synaptic vesicle transport created_by: kmv creation_date: 2014-12-12T16:28:46Z [Term] id: GO:1903745 name: negative regulation of pharyngeal pumping namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of pharyngeal pumping." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, pmid:25329901] synonym: "down regulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "down regulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "down-regulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "down-regulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "downregulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "downregulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "inhibition of pharyngeal pumping" NARROW [GOC:TermGenie] synonym: "inhibition of pumping behavior" RELATED [GOC:TermGenie] synonym: "negative regulation of pumping behavior" RELATED [GOC:TermGenie] is_a: GO:0043051 ! regulation of pharyngeal pumping is_a: GO:1903999 ! negative regulation of eating behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043050 ! pharyngeal pumping relationship: negatively_regulates GO:0043050 ! pharyngeal pumping created_by: kmv creation_date: 2014-12-12T17:10:59Z [Term] id: GO:1903746 name: positive regulation of pharyngeal pumping namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of pharyngeal pumping." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, pmid:25329901] synonym: "activation of pharyngeal pumping" NARROW [GOC:TermGenie] synonym: "activation of pumping behavior" RELATED [GOC:TermGenie] synonym: "positive regulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "up regulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "up regulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "up-regulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "up-regulation of pumping behavior" RELATED [GOC:TermGenie] synonym: "upregulation of pharyngeal pumping" EXACT [GOC:TermGenie] synonym: "upregulation of pumping behavior" RELATED [GOC:TermGenie] is_a: GO:0043051 ! regulation of pharyngeal pumping is_a: GO:1904000 ! positive regulation of eating behavior intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043050 ! pharyngeal pumping relationship: positively_regulates GO:0043050 ! pharyngeal pumping created_by: kmv creation_date: 2014-12-12T17:11:09Z [Term] id: GO:1903827 name: regulation of cellular protein localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular protein localization. Cellular protein localization is any process in which a protein is transported to, and/or maintained in, a specific location and encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "regulation of channel localizer activity" NARROW [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0034613 ! cellular protein localization relationship: regulates GO:0034613 ! cellular protein localization created_by: jl creation_date: 2015-01-20T14:32:14Z [Term] id: GO:1903828 name: negative regulation of cellular protein localization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cellular protein localization. Cellular protein localization is any process in which a protein is transported to, and/or maintained in, a specific location and encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "down regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "down regulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "down-regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "down-regulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "downregulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "downregulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein localisation" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein localization" NARROW [GOC:TermGenie] synonym: "inhibition of channel localizer activity" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "negative regulation of channel localizer activity" NARROW [GOC:TermGenie] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:1903827 ! regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0034613 ! cellular protein localization relationship: negatively_regulates GO:0034613 ! cellular protein localization created_by: jl creation_date: 2015-01-20T14:32:24Z [Term] id: GO:1903829 name: positive regulation of cellular protein localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cellular protein localization. Cellular protein localization is any process in which a protein is transported to, and/or maintained in, a specific location and encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "activation of cellular protein localisation" NARROW [GOC:TermGenie] synonym: "activation of cellular protein localization" NARROW [GOC:TermGenie] synonym: "activation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "positive regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "positive regulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "up regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "up regulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "up-regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "up-regulation of channel localizer activity" NARROW [GOC:TermGenie] synonym: "upregulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "upregulation of channel localizer activity" NARROW [GOC:TermGenie] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:1903827 ! regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0034613 ! cellular protein localization relationship: positively_regulates GO:0034613 ! cellular protein localization created_by: jl creation_date: 2015-01-20T14:32:33Z [Term] id: GO:1903998 name: regulation of eating behavior namespace: biological_process def: "Any process that modulates the frequency, rate or extent of eating behavior." [GO_REF:0000058, GOC:TermGenie, PMID:11961051] synonym: "regulation of eating behaviour" EXACT [GOC:TermGenie] is_a: GO:0060259 ! regulation of feeding behavior intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042755 ! eating behavior relationship: regulates GO:0042755 ! eating behavior created_by: sl creation_date: 2015-03-05T20:40:22Z [Term] id: GO:1903999 name: negative regulation of eating behavior namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of eating behavior." [GO_REF:0000058, GOC:TermGenie, PMID:11961051] synonym: "down regulation of eating behavior" EXACT [GOC:TermGenie] synonym: "down regulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "down-regulation of eating behavior" EXACT [GOC:TermGenie] synonym: "down-regulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "downregulation of eating behavior" EXACT [GOC:TermGenie] synonym: "downregulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "inhibition of eating behavior" NARROW [GOC:TermGenie] synonym: "inhibition of eating behaviour" NARROW [GOC:TermGenie] synonym: "negative regulation of eating behaviour" EXACT [GOC:TermGenie] is_a: GO:1903998 ! regulation of eating behavior is_a: GO:2000252 ! negative regulation of feeding behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042755 ! eating behavior relationship: negatively_regulates GO:0042755 ! eating behavior created_by: sl creation_date: 2015-03-05T20:40:28Z [Term] id: GO:1904000 name: positive regulation of eating behavior namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of eating behavior." [GO_REF:0000058, GOC:TermGenie, PMID:11961051] synonym: "activation of eating behavior" NARROW [GOC:TermGenie] synonym: "activation of eating behaviour" NARROW [GOC:TermGenie] synonym: "positive regulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "up regulation of eating behavior" EXACT [GOC:TermGenie] synonym: "up regulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "up-regulation of eating behavior" EXACT [GOC:TermGenie] synonym: "up-regulation of eating behaviour" EXACT [GOC:TermGenie] synonym: "upregulation of eating behavior" EXACT [GOC:TermGenie] synonym: "upregulation of eating behaviour" EXACT [GOC:TermGenie] is_a: GO:1903998 ! regulation of eating behavior is_a: GO:2000253 ! positive regulation of feeding behavior intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042755 ! eating behavior relationship: positively_regulates GO:0042755 ! eating behavior created_by: sl creation_date: 2015-03-05T20:40:35Z [Term] id: GO:1904081 name: positive regulation of transcription from RNA polymerase II promoter involved in neuron differentiation namespace: biological_process def: "Any positive regulation of transcription from RNA polymerase II promoter that is involved in neuron differentiation." [GO_REF:0000060, GOC:kmv, GOC:TermGenie, PMID:24353061] synonym: "activation of global transcription from RNA polymerase II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "activation of transcription from RNA polymerase II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of gene-specific transcription from RNA polymerase II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "positive regulation of global transcription from Pol II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "positive regulation of transcription from Pol II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of transcription from RNA polymerase II promoter, global involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "stimulation of global transcription from RNA polymerase II promoter involved in neuron differentiation" NARROW [GOC:TermGenie] synonym: "stimulation of transcription from RNA polymerase II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of global transcription from RNA polymerase II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "up regulation of transcription from RNA polymerase II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of global transcription from RNA polymerase II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "up-regulation of transcription from RNA polymerase II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of global transcription from RNA polymerase II promoter involved in neuron differentiation" RELATED [GOC:TermGenie] synonym: "upregulation of transcription from RNA polymerase II promoter involved in neuron differentiation" EXACT [GOC:TermGenie] is_a: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: GO:0045944 ! positive regulation of transcription by RNA polymerase II intersection_of: part_of GO:0030182 ! neuron differentiation relationship: part_of GO:0030182 ! neuron differentiation created_by: kmv creation_date: 2015-03-24T20:15:59Z [Term] id: GO:1904089 name: negative regulation of neuron apoptotic process by negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "A negative regulation of transcription from RNA polymerase II promoter that results in negative regulation of neuron apoptotic process." [GO_REF:0000063, GOC:kmv, GOC:TermGenie, PMID:20150917] synonym: "negative regulation of neuron apoptosis by negative regulation of transcription from RNA polymerase II promoter" NARROW [GOC:TermGenie] synonym: "negative regulation of programmed cell death, neurons by negative regulation of transcription from RNA polymerase II promoter" EXACT [GOC:TermGenie] is_a: GO:0000122 ! negative regulation of transcription by RNA polymerase II is_a: GO:0043524 ! negative regulation of neuron apoptotic process intersection_of: GO:0000122 ! negative regulation of transcription by RNA polymerase II intersection_of: negatively_regulates GO:0051402 ! neuron apoptotic process created_by: pr creation_date: 2015-03-25T21:04:51Z [Term] id: GO:1904092 name: regulation of autophagic cell death namespace: biological_process def: "Any process that modulates the frequency, rate or extent of autophagic cell death." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25736836] synonym: "regulation of autophagic death" BROAD [GOC:TermGenie] synonym: "regulation of programmed cell death by autophagy" BROAD [GOC:TermGenie] synonym: "regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "regulation of type II programmed cell death" RELATED [GOC:TermGenie] is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048102 ! autophagic cell death relationship: regulates GO:0048102 ! autophagic cell death created_by: bhm creation_date: 2015-03-26T16:41:32Z [Term] id: GO:1904093 name: negative regulation of autophagic cell death namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of autophagic cell death." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25736836] synonym: "down regulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "down regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "down regulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "down-regulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "down-regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "down-regulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "downregulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "downregulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "downregulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "inhibition of autophagic cell death" NARROW [GOC:TermGenie] synonym: "inhibition of programmed cell death by macroautophagy" NARROW [GOC:TermGenie] synonym: "inhibition of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "negative regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "negative regulation of type II programmed cell death" RELATED [GOC:TermGenie] is_a: GO:0043069 ! negative regulation of programmed cell death is_a: GO:1904092 ! regulation of autophagic cell death intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048102 ! autophagic cell death relationship: negatively_regulates GO:0048102 ! autophagic cell death created_by: bhm creation_date: 2015-03-26T16:41:39Z [Term] id: GO:1904094 name: positive regulation of autophagic cell death namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of autophagic cell death." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25736836] synonym: "activation of autophagic cell death" NARROW [GOC:TermGenie] synonym: "activation of programmed cell death by macroautophagy" NARROW [GOC:TermGenie] synonym: "activation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "positive regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "positive regulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "up regulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "up regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "up regulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "up-regulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "up-regulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "up-regulation of type II programmed cell death" RELATED [GOC:TermGenie] synonym: "upregulation of autophagic cell death" EXACT [GOC:TermGenie] synonym: "upregulation of programmed cell death by macroautophagy" EXACT [GOC:TermGenie] synonym: "upregulation of type II programmed cell death" RELATED [GOC:TermGenie] is_a: GO:0043068 ! positive regulation of programmed cell death is_a: GO:1904092 ! regulation of autophagic cell death intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048102 ! autophagic cell death relationship: positively_regulates GO:0048102 ! autophagic cell death created_by: bhm creation_date: 2015-03-26T16:41:45Z [Term] id: GO:1904115 name: axon cytoplasm namespace: cellular_component def: "Any cytoplasm that is part of a axon." [GO_REF:0000064, GOC:TermGenie, PMID:18667152] synonym: "axoplasm" EXACT [] is_a: GO:0033267 ! axon part is_a: GO:0120111 ! neuron projection cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0030424 ! axon created_by: sl creation_date: 2015-04-06T18:13:14Z [Term] id: GO:1904170 name: regulation of bleb assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "regulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032060 ! bleb assembly relationship: regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:19Z [Term] id: GO:1904171 name: negative regulation of bleb assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "down regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "down regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "down-regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "downregulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "downregulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "inhibition of bleb assembly" NARROW [GOC:TermGenie] synonym: "inhibition of cell blebbing" NARROW [GOC:TermGenie] synonym: "negative regulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120033 ! negative regulation of plasma membrane bounded cell projection assembly is_a: GO:1904170 ! regulation of bleb assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0032060 ! bleb assembly relationship: negatively_regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:25Z [Term] id: GO:1904172 name: positive regulation of bleb assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "activation of bleb assembly" NARROW [GOC:TermGenie] synonym: "activation of cell blebbing" NARROW [GOC:TermGenie] synonym: "positive regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "up regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "up regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "up-regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "upregulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "upregulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120034 ! positive regulation of plasma membrane bounded cell projection assembly is_a: GO:1904170 ! regulation of bleb assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0032060 ! bleb assembly relationship: positively_regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:31Z [Term] id: GO:1904289 name: regulation of mitotic DNA damage checkpoint namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic DNA damage checkpoint." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16549501] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:2000001 ! regulation of DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0044773 ! mitotic DNA damage checkpoint relationship: regulates GO:0044773 ! mitotic DNA damage checkpoint created_by: kmv creation_date: 2015-06-09T13:03:11Z [Term] id: GO:1904290 name: negative regulation of mitotic DNA damage checkpoint namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic DNA damage checkpoint." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16549501] synonym: "down regulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "inhibition of mitotic DNA damage checkpoint" NARROW [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:1904289 ! regulation of mitotic DNA damage checkpoint is_a: GO:2000002 ! negative regulation of DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0044773 ! mitotic DNA damage checkpoint relationship: negatively_regulates GO:0044773 ! mitotic DNA damage checkpoint created_by: kmv creation_date: 2015-06-09T13:03:17Z [Term] id: GO:1904291 name: positive regulation of mitotic DNA damage checkpoint namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic DNA damage checkpoint." [GO_REF:0000058, GOC:kmv, GOC:TermGenie, PMID:16549501] synonym: "activation of mitotic DNA damage checkpoint" NARROW [GOC:TermGenie] synonym: "up regulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic DNA damage checkpoint" EXACT [GOC:TermGenie] is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1904289 ! regulation of mitotic DNA damage checkpoint is_a: GO:2000003 ! positive regulation of DNA damage checkpoint intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0044773 ! mitotic DNA damage checkpoint relationship: positively_regulates GO:0044773 ! mitotic DNA damage checkpoint created_by: kmv creation_date: 2015-06-09T13:03:23Z [Term] id: GO:1904350 name: regulation of protein catabolic process in the vacuole namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein catabolic process in the vacuole." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:25635054] synonym: "regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] is_a: GO:1903362 ! regulation of cellular protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007039 ! protein catabolic process in the vacuole relationship: regulates GO:0007039 ! protein catabolic process in the vacuole created_by: rl creation_date: 2015-06-12T09:10:36Z [Term] id: GO:1904351 name: negative regulation of protein catabolic process in the vacuole namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein catabolic process in the vacuole." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:25635054] synonym: "down regulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "down regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "down regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "down regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "down regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "down-regulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "down-regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "down-regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "down-regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "down-regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "downregulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "downregulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "downregulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "downregulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "downregulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "inhibition of protein catabolic process in the vacuole" NARROW [GOC:TermGenie] synonym: "inhibition of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "inhibition of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "inhibition of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "inhibition of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "negative regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "negative regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "negative regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "negative regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] is_a: GO:1903363 ! negative regulation of cellular protein catabolic process is_a: GO:1904350 ! regulation of protein catabolic process in the vacuole intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007039 ! protein catabolic process in the vacuole relationship: negatively_regulates GO:0007039 ! protein catabolic process in the vacuole created_by: rl creation_date: 2015-06-12T09:10:42Z [Term] id: GO:1904352 name: positive regulation of protein catabolic process in the vacuole namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein catabolic process in the vacuole." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:25635054] synonym: "activation of protein catabolic process in the vacuole" NARROW [GOC:TermGenie] synonym: "activation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "activation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "activation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "activation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "positive regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "positive regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "positive regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "positive regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "up regulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "up regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "up regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "up regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "up regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "up-regulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "up-regulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "up-regulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "up-regulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "up-regulation of vacuolar protein degradation" RELATED [GOC:TermGenie] synonym: "upregulation of protein catabolic process in the vacuole" EXACT [GOC:TermGenie] synonym: "upregulation of vacuolar protein breakdown" RELATED [GOC:TermGenie] synonym: "upregulation of vacuolar protein catabolic process" RELATED [GOC:TermGenie] synonym: "upregulation of vacuolar protein catabolism" RELATED [GOC:TermGenie] synonym: "upregulation of vacuolar protein degradation" RELATED [GOC:TermGenie] is_a: GO:1903364 ! positive regulation of cellular protein catabolic process is_a: GO:1904350 ! regulation of protein catabolic process in the vacuole intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007039 ! protein catabolic process in the vacuole relationship: positively_regulates GO:0007039 ! protein catabolic process in the vacuole created_by: rl creation_date: 2015-06-12T09:10:49Z [Term] id: GO:1904356 name: regulation of telomere maintenance via telomere lengthening namespace: biological_process def: "Any process that modulates the frequency, rate or extent of telomere maintenance via telomere lengthening." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23959892] is_a: GO:0032204 ! regulation of telomere maintenance intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0010833 ! telomere maintenance via telomere lengthening relationship: regulates GO:0010833 ! telomere maintenance via telomere lengthening created_by: nc creation_date: 2015-06-12T16:53:16Z [Term] id: GO:1904357 name: negative regulation of telomere maintenance via telomere lengthening namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of telomere maintenance via telomere lengthening." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23959892] synonym: "down regulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] synonym: "down-regulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] synonym: "downregulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] synonym: "inhibition of telomere maintenance via telomere lengthening" NARROW [GOC:TermGenie] is_a: GO:0032205 ! negative regulation of telomere maintenance is_a: GO:1904356 ! regulation of telomere maintenance via telomere lengthening intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0010833 ! telomere maintenance via telomere lengthening relationship: negatively_regulates GO:0010833 ! telomere maintenance via telomere lengthening created_by: nc creation_date: 2015-06-12T16:53:22Z [Term] id: GO:1904358 name: positive regulation of telomere maintenance via telomere lengthening namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of telomere maintenance via telomere lengthening." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23959892] synonym: "activation of telomere maintenance via telomere lengthening" NARROW [GOC:TermGenie] synonym: "up regulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] synonym: "up-regulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] synonym: "upregulation of telomere maintenance via telomere lengthening" EXACT [GOC:TermGenie] is_a: GO:0032206 ! positive regulation of telomere maintenance is_a: GO:1904356 ! regulation of telomere maintenance via telomere lengthening intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0010833 ! telomere maintenance via telomere lengthening relationship: positively_regulates GO:0010833 ! telomere maintenance via telomere lengthening created_by: nc creation_date: 2015-06-12T16:53:28Z [Term] id: GO:1904409 name: regulation of secretory granule organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of secretory granule organization." [GO_REF:0000058, GOC:TermGenie, PMID:15039777] synonym: "regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0033363 ! secretory granule organization relationship: regulates GO:0033363 ! secretory granule organization created_by: sl creation_date: 2015-06-25T19:40:42Z [Term] id: GO:1904410 name: negative regulation of secretory granule organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of secretory granule organization." [GO_REF:0000058, GOC:TermGenie, PMID:15039777] synonym: "down regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "down regulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "down regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "down-regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "downregulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "downregulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of secretory granule organisation" NARROW [GOC:TermGenie] synonym: "inhibition of secretory granule organization" NARROW [GOC:TermGenie] synonym: "inhibition of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:1904409 ! regulation of secretory granule organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0033363 ! secretory granule organization relationship: negatively_regulates GO:0033363 ! secretory granule organization created_by: sl creation_date: 2015-06-25T19:40:49Z [Term] id: GO:1904411 name: positive regulation of secretory granule organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of secretory granule organization." [GO_REF:0000058, GOC:TermGenie, PMID:15039777] synonym: "activation of secretory granule organisation" NARROW [GOC:TermGenie] synonym: "activation of secretory granule organization" NARROW [GOC:TermGenie] synonym: "activation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "positive regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "up regulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "up regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up-regulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "up-regulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] synonym: "upregulation of secretory granule organisation" EXACT [GOC:TermGenie] synonym: "upregulation of secretory granule organization" EXACT [GOC:TermGenie] synonym: "upregulation of secretory granule organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:1904409 ! regulation of secretory granule organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0033363 ! secretory granule organization relationship: positively_regulates GO:0033363 ! secretory granule organization created_by: sl creation_date: 2015-06-25T19:40:55Z [Term] id: GO:1904512 name: regulation of initiation of premeiotic DNA replication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of initiation of premeiotic DNA replication." [GO_REF:0000058, GOC:TermGenie, PMID:25891897] synonym: "regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] is_a: GO:0030174 ! regulation of DNA-dependent DNA replication initiation is_a: GO:0033262 ! regulation of nuclear cell cycle DNA replication is_a: GO:0051445 ! regulation of meiotic cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0072691 ! initiation of premeiotic DNA replication relationship: regulates GO:0072691 ! initiation of premeiotic DNA replication created_by: mah creation_date: 2015-07-28T12:59:17Z [Term] id: GO:1904513 name: negative regulation of initiation of premeiotic DNA replication namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of initiation of premeiotic DNA replication." [GO_REF:0000058, GOC:TermGenie, PMID:25891897] synonym: "down regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "down regulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "down regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "down regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "down regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "down-regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "down-regulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "down-regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "down-regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "down-regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "downregulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "downregulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "downregulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "downregulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "downregulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "inhibition of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "inhibition of initiation of premeiotic DNA replication" NARROW [GOC:TermGenie] synonym: "inhibition of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "inhibition of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "inhibition of premeiotic DNA replication initiation" NARROW [GOC:TermGenie] synonym: "negative regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "negative regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "negative regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "negative regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] is_a: GO:0032297 ! negative regulation of DNA-dependent DNA replication initiation is_a: GO:0051447 ! negative regulation of meiotic cell cycle is_a: GO:1902576 ! negative regulation of nuclear cell cycle DNA replication is_a: GO:1904512 ! regulation of initiation of premeiotic DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0072691 ! initiation of premeiotic DNA replication relationship: negatively_regulates GO:0072691 ! initiation of premeiotic DNA replication created_by: mah creation_date: 2015-07-28T12:59:23Z [Term] id: GO:1904514 name: positive regulation of initiation of premeiotic DNA replication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of initiation of premeiotic DNA replication." [GO_REF:0000058, GOC:TermGenie, PMID:25891897] synonym: "activation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "activation of initiation of premeiotic DNA replication" NARROW [GOC:TermGenie] synonym: "activation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "activation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "activation of premeiotic DNA replication initiation" NARROW [GOC:TermGenie] synonym: "positive regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "positive regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "positive regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "positive regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "up regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "up regulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "up regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "up regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "up regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "up-regulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "up-regulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "up-regulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "up-regulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "up-regulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] synonym: "upregulation of initiation of meiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "upregulation of initiation of premeiotic DNA replication" EXACT [GOC:TermGenie] synonym: "upregulation of initiation of premeiotic DNA synthesis" RELATED [GOC:TermGenie] synonym: "upregulation of meiotic DNA replication initiation" RELATED [GOC:TermGenie] synonym: "upregulation of premeiotic DNA replication initiation" EXACT [GOC:TermGenie] is_a: GO:0010571 ! positive regulation of nuclear cell cycle DNA replication is_a: GO:0032298 ! positive regulation of DNA-dependent DNA replication initiation is_a: GO:0051446 ! positive regulation of meiotic cell cycle is_a: GO:1904512 ! regulation of initiation of premeiotic DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0072691 ! initiation of premeiotic DNA replication relationship: positively_regulates GO:0072691 ! initiation of premeiotic DNA replication created_by: mah creation_date: 2015-07-28T12:59:29Z [Term] id: GO:1904688 name: regulation of cytoplasmic translational initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic translational initiation." [GO_REF:0000058, GOC:TermGenie, PMID:12242291] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:2000765 ! regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002183 ! cytoplasmic translational initiation relationship: regulates GO:0002183 ! cytoplasmic translational initiation created_by: dos creation_date: 2015-09-25T14:39:38Z [Term] id: GO:1904689 name: negative regulation of cytoplasmic translational initiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cytoplasmic translational initiation." [GO_REF:0000058, GOC:TermGenie, PMID:12242291] synonym: "down regulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] synonym: "down-regulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] synonym: "downregulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] synonym: "inhibition of cytoplasmic translational initiation" NARROW [GOC:TermGenie] is_a: GO:0045947 ! negative regulation of translational initiation is_a: GO:1904688 ! regulation of cytoplasmic translational initiation is_a: GO:2000766 ! negative regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002183 ! cytoplasmic translational initiation relationship: negatively_regulates GO:0002183 ! cytoplasmic translational initiation created_by: dos creation_date: 2015-09-25T14:39:44Z [Term] id: GO:1904690 name: positive regulation of cytoplasmic translational initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cytoplasmic translational initiation." [GO_REF:0000058, GOC:TermGenie, PMID:12242291] synonym: "activation of cytoplasmic translational initiation" NARROW [GOC:TermGenie] synonym: "up regulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] synonym: "up-regulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] synonym: "upregulation of cytoplasmic translational initiation" EXACT [GOC:TermGenie] is_a: GO:0045948 ! positive regulation of translational initiation is_a: GO:1904688 ! regulation of cytoplasmic translational initiation is_a: GO:2000767 ! positive regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002183 ! cytoplasmic translational initiation relationship: positively_regulates GO:0002183 ! cytoplasmic translational initiation created_by: dos creation_date: 2015-09-25T14:39:50Z [Term] id: GO:1904739 name: regulation of synapse organization by posttranscriptional regulation of gene expression namespace: biological_process def: "A posttranscriptional regulation of gene expression that results in regulation of synapse organization." [GO_REF:0000063, GOC:rb, GOC:TermGenie, PMID:20729808] synonym: "regulation of synapse development by posttranscriptional regulation of gene expression" EXACT [GOC:TermGenie] synonym: "regulation of synapse morphogenesis by posttranscriptional regulation of gene expression" RELATED [GOC:TermGenie] synonym: "regulation of synapse organisation by posttranscriptional regulation of gene expression" EXACT [GOC:TermGenie] synonym: "regulation of synapse organization and biogenesis by posttranscriptional regulation of gene expression" RELATED [GOC:TermGenie] is_a: GO:0010608 ! posttranscriptional regulation of gene expression is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0010608 ! posttranscriptional regulation of gene expression intersection_of: regulates GO:0050808 ! synapse organization created_by: tb creation_date: 2015-10-15T21:25:46Z [Term] id: GO:1904745 name: Atg1/ULK1 kinase complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an Atg1/UKL1 kinase complex." [GO_REF:0000079, GOC:dph, GOC:TermGenie, PMID:25139988] synonym: "ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] is_a: GO:0065003 ! protein-containing complex assembly created_by: dph creation_date: 2015-10-19T12:33:08Z [Term] id: GO:1904746 name: negative regulation of apoptotic process involved in development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: U4PR86 in PMID:22801495 inferred from mutant phenotype synonym: "down regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of programmed cell death by apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of programmed cell death by apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:1902742 ! apoptotic process involved in development relationship: negatively_regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T14:12:27Z [Term] id: GO:1904747 name: positive regulation of apoptotic process involved in development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: U4PR86 in PMID:22801495 inferred from mutant phenotype synonym: "activation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of programmed cell death by apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of programmed cell death by apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:1902742 ! apoptotic process involved in development relationship: positively_regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T14:12:34Z [Term] id: GO:1904748 name: regulation of apoptotic process involved in development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: Q10943 in PMID:22801495, inferred from mutant phenotype synonym: "regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:1902742 ! apoptotic process involved in development relationship: regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T15:02:28Z [Term] id: GO:1904803 name: regulation of translation involved in cellular response to UV namespace: biological_process def: "Any regulation of translation that is involved in cellular response to UV." [GO_REF:0000060, GOC:TermGenie, PMID:17369398] synonym: "regulation of protein anabolism involved in cellular response to UV" EXACT [GOC:TermGenie] synonym: "regulation of protein biosynthesis involved in cellular response to UV" EXACT [GOC:TermGenie] synonym: "regulation of protein formation involved in cellular response to UV" EXACT [GOC:TermGenie] synonym: "regulation of protein synthesis involved in cellular response to UV" EXACT [GOC:TermGenie] synonym: "regulation of translation involved in cellular response to ultraviolet light stimulus" EXACT [GOC:TermGenie] synonym: "regulation of translation involved in cellular response to ultraviolet radiation stimulus" EXACT [GOC:TermGenie] synonym: "regulation of translation involved in cellular response to UV light stimulus" EXACT [GOC:TermGenie] synonym: "regulation of translation involved in cellular response to UV radiation stimulus" EXACT [GOC:TermGenie] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0006417 ! regulation of translation intersection_of: part_of GO:0034644 ! cellular response to UV relationship: part_of GO:0034644 ! cellular response to UV created_by: mah creation_date: 2015-11-10T12:12:41Z [Term] id: GO:1904860 name: DNA biosynthetic process involved in mitotic DNA replication namespace: biological_process def: "Any DNA biosynthetic process that is involved in mitotic DNA replication." [GO_REF:0000060, GOC:TermGenie, PMID:16849602] synonym: "DNA anabolism involved in DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA anabolism involved in DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA anabolism involved in DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA anabolism involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA anabolism involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "DNA anabolism involved in mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA anabolism involved in nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA biosynthesis involved in DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA biosynthesis involved in DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA biosynthesis involved in DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA biosynthesis involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA biosynthesis involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "DNA biosynthesis involved in mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA biosynthesis involved in nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA biosynthetic process involved in DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA biosynthetic process involved in DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA biosynthetic process involved in DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA biosynthetic process involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA biosynthetic process involved in mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA biosynthetic process involved in nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA formation involved in DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA formation involved in DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA formation involved in DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA formation involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA formation involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "DNA formation involved in mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA formation involved in nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA synthesis involved in DNA replication during S phase involved in mitotic cell cycle" RELATED [GOC:TermGenie] synonym: "DNA synthesis involved in DNA replication involved in S phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA synthesis involved in DNA replication involved in S-phase involved in mitotic cell cycle" EXACT [GOC:TermGenie] synonym: "DNA synthesis involved in mitotic cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA synthesis involved in mitotic DNA replication" EXACT [GOC:TermGenie] synonym: "DNA synthesis involved in mitotic nuclear cell cycle DNA replication" EXACT [GOC:TermGenie] synonym: "DNA synthesis involved in nuclear cell cycle DNA replication involved in mitotic cell cycle" RELATED [GOC:TermGenie] is_a: GO:0090592 ! DNA synthesis involved in DNA replication is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0071897 ! DNA biosynthetic process intersection_of: part_of GO:1902969 ! mitotic DNA replication relationship: part_of GO:1902969 ! mitotic DNA replication created_by: mah creation_date: 2015-12-16T12:02:37Z [Term] id: GO:1904950 name: negative regulation of establishment of protein localization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of establishment of protein localization." [GO_REF:0000058, GOC:TermGenie, PMID:22761445] synonym: "down regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "down regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "down regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "down regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "down-regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "down-regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "down-regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "downregulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "downregulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "downregulation of protein positioning" EXACT [GOC:TermGenie] synonym: "downregulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "inhibition of establishment of protein localisation" NARROW [GOC:TermGenie] synonym: "inhibition of establishment of protein localization" NARROW [GOC:TermGenie] synonym: "inhibition of protein positioning" NARROW [GOC:TermGenie] synonym: "inhibition of protein recruitment" NARROW [GOC:TermGenie] synonym: "negative regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "negative regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of protein recruitment" EXACT [GOC:TermGenie] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0070201 ! regulation of establishment of protein localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0045184 ! establishment of protein localization relationship: negatively_regulates GO:0045184 ! establishment of protein localization created_by: mec creation_date: 2016-02-05T09:59:24Z [Term] id: GO:1904951 name: positive regulation of establishment of protein localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of establishment of protein localization." [GO_REF:0000058, GOC:TermGenie, PMID:22761445] synonym: "activation of establishment of protein localisation" NARROW [GOC:TermGenie] synonym: "activation of establishment of protein localization" NARROW [GOC:TermGenie] synonym: "activation of protein positioning" NARROW [GOC:TermGenie] synonym: "activation of protein recruitment" NARROW [GOC:TermGenie] synonym: "positive regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "positive regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "up regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "up regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "up regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "up regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "up-regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "up-regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "up-regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "upregulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "upregulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "upregulation of protein positioning" EXACT [GOC:TermGenie] synonym: "upregulation of protein recruitment" EXACT [GOC:TermGenie] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0070201 ! regulation of establishment of protein localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0045184 ! establishment of protein localization relationship: positively_regulates GO:0045184 ! establishment of protein localization created_by: mec creation_date: 2016-02-05T09:59:32Z [Term] id: GO:1905037 name: autophagosome organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an autophagosome." [GO_REF:000103, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:22186024] synonym: "autophagic vacuole organization" EXACT [GOC:TermGenie] synonym: "initial autophagic vacuole organization" RELATED [GOC:TermGenie] is_a: GO:0007033 ! vacuole organization relationship: part_of GO:0016236 ! macroautophagy created_by: bf creation_date: 2016-03-08T14:18:10Z [Term] id: GO:1905082 name: regulation of mitochondrial translational elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitochondrial translational elongation." [GO_REF:0000058, GOC:TermGenie, PMID:25738458] synonym: "regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:0070129 ! regulation of mitochondrial translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070125 ! mitochondrial translational elongation relationship: regulates GO:0070125 ! mitochondrial translational elongation created_by: hjd creation_date: 2016-03-25T17:37:03Z [Term] id: GO:1905083 name: negative regulation of mitochondrial translational elongation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitochondrial translational elongation." [GO_REF:0000058, GOC:TermGenie, PMID:25738458] synonym: "down regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "down regulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] synonym: "down-regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "down-regulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] synonym: "downregulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "downregulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] synonym: "inhibition of mitochondrial translation elongation" NARROW [GOC:TermGenie] synonym: "inhibition of mitochondrial translational elongation" NARROW [GOC:TermGenie] synonym: "negative regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] is_a: GO:0045900 ! negative regulation of translational elongation is_a: GO:0070130 ! negative regulation of mitochondrial translation is_a: GO:1905082 ! regulation of mitochondrial translational elongation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070125 ! mitochondrial translational elongation relationship: negatively_regulates GO:0070125 ! mitochondrial translational elongation created_by: hjd creation_date: 2016-03-25T17:37:13Z [Term] id: GO:1905084 name: positive regulation of mitochondrial translational elongation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitochondrial translational elongation." [GO_REF:0000058, GOC:TermGenie, PMID:25738458] synonym: "activation of mitochondrial translation elongation" NARROW [GOC:TermGenie] synonym: "activation of mitochondrial translational elongation" NARROW [GOC:TermGenie] synonym: "positive regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "up regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "up regulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial translation elongation" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial translational elongation" EXACT [GOC:TermGenie] is_a: GO:0045901 ! positive regulation of translational elongation is_a: GO:0070131 ! positive regulation of mitochondrial translation is_a: GO:1905082 ! regulation of mitochondrial translational elongation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070125 ! mitochondrial translational elongation relationship: positively_regulates GO:0070125 ! mitochondrial translational elongation created_by: hjd creation_date: 2016-03-25T17:37:22Z [Term] id: GO:1905132 name: regulation of meiotic chromosome separation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of meiotic chromosome separation." [GO_REF:0000058, GOC:TermGenie, GOC:vw, PMID:15620645] synonym: "regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] is_a: GO:0040020 ! regulation of meiotic nuclear division is_a: GO:1905818 ! regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051307 ! meiotic chromosome separation relationship: regulates GO:0051307 ! meiotic chromosome separation created_by: dph creation_date: 2016-04-12T17:46:29Z [Term] id: GO:1905133 name: negative regulation of meiotic chromosome separation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of meiotic chromosome separation." [GO_REF:0000058, GOC:TermGenie, GOC:vw, PMID:15620645] synonym: "down regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "down regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "down regulation of meiotic chromosome separation" EXACT [GOC:TermGenie] synonym: "down-regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "down-regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "down-regulation of meiotic chromosome separation" EXACT [GOC:TermGenie] synonym: "downregulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "downregulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "downregulation of meiotic chromosome separation" EXACT [GOC:TermGenie] synonym: "inhibition of chromosome separation during meiosis" NARROW [GOC:TermGenie] synonym: "inhibition of meiotic chromosome resolution" NARROW [GOC:TermGenie] synonym: "inhibition of meiotic chromosome separation" NARROW [GOC:TermGenie] synonym: "negative regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "negative regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] is_a: GO:0045835 ! negative regulation of meiotic nuclear division is_a: GO:1905132 ! regulation of meiotic chromosome separation is_a: GO:1905819 ! negative regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051307 ! meiotic chromosome separation relationship: negatively_regulates GO:0051307 ! meiotic chromosome separation created_by: dph creation_date: 2016-04-12T17:46:37Z [Term] id: GO:1905134 name: positive regulation of meiotic chromosome separation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of meiotic chromosome separation." [GO_REF:0000058, GOC:TermGenie, GOC:vw, PMID:15620645] synonym: "activation of chromosome separation during meiosis" NARROW [GOC:TermGenie] synonym: "activation of meiotic chromosome resolution" NARROW [GOC:TermGenie] synonym: "activation of meiotic chromosome separation" NARROW [GOC:TermGenie] synonym: "positive regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "positive regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "up regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "up regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "up regulation of meiotic chromosome separation" EXACT [GOC:TermGenie] synonym: "up-regulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "up-regulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "up-regulation of meiotic chromosome separation" EXACT [GOC:TermGenie] synonym: "upregulation of chromosome separation during meiosis" EXACT [GOC:TermGenie] synonym: "upregulation of meiotic chromosome resolution" EXACT [GOC:TermGenie] synonym: "upregulation of meiotic chromosome separation" EXACT [GOC:TermGenie] is_a: GO:0045836 ! positive regulation of meiotic nuclear division is_a: GO:1905132 ! regulation of meiotic chromosome separation is_a: GO:1905820 ! positive regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051307 ! meiotic chromosome separation relationship: positively_regulates GO:0051307 ! meiotic chromosome separation created_by: dph creation_date: 2016-04-12T17:46:45Z [Term] id: GO:1905146 name: lysosomal protein catabolic process namespace: biological_process def: "Any cellular protein catabolic process that takes place in a lysosome." [GO_REF:0000062, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:24334770] comment: Also consider annotating to the term 'autophagy ; GO:0006914' or one of its descendants. synonym: "cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "cellular protein catabolic process in lysosome" EXACT [] synonym: "cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "lysosomal protein catabolism" EXACT [GOC:bf] synonym: "lysosomal protein degradation" EXACT [GOC:bf] synonym: "lysosomal proteolysis" RELATED [PMID:24334770] synonym: "proteolysis within lysosome" RELATED [GOC:bf] is_a: GO:0007039 ! protein catabolic process in the vacuole intersection_of: GO:0044257 ! cellular protein catabolic process intersection_of: occurs_in GO:0005764 ! lysosome relationship: occurs_in GO:0005764 ! lysosome created_by: bf creation_date: 2016-04-14T12:50:34Z [Term] id: GO:1905153 name: regulation of membrane invagination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:26589353] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0010324 ! membrane invagination relationship: regulates GO:0010324 ! membrane invagination created_by: bf creation_date: 2016-04-18T15:43:54Z [Term] id: GO:1905154 name: negative regulation of membrane invagination namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:26589353] synonym: "down regulation of membrane invagination" EXACT [GOC:TermGenie] synonym: "down-regulation of membrane invagination" EXACT [GOC:TermGenie] synonym: "downregulation of membrane invagination" EXACT [GOC:TermGenie] synonym: "inhibition of membrane invagination" NARROW [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1905153 ! regulation of membrane invagination intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0010324 ! membrane invagination relationship: negatively_regulates GO:0010324 ! membrane invagination created_by: bf creation_date: 2016-04-18T15:44:04Z [Term] id: GO:1905155 name: positive regulation of membrane invagination namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "activation of membrane invagination" NARROW [GOC:TermGenie] synonym: "up regulation of membrane invagination" EXACT [GOC:TermGenie] synonym: "up-regulation of membrane invagination" EXACT [GOC:TermGenie] synonym: "upregulation of membrane invagination" EXACT [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1905153 ! regulation of membrane invagination intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0010324 ! membrane invagination relationship: positively_regulates GO:0010324 ! membrane invagination created_by: bf creation_date: 2016-04-18T15:44:12Z [Term] id: GO:1905165 name: regulation of lysosomal protein catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of lysosomal protein catabolic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:23499937] synonym: "regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] is_a: GO:1904350 ! regulation of protein catabolic process in the vacuole intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:1905146 ! lysosomal protein catabolic process relationship: regulates GO:1905146 ! lysosomal protein catabolic process created_by: bf creation_date: 2016-04-26T12:10:01Z [Term] id: GO:1905166 name: negative regulation of lysosomal protein catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of lysosomal protein catabolic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "down regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "down regulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "down regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "down regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "down-regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "down-regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "downregulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "downregulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "downregulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "downregulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "inhibition of cellular protein breakdown in lysosome" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein catabolic process in lysosome" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein catabolism in lysosome" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein degradation in lysosome" NARROW [GOC:TermGenie] synonym: "inhibition of lysosomal protein catabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of lysosomal protein catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of lysosomal protein degradation" NARROW [GOC:TermGenie] synonym: "inhibition of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "inhibition of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "negative regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "negative regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "negative regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "negative regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] is_a: GO:1904351 ! negative regulation of protein catabolic process in the vacuole is_a: GO:1905165 ! regulation of lysosomal protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:1905146 ! lysosomal protein catabolic process relationship: negatively_regulates GO:1905146 ! lysosomal protein catabolic process created_by: bf creation_date: 2016-04-26T12:10:10Z [Term] id: GO:1905167 name: positive regulation of lysosomal protein catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of lysosomal protein catabolic process." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "activation of cellular protein breakdown in lysosome" NARROW [GOC:TermGenie] synonym: "activation of cellular protein catabolic process in lysosome" NARROW [GOC:TermGenie] synonym: "activation of cellular protein catabolism in lysosome" NARROW [GOC:TermGenie] synonym: "activation of cellular protein degradation in lysosome" NARROW [GOC:TermGenie] synonym: "activation of lysosomal protein catabolic process" NARROW [GOC:TermGenie] synonym: "activation of lysosomal protein catabolism" NARROW [GOC:TermGenie] synonym: "activation of lysosomal protein degradation" NARROW [GOC:TermGenie] synonym: "activation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "activation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "positive regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "positive regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "positive regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "positive regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "up regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "up regulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "up regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "up regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "up-regulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "up-regulation of proteolysis within lysosome" RELATED [GOC:TermGenie] synonym: "upregulation of cellular protein breakdown in lysosome" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein catabolic process in lysosome" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein catabolism in lysosome" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein degradation in lysosome" EXACT [GOC:TermGenie] synonym: "upregulation of lysosomal protein catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of lysosomal protein catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of lysosomal protein degradation" EXACT [GOC:TermGenie] synonym: "upregulation of lysosomal proteolysis" RELATED [GOC:TermGenie] synonym: "upregulation of proteolysis within lysosome" RELATED [GOC:TermGenie] is_a: GO:1904352 ! positive regulation of protein catabolic process in the vacuole is_a: GO:1905165 ! regulation of lysosomal protein catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:1905146 ! lysosomal protein catabolic process relationship: positively_regulates GO:1905146 ! lysosomal protein catabolic process created_by: bf creation_date: 2016-04-26T12:10:19Z [Term] id: GO:1905213 name: negative regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:23219725] is_a: GO:0033048 ! negative regulation of mitotic sister chromatid segregation is_a: GO:1902340 ! negative regulation of chromosome condensation is_a: GO:1903379 ! regulation of mitotic chromosome condensation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007076 ! mitotic chromosome condensation relationship: negatively_regulates GO:0007076 ! mitotic chromosome condensation created_by: vw creation_date: 2016-06-03T08:41:08Z [Term] id: GO:1905427 name: intracellular signal transduction involved in positive regulation of cell growth namespace: biological_process def: "Any intracellular signal transduction that is involved in positive regulation of cell growth." [GO_REF:0000060, GOC:al, GOC:TermGenie, GOC:vw, PMID:15917811] synonym: "intracellular protein kinase cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in up regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in up-regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in upregulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling chain involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling chain involved in positive regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling chain involved in up regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in up-regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in upregulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "protein kinase cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] is_a: GO:0035556 ! intracellular signal transduction intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0030307 ! positive regulation of cell growth relationship: part_of GO:0030307 ! positive regulation of cell growth created_by: dph creation_date: 2016-09-07T18:15:01Z [Term] id: GO:1905516 name: positive regulation of fertilization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of fertilization." [GO_REF:0000058, GOC:hbye, GOC:TermGenie, PMID:27564576] synonym: "activation of fertilization" NARROW [GOC:TermGenie] synonym: "activation of syngamy" NARROW [GOC:TermGenie] synonym: "positive regulation of syngamy" EXACT [GOC:TermGenie] synonym: "up regulation of fertilization" EXACT [GOC:TermGenie] synonym: "up regulation of syngamy" EXACT [GOC:TermGenie] synonym: "up-regulation of fertilization" EXACT [GOC:TermGenie] synonym: "up-regulation of syngamy" EXACT [GOC:TermGenie] synonym: "upregulation of fertilization" EXACT [GOC:TermGenie] synonym: "upregulation of syngamy" EXACT [GOC:TermGenie] is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0080154 ! regulation of fertilization is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0009566 ! fertilization relationship: positively_regulates GO:0009566 ! fertilization created_by: pr creation_date: 2016-09-30T14:32:32Z [Term] id: GO:1905550 name: regulation of protein localization to endoplasmic reticulum namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to endoplasmic reticulum." [GO_REF:0000058, GOC:TermGenie, PMID:22768340] synonym: "regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in ER" EXACT [GOC:TermGenie] is_a: GO:1903827 ! regulation of cellular protein localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0070972 ! protein localization to endoplasmic reticulum relationship: regulates GO:0070972 ! protein localization to endoplasmic reticulum created_by: rz creation_date: 2016-10-12T11:37:01Z [Term] id: GO:1905551 name: negative regulation of protein localization to endoplasmic reticulum namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to endoplasmic reticulum." [GO_REF:0000058, GOC:TermGenie, PMID:22768340] synonym: "down regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in ER" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in ER" EXACT [GOC:TermGenie] is_a: GO:1903828 ! negative regulation of cellular protein localization is_a: GO:1905550 ! regulation of protein localization to endoplasmic reticulum intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0070972 ! protein localization to endoplasmic reticulum relationship: negatively_regulates GO:0070972 ! protein localization to endoplasmic reticulum created_by: rz creation_date: 2016-10-12T11:37:08Z [Term] id: GO:1905552 name: positive regulation of protein localization to endoplasmic reticulum namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to endoplasmic reticulum." [GO_REF:0000058, GOC:TermGenie, PMID:22768340] synonym: "activation of protein localisation in endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "activation of protein localization in endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "activation of protein localization in ER" NARROW [GOC:TermGenie] synonym: "activation of protein localization to endoplasmic reticulum" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in endoplasmic reticulum" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in ER" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to endoplasmic reticulum" EXACT [GOC:TermGenie] is_a: GO:1903829 ! positive regulation of cellular protein localization is_a: GO:1905550 ! regulation of protein localization to endoplasmic reticulum intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0070972 ! protein localization to endoplasmic reticulum relationship: positively_regulates GO:0070972 ! protein localization to endoplasmic reticulum created_by: rz creation_date: 2016-10-12T11:37:16Z [Term] id: GO:1905557 name: regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0010549 ! regulation of membrane disassembly is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:1903353 ! regulation of nucleus organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007077 ! mitotic nuclear envelope disassembly relationship: regulates GO:0007077 ! mitotic nuclear envelope disassembly created_by: hbye creation_date: 2016-10-14T13:14:57Z [Term] id: GO:1905558 name: negative regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "down regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope breakdown" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope degradation" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope disassembly" NARROW [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:1905557 ! regulation of mitotic nuclear envelope disassembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007077 ! mitotic nuclear envelope disassembly relationship: negatively_regulates GO:0007077 ! mitotic nuclear envelope disassembly created_by: hbye creation_date: 2016-10-14T13:15:08Z [Term] id: GO:1905559 name: positive regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "activation of mitotic nuclear envelope breakdown" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope catabolism" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope degradation" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope disassembly" NARROW [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0045931 ! positive regulation of mitotic cell cycle is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1905557 ! regulation of mitotic nuclear envelope disassembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007077 ! mitotic nuclear envelope disassembly relationship: positively_regulates GO:0007077 ! mitotic nuclear envelope disassembly created_by: hbye creation_date: 2016-10-14T13:15:17Z [Term] id: GO:1905627 name: regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0031326 ! regulation of cellular biosynthetic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042427 ! serotonin biosynthetic process relationship: regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:20Z [Term] id: GO:1905628 name: negative regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "down regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of serotonin anabolism" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin formation" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin synthesis" NARROW [GOC:TermGenie] synonym: "negative regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042427 ! serotonin biosynthetic process relationship: negatively_regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:28Z [Term] id: GO:1905629 name: positive regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "activation of serotonin anabolism" NARROW [GOC:TermGenie] synonym: "activation of serotonin biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of serotonin biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of serotonin formation" NARROW [GOC:TermGenie] synonym: "activation of serotonin synthesis" NARROW [GOC:TermGenie] synonym: "positive regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042427 ! serotonin biosynthetic process relationship: positively_regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:36Z [Term] id: GO:1905637 name: regulation of mitochondrial mRNA catabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitochondrial mRNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:27122350] is_a: GO:0000960 ! regulation of mitochondrial RNA catabolic process is_a: GO:0061013 ! regulation of mRNA catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000958 ! mitochondrial mRNA catabolic process relationship: regulates GO:0000958 ! mitochondrial mRNA catabolic process created_by: tb creation_date: 2016-11-03T20:23:57Z [Term] id: GO:1905638 name: negative regulation of mitochondrial mRNA catabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitochondrial mRNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:27122350] synonym: "down regulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of mitochondrial mRNA catabolic process" NARROW [GOC:TermGenie] is_a: GO:0000961 ! negative regulation of mitochondrial RNA catabolic process is_a: GO:1902373 ! negative regulation of mRNA catabolic process is_a: GO:1905637 ! regulation of mitochondrial mRNA catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000958 ! mitochondrial mRNA catabolic process relationship: negatively_regulates GO:0000958 ! mitochondrial mRNA catabolic process created_by: tb creation_date: 2016-11-03T20:24:05Z [Term] id: GO:1905639 name: positive regulation of mitochondrial mRNA catabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitochondrial mRNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:27122350] synonym: "activation of mitochondrial mRNA catabolic process" NARROW [GOC:TermGenie] synonym: "up regulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of mitochondrial mRNA catabolic process" EXACT [GOC:TermGenie] is_a: GO:0000962 ! positive regulation of mitochondrial RNA catabolic process is_a: GO:0061014 ! positive regulation of mRNA catabolic process is_a: GO:1905637 ! regulation of mitochondrial mRNA catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000958 ! mitochondrial mRNA catabolic process relationship: positively_regulates GO:0000958 ! mitochondrial mRNA catabolic process created_by: tb creation_date: 2016-11-03T20:24:13Z [Term] id: GO:1905671 name: regulation of lysosome organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of lysosome organization." [GO_REF:0000058, GOC:TermGenie, PMID:25561470] synonym: "regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0044088 ! regulation of vacuole organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007040 ! lysosome organization relationship: regulates GO:0007040 ! lysosome organization created_by: sl creation_date: 2016-11-11T22:01:04Z [Term] id: GO:1905672 name: negative regulation of lysosome organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of lysosome organization." [GO_REF:0000058, GOC:TermGenie, PMID:25561470] synonym: "down regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "down regulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "down regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "down-regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "downregulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "downregulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of lysosome organisation" NARROW [GOC:TermGenie] synonym: "inhibition of lysosome organization" NARROW [GOC:TermGenie] synonym: "inhibition of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:1905671 ! regulation of lysosome organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007040 ! lysosome organization relationship: negatively_regulates GO:0007040 ! lysosome organization created_by: sl creation_date: 2016-11-11T22:01:12Z [Term] id: GO:1905673 name: positive regulation of lysosome organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of lysosome organization." [GO_REF:0000058, GOC:TermGenie, PMID:25561470] synonym: "activation of lysosome organisation" NARROW [GOC:TermGenie] synonym: "activation of lysosome organization" NARROW [GOC:TermGenie] synonym: "activation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "positive regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "up regulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "up regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up-regulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "up-regulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] synonym: "upregulation of lysosome organisation" EXACT [GOC:TermGenie] synonym: "upregulation of lysosome organization" EXACT [GOC:TermGenie] synonym: "upregulation of lysosome organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0044090 ! positive regulation of vacuole organization is_a: GO:1905671 ! regulation of lysosome organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007040 ! lysosome organization relationship: positively_regulates GO:0007040 ! lysosome organization created_by: sl creation_date: 2016-11-11T22:01:20Z [Term] id: GO:1905809 name: negative regulation of synapse organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synapse organization." [GO_REF:0000058, GOC:TermGenie, PMID:27779093] synonym: "down regulation of synapse development" EXACT [GOC:TermGenie] synonym: "down regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "down regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "down regulation of synapse organization" EXACT [GOC:TermGenie] synonym: "down regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of synapse development" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse organization" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of synapse development" EXACT [GOC:TermGenie] synonym: "downregulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "downregulation of synapse organization" EXACT [GOC:TermGenie] synonym: "downregulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of synapse development" NARROW [GOC:TermGenie] synonym: "inhibition of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of synapse organisation" NARROW [GOC:TermGenie] synonym: "inhibition of synapse organization" NARROW [GOC:TermGenie] synonym: "inhibition of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of synapse development" EXACT [GOC:TermGenie] synonym: "negative regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0050807 ! regulation of synapse organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0050808 ! synapse organization relationship: negatively_regulates GO:0050808 ! synapse organization created_by: tberardini creation_date: 2017-01-11T22:03:41Z [Term] id: GO:1905818 name: regulation of chromosome separation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromosome separation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:21795393] synonym: "regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "regulation of rDNA separation" NARROW [GOC:TermGenie] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0051304 ! chromosome separation relationship: regulates GO:0051304 ! chromosome separation created_by: bmeldal creation_date: 2017-01-13T13:55:18Z [Term] id: GO:1905819 name: negative regulation of chromosome separation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome separation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:21795393] synonym: "down regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "down regulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "down regulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "down-regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "down-regulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "down-regulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "downregulation of chromatid release" RELATED [GOC:TermGenie] synonym: "downregulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "downregulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "inhibition of chromatid release" RELATED [GOC:TermGenie] synonym: "inhibition of chromosome separation" NARROW [GOC:TermGenie] synonym: "inhibition of rDNA separation" NARROW [GOC:TermGenie] synonym: "negative regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "negative regulation of rDNA separation" NARROW [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0051985 ! negative regulation of chromosome segregation is_a: GO:1905818 ! regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051304 ! chromosome separation relationship: negatively_regulates GO:0051304 ! chromosome separation created_by: bmeldal creation_date: 2017-01-13T13:55:27Z [Term] id: GO:1905820 name: positive regulation of chromosome separation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome separation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:21795393] synonym: "activation of chromatid release" RELATED [GOC:TermGenie] synonym: "activation of chromosome separation" NARROW [GOC:TermGenie] synonym: "activation of rDNA separation" NARROW [GOC:TermGenie] synonym: "positive regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "positive regulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "up regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "up regulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "up regulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "up-regulation of chromatid release" RELATED [GOC:TermGenie] synonym: "up-regulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "up-regulation of rDNA separation" NARROW [GOC:TermGenie] synonym: "upregulation of chromatid release" RELATED [GOC:TermGenie] synonym: "upregulation of chromosome separation" EXACT [GOC:TermGenie] synonym: "upregulation of rDNA separation" NARROW [GOC:TermGenie] is_a: GO:0051984 ! positive regulation of chromosome segregation is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1905818 ! regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051304 ! chromosome separation relationship: positively_regulates GO:0051304 ! chromosome separation created_by: bmeldal creation_date: 2017-01-13T13:55:36Z [Term] id: GO:1905821 name: positive regulation of chromosome condensation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome condensation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:17268547] synonym: "activation of chromosome condensation" NARROW [GOC:TermGenie] synonym: "activation of eukaryotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "activation of nuclear chromosome condensation" NARROW [GOC:TermGenie] synonym: "positive regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "positive regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0060623 ! regulation of chromosome condensation is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030261 ! chromosome condensation relationship: positively_regulates GO:0030261 ! chromosome condensation created_by: bmeldal creation_date: 2017-01-13T14:13:44Z [Term] id: GO:1905831 name: negative regulation of spindle assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of spindle assembly." [GO_REF:0000058, GOC:TermGenie, PMID:27689799] synonym: "down regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "down regulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "down regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of spindle formation" EXACT [GOC:TermGenie] synonym: "down-regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "down-regulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of spindle formation" EXACT [GOC:TermGenie] synonym: "downregulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "downregulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "downregulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of spindle formation" EXACT [GOC:TermGenie] synonym: "inhibition of bipolar spindle biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of bipolar spindle formation" NARROW [GOC:TermGenie] synonym: "inhibition of spindle assembly" NARROW [GOC:TermGenie] synonym: "inhibition of spindle biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of spindle formation" NARROW [GOC:TermGenie] synonym: "negative regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "negative regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of spindle formation" EXACT [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0051494 ! negative regulation of cytoskeleton organization is_a: GO:0090169 ! regulation of spindle assembly is_a: GO:1902116 ! negative regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051225 ! spindle assembly relationship: negatively_regulates GO:0051225 ! spindle assembly created_by: hbye creation_date: 2017-01-17T10:26:37Z [Term] id: GO:1905832 name: positive regulation of spindle assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of spindle assembly." [GO_REF:0000058, GOC:TermGenie, PMID:27689799] synonym: "activation of bipolar spindle biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of bipolar spindle formation" NARROW [GOC:TermGenie] synonym: "activation of spindle assembly" NARROW [GOC:TermGenie] synonym: "activation of spindle biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of spindle formation" NARROW [GOC:TermGenie] synonym: "positive regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "positive regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of spindle formation" EXACT [GOC:TermGenie] synonym: "up regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "up regulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "up regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of spindle formation" EXACT [GOC:TermGenie] synonym: "up-regulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "up-regulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of spindle formation" EXACT [GOC:TermGenie] synonym: "upregulation of bipolar spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of bipolar spindle formation" EXACT [GOC:TermGenie] synonym: "upregulation of spindle assembly" EXACT [GOC:TermGenie] synonym: "upregulation of spindle biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of spindle formation" EXACT [GOC:TermGenie] is_a: GO:0051495 ! positive regulation of cytoskeleton organization is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:0090169 ! regulation of spindle assembly is_a: GO:1902117 ! positive regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051225 ! spindle assembly relationship: positively_regulates GO:0051225 ! spindle assembly created_by: hbye creation_date: 2017-01-17T10:26:46Z [Term] id: GO:1905833 name: negative regulation of microtubule nucleation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of microtubule nucleation." [GO_REF:0000058, GOC:TermGenie, PMID:27689799] synonym: "down regulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "inhibition of microtubule nucleation" NARROW [GOC:TermGenie] is_a: GO:0010968 ! regulation of microtubule nucleation is_a: GO:0031115 ! negative regulation of microtubule polymerization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007020 ! microtubule nucleation relationship: negatively_regulates GO:0007020 ! microtubule nucleation created_by: hbye creation_date: 2017-01-17T12:00:56Z [Term] id: GO:1905843 name: regulation of cellular response to gamma radiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular response to gamma radiation." [GO_REF:0000058, GOC:TermGenie, PMID:23505386] synonym: "regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] is_a: GO:0050794 ! regulation of cellular process is_a: GO:2001228 ! regulation of response to gamma radiation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0071480 ! cellular response to gamma radiation relationship: regulates GO:0071480 ! cellular response to gamma radiation created_by: rozaru creation_date: 2017-01-19T10:24:39Z [Term] id: GO:1905844 name: negative regulation of cellular response to gamma radiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cellular response to gamma radiation." [GO_REF:0000058, GOC:TermGenie, PMID:23505386] synonym: "down regulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "down regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "down regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "down-regulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "down-regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "downregulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "downregulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "downregulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "inhibition of cellular response to gamma radiation" NARROW [GOC:TermGenie] synonym: "inhibition of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "inhibition of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "negative regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "negative regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1905843 ! regulation of cellular response to gamma radiation is_a: GO:2001229 ! negative regulation of response to gamma radiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0071480 ! cellular response to gamma radiation relationship: negatively_regulates GO:0071480 ! cellular response to gamma radiation created_by: rozaru creation_date: 2017-01-19T10:24:48Z [Term] id: GO:1905845 name: positive regulation of cellular response to gamma radiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cellular response to gamma radiation." [GO_REF:0000058, GOC:TermGenie, PMID:23505386] synonym: "activation of cellular response to gamma radiation" NARROW [GOC:TermGenie] synonym: "activation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "activation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "positive regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "positive regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "up regulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "up regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "up regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "up-regulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "up-regulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] synonym: "upregulation of cellular response to gamma radiation" EXACT [GOC:TermGenie] synonym: "upregulation of cellular response to gamma ray" RELATED [GOC:TermGenie] synonym: "upregulation of cellular response to gamma-ray photon" RELATED [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1905843 ! regulation of cellular response to gamma radiation is_a: GO:2001230 ! positive regulation of response to gamma radiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0071480 ! cellular response to gamma radiation relationship: positively_regulates GO:0071480 ! cellular response to gamma radiation created_by: rozaru creation_date: 2017-01-19T10:24:57Z [Term] id: GO:1905851 name: negative regulation of backward locomotion namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of backward locomotion." [GO_REF:0000058, GOC:TermGenie, PMID:11717360] synonym: "down regulation of backward locomotion" EXACT [GOC:TermGenie] synonym: "down-regulation of backward locomotion" EXACT [GOC:TermGenie] synonym: "downregulation of backward locomotion" EXACT [GOC:TermGenie] synonym: "inhibition of backward locomotion" NARROW [GOC:TermGenie] is_a: GO:0040013 ! negative regulation of locomotion is_a: GO:0043058 ! regulation of backward locomotion intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043057 ! backward locomotion relationship: negatively_regulates GO:0043057 ! backward locomotion created_by: rozaru creation_date: 2017-01-23T11:04:16Z [Term] id: GO:1905852 name: positive regulation of backward locomotion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of backward locomotion." [GO_REF:0000058, GOC:TermGenie, PMID:11717360] synonym: "activation of backward locomotion" NARROW [GOC:TermGenie] synonym: "up regulation of backward locomotion" EXACT [GOC:TermGenie] synonym: "up-regulation of backward locomotion" EXACT [GOC:TermGenie] synonym: "upregulation of backward locomotion" EXACT [GOC:TermGenie] is_a: GO:0040017 ! positive regulation of locomotion is_a: GO:0043058 ! regulation of backward locomotion intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043057 ! backward locomotion relationship: positively_regulates GO:0043057 ! backward locomotion created_by: rozaru creation_date: 2017-01-23T11:04:25Z [Term] id: GO:1905864 name: regulation of Atg1/ULK1 kinase complex assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of Atg1/ULK1 kinase complex assembly." [GO_REF:0000058, GOC:autophagy, GOC:mf, GOC:TermGenie, PMID:26567215] synonym: "regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] is_a: GO:0043254 ! regulation of protein complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly relationship: regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly created_by: paolaroncaglia creation_date: 2017-01-26T13:23:26Z [Term] id: GO:1905865 name: negative regulation of Atg1/ULK1 kinase complex assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of Atg1/ULK1 kinase complex assembly." [GO_REF:0000058, GOC:autophagy, GOC:mf, GOC:TermGenie, PMID:26567215] synonym: "down regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "down regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "inhibition of ATG1 kinase complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1 kinase complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1-ATG13 complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1-ATG13 complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1/ULK1 kinase complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1/ULK1 kinase complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1/ULK1 signaling complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ATG1/ULK1 signaling complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of Atg1p signalling complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of Atg1p signalling complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1 signaling complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1 signaling complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1-ATG13-FIP200 complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1-ATG13-FIP200 complex formation" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1-ATG13-RB1CC1 complex assembly" NARROW [GOC:TermGenie] synonym: "inhibition of ULK1-ATG13-RB1CC1 complex formation" NARROW [GOC:TermGenie] synonym: "negative regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] is_a: GO:0031333 ! negative regulation of protein complex assembly is_a: GO:1905864 ! regulation of Atg1/ULK1 kinase complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly relationship: negatively_regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly created_by: paolaroncaglia creation_date: 2017-01-26T13:23:35Z [Term] id: GO:1905866 name: positive regulation of Atg1/ULK1 kinase complex assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of Atg1/ULK1 kinase complex assembly." [GO_REF:0000058, GOC:autophagy, GOC:mf, GOC:TermGenie, PMID:26567215] synonym: "activation of ATG1 kinase complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ATG1 kinase complex formation" NARROW [GOC:TermGenie] synonym: "activation of ATG1-ATG13 complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ATG1-ATG13 complex formation" NARROW [GOC:TermGenie] synonym: "activation of ATG1/ULK1 kinase complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ATG1/ULK1 kinase complex formation" NARROW [GOC:TermGenie] synonym: "activation of ATG1/ULK1 signaling complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ATG1/ULK1 signaling complex formation" NARROW [GOC:TermGenie] synonym: "activation of Atg1p signalling complex assembly" NARROW [GOC:TermGenie] synonym: "activation of Atg1p signalling complex formation" NARROW [GOC:TermGenie] synonym: "activation of ULK1 signaling complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ULK1 signaling complex formation" NARROW [GOC:TermGenie] synonym: "activation of ULK1-ATG13-FIP200 complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ULK1-ATG13-FIP200 complex formation" NARROW [GOC:TermGenie] synonym: "activation of ULK1-ATG13-RB1CC1 complex assembly" NARROW [GOC:TermGenie] synonym: "activation of ULK1-ATG13-RB1CC1 complex formation" NARROW [GOC:TermGenie] synonym: "positive regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1-ATG13 complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1-ATG13 complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1/ULK1 kinase complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1/ULK1 kinase complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1/ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ATG1/ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of Atg1p signalling complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of Atg1p signalling complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1 signaling complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1 signaling complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1-ATG13-FIP200 complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1-ATG13-FIP200 complex formation" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1-ATG13-RB1CC1 complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of ULK1-ATG13-RB1CC1 complex formation" EXACT [GOC:TermGenie] is_a: GO:0031334 ! positive regulation of protein complex assembly is_a: GO:1905864 ! regulation of Atg1/ULK1 kinase complex assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly relationship: positively_regulates GO:1904745 ! Atg1/ULK1 kinase complex assembly created_by: paolaroncaglia creation_date: 2017-01-26T13:23:44Z [Term] id: GO:1905879 name: regulation of oogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of oogenesis." [GO_REF:0000058, GOC:TermGenie, PMID:26434723] synonym: "regulation of ovum development" EXACT [GOC:TermGenie] is_a: GO:0043900 ! regulation of multi-organism process is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:0060284 ! regulation of cell development is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048477 ! oogenesis relationship: regulates GO:0048477 ! oogenesis created_by: hbye creation_date: 2017-01-31T09:31:05Z [Term] id: GO:1905880 name: negative regulation of oogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of oogenesis." [GO_REF:0000058, GOC:TermGenie, PMID:26434723] synonym: "down regulation of oogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of ovum development" EXACT [GOC:TermGenie] synonym: "down-regulation of oogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of ovum development" EXACT [GOC:TermGenie] synonym: "downregulation of oogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of ovum development" EXACT [GOC:TermGenie] synonym: "inhibition of oogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of ovum development" NARROW [GOC:TermGenie] synonym: "negative regulation of ovum development" EXACT [GOC:TermGenie] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0043901 ! negative regulation of multi-organism process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905879 ! regulation of oogenesis is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048477 ! oogenesis relationship: negatively_regulates GO:0048477 ! oogenesis created_by: hbye creation_date: 2017-01-31T09:31:15Z [Term] id: GO:1905881 name: positive regulation of oogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of oogenesis." [GO_REF:0000058, GOC:TermGenie, PMID:26434723] synonym: "activation of oogenesis" NARROW [GOC:TermGenie] synonym: "activation of ovum development" NARROW [GOC:TermGenie] synonym: "positive regulation of ovum development" EXACT [GOC:TermGenie] synonym: "up regulation of oogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of ovum development" EXACT [GOC:TermGenie] synonym: "up-regulation of oogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of ovum development" EXACT [GOC:TermGenie] synonym: "upregulation of oogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of ovum development" EXACT [GOC:TermGenie] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0043902 ! positive regulation of multi-organism process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905879 ! regulation of oogenesis is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048477 ! oogenesis relationship: positively_regulates GO:0048477 ! oogenesis created_by: hbye creation_date: 2017-01-31T09:31:23Z [Term] id: GO:1905897 name: regulation of response to endoplasmic reticulum stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to endoplasmic reticulum stress." [GO_REF:0000058, GOC:aruk, GOC:bc, GOC:TermGenie, PMID:21803450] synonym: "regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "regulation of response to ER stress" EXACT [GOC:TermGenie] is_a: GO:0080135 ! regulation of cellular response to stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0034976 ! response to endoplasmic reticulum stress relationship: regulates GO:0034976 ! response to endoplasmic reticulum stress created_by: BarbaraCzub creation_date: 2017-02-01T11:42:55Z [Term] id: GO:1905898 name: positive regulation of response to endoplasmic reticulum stress namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of response to endoplasmic reticulum stress." [GO_REF:0000058, GOC:aruk, GOC:bc, GOC:TermGenie, PMID:21803450] synonym: "activation of cellular response to endoplasmic reticulum stress" NARROW [GOC:TermGenie] synonym: "activation of ER stress response" NARROW [GOC:TermGenie] synonym: "activation of response to endoplasmic reticulum stress" NARROW [GOC:TermGenie] synonym: "activation of response to ER stress" NARROW [GOC:TermGenie] synonym: "positive regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "positive regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "positive regulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "up regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "up regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "up regulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "up regulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "up-regulation of ER stress response" EXACT [GOC:TermGenie] synonym: "up-regulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "up-regulation of response to ER stress" EXACT [GOC:TermGenie] synonym: "upregulation of cellular response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "upregulation of ER stress response" EXACT [GOC:TermGenie] synonym: "upregulation of response to endoplasmic reticulum stress" EXACT [GOC:TermGenie] synonym: "upregulation of response to ER stress" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:1905897 ! regulation of response to endoplasmic reticulum stress intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0034976 ! response to endoplasmic reticulum stress relationship: positively_regulates GO:0034976 ! response to endoplasmic reticulum stress created_by: BarbaraCzub creation_date: 2017-02-01T11:43:03Z [Term] id: GO:1905902 name: regulation of mesoderm formation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] is_a: GO:0010470 ! regulation of gastrulation is_a: GO:2000380 ! regulation of mesoderm development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0001707 ! mesoderm formation relationship: regulates GO:0001707 ! mesoderm formation created_by: rachhuntley creation_date: 2017-02-03T12:28:20Z [Term] id: GO:1905903 name: negative regulation of mesoderm formation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] synonym: "down regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "down-regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "downregulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "inhibition of mesoderm formation" NARROW [GOC:TermGenie] is_a: GO:1905902 ! regulation of mesoderm formation is_a: GO:2000381 ! negative regulation of mesoderm development is_a: GO:2000542 ! negative regulation of gastrulation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0001707 ! mesoderm formation relationship: negatively_regulates GO:0001707 ! mesoderm formation created_by: rachhuntley creation_date: 2017-02-03T12:28:29Z [Term] id: GO:1905904 name: positive regulation of mesoderm formation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] synonym: "activation of mesoderm formation" NARROW [GOC:TermGenie] synonym: "up regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "up-regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "upregulation of mesoderm formation" EXACT [GOC:TermGenie] is_a: GO:1905902 ! regulation of mesoderm formation is_a: GO:2000382 ! positive regulation of mesoderm development is_a: GO:2000543 ! positive regulation of gastrulation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0001707 ! mesoderm formation relationship: positively_regulates GO:0001707 ! mesoderm formation created_by: rachhuntley creation_date: 2017-02-03T12:28:38Z [Term] id: GO:1905909 name: regulation of dauer entry namespace: biological_process def: "Any process that modulates the frequency, rate or extent of dauer entry." [GO_REF:0000058, GOC:TermGenie, PMID:21531333] synonym: "regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] is_a: GO:0061065 ! regulation of dauer larval development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043053 ! dauer entry relationship: regulates GO:0043053 ! dauer entry created_by: hbye creation_date: 2017-02-06T15:34:01Z [Term] id: GO:1905910 name: negative regulation of dauer entry namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of dauer entry." [GO_REF:0000058, GOC:TermGenie, PMID:21531333] synonym: "down regulation of dauer entry" EXACT [GOC:TermGenie] synonym: "down regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "down-regulation of dauer entry" EXACT [GOC:TermGenie] synonym: "down-regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "downregulation of dauer entry" EXACT [GOC:TermGenie] synonym: "downregulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "inhibition of dauer entry" NARROW [GOC:TermGenie] synonym: "inhibition of nematode entry into dormancy" NARROW [GOC:TermGenie] synonym: "negative regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] is_a: GO:0061067 ! negative regulation of dauer larval development is_a: GO:1905909 ! regulation of dauer entry intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043053 ! dauer entry relationship: negatively_regulates GO:0043053 ! dauer entry created_by: hbye creation_date: 2017-02-06T15:34:11Z [Term] id: GO:1905911 name: positive regulation of dauer entry namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of dauer entry." [GO_REF:0000058, GOC:TermGenie, PMID:21531333] synonym: "activation of dauer entry" NARROW [GOC:TermGenie] synonym: "activation of nematode entry into dormancy" NARROW [GOC:TermGenie] synonym: "positive regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "up regulation of dauer entry" EXACT [GOC:TermGenie] synonym: "up regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "up-regulation of dauer entry" EXACT [GOC:TermGenie] synonym: "up-regulation of nematode entry into dormancy" EXACT [GOC:TermGenie] synonym: "upregulation of dauer entry" EXACT [GOC:TermGenie] synonym: "upregulation of nematode entry into dormancy" EXACT [GOC:TermGenie] is_a: GO:0061066 ! positive regulation of dauer larval development is_a: GO:1905909 ! regulation of dauer entry intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043053 ! dauer entry relationship: positively_regulates GO:0043053 ! dauer entry created_by: hbye creation_date: 2017-02-06T15:34:20Z [Term] id: GO:1905939 name: regulation of gonad development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "regulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:2000026 ! regulation of multicellular organismal development is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008406 ! gonad development relationship: regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:01:50Z [Term] id: GO:1905940 name: negative regulation of gonad development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "down regulation of gonad development" EXACT [GOC:TermGenie] synonym: "down regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of gonad development" EXACT [GOC:TermGenie] synonym: "down-regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of gonad development" EXACT [GOC:TermGenie] synonym: "downregulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of gonad development" NARROW [GOC:TermGenie] synonym: "inhibition of gonadogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905939 ! regulation of gonad development is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008406 ! gonad development relationship: negatively_regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:01:59Z [Term] id: GO:1905941 name: positive regulation of gonad development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "activation of gonad development" NARROW [GOC:TermGenie] synonym: "activation of gonadogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of gonad development" EXACT [GOC:TermGenie] synonym: "up regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of gonad development" EXACT [GOC:TermGenie] synonym: "up-regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of gonad development" EXACT [GOC:TermGenie] synonym: "upregulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905939 ! regulation of gonad development is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008406 ! gonad development relationship: positively_regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:02:08Z [Term] id: GO:1905951 name: mitochondrion DNA recombination namespace: biological_process def: "Any DNA recombination that takes place in mitochondrion." [GO_REF:0000062, GOC:TermGenie, PMID:8087883] synonym: "DNA recombination in mitochondria" EXACT [GOC:TermGenie] is_a: GO:0006310 ! DNA recombination is_a: GO:0032042 ! mitochondrial DNA metabolic process intersection_of: GO:0006310 ! DNA recombination intersection_of: occurs_in GO:0005739 ! mitochondrion created_by: ValWood creation_date: 2017-02-19T10:48:17Z [Term] id: GO:1990138 name: neuron projection extension namespace: biological_process def: "Long distance growth of a single neuron projection involved in cellular development. A neuron projection is a prolongation or process extending from a nerve cell, e.g. an axon or dendrite." [GOC:BHF, GOC:rl, PMID:22790009] synonym: "neurite extension" NARROW [] synonym: "neuron process extension" EXACT [] synonym: "neuron protrusion extension" EXACT [] synonym: "neuronal cell projection extension" EXACT [] is_a: GO:0048588 ! developmental cell growth is_a: GO:0060560 ! developmental growth involved in morphogenesis relationship: part_of GO:0048812 ! neuron projection morphogenesis created_by: pr creation_date: 2013-07-08T08:40:45Z [Term] id: GO:1990580 name: regulation of cytoplasmic translational termination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic translational termination." [PMID:11570975] is_a: GO:0006449 ! regulation of translational termination is_a: GO:2000765 ! regulation of cytoplasmic translation intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0002184 ! cytoplasmic translational termination relationship: regulates GO:0002184 ! cytoplasmic translational termination created_by: vw creation_date: 2014-12-10T15:48:55Z [Term] id: GO:1990613 name: mitochondrial membrane fusion namespace: biological_process def: "The joining of two lipid bilayers that surround the mitochondria." [PMID:12052774] is_a: GO:0007006 ! mitochondrial membrane organization is_a: GO:0090174 ! organelle membrane fusion intersection_of: GO:0061025 ! membrane fusion intersection_of: occurs_in GO:0005739 ! mitochondrion created_by: vw creation_date: 2015-01-21T06:58:18Z [Term] id: GO:1990904 name: ribonucleoprotein complex namespace: cellular_component alt_id: GO:0030529 alt_id: GO:1990903 def: "A macromolecular complex containing both protein and RNA molecules." [GOC:vesicles] subset: goslim_pir synonym: "extracellular ribonucleoprotein complex" NARROW [] synonym: "intracellular ribonucleoprotein complex" NARROW [] synonym: "protein-RNA complex" EXACT [] synonym: "ribonucleoprotein complex" EXACT [] synonym: "RNA-protein complex" EXACT [] synonym: "RNP" EXACT [] xref: Wikipedia:Ribonucleoprotein is_a: GO:0032991 ! protein-containing complex created_by: pr creation_date: 2015-11-19T12:26:37Z [Term] id: GO:2000001 name: regulation of DNA damage checkpoint namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a DNA damage checkpoint." [GOC:obol] synonym: "regulation of DNA damage response, signal transduction resulting in cell cycle arrest" RELATED [GOC:obol] is_a: GO:1901976 ! regulation of cell cycle checkpoint is_a: GO:2001020 ! regulation of response to DNA damage stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000077 ! DNA damage checkpoint relationship: regulates GO:0000077 ! DNA damage checkpoint created_by: janelomax creation_date: 2010-07-15T03:25:00Z [Term] id: GO:2000002 name: negative regulation of DNA damage checkpoint namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a DNA damage checkpoint." [GOC:BHF, GOC:obol] synonym: "negative regulation of DNA damage response, signal transduction resulting in cell cycle arrest" RELATED [GOC:obol] is_a: GO:1901977 ! negative regulation of cell cycle checkpoint is_a: GO:2000001 ! regulation of DNA damage checkpoint is_a: GO:2001021 ! negative regulation of response to DNA damage stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000077 ! DNA damage checkpoint relationship: negatively_regulates GO:0000077 ! DNA damage checkpoint created_by: janelomax creation_date: 2010-07-15T03:25:06Z [Term] id: GO:2000003 name: positive regulation of DNA damage checkpoint namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a DNA damage checkpoint." [GOC:obol] synonym: "positive regulation of DNA damage response, signal transduction resulting in cell cycle arrest" RELATED [GOC:obol] is_a: GO:1901978 ! positive regulation of cell cycle checkpoint is_a: GO:2000001 ! regulation of DNA damage checkpoint is_a: GO:2001022 ! positive regulation of response to DNA damage stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000077 ! DNA damage checkpoint relationship: positively_regulates GO:0000077 ! DNA damage checkpoint created_by: janelomax creation_date: 2010-07-15T03:25:10Z [Term] id: GO:2000018 name: regulation of male gonad development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of male gonad development." [GOC:obol, GOC:yaf] synonym: "regulation of testicular development" EXACT [GOC:obol] synonym: "regulation of testis development" EXACT [GOC:obol] is_a: GO:1905939 ! regulation of gonad development intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0008584 ! male gonad development relationship: regulates GO:0008584 ! male gonad development created_by: janelomax creation_date: 2010-07-15T03:29:05Z [Term] id: GO:2000019 name: negative regulation of male gonad development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of male gonad development." [GOC:obol, GOC:yaf] synonym: "negative regulation of testicular development" EXACT [GOC:obol] synonym: "negative regulation of testis development" EXACT [GOC:obol] is_a: GO:1905940 ! negative regulation of gonad development is_a: GO:2000018 ! regulation of male gonad development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0008584 ! male gonad development relationship: negatively_regulates GO:0008584 ! male gonad development created_by: janelomax creation_date: 2010-07-15T03:29:10Z [Term] id: GO:2000020 name: positive regulation of male gonad development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of male gonad development." [GOC:obol] synonym: "positive regulation of testicular development" EXACT [GOC:obol] synonym: "positive regulation of testis development" EXACT [GOC:obol] is_a: GO:1905941 ! positive regulation of gonad development is_a: GO:2000018 ! regulation of male gonad development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0008584 ! male gonad development relationship: positively_regulates GO:0008584 ! male gonad development created_by: janelomax creation_date: 2010-07-15T03:29:13Z [Term] id: GO:2000026 name: regulation of multicellular organismal development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of multicellular organismal development." [GOC:obol] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007275 ! multicellular organism development relationship: regulates GO:0007275 ! multicellular organism development created_by: tanyaberardini creation_date: 2010-08-05T11:25:59Z [Term] id: GO:2000035 name: regulation of stem cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of stem cell division." [GOC:obol] synonym: "regulation of stem cell renewal" EXACT [GOC:obol] is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0017145 ! stem cell division relationship: regulates GO:0017145 ! stem cell division created_by: tanyaberardini creation_date: 2010-08-05T11:34:53Z [Term] id: GO:2000045 name: regulation of G1/S transition of mitotic cell cycle namespace: biological_process def: "Any signalling pathway that modulates the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the mitotic cell cycle." [GOC:mtg_cell_cycle] comment: Note that this process is usually achieved by the regulation of the G1 cyclin-dependent protein kinase, consider annotating to the child term 'regulation of cyclin-dependent protein kinase activity involved in G1/S ; GO:0031657'. is_a: GO:1901990 ! regulation of mitotic cell cycle phase transition is_a: GO:1902806 ! regulation of cell cycle G1/S phase transition intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000082 ! G1/S transition of mitotic cell cycle relationship: regulates GO:0000082 ! G1/S transition of mitotic cell cycle created_by: tanyaberardini creation_date: 2010-08-19T09:10:56Z [Term] id: GO:2000104 name: negative regulation of DNA-dependent DNA replication namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of DNA-dependent DNA replication." [GOC:mah] is_a: GO:0008156 ! negative regulation of DNA replication is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006261 ! DNA-dependent DNA replication relationship: negatively_regulates GO:0006261 ! DNA-dependent DNA replication created_by: midori creation_date: 2010-09-15T01:37:05Z [Term] id: GO:2000105 name: positive regulation of DNA-dependent DNA replication namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA-dependent DNA replication." [GOC:mah] is_a: GO:0045740 ! positive regulation of DNA replication is_a: GO:0090329 ! regulation of DNA-dependent DNA replication intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006261 ! DNA-dependent DNA replication relationship: positively_regulates GO:0006261 ! DNA-dependent DNA replication created_by: midori creation_date: 2010-09-15T01:37:10Z [Term] id: GO:2000112 name: regulation of cellular macromolecule biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] synonym: "regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule anabolism" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule formation" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule synthesis" EXACT [GOC:obol] is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0034645 ! cellular macromolecule biosynthetic process relationship: regulates GO:0034645 ! cellular macromolecule biosynthetic process created_by: tanyaberardini creation_date: 2010-09-15T08:55:45Z [Term] id: GO:2000113 name: negative regulation of cellular macromolecule biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] synonym: "negative regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule anabolism" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule formation" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule synthesis" EXACT [GOC:obol] is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process relationship: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process created_by: tanyaberardini creation_date: 2010-09-15T08:55:48Z [Term] id: GO:2000134 name: negative regulation of G1/S transition of mitotic cell cycle namespace: biological_process def: "Any signalling pathway that decreases or inhibits the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G1 phase to S phase of the mitotic cell cycle." [GOC:mtg_cell_cycle] is_a: GO:1901991 ! negative regulation of mitotic cell cycle phase transition is_a: GO:1902807 ! negative regulation of cell cycle G1/S phase transition is_a: GO:2000045 ! regulation of G1/S transition of mitotic cell cycle intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle relationship: negatively_regulates GO:0000082 ! G1/S transition of mitotic cell cycle created_by: midori creation_date: 2010-09-29T09:38:51Z [Term] id: GO:2000145 name: regulation of cell motility namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell motility." [GOC:mah] synonym: "regulation of cell locomotion" EXACT [GOC:obol] synonym: "regulation of cell movement" RELATED [GOC:obol] synonym: "regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0048870 ! cell motility relationship: regulates GO:0048870 ! cell motility created_by: midori creation_date: 2010-10-01T09:41:21Z [Term] id: GO:2000146 name: negative regulation of cell motility namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell motility." [GOC:mah] synonym: "negative regulation of cell locomotion" EXACT [GOC:obol] synonym: "negative regulation of cell movement" RELATED [GOC:obol] synonym: "negative regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040013 ! negative regulation of locomotion is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0048870 ! cell motility relationship: negatively_regulates GO:0048870 ! cell motility created_by: midori creation_date: 2010-10-01T09:41:26Z [Term] id: GO:2000147 name: positive regulation of cell motility namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell motility." [GOC:mah] synonym: "positive regulation of cell locomotion" EXACT [GOC:obol] synonym: "positive regulation of cell movement" RELATED [GOC:obol] synonym: "positive regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040017 ! positive regulation of locomotion is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0048870 ! cell motility relationship: positively_regulates GO:0048870 ! cell motility created_by: midori creation_date: 2010-10-01T09:41:30Z [Term] id: GO:2000171 name: negative regulation of dendrite development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of dendrite development." [GOC:obol] is_a: GO:0010977 ! negative regulation of neuron projection development is_a: GO:0050773 ! regulation of dendrite development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016358 ! dendrite development relationship: negatively_regulates GO:0016358 ! dendrite development created_by: rl creation_date: 2010-10-07T10:53:15Z [Term] id: GO:2000197 name: regulation of ribonucleoprotein complex localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ribonucleoprotein complex localization." [GOC:mah] synonym: "regulation of cellular ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "regulation of establishment and maintenance of ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "regulation of ribonucleoprotein complex localisation" EXACT [GOC:mah] synonym: "regulation of RNP localization" EXACT [GOC:obol] is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0071166 ! ribonucleoprotein complex localization relationship: regulates GO:0071166 ! ribonucleoprotein complex localization created_by: midori creation_date: 2010-10-26T10:35:48Z [Term] id: GO:2000198 name: negative regulation of ribonucleoprotein complex localization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of ribonucleoprotein complex localization." [GOC:mah] synonym: "negative regulation of cellular ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "negative regulation of establishment and maintenance of ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "negative regulation of ribonucleoprotein complex localisation" EXACT [GOC:mah] synonym: "negative regulation of RNP localization" EXACT [GOC:obol] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:2000197 ! regulation of ribonucleoprotein complex localization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0071166 ! ribonucleoprotein complex localization relationship: negatively_regulates GO:0071166 ! ribonucleoprotein complex localization created_by: midori creation_date: 2010-10-26T10:35:52Z [Term] id: GO:2000199 name: positive regulation of ribonucleoprotein complex localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ribonucleoprotein complex localization." [GOC:mah] synonym: "positive regulation of cellular ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "positive regulation of establishment and maintenance of ribonucleoprotein complex localization" EXACT [GOC:obol] synonym: "positive regulation of ribonucleoprotein complex localisation" EXACT [GOC:mah] synonym: "positive regulation of RNP localization" EXACT [GOC:obol] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:2000197 ! regulation of ribonucleoprotein complex localization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0071166 ! ribonucleoprotein complex localization relationship: positively_regulates GO:0071166 ! ribonucleoprotein complex localization created_by: midori creation_date: 2010-10-26T10:35:55Z [Term] id: GO:2000241 name: regulation of reproductive process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0022414 ! reproductive process relationship: regulates GO:0022414 ! reproductive process created_by: midori creation_date: 2010-11-10T02:44:02Z [Term] id: GO:2000242 name: negative regulation of reproductive process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0022414 ! reproductive process relationship: negatively_regulates GO:0022414 ! reproductive process created_by: midori creation_date: 2010-11-10T02:44:05Z [Term] id: GO:2000243 name: positive regulation of reproductive process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0022414 ! reproductive process relationship: positively_regulates GO:0022414 ! reproductive process created_by: midori creation_date: 2010-11-10T02:44:08Z [Term] id: GO:2000249 name: regulation of actin cytoskeleton reorganization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of actin cytoskeleton reorganization." [GOC:BHF] synonym: "regulation of actin cytoskeleton remodeling" EXACT [GOC:obol] synonym: "regulation of actin cytoskeleton reorganisation" EXACT [GOC:obol] is_a: GO:0032956 ! regulation of actin cytoskeleton organization intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0031532 ! actin cytoskeleton reorganization relationship: regulates GO:0031532 ! actin cytoskeleton reorganization created_by: vk creation_date: 2010-11-11T01:25:26Z [Term] id: GO:2000250 name: negative regulation of actin cytoskeleton reorganization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of actin cytoskeleton reorganization." [GOC:BHF] synonym: "negative regulation of actin cytoskeleton remodeling" EXACT [GOC:obol] synonym: "negative regulation of actin cytoskeleton reorganisation" EXACT [GOC:obol] is_a: GO:0051494 ! negative regulation of cytoskeleton organization is_a: GO:2000249 ! regulation of actin cytoskeleton reorganization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0031532 ! actin cytoskeleton reorganization relationship: negatively_regulates GO:0031532 ! actin cytoskeleton reorganization created_by: vk creation_date: 2010-11-11T01:25:29Z [Term] id: GO:2000251 name: positive regulation of actin cytoskeleton reorganization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of actin cytoskeleton reorganization." [GOC:BHF] synonym: "positive regulation of actin cytoskeleton remodeling" EXACT [GOC:obol] synonym: "positive regulation of actin cytoskeleton reorganisation" EXACT [GOC:obol] is_a: GO:0051495 ! positive regulation of cytoskeleton organization is_a: GO:2000249 ! regulation of actin cytoskeleton reorganization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0031532 ! actin cytoskeleton reorganization relationship: positively_regulates GO:0031532 ! actin cytoskeleton reorganization created_by: vk creation_date: 2010-11-11T01:25:32Z [Term] id: GO:2000252 name: negative regulation of feeding behavior namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of feeding behavior." [GOC:obol] synonym: "negative regulation of behavioral response to food" EXACT [GOC:obol] synonym: "negative regulation of behavioural response to food" EXACT [GOC:obol] synonym: "negative regulation of drinking" RELATED [GOC:obol] synonym: "negative regulation of eating" RELATED [GOC:obol] synonym: "negative regulation of feeding behaviour" EXACT [GOC:obol] is_a: GO:0048521 ! negative regulation of behavior is_a: GO:0060259 ! regulation of feeding behavior intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007631 ! feeding behavior relationship: negatively_regulates GO:0007631 ! feeding behavior created_by: yaf creation_date: 2010-11-18T11:24:14Z [Term] id: GO:2000253 name: positive regulation of feeding behavior namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of feeding behavior." [GOC:obol] synonym: "positive regulation of behavioral response to food" EXACT [GOC:obol] synonym: "positive regulation of behavioural response to food" EXACT [GOC:obol] synonym: "positive regulation of drinking" RELATED [GOC:obol] synonym: "positive regulation of eating" RELATED [GOC:obol] synonym: "positive regulation of feeding behaviour" EXACT [GOC:obol] is_a: GO:0048520 ! positive regulation of behavior is_a: GO:0060259 ! regulation of feeding behavior intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007631 ! feeding behavior relationship: positively_regulates GO:0007631 ! feeding behavior created_by: yaf creation_date: 2010-11-18T11:24:18Z [Term] id: GO:2000272 name: negative regulation of signaling receptor activity namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a signaling receptor activity." [GOC:obol] synonym: "negative regulation of receptor activity" BROAD [] is_a: GO:0010469 ! regulation of signaling receptor activity is_a: GO:0044092 ! negative regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0038023 ! signaling receptor activity relationship: negatively_regulates GO:0038023 ! signaling receptor activity created_by: rfoulger creation_date: 2010-12-02T09:28:47Z [Term] id: GO:2000273 name: positive regulation of signaling receptor activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of signaling receptor activity." [GOC:obol] is_a: GO:0010469 ! regulation of signaling receptor activity is_a: GO:0044093 ! positive regulation of molecular function intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0038023 ! signaling receptor activity relationship: positively_regulates GO:0038023 ! signaling receptor activity created_by: rfoulger creation_date: 2010-12-02T09:28:50Z [Term] id: GO:2000278 name: regulation of DNA biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "regulation of DNA anabolism" EXACT [GOC:obol] synonym: "regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "regulation of DNA formation" EXACT [GOC:obol] synonym: "regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0051052 ! regulation of DNA metabolic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0071897 ! DNA biosynthetic process relationship: regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2010-12-08T04:48:15Z [Term] id: GO:2000279 name: negative regulation of DNA biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "negative regulation of DNA anabolism" EXACT [GOC:obol] synonym: "negative regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "negative regulation of DNA formation" EXACT [GOC:obol] synonym: "negative regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process is_a: GO:2000278 ! regulation of DNA biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0071897 ! DNA biosynthetic process relationship: negatively_regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2010-12-08T04:48:20Z [Term] id: GO:2000292 name: regulation of defecation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of defecation." [GOC:obol] is_a: GO:0044062 ! regulation of excretion intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0030421 ! defecation relationship: regulates GO:0030421 ! defecation created_by: rfoulger creation_date: 2010-12-21T09:23:08Z [Term] id: GO:2000293 name: negative regulation of defecation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of defecation." [GOC:obol] is_a: GO:0051048 ! negative regulation of secretion is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000292 ! regulation of defecation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0030421 ! defecation relationship: negatively_regulates GO:0030421 ! defecation created_by: rfoulger creation_date: 2010-12-21T09:23:13Z [Term] id: GO:2000294 name: positive regulation of defecation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of defecation." [GOC:obol] is_a: GO:0051047 ! positive regulation of secretion is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000292 ! regulation of defecation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0030421 ! defecation relationship: positively_regulates GO:0030421 ! defecation created_by: rfoulger creation_date: 2010-12-21T09:23:16Z [Term] id: GO:2000300 name: regulation of synaptic vesicle exocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synaptic vesicle exocytosis." [GOC:obol] subset: goslim_synapse is_a: GO:0046928 ! regulation of neurotransmitter secretion is_a: GO:0098693 ! regulation of synaptic vesicle cycle is_a: GO:1903305 ! regulation of regulated secretory pathway intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0016079 ! synaptic vesicle exocytosis relationship: regulates GO:0016079 ! synaptic vesicle exocytosis created_by: dph creation_date: 2011-01-03T08:20:40Z [Term] id: GO:2000301 name: negative regulation of synaptic vesicle exocytosis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synaptic vesicle exocytosis." [GOC:obol] is_a: GO:0046929 ! negative regulation of neurotransmitter secretion is_a: GO:1903306 ! negative regulation of regulated secretory pathway is_a: GO:2000300 ! regulation of synaptic vesicle exocytosis intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0016079 ! synaptic vesicle exocytosis relationship: negatively_regulates GO:0016079 ! synaptic vesicle exocytosis created_by: dph creation_date: 2011-01-03T08:21:00Z [Term] id: GO:2000302 name: positive regulation of synaptic vesicle exocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic vesicle exocytosis." [GOC:obol] is_a: GO:0001956 ! positive regulation of neurotransmitter secretion is_a: GO:1903307 ! positive regulation of regulated secretory pathway is_a: GO:2000300 ! regulation of synaptic vesicle exocytosis intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0016079 ! synaptic vesicle exocytosis relationship: positively_regulates GO:0016079 ! synaptic vesicle exocytosis created_by: dph creation_date: 2011-01-03T08:21:14Z [Term] id: GO:2000380 name: regulation of mesoderm development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007498 ! mesoderm development relationship: regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:09:46Z [Term] id: GO:2000381 name: negative regulation of mesoderm development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:2000380 ! regulation of mesoderm development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007498 ! mesoderm development relationship: negatively_regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:10:02Z [Term] id: GO:2000382 name: positive regulation of mesoderm development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:2000380 ! regulation of mesoderm development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007498 ! mesoderm development relationship: positively_regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:10:12Z [Term] id: GO:2000383 name: regulation of ectoderm development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0007398 ! ectoderm development relationship: regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:10Z [Term] id: GO:2000384 name: negative regulation of ectoderm development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:2000383 ! regulation of ectoderm development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007398 ! ectoderm development relationship: negatively_regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:27Z [Term] id: GO:2000385 name: positive regulation of ectoderm development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:2000383 ! regulation of ectoderm development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007398 ! ectoderm development relationship: positively_regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:39Z [Term] id: GO:2000425 name: regulation of apoptotic cell clearance namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic cell clearance." [GOC:obol] synonym: "regulation of apoptotic cell removal" EXACT [GOC:obol] synonym: "regulation of efferocytosis" EXACT [GOC:obol] synonym: "regulation of programmed cell clearance" EXACT [GOC:obol] is_a: GO:0050764 ! regulation of phagocytosis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0043277 ! apoptotic cell clearance relationship: regulates GO:0043277 ! apoptotic cell clearance created_by: rfoulger creation_date: 2011-02-25T11:50:11Z [Term] id: GO:2000426 name: negative regulation of apoptotic cell clearance namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic cell clearance." [GOC:obol] synonym: "negative regulation of apoptotic cell removal" EXACT [GOC:obol] synonym: "negative regulation of efferocytosis" EXACT [GOC:obol] synonym: "negative regulation of programmed cell clearance" EXACT [GOC:obol] is_a: GO:0050765 ! negative regulation of phagocytosis is_a: GO:2000425 ! regulation of apoptotic cell clearance intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0043277 ! apoptotic cell clearance relationship: negatively_regulates GO:0043277 ! apoptotic cell clearance created_by: rfoulger creation_date: 2011-02-25T11:50:39Z [Term] id: GO:2000427 name: positive regulation of apoptotic cell clearance namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic cell clearance." [GOC:obol] synonym: "positive regulation of apoptotic cell removal" EXACT [GOC:obol] synonym: "positive regulation of efferocytosis" EXACT [GOC:obol] synonym: "positive regulation of programmed cell clearance" EXACT [GOC:obol] is_a: GO:0050766 ! positive regulation of phagocytosis is_a: GO:2000425 ! regulation of apoptotic cell clearance intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0043277 ! apoptotic cell clearance relationship: positively_regulates GO:0043277 ! apoptotic cell clearance created_by: rfoulger creation_date: 2011-02-25T11:50:59Z [Term] id: GO:2000542 name: negative regulation of gastrulation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of gastrulation." [GOC:obol] is_a: GO:0010470 ! regulation of gastrulation is_a: GO:0045992 ! negative regulation of embryonic development intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0007369 ! gastrulation relationship: negatively_regulates GO:0007369 ! gastrulation created_by: yaf creation_date: 2011-04-01T04:10:08Z [Term] id: GO:2000543 name: positive regulation of gastrulation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gastrulation." [GOC:obol] is_a: GO:0010470 ! regulation of gastrulation is_a: GO:0040019 ! positive regulation of embryonic development intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0007369 ! gastrulation relationship: positively_regulates GO:0007369 ! gastrulation created_by: yaf creation_date: 2011-04-01T04:10:15Z [Term] id: GO:2000573 name: positive regulation of DNA biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "positive regulation of DNA anabolism" EXACT [GOC:obol] synonym: "positive regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "positive regulation of DNA formation" EXACT [GOC:obol] synonym: "positive regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:2000278 ! regulation of DNA biosynthetic process intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0071897 ! DNA biosynthetic process relationship: positively_regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2011-04-04T10:01:20Z [Term] id: GO:2000622 name: regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay." [GOC:obol] synonym: "regulation of mRNA breakdown, nonsense-mediated decay" EXACT [GOC:obol] synonym: "regulation of mRNA catabolic process, nonsense-mediated" EXACT [GOC:obol] synonym: "regulation of mRNA catabolism, nonsense-mediated" EXACT [GOC:obol] synonym: "regulation of mRNA degradation, nonsense-mediated decay" EXACT [GOC:obol] synonym: "regulation of nonsense-mediated mRNA decay" EXACT [GOC:obol] synonym: "regulation of nuclear mRNA catabolic process, nonsense-mediated decay" EXACT [GOC:obol] is_a: GO:0061013 ! regulation of mRNA catabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay relationship: regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay created_by: pr creation_date: 2011-04-18T03:32:42Z [Term] id: GO:2000623 name: negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay." [GOC:obol] synonym: "negative regulation of mRNA breakdown, nonsense-mediated decay" EXACT [GOC:obol] synonym: "negative regulation of mRNA catabolic process, nonsense-mediated" EXACT [GOC:obol] synonym: "negative regulation of mRNA catabolism, nonsense-mediated" EXACT [GOC:obol] synonym: "negative regulation of mRNA degradation, nonsense-mediated decay" EXACT [GOC:obol] synonym: "negative regulation of nonsense-mediated mRNA decay" EXACT [GOC:obol] synonym: "negative regulation of nuclear mRNA catabolic process, nonsense-mediated decay" EXACT [GOC:obol] is_a: GO:1902373 ! negative regulation of mRNA catabolic process is_a: GO:2000622 ! regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay relationship: negatively_regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay created_by: pr creation_date: 2011-04-18T03:32:46Z [Term] id: GO:2000624 name: positive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay." [GOC:obol] synonym: "positive regulation of mRNA breakdown, nonsense-mediated decay" EXACT [GOC:obol] synonym: "positive regulation of mRNA catabolic process, nonsense-mediated" EXACT [GOC:obol] synonym: "positive regulation of mRNA catabolism, nonsense-mediated" EXACT [GOC:obol] synonym: "positive regulation of mRNA degradation, nonsense-mediated decay" EXACT [GOC:obol] synonym: "positive regulation of nonsense-mediated mRNA decay" EXACT [GOC:obol] synonym: "positive regulation of nuclear mRNA catabolic process, nonsense-mediated decay" EXACT [GOC:obol] is_a: GO:0061014 ! positive regulation of mRNA catabolic process is_a: GO:2000622 ! regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay relationship: positively_regulates GO:0000184 ! nuclear-transcribed mRNA catabolic process, nonsense-mediated decay created_by: pr creation_date: 2011-04-18T03:32:49Z [Term] id: GO:2000746 name: regulation of defecation rhythm namespace: biological_process def: "Any process that modulates the frequency, rate or extent of defecation rhythm." [GOC:kmv] synonym: "regulation of defecation behavior" RELATED [GOC:obol] synonym: "regulation of defecation cycle" EXACT [GOC:obol] synonym: "regulation of defecation motor program" EXACT [GOC:obol] synonym: "regulation of DMP" EXACT [GOC:obol] is_a: GO:2000292 ! regulation of defecation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0035882 ! defecation rhythm relationship: regulates GO:0035882 ! defecation rhythm created_by: rfoulger creation_date: 2011-06-15T03:23:07Z [Term] id: GO:2000747 name: negative regulation of defecation rhythm namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of defecation rhythm." [GOC:kmv] synonym: "negative regulation of defecation behavior" RELATED [GOC:obol] synonym: "negative regulation of defecation cycle" EXACT [GOC:obol] synonym: "negative regulation of defecation motor program" EXACT [GOC:obol] synonym: "negative regulation of DMP" EXACT [GOC:obol] is_a: GO:2000293 ! negative regulation of defecation is_a: GO:2000746 ! regulation of defecation rhythm intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0035882 ! defecation rhythm relationship: negatively_regulates GO:0035882 ! defecation rhythm created_by: rfoulger creation_date: 2011-06-15T03:23:10Z [Term] id: GO:2000748 name: positive regulation of defecation rhythm namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of defecation rhythm." [GOC:kmv] synonym: "positive regulation of defecation behavior" RELATED [GOC:obol] synonym: "positive regulation of defecation cycle" EXACT [GOC:obol] synonym: "positive regulation of defecation motor program" EXACT [GOC:obol] synonym: "positive regulation of DMP" EXACT [GOC:obol] is_a: GO:2000294 ! positive regulation of defecation is_a: GO:2000746 ! regulation of defecation rhythm intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0035882 ! defecation rhythm relationship: positively_regulates GO:0035882 ! defecation rhythm created_by: rfoulger creation_date: 2011-06-15T03:23:13Z [Term] id: GO:2000765 name: regulation of cytoplasmic translation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic translation." [GOC:obol] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0002181 ! cytoplasmic translation relationship: regulates GO:0002181 ! cytoplasmic translation created_by: vw creation_date: 2011-06-20T10:39:19Z [Term] id: GO:2000766 name: negative regulation of cytoplasmic translation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cytoplasmic translation." [GOC:obol] is_a: GO:0017148 ! negative regulation of translation is_a: GO:2000765 ! regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0002181 ! cytoplasmic translation relationship: negatively_regulates GO:0002181 ! cytoplasmic translation created_by: vw creation_date: 2011-06-20T10:39:23Z [Term] id: GO:2000767 name: positive regulation of cytoplasmic translation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cytoplasmic translation." [GOC:obol] is_a: GO:0045727 ! positive regulation of translation is_a: GO:2000765 ! regulation of cytoplasmic translation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0002181 ! cytoplasmic translation relationship: positively_regulates GO:0002181 ! cytoplasmic translation created_by: vw creation_date: 2011-06-20T10:39:26Z [Term] id: GO:2000785 name: regulation of autophagosome assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of autophagosome assembly." [GOC:autophagy, GOC:BHF] synonym: "regulation of autophagic vacuole assembly" EXACT [GOC:autophagy] synonym: "regulation of autophagic vacuole formation" RELATED [GOC:obol] synonym: "regulation of autophagosome biosynthesis" EXACT [GOC:obol] synonym: "regulation of autophagosome formation" EXACT [GOC:obol] synonym: "regulation of PAS formation" RELATED [GOC:obol] is_a: GO:0016241 ! regulation of macroautophagy is_a: GO:0044088 ! regulation of vacuole organization is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0000045 ! autophagosome assembly relationship: regulates GO:0000045 ! autophagosome assembly created_by: rl creation_date: 2011-06-24T11:19:08Z [Term] id: GO:2000786 name: positive regulation of autophagosome assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of autophagic vacuole assembly." [GOC:autophagy, GOC:BHF] synonym: "positive regulation of autophagic vacuole assembly" EXACT [GOC:autophagy] synonym: "positive regulation of autophagic vacuole formation" RELATED [GOC:obol] synonym: "positive regulation of autophagosome biosynthesis" EXACT [GOC:obol] synonym: "positive regulation of autophagosome formation" EXACT [GOC:obol] synonym: "positive regulation of PAS formation" RELATED [GOC:obol] is_a: GO:0016239 ! positive regulation of macroautophagy is_a: GO:0044090 ! positive regulation of vacuole organization is_a: GO:1902117 ! positive regulation of organelle assembly is_a: GO:2000785 ! regulation of autophagosome assembly intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0000045 ! autophagosome assembly relationship: positively_regulates GO:0000045 ! autophagosome assembly created_by: rl creation_date: 2011-06-24T11:19:12Z [Term] id: GO:2000803 name: endosomal signal transduction namespace: biological_process def: "The process in which a signal is passed on to downstream components located at the endosome. Endosomes can provide important intracellular signaling platforms and provide spatial and temporal control over signal transduction." [GOC:bf, GOC:signaling, PMID:15084302, PMID:17662591] synonym: "endosome-based signaling" EXACT [PMID:17662591] synonym: "signaling cascade in endosome" RELATED [GOC:obol] synonym: "signaling from endosome" EXACT [PMID:17662591] synonym: "signaling pathway in endosome" RELATED [GOC:obol] synonym: "signalling cascade in endosome" RELATED [GOC:obol] synonym: "signalling pathway in endosome" RELATED [GOC:obol] is_a: GO:0035556 ! intracellular signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: occurs_in GO:0005768 ! endosome relationship: occurs_in GO:0005768 ! endosome created_by: rfoulger creation_date: 2011-07-01T03:45:12Z [Term] id: GO:2000816 name: negative regulation of mitotic sister chromatid separation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic sister chromatid separation." [GOC:obol] synonym: "negative regulation of chromosome separation during mitosis" RELATED [GOC:obol] synonym: "negative regulation of mitotic chromosome separation" RELATED [GOC:obol] synonym: "negative regulation of mitotic sister chromatid resolution" EXACT [GOC:obol] synonym: "negative regulation of sister chromatid separation during mitosis" EXACT [GOC:obol] is_a: GO:0010965 ! regulation of mitotic sister chromatid separation is_a: GO:0033048 ! negative regulation of mitotic sister chromatid segregation is_a: GO:1905819 ! negative regulation of chromosome separation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051306 ! mitotic sister chromatid separation relationship: negatively_regulates GO:0051306 ! mitotic sister chromatid separation created_by: midori creation_date: 2011-07-11T04:45:06Z [Term] id: GO:2001020 name: regulation of response to DNA damage stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to DNA damage stimulus." [GOC:obol] synonym: "regulation of cellular DNA damage response" EXACT [GOC:obol] synonym: "regulation of cellular response to DNA damage stimulus" EXACT [GOC:obol] synonym: "regulation of DNA damage response" EXACT [GOC:obol] synonym: "regulation of response to genotoxic stress" EXACT [GOC:obol] is_a: GO:0080135 ! regulation of cellular response to stress intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0006974 ! cellular response to DNA damage stimulus relationship: regulates GO:0006974 ! cellular response to DNA damage stimulus created_by: yaf creation_date: 2011-08-19T10:20:25Z [Term] id: GO:2001021 name: negative regulation of response to DNA damage stimulus namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of response to DNA damage stimulus." [GOC:obol] synonym: "negative regulation of cellular DNA damage response" EXACT [GOC:obol] synonym: "negative regulation of cellular response to DNA damage stimulus" EXACT [GOC:obol] synonym: "negative regulation of DNA damage response" EXACT [GOC:obol] synonym: "negative regulation of response to genotoxic stress" EXACT [GOC:obol] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:2001020 ! regulation of response to DNA damage stimulus intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0006974 ! cellular response to DNA damage stimulus relationship: negatively_regulates GO:0006974 ! cellular response to DNA damage stimulus created_by: yaf creation_date: 2011-08-19T10:20:29Z [Term] id: GO:2001022 name: positive regulation of response to DNA damage stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of response to DNA damage stimulus." [GOC:obol] synonym: "positive regulation of cellular DNA damage response" EXACT [GOC:obol] synonym: "positive regulation of cellular response to DNA damage stimulus" EXACT [GOC:obol] synonym: "positive regulation of DNA damage response" EXACT [GOC:obol] synonym: "positive regulation of response to genotoxic stress" EXACT [GOC:obol] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:2001020 ! regulation of response to DNA damage stimulus intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0006974 ! cellular response to DNA damage stimulus relationship: positively_regulates GO:0006974 ! cellular response to DNA damage stimulus created_by: yaf creation_date: 2011-08-19T10:20:33Z [Term] id: GO:2001023 name: regulation of response to drug namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to drug." [GOC:obol] synonym: "regulation of drug resistance" RELATED [GOC:obol] synonym: "regulation of drug susceptibility/resistance" RELATED [GOC:obol] is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0042493 ! response to drug relationship: regulates GO:0042493 ! response to drug created_by: yaf creation_date: 2011-08-19T01:47:20Z [Term] id: GO:2001024 name: negative regulation of response to drug namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of response to drug." [GOC:obol] synonym: "negative regulation of drug resistance" RELATED [GOC:obol] synonym: "negative regulation of drug susceptibility/resistance" RELATED [GOC:obol] is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:2001023 ! regulation of response to drug intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0042493 ! response to drug relationship: negatively_regulates GO:0042493 ! response to drug created_by: yaf creation_date: 2011-08-19T01:47:24Z [Term] id: GO:2001025 name: positive regulation of response to drug namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of response to drug." [GOC:obol] synonym: "positive regulation of drug resistance" RELATED [GOC:obol] synonym: "positive regulation of drug susceptibility/resistance" RELATED [GOC:obol] is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:2001023 ! regulation of response to drug intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0042493 ! response to drug relationship: positively_regulates GO:0042493 ! response to drug created_by: yaf creation_date: 2011-08-19T01:47:27Z [Term] id: GO:2001141 name: regulation of RNA biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of RNA biosynthetic process." [GOC:dph] synonym: "regulation of RNA anabolism" EXACT [GOC:obol] synonym: "regulation of RNA biosynthesis" EXACT [GOC:obol] synonym: "regulation of RNA formation" EXACT [GOC:obol] synonym: "regulation of RNA synthesis" EXACT [GOC:obol] is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0031326 ! regulation of cellular biosynthetic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0032774 ! RNA biosynthetic process relationship: regulates GO:0032774 ! RNA biosynthetic process created_by: dph creation_date: 2011-10-17T11:36:25Z [Term] id: GO:2001222 name: regulation of neuron migration namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron migration." [GOC:obol] synonym: "regulation of neuron chemotaxis" EXACT [GOC:obol] synonym: "regulation of neuron guidance" RELATED [GOC:obol] synonym: "regulation of neuronal migration" EXACT [GOC:obol] is_a: GO:0030334 ! regulation of cell migration is_a: GO:0050767 ! regulation of neurogenesis intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0001764 ! neuron migration relationship: regulates GO:0001764 ! neuron migration created_by: kmv creation_date: 2011-11-17T10:01:38Z [Term] id: GO:2001223 name: negative regulation of neuron migration namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuron migration." [GOC:obol] synonym: "negative regulation of neuron chemotaxis" EXACT [GOC:obol] synonym: "negative regulation of neuron guidance" RELATED [GOC:obol] synonym: "negative regulation of neuronal migration" EXACT [GOC:obol] is_a: GO:0030336 ! negative regulation of cell migration is_a: GO:0050768 ! negative regulation of neurogenesis is_a: GO:2001222 ! regulation of neuron migration intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0001764 ! neuron migration relationship: negatively_regulates GO:0001764 ! neuron migration created_by: kmv creation_date: 2011-11-17T10:01:45Z [Term] id: GO:2001224 name: positive regulation of neuron migration namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron migration." [GOC:obol] synonym: "positive regulation of neuron chemotaxis" EXACT [GOC:obol] synonym: "positive regulation of neuron guidance" RELATED [GOC:obol] synonym: "positive regulation of neuronal migration" EXACT [GOC:obol] is_a: GO:0030335 ! positive regulation of cell migration is_a: GO:0050769 ! positive regulation of neurogenesis is_a: GO:2001222 ! regulation of neuron migration intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0001764 ! neuron migration relationship: positively_regulates GO:0001764 ! neuron migration created_by: kmv creation_date: 2011-11-17T10:01:49Z [Term] id: GO:2001228 name: regulation of response to gamma radiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to gamma radiation." [GOC:obol] synonym: "regulation of response to gamma ray" RELATED [GOC:obol] synonym: "regulation of response to gamma-ray photon" RELATED [GOC:obol] is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0010332 ! response to gamma radiation relationship: regulates GO:0010332 ! response to gamma radiation created_by: yaf creation_date: 2011-11-20T04:51:07Z [Term] id: GO:2001229 name: negative regulation of response to gamma radiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of response to gamma radiation." [GOC:obol] synonym: "negative regulation of response to gamma ray" RELATED [GOC:obol] synonym: "negative regulation of response to gamma-ray photon" RELATED [GOC:obol] is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:2001228 ! regulation of response to gamma radiation intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0010332 ! response to gamma radiation relationship: negatively_regulates GO:0010332 ! response to gamma radiation created_by: yaf creation_date: 2011-11-20T04:51:14Z [Term] id: GO:2001230 name: positive regulation of response to gamma radiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of response to gamma radiation." [GOC:obol] synonym: "positive regulation of response to gamma ray" RELATED [GOC:obol] synonym: "positive regulation of response to gamma-ray photon" RELATED [GOC:obol] is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:2001228 ! regulation of response to gamma radiation intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0010332 ! response to gamma radiation relationship: positively_regulates GO:0010332 ! response to gamma radiation created_by: yaf creation_date: 2011-11-20T04:51:17Z [Term] id: GO:2001233 name: regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0097190 ! apoptotic signaling pathway relationship: regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:49Z [Term] id: GO:2001234 name: negative regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "negative regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0097190 ! apoptotic signaling pathway relationship: negatively_regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:54Z [Term] id: GO:2001235 name: positive regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "positive regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009967 ! positive regulation of signal transduction is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0097190 ! apoptotic signaling pathway relationship: positively_regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:58Z [Term] id: GO:2001242 name: regulation of intrinsic apoptotic signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of intrinsic apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "regulation of intrinsic apoptosis" NARROW [] synonym: "regulation of intrinsic apoptotic pathway" EXACT [GOC:obol] synonym: "regulation of intrinsic apoptotic signalling pathway" EXACT [GOC:mah] synonym: "regulation of mitochondrial-mediated apoptotic pathway" EXACT [GOC:obol] is_a: GO:1902531 ! regulation of intracellular signal transduction is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: regulates GO:0097193 ! intrinsic apoptotic signaling pathway relationship: regulates GO:0097193 ! intrinsic apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:35:56Z [Term] id: GO:2001243 name: negative regulation of intrinsic apoptotic signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of intrinsic apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "negative regulation of intrinsic apoptosis" NARROW [] synonym: "negative regulation of intrinsic apoptotic pathway" EXACT [GOC:obol] synonym: "negative regulation of intrinsic apoptotic signalling pathway" EXACT [GOC:mah] synonym: "negative regulation of mitochondrial-mediated apoptotic pathway" EXACT [GOC:obol] is_a: GO:1902532 ! negative regulation of intracellular signal transduction is_a: GO:2001234 ! negative regulation of apoptotic signaling pathway is_a: GO:2001242 ! regulation of intrinsic apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0097193 ! intrinsic apoptotic signaling pathway relationship: negatively_regulates GO:0097193 ! intrinsic apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:36:03Z [Term] id: GO:2001244 name: positive regulation of intrinsic apoptotic signaling pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of intrinsic apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "positive regulation of intrinsic apoptosis" NARROW [] synonym: "positive regulation of intrinsic apoptotic pathway" EXACT [GOC:obol] synonym: "positive regulation of intrinsic apoptotic signalling pathway" EXACT [GOC:mah] synonym: "positive regulation of mitochondrial-mediated apoptotic pathway" EXACT [GOC:obol] is_a: GO:1902533 ! positive regulation of intracellular signal transduction is_a: GO:2001235 ! positive regulation of apoptotic signaling pathway is_a: GO:2001242 ! regulation of intrinsic apoptotic signaling pathway intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0097193 ! intrinsic apoptotic signaling pathway relationship: positively_regulates GO:0097193 ! intrinsic apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:36:07Z [Term] id: GO:2001251 name: negative regulation of chromosome organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome organization." [GOC:obol] synonym: "negative regulation of chromosome organisation" EXACT [GOC:obol] synonym: "negative regulation of chromosome organization and biogenesis" RELATED [GOC:obol] synonym: "negative regulation of maintenance of genome integrity" RELATED [GOC:obol] synonym: "negative regulation of nuclear genome maintenance" RELATED [GOC:obol] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: negatively_regulates GO:0051276 ! chromosome organization relationship: negatively_regulates GO:0051276 ! chromosome organization created_by: yaf creation_date: 2011-12-02T02:01:20Z [Term] id: GO:2001252 name: positive regulation of chromosome organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome organization." [GOC:obol] synonym: "positive regulation of chromosome organisation" EXACT [GOC:obol] synonym: "positive regulation of chromosome organization and biogenesis" RELATED [GOC:obol] synonym: "positive regulation of maintenance of genome integrity" RELATED [GOC:obol] synonym: "positive regulation of nuclear genome maintenance" RELATED [GOC:obol] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0008150 ! biological_process intersection_of: positively_regulates GO:0051276 ! chromosome organization relationship: positively_regulates GO:0051276 ! chromosome organization created_by: yaf creation_date: 2011-12-02T02:01:26Z [Term] id: IAO:0000027 name: data item def: "a data item is an information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." [] is_a: IAO:0000030 ! information content entity property_value: editor_note "2/2/2009 Alan and Bjoern discussing FACS run output data. This is a data item because it is about the cell population. Each element records an event and is typically further composed a set of measurment data items that record the fluorescent intensity stimulated by one of the lasers." xsd:string property_value: editor_note "2009-03-16: data item deliberatly ambiguous: we merged data set and datum to be one entity, not knowing how to define singular versus plural. So data item is more general than datum." xsd:string property_value: editor_note "2009-03-16: removed datum as alternative term as datum specifically refers to singular form, and is thus not an exact synonym." xsd:string property_value: editor_note "2014-03-31: See discussion at http://odontomachus.wordpress.com/2014/03/30/aboutness-objects-propositions/" xsd:string property_value: editor_note "JAR: datum -- well, this will be very tricky to define, but maybe some \ninformation-like stuff that might be put into a computer and that is \nmeant, by someone, to denote and/or to be interpreted by some \nprocess... I would include lists, tables, sentences... I think I might \ndefer to Barry, or to Brian Cantwell Smith\n\nJAR: A data item is an approximately justified approximately true approximate belief" xsd:string property_value: example_of_usage "Data items include counts of things, analyte concentrations, and statistical summaries." xsd:string property_value: IAO:0000111 "data item" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string property_value: IAO:0000117 "PERSON: Chris Stoeckert" xsd:string property_value: IAO:0000117 "PERSON: Jonathan Rees" xsd:string property_value: IAO:0000118 "data" xsd:string [Term] id: IAO:0000030 name: information content entity def: "A generically dependent continuant that is about some thing." [] is_a: BFO:0000031 ! generically dependent continuant relationship: IAO:0000136 BFO:0000001 ! is about entity property_value: editor_note "2014-03-10: The use of \"thing\" is intended to be general enough to include universals and configurations (see https://groups.google.com/d/msg/information-ontology/GBxvYZCk1oc/-L6B5fSBBTQJ)." xsd:string property_value: editor_note "information_content_entity 'is_encoded_in' some digital_entity in obi before split (040907). information_content_entity 'is_encoded_in' some physical_document in obi before split (040907).\n\nPrevious. An information content entity is a non-realizable information entity that 'is encoded in' some digital or physical entity." xsd:string property_value: example_of_usage "Examples of information content entites include journal articles, data, graphical layouts, and graphs." xsd:string property_value: IAO:0000111 "information content entity" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON: Chris Stoeckert" xsd:string property_value: IAO:0000119 "OBI_0000142" xsd:string [Term] id: IAO:0000078 name: curation status specification def: "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: editor_note "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" xsd:string property_value: IAO:0000111 "curation status specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON:Bill Bug" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: IAO:0000119 "OBI_0000266" xsd:string [Term] id: IAO:0000102 name: data about an ontology part def: "data about an ontology part is a data item about a part of an ontology, for example a term" [] is_a: IAO:0000027 ! data item property_value: IAO:0000117 "Person:Alan Ruttenberg" xsd:string [Term] id: IAO:0000225 name: obsolescence reason specification def: "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: editor_note "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." xsd:string property_value: IAO:0000111 "obsolescence reason specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string property_value: IAO:0000117 "PERSON: Melanie Courtot" xsd:string [Term] id: IAO:0000409 name: denotator type def: "A denotator type indicates how a term should be interpreted from an ontological perspective." [] is_a: IAO:0000102 ! data about an ontology part property_value: example_of_usage "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities." xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Barry Smith, Werner Ceusters" xsd:string [Term] id: NCBITaxon:1 name: root namespace: ncbi_taxonomy synonym: "all" RELATED synonym [] xref: GC_ID:1 [Term] id: NCBITaxon:117565 name: Hyperotreti namespace: ncbi_taxonomy synonym: "Agnatha" RELATED in_part [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:1476529 ! Cyclostomata [Term] id: NCBITaxon:117569 name: Hyperoartia namespace: ncbi_taxonomy synonym: "Agnatha" RELATED in_part [] synonym: "Cephalaspidomorphi" RELATED in_part [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] synonym: "Monorhina" RELATED in_part [] xref: GC_ID:1 is_a: NCBITaxon:1476529 ! Cyclostomata [Term] id: NCBITaxon:117570 name: Teleostomi namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7776 ! Gnathostomata [Term] id: NCBITaxon:117571 name: Euteleostomi namespace: ncbi_taxonomy alt_id: NCBITaxon:40673 synonym: "bony vertebrates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:117570 ! Teleostomi [Term] id: NCBITaxon:118072 name: Coelacanthimorpha namespace: ncbi_taxonomy synonym: "Actinistia" RELATED synonym [] synonym: "Choanichthyes" RELATED in_part [] synonym: "Crossopterygii" RELATED in_part [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] synonym: "lobe-finned fishes" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:8287 ! Sarcopterygii [Term] id: NCBITaxon:1206794 name: Ecdysozoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33317 ! Protostomia [Term] id: NCBITaxon:1206795 name: Lophotrochozoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33317 ! Protostomia [Term] id: NCBITaxon:131567 name: cellular organisms namespace: ncbi_taxonomy synonym: "biota" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:1 ! root [Term] id: NCBITaxon:133551 name: Eleutherozoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7586 ! Echinodermata [Term] id: NCBITaxon:1338369 name: Dipnotetrapodomorpha namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:8287 ! Sarcopterygii [Term] id: NCBITaxon:1476529 name: Cyclostomata namespace: ncbi_taxonomy synonym: "Agnatha" RELATED synonym [] synonym: "jawless vertebrates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7742 ! Vertebrata [Term] id: NCBITaxon:1489341 name: Osteoglossocephalai namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:32443 ! Teleostei [Term] id: NCBITaxon:186623 name: Actinopteri namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7898 ! Actinopterygii property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:186625 name: Clupeocephala namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:1489341 ! Osteoglossocephalai [Term] id: NCBITaxon:186626 name: Otophysi namespace: ncbi_taxonomy synonym: "Otophysa" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:32519 ! Ostariophysi [Term] id: NCBITaxon:186627 name: Cypriniphysae namespace: ncbi_taxonomy synonym: "Cypriniphysi" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:186626 ! Otophysi property_value: has_rank NCBITaxon:superorder [Term] id: NCBITaxon:186634 name: Otomorpha namespace: ncbi_taxonomy synonym: "Ostarioclupeomorpha" RELATED synonym [] synonym: "Otocephala" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:186625 ! Clupeocephala [Term] id: NCBITaxon:2759 name: Eukaryota namespace: ncbi_taxonomy synonym: "Eucarya" RELATED synonym [] synonym: "Eucaryotae" RELATED synonym [] synonym: "eucaryotes" EXACT genbank_common_name [] synonym: "euk-" RELATED PRO-short-label [PRO:DAN] synonym: "Eukarya" RELATED synonym [] synonym: "Eukaryotae" RELATED synonym [] synonym: "eukaryotes" EXACT common_name [] synonym: "eukaryotes" RELATED blast_name [] xref: GC_ID:1 xref: PMID:23020233 is_a: NCBITaxon:131567 ! cellular organisms is_a: OBI:0100026 ! organism property_value: has_rank NCBITaxon:superkingdom [Term] id: NCBITaxon:30727 name: Cyprinoidea namespace: ncbi_taxonomy synonym: "Cyprinoidei" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:7952 ! Cypriniformes property_value: has_rank NCBITaxon:superfamily [Term] id: NCBITaxon:311790 name: Afrotheria namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:11114173 xref: PMID:11214319 xref: PMID:12128031 xref: PMID:12878460 xref: PMID:15306319 xref: PMID:9214502 xref: PMID:9667998 is_a: NCBITaxon:9347 ! Eutheria property_value: has_rank NCBITaxon:superorder [Term] id: NCBITaxon:32443 name: Teleostei namespace: ncbi_taxonomy synonym: "teleost fishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:41665 ! Neopterygii property_value: has_rank NCBITaxon:infraclass [Term] id: NCBITaxon:32519 name: Ostariophysi namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:186634 ! Otomorpha [Term] id: NCBITaxon:32523 name: Tetrapoda namespace: ncbi_taxonomy synonym: "tetrapods" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:1338369 ! Dipnotetrapodomorpha [Term] id: NCBITaxon:32524 name: Amniota namespace: ncbi_taxonomy synonym: "amniotes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:32523 ! Tetrapoda [Term] id: NCBITaxon:32525 name: Theria namespace: ncbi_taxonomy synonym: "Theria" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:40674 ! Mammalia [Term] id: NCBITaxon:33154 name: Opisthokonta namespace: ncbi_taxonomy synonym: "Fungi/Metazoa group" RELATED synonym [] synonym: "opisthokonts" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:2759 ! Eukaryota [Term] id: NCBITaxon:33208 name: Metazoa namespace: ncbi_taxonomy synonym: "Animalia" RELATED synonym [] synonym: "animals" RELATED blast_name [] synonym: "metazoan-" RELATED PRO-short-label [PRO:DAN] synonym: "metazoans" EXACT genbank_common_name [] synonym: "multicellular animals" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:33154 ! Opisthokonta property_value: has_rank NCBITaxon:kingdom [Term] id: NCBITaxon:33213 name: Bilateria namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:6072 ! Eumetazoa [Term] id: NCBITaxon:33317 name: Protostomia namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33213 ! Bilateria [Term] id: NCBITaxon:33511 name: Deuterostomia namespace: ncbi_taxonomy synonym: "deuterostomes" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:33213 ! Bilateria [Term] id: NCBITaxon:40674 name: Mammalia namespace: ncbi_taxonomy synonym: "mammal" EXACT PRO-common-name [] synonym: "mammal-" RELATED PRO-short-label [PRO:DAN] synonym: "mammals" EXACT genbank_common_name [] synonym: "mammals" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:32524 ! Amniota property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:41665 name: Neopterygii namespace: ncbi_taxonomy synonym: "Neopterygi" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:186623 ! Actinopteri property_value: has_rank NCBITaxon:subclass [Term] id: NCBITaxon:6040 name: Porifera namespace: ncbi_taxonomy synonym: "Parazoa" RELATED synonym [] synonym: "sponges" EXACT genbank_common_name [] synonym: "sponges" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:33208 ! Metazoa property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:6072 name: Eumetazoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33208 ! Metazoa [Term] id: NCBITaxon:6231 name: Nematoda namespace: ncbi_taxonomy synonym: "Nemata" RELATED synonym [] synonym: "nematode" EXACT common_name [] synonym: "nematodes" EXACT common_name [] synonym: "nematodes" RELATED blast_name [] synonym: "roundworm" EXACT common_name [] synonym: "roundworms" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:1206794 ! Ecdysozoa property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:6340 name: Annelida namespace: ncbi_taxonomy synonym: "annelid worms" EXACT genbank_common_name [] synonym: "segmented worms" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:1206795 ! Lophotrochozoa property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:6447 name: Mollusca namespace: ncbi_taxonomy synonym: "molluscs" EXACT common_name [] synonym: "molluscs" RELATED blast_name [] synonym: "mollusks" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:1206795 ! Lophotrochozoa property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:6544 name: Bivalvia namespace: ncbi_taxonomy synonym: "bivalves" EXACT genbank_common_name [] synonym: "bivalves" RELATED blast_name [] synonym: "Lamellibranchiata" RELATED synonym [] synonym: "Pelecypoda" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:6447 ! Mollusca property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:7586 name: Echinodermata namespace: ncbi_taxonomy synonym: "echinoderms" EXACT genbank_common_name [] synonym: "echinoderms" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:33511 ! Deuterostomia property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:7587 name: Asterozoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:133551 ! Eleutherozoa property_value: has_rank NCBITaxon:superclass [Term] id: NCBITaxon:7588 name: Asteroidea namespace: ncbi_taxonomy synonym: "sea stars" EXACT common_name [] synonym: "starfish" EXACT common_name [] synonym: "starfish" RELATED blast_name [] synonym: "starfishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7587 ! Asterozoa property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:7711 name: Chordata namespace: ncbi_taxonomy synonym: "chordates" EXACT genbank_common_name [] synonym: "chordates" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:33511 ! Deuterostomia property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:7735 name: Cephalochordata namespace: ncbi_taxonomy synonym: "lancelets" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:7711 ! Chordata property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:7736 name: Branchiostomidae namespace: ncbi_taxonomy synonym: "amphioxi" EXACT common_name [] synonym: "amphioxius" EXACT common_name [] synonym: "Branchiostomatidae" RELATED synonym [] synonym: "lancelets" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7735 ! Cephalochordata property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:7737 name: Branchiostoma namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7736 ! Branchiostomidae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:7742 name: Vertebrata namespace: ncbi_taxonomy synonym: "Vertebrata" EXACT scientific_name [] synonym: "vertebrates" EXACT genbank_common_name [] synonym: "vertebrates" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:89593 ! Craniata [Term] id: NCBITaxon:7745 name: Petromyzontiformes namespace: ncbi_taxonomy synonym: "lampreys" RELATED blast_name [] synonym: "Petromyzoniformes" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:117569 ! Hyperoartia property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:7746 name: Petromyzontidae namespace: ncbi_taxonomy synonym: "lampreys" EXACT genbank_common_name [] synonym: "Petromyzonidae" RELATED misspelling [] xref: GC_ID:1 is_a: NCBITaxon:7745 ! Petromyzontiformes property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:7761 name: Myxiniformes namespace: ncbi_taxonomy synonym: "hagfishes" RELATED blast_name [] synonym: "Myxinoidea" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:117565 ! Hyperotreti property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:7762 name: Myxinidae namespace: ncbi_taxonomy synonym: "hagfishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7761 ! Myxiniformes property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:7776 name: Gnathostomata namespace: ncbi_taxonomy synonym: "Gnathostomata" EXACT scientific_name [] synonym: "jawed vertebrates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7742 ! Vertebrata [Term] id: NCBITaxon:7878 name: Dipnoi namespace: ncbi_taxonomy synonym: "Choanichthyes" RELATED in_part [] synonym: "Dipneusti" RELATED synonym [] synonym: "dipnoans" EXACT common_name [] synonym: "Dipnomorpha" RELATED synonym [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] synonym: "lungfishes" EXACT genbank_common_name [] synonym: "lungfishes" RELATED blast_name [] synonym: "Osteichthyes" RELATED in_part [] xref: GC_ID:1 is_a: NCBITaxon:1338369 ! Dipnotetrapodomorpha [Term] id: NCBITaxon:7898 name: Actinopterygii namespace: ncbi_taxonomy synonym: "Actinopterygi" RELATED synonym [] synonym: "bony fishes" RELATED blast_name [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] synonym: "Osteichthyes" RELATED in_part [] synonym: "ray-finned fishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:117571 ! Euteleostomi property_value: has_rank NCBITaxon:superclass [Term] id: NCBITaxon:7952 name: Cypriniformes namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:186627 ! Cypriniphysae property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:7953 name: Cyprinidae namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:30727 ! Cyprinoidea property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:7954 name: Danio namespace: ncbi_taxonomy alt_id: NCBITaxon:46777 alt_id: NCBITaxon:487617 synonym: "Brachydanio" RELATED synonym [] synonym: "Celestichthys" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:7953 ! Cyprinidae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:7955 name: Danio rerio namespace: ncbi_taxonomy alt_id: NCBITaxon:27702 alt_id: NCBITaxon:37966 synonym: "Brachidanio rerio" RELATED misspelling [] synonym: "Brachydanio rerio" RELATED synonym [] synonym: "Brachydanio rerio frankei" RELATED synonym [] synonym: "Cyprinus rerio" RELATED synonym [] synonym: "Danio frankei" RELATED synonym [] synonym: "Danio rerio frankei" RELATED synonym [] synonym: "leopard danio" EXACT common_name [] synonym: "zebra danio" EXACT common_name [] synonym: "zebra fish" EXACT common_name [] synonym: "zebrafish" EXACT genbank_common_name [] synonym: "zebrafish" EXACT PRO-common-name [] xref: GC_ID:1 is_a: NCBITaxon:7954 ! Danio property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:80999 name: Homoscleromorpha namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:6040 ! Porifera property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:8287 name: Sarcopterygii namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:117571 ! Euteleostomi property_value: has_rank NCBITaxon:superclass [Term] id: NCBITaxon:8292 name: Amphibia namespace: ncbi_taxonomy synonym: "amphibians" EXACT genbank_common_name [] synonym: "amphibians" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:32523 ! Tetrapoda property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:89593 name: Craniata namespace: ncbi_taxonomy synonym: "Craniata" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:7711 ! Chordata property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:9347 name: Eutheria namespace: ncbi_taxonomy synonym: "eutherian mammals" EXACT common_name [] synonym: "placental mammals" EXACT common_name [] synonym: "Placentalia" RELATED synonym [] synonym: "placentals" EXACT genbank_common_name [] synonym: "placentals" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:32525 ! Theria [Term] id: NCBITaxon:9774 name: Sirenia namespace: ncbi_taxonomy synonym: "manatees and dugongs (seacows)" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:311790 ! Afrotheria property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:9775 name: Trichechidae namespace: ncbi_taxonomy synonym: "manatees" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:9774 ! Sirenia property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:class name: class namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:family name: family namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:genus name: genus namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:infraclass name: infraclass namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:kingdom name: kingdom namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:order name: order namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:phylum name: phylum namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:species name: species namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:subclass name: subclass namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:subphylum name: subphylum namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:superclass name: superclass namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:superfamily name: superfamily namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:superkingdom name: superkingdom namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:superorder name: superorder namespace: ncbi_taxonomy is_a: NCBITaxon:taxonomic_rank ! taxonomic rank [Term] id: NCBITaxon:taxonomic_rank name: taxonomic rank namespace: ncbi_taxonomy comment: This is an abstract class for use with the NCBI taxonomy to name the depth of the node within the tree. The link between the node term and the rank is only visible if you are using an obo 1.3 aware browser/editor; otherwise this can be ignored. [Term] id: OBI:0100026 name: organism namespace: obi is_a: BFO:0000030 ! object [Term] id: PATO:0000001 name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] synonym: "trait" EXACT [] is_a: BFO:0000020 ! specifically dependent continuant property_value: IAO:0000589 "quality (PATO)" xsd:string [Term] id: PATO:0000004 name: mobility namespace: quality def: "A quality of inhering in a bearer by virtue of the bearer's disposition to move freely." [PATOC:GVG] comment: Should be defined using translocation. subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0000008 name: speed namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's scalar absolute value of the rate of change of the bearer's position." [Wikipedia:http\://en.wikipedia.org/wiki/Velocity] subset: attribute_slim subset: scalar_slim synonym: "velocity" RELATED [] is_a: PATO:0001906 ! movement quality [Term] id: PATO:0000014 name: color namespace: quality alt_id: PATO:0000020 def: "A composite chromatic quality composed of hue, saturation and intensity parts." [PATOC:GVG] subset: attribute_slim synonym: "colour" EXACT [] synonym: "relative color" EXACT [] is_a: PATO:0001300 ! optical quality [Term] id: PATO:0000016 name: color brightness namespace: quality def: "A scalar optical property that is the intensity, value or amount of perceived light." [PATOC:MAH] comment: Color brightness refers to the intensity, lightness or value of the light present. Think of this as a dimmer switch. subset: attribute_slim synonym: "color intensity" EXACT [] synonym: "color lightness" EXACT [] synonym: "color value" EXACT [] is_a: PATO:0001300 ! optical quality [Term] id: PATO:0000017 name: color saturation namespace: quality def: "A scalar chromatic property that is the degree of purity of perceived light." [PATOC:GVG] comment: Color saturation refers to the amount of white light or gray paint mixed in with the hue (single wavelength) and is a measure of color purity. subset: attribute_slim is_a: PATO:0001301 ! chromatic property [Term] id: PATO:0000018 name: fluorescence namespace: quality def: "A luminous flux quality inhering in a bearer by virtue of the bearer's emitting longer wavelength light following the absorption of shorter wavelength radiation; fluorescence is common with aromatic compounds with several rings joined together." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001296 ! luminous flux [Term] id: PATO:0000025 name: composition namespace: quality alt_id: PATO:0002015 def: "A single physical entity inhering in an bearer by virtue of the bearer's quantities or relative ratios of subparts." [PATOC:GVG] comment: For example calcium composition (which may inhere in bone), haemoglobin composition (which may inhere in blood). subset: attribute_slim subset: scalar_slim synonym: "composed of" EXACT [] synonym: "compositionality" EXACT [] synonym: "content" EXACT [] synonym: "structure, composition" EXACT [] is_a: PATO:0000141 ! structure [Term] id: PATO:0000033 name: concentration of namespace: quality def: "A quality inhering in a substance by virtue of the amount of the bearer's there is mixed with another substance." [Wikipedia:http\://en.wikipedia.org/wiki/concentration] subset: attribute_slim subset: relational_slim subset: scalar_slim synonym: "concentration" EXACT [] is_a: PATO:0002182 ! molecular quality [Term] id: PATO:0000040 name: distance namespace: quality def: "A quality that is the extent of space between two entities." [PATOC:GVG] subset: attribute_slim subset: relational_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0000044 name: frequency namespace: quality def: "A physical quality which inheres in a bearer by virtue of the number of the bearer's repetitive actions in a particular time." [Wikipedia:http\://en.wikipedia.org/wiki/frequency] subset: attribute_slim subset: scalar_slim is_a: PATO:0000161 ! rate [Term] id: PATO:0000047 name: biological sex namespace: quality def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to undergo sexual reproduction in order to differentiate the individuals or types involved." [MGED:MGED] subset: attribute_slim is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000050 name: life span namespace: quality def: "A time quality inhering in a bearer by virtue of the bearer's expected maximum age." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000165 ! time [Term] id: PATO:0000051 name: morphology namespace: quality def: "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." [PATOC:GVG] subset: attribute_slim is_a: BFO:0000019 ! quality is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0000052 name: shape namespace: quality alt_id: PATO:0001647 def: "A morphological quality inhering in a bearer by virtue of the bearer's ratios of distances between its features (points, edges, surfaces and also holes etc)." [PATOC:GVG] comment: Shapes are invariant on size transformations. Shapes can be subdivided into 2D and 3D shapes, We can also make a distinction between shapes of complete self-connected objects, and shapes of parts of objects. subset: attribute_slim synonym: "relational shape quality" EXACT [] is_a: PATO:0000051 ! morphology [Term] id: PATO:0000057 name: occurrence namespace: quality alt_id: PATO:0000156 alt_id: PATO:0000158 def: "A quality of a single process inhering in a bearer by virtue of the bearer's occurrence." [PATOC:GVG] subset: attribute_slim subset: hpo_slim synonym: "incidence" EXACT [] synonym: "temporal" BROAD [] is_a: PATO:0002323 ! temporal distribution quality [Term] id: PATO:0000060 name: spatial pattern namespace: quality alt_id: PATO:0000132 alt_id: PATO:0001565 def: "A spatial quality inhering in a bearer by virtue of the bearer's exhibiting repetition of placement of its parts." [PATOC:GVG] subset: attribute_slim subset: hpo_slim synonym: "distribution" EXACT [] synonym: "pattern" RELATED [] is_a: PATO:0000140 ! position [Term] id: PATO:0000068 name: qualitative namespace: quality comment: TODO: define this or obsolete it and move children somewhere else. is_a: PATO:0000001 ! quality [Term] id: PATO:0000069 name: deviation(from_normal) namespace: quality def: "A quality inhering in a bearer by virtue of the whether the bearer differs from normal or average." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000068 ! qualitative [Term] id: PATO:0000070 name: amount namespace: quality alt_id: PATO:0000053 alt_id: PATO:0000071 alt_id: PATO:0001169 alt_id: PATO:0001226 def: "The number of entities of this type that are part of the whole organism." [PATOC:GVG] comment: This term was originally named "presence". It has been renamed to reduce ambiguity. Consider annotating with the reciprocal relation,PATO:0001555, has_number_of. For example, rather than E=fin ray Q=count in organism C=10, say E=organism Q=has number of E2= fin ray C=10. subset: attribute_slim synonym: "count" EXACT [] synonym: "count in organism" RELATED [] synonym: "number" RELATED [] synonym: "presence" RELATED [] synonym: "presence or absence in organism" EXACT [] synonym: "quantitative" EXACT [] is_a: PATO:0000068 ! qualitative relationship: reciprocal_of PATO:0001555 ! has number of [Term] id: PATO:0000077 name: response to namespace: quality def: "A quality inhering in a bearer by virtue of the whether the bearer's disposition to react to a stimulus or an agent." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: relational_slim subset: scalar_slim synonym: "reactivity" RELATED [GOC:CJM] synonym: "response" RELATED [] synonym: "responsivity" RELATED [] is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000078 name: rhythm quality namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's movement or variation characterized by the regular recurrence or alternation of different quantities or conditions." [answers.com:answers.com] subset: attribute_slim is_a: PATO:0002323 ! temporal distribution quality [Term] id: PATO:0000080 name: amplitude namespace: quality def: "A physical quality of a process inhering in a bearer by virtue of the size of the bearer's maximum displacement from the 'normal' position, when periodic motion is taking place." [thesaurus.maths:thesaurus.maths] subset: attribute_slim is_a: PATO:0002062 ! physical quality of a process [Term] id: PATO:0000082 name: persistence namespace: quality def: "A rhythm quality inhering in a bearer by virtue of the repetitiveness of bearer's rhythm." [reference.com:reference.com] subset: attribute_slim is_a: PATO:0000078 ! rhythm quality [Term] id: PATO:0000085 name: sensitivity toward namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's disposition to detect or perceive external stimulation." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: relational_slim synonym: "sensitivity" EXACT [] is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000117 name: size namespace: quality def: "A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude." [WordNet:WordNet] subset: attribute_slim subset: scalar_slim is_a: PATO:0000051 ! morphology [Term] id: PATO:0000119 name: height namespace: quality def: "A 1-D extent quality inhering in a bearer by virtue of the bearer's vertical dimension of extension." [PATOC:GVG] subset: attribute_slim subset: scalar_slim is_a: PATO:0001708 ! 1-D extent [Term] id: PATO:0000122 name: length namespace: quality def: "A 1-D extent quality which is equal to the distance between two points." [PATOC:GVG] subset: attribute_slim subset: mpath_slim subset: scalar_slim is_a: PATO:0001708 ! 1-D extent property_value: IAO:0000111 "length" xsd:string property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000133 name: orientation namespace: quality alt_id: PATO:0000137 def: "A spatial quality inhering in a bearer by virtue of the bearer's placement which is defined by the angle between the bearer and an axis, or the angle between the bearer and another object." [PATOC:JE] subset: attribute_slim subset: relational_slim synonym: "amount of rotation" RELATED [] synonym: "angle" RELATED [] synonym: "angular magnitude" RELATED [] synonym: "angular placement" EXACT [] synonym: "plane angle" RELATED [] is_a: PATO:0000140 ! position [Term] id: PATO:0000136 name: closure namespace: quality def: "A morphological quality pertaining to the degree to which an object contains an opening, aperture, orifice or vent." [PATOC:CJM, PATOC:GVG] subset: attribute_slim is_a: PATO:0000051 ! morphology [Term] id: PATO:0000140 name: position namespace: quality alt_id: PATO:0001032 alt_id: PATO:0001631 def: "A spatial quality inhering in a bearer by virtue of the bearer's spatial location relative to other objects in the vicinity." [PATOC:GVG] subset: attribute_slim synonym: "location" EXACT [] synonym: "placement" EXACT [] synonym: "relational spatial quality" EXACT [] is_a: PATO:0001018 ! physical quality [Term] id: PATO:0000141 name: structure namespace: quality alt_id: PATO:0001452 def: "A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form." [PATOC:GVG] subset: attribute_slim synonym: "conformation" BROAD [VT:1000738] synonym: "relational structural quality" EXACT [] is_a: PATO:0000051 ! morphology [Term] id: PATO:0000150 name: texture namespace: quality def: "A morphologic quality inhering in a bearer by virtue of the bearer's relative size, organization and distribution of its surface elements or the representation or invention of the appearance of its surface; visual and tactile surface characteristics." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000051 ! morphology [Term] id: PATO:0000161 name: rate namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's occurrence per unit time." [PATOC:melissa] subset: attribute_slim subset: scalar_slim is_a: PATO:0002062 ! physical quality of a process [Term] id: PATO:0000165 name: time namespace: quality def: "A quality in which events occur in sequence." [PATOC:GVG] subset: attribute_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0000169 name: viability namespace: quality def: "An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000186 name: behavioral quality namespace: quality alt_id: PATO:0001722 def: "An organismal quality inhering in a bearer by virtue of the bearer's behavior aggregate of the responses or reactions or movements in a given situation." [PATOC:GVG] synonym: "behavioural quality" EXACT [] is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000188 name: coordination namespace: quality def: "A behavioral quality inhering in a bearer by virtue of the bearer's having or lacking skillful and effective interaction of movement." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0000186 ! behavioral quality [Term] id: PATO:0000274 name: fertility namespace: quality def: "A reproductive quality inhering in a bearer by virtue of the bearer's initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001434 ! reproductive quality [Term] id: PATO:0000276 name: brood size namespace: quality def: "A reproductive quality inhering in the young of an animal by virtue of their number." [PATOC:GVG] subset: attribute_slim subset: scalar_slim synonym: "litter size" RELATED [] is_a: PATO:0001496 ! brood quality [Term] id: PATO:0000279 name: male fertility namespace: quality def: "A fertility quality of inhering in a male by virtue of the bearer's disposition to initiate, sustain, or support reproduction." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0000274 ! fertility [Term] id: PATO:0000297 name: arrested namespace: quality alt_id: PATO:0001508 def: "A quality of a process which ends earlier than the natural end time or reference process." [PATOC:LC] comment: TODO: the definition is incorrect. See absent. subset: value_slim synonym: "abolished" EXACT [] synonym: "incomplete" RELATED [] is_a: PATO:0002052 ! decreased occurrence is_a: PATO:0002324 ! offset quality [Term] id: PATO:0000299 name: mobile namespace: quality def: "A mobility quality of inhering in a bearer by virtue of the bearer's disposition to move freely." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000004 ! mobility disjoint_from: PATO:0000300 ! immobile relationship: is_opposite_of PATO:0000300 ! immobile [Term] id: PATO:0000300 name: immobile namespace: quality def: "A mobility quality inhering in a bearer by virtue of the bearer's being incapable to move freely." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "fixed" RELATED [] is_a: PATO:0000004 ! mobility relationship: is_opposite_of PATO:0000299 ! mobile [Term] id: PATO:0000303 name: increased speed namespace: quality def: "A speed which is relatively high." [PATOC:GVG] subset: value_slim synonym: "fast speed" RELATED [] synonym: "high speed" EXACT [] is_a: PATO:0000008 ! speed is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000008 ! speed intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000304 ! decreased speed [Term] id: PATO:0000304 name: decreased speed namespace: quality def: "A speed which is relatively low." [PATOC:GVG] subset: value_slim synonym: "slow" EXACT [] synonym: "slow speed" EXACT [] is_a: PATO:0000008 ! speed is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000008 ! speed intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000303 ! increased speed [Term] id: PATO:0000327 name: low brightness namespace: quality def: "A color brightness which is relatively low." [PATOC:MAH] subset: value_slim synonym: "dark" EXACT [] is_a: PATO:0000016 ! color brightness relationship: is_opposite_of PATO:0000665 ! high brightness [Term] id: PATO:0000328 name: low saturation namespace: quality def: "A color saturation which is of low purity." [PATOC:MAH] subset: value_slim synonym: "dull" RELATED [] synonym: "pale" EXACT [] is_a: PATO:0000017 ! color saturation relationship: is_opposite_of PATO:0001229 ! high saturation [Term] id: PATO:0000330 name: irregular spatial pattern namespace: quality def: "A spatial pattern inhering in a bearer by virtue of the bearer's magnitude of or the relationships between its repeated parts lack consistency." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0000060 ! spatial pattern relationship: is_opposite_of PATO:0000440 ! regular spatial pattern [Term] id: PATO:0000374 name: increased distance namespace: quality def: "A distance which is greater relative to the normal or average." [PATOC:GVG] subset: relational_slim subset: value_slim synonym: "long distance" RELATED [] is_a: PATO:0000040 ! distance is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000040 ! distance intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000375 ! decreased distance [Term] id: PATO:0000375 name: decreased distance namespace: quality def: "A distance which is lesser relative to the normal or average." [PATOC:GVG] subset: relational_slim subset: value_slim synonym: "short distance" RELATED [] is_a: PATO:0000040 ! distance is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000040 ! distance intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000374 ! increased distance [Term] id: PATO:0000380 name: increased frequency namespace: quality def: "A frequency which is relatively high." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "frequent" RELATED [] synonym: "high frequency" EXACT [] is_a: PATO:0000044 ! frequency is_a: PATO:0000912 ! increased rate intersection_of: PATO:0000044 ! frequency intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000381 ! decreased frequency [Term] id: PATO:0000381 name: decreased frequency namespace: quality def: "A frequency which is relatively low." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "infrequent" RELATED [] synonym: "low frequency" EXACT [] is_a: PATO:0000044 ! frequency is_a: PATO:0000911 ! decreased rate intersection_of: PATO:0000044 ! frequency intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000380 ! increased frequency [Term] id: PATO:0000384 name: male namespace: quality def: "A biological sex quality inhering in an individual or a population whose sex organs contain only male gametes." [MGED:MGED] subset: mpath_slim subset: value_slim is_a: PATO:0001894 ! phenotypic sex [Term] id: PATO:0000402 name: branched namespace: quality def: "A branchiness quality inhering in a bearer by virtue of the bearer's having branches." [WordNet:WordNet] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "ramified" EXACT [] synonym: "ramiform" EXACT [] is_a: PATO:0002009 ! branchiness disjoint_from: PATO:0000414 ! unbranched relationship: is_opposite_of PATO:0000414 ! unbranched [Term] id: PATO:0000404 name: coiled namespace: quality alt_id: PATO:0001363 def: "A shape quality inhering in a bearer by virtue of the bearer's being curled or wound (especially in concentric rings or spirals)." [WordNet:WordNet] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "helical" RELATED [] synonym: "helicoid" RELATED [] synonym: "helicoidal" RELATED [] synonym: "helix-shaped" RELATED [] synonym: "spiral" EXACT [] is_a: PATO:0001794 ! coiling relationship: is_opposite_of PATO:0000415 ! uncoiled [Term] id: PATO:0000411 name: circular namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being such that every part of the surface or the circumference is equidistant from the center." [thefreedictionary.com:thefreedictionary.com] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "round" RELATED [] synonym: "rounded" RELATED [] is_a: PATO:0000947 ! elliptic [Term] id: PATO:0000414 name: unbranched namespace: quality def: "A branchiness quality inhering in a bearer by virtue of the bearer's lacking branches." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0002009 ! branchiness relationship: is_opposite_of PATO:0000402 ! branched [Term] id: PATO:0000415 name: uncoiled namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being not curled or wound (especially in concentric rings or spirals)." [WordNet:WordNet] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001794 ! coiling relationship: is_opposite_of PATO:0000404 ! coiled [Term] id: PATO:0000438 name: invariant namespace: quality def: "A variability quality inhering in a bearer by virtue of the bearer's lacking or not exhibiting variation." [Dictionary:http\://dictionary.reference.com/] subset: value_slim synonym: "constant" RELATED [] synonym: "uniform" EXACT [] is_a: PATO:0001303 ! variability relationship: is_opposite_of PATO:0001227 ! variant [Term] id: PATO:0000440 name: regular spatial pattern namespace: quality def: "A pattern quality inhering in a bearer by virtue of the bearer's having a repeatable or predictable placement." [PATOC:GVG] subset: mpath_slim subset: relational_slim subset: value_slim is_a: PATO:0000060 ! spatial pattern relationship: is_opposite_of PATO:0000330 ! irregular spatial pattern [Term] id: PATO:0000460 name: abnormal namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's deviation from normal or average." [PATOC:GVG] subset: abnormal_slim subset: mpath_slim subset: value_slim synonym: "aberrant" RELATED [] synonym: "atypia" RELATED [] synonym: "atypical" RELATED [] synonym: "defective" RELATED [] is_a: PATO:0000069 ! deviation(from_normal) relationship: is_opposite_of PATO:0000461 ! normal [Term] id: PATO:0000461 name: normal namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's exhibiting no deviation from normal or average." [PATOC:GVG] subset: abnormal_slim subset: mpath_slim subset: value_slim synonym: "average" RELATED [] is_a: PATO:0000069 ! deviation(from_normal) relationship: is_opposite_of PATO:0000460 ! abnormal [Term] id: PATO:0000462 name: absent namespace: quality alt_id: PATO:0001996 def: "A quality denoting the lack of an entity." [thefreedictionary.:thefreedictionary.] comment: See documentation here: http://code.google.com/p/phenotype-ontologies/wiki/ModelingOfAbsence subset: absent_slim subset: mpath_slim subset: value_slim synonym: "absence" EXACT [] synonym: "absent from organism" EXACT [] is_a: PATO:0000070 ! amount disjoint_from: PATO:0000467 ! present relationship: is_opposite_of PATO:0000467 ! present relationship: reciprocal_of PATO:0001558 ! lacking processual parts relationship: reciprocal_of PATO:0002000 ! lacks all parts of type [Term] id: PATO:0000467 name: present namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's existence." [PATOC:GVG] subset: absent_slim subset: value_slim synonym: "present in organism" RELATED [] is_a: PATO:0000070 ! amount relationship: is_opposite_of PATO:0000462 ! absent [Term] id: PATO:0000470 name: increased amount namespace: quality alt_id: PATO:0000420 alt_id: PATO:0000650 def: "An amount which is relatively high." [PATOC:GVG] subset: value_slim synonym: "accessory" RELATED [] synonym: "increased" RELATED [] synonym: "increased number" EXACT [] synonym: "present in greater numbers in organism" EXACT [] synonym: "supernumerary" EXACT [] is_a: PATO:0000467 ! present is_a: PATO:0002300 ! increased quality intersection_of: PATO:0000070 ! amount intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001997 ! decreased amount [Term] id: PATO:0000487 name: responsive to namespace: quality def: "A response quality inhering in a bearer by virtue of the bearer's disposition to react to a stimulus or an agent." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "responsive" EXACT [] is_a: PATO:0000077 ! response to disjoint_from: PATO:0000488 ! unresponsive to relationship: is_opposite_of PATO:0000488 ! unresponsive to [Term] id: PATO:0000488 name: unresponsive to namespace: quality def: "A response quality inhering in a bearer by virtue of the bearer's lack of reaction to a stimulus or an agent." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "unresponsive" EXACT [] is_a: PATO:0000077 ! response to relationship: is_opposite_of PATO:0000487 ! responsive to [Term] id: PATO:0000498 name: increased duration namespace: quality alt_id: PATO:0000715 def: "A duration quality of a process which is relatively high." [PATOC:GVG] subset: value_slim synonym: "chronic" RELATED [] synonym: "high time" EXACT [] synonym: "increased period" EXACT [] synonym: "increased time" EXACT [] synonym: "prolonged period" RELATED [] synonym: "slow time" RELATED [] is_a: PATO:0001309 ! duration is_a: PATO:0002304 ! increased process quality intersection_of: PATO:0001309 ! duration intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000499 ! decreased duration [Term] id: PATO:0000499 name: decreased duration namespace: quality alt_id: PATO:0000716 def: "A duration quality of a process which is relatively low." [PATOC:GVG] subset: value_slim synonym: "decreased period" EXACT [] synonym: "decreased time" EXACT [] synonym: "fast time" RELATED [] synonym: "low period" EXACT [] synonym: "shortened period" EXACT [] is_a: PATO:0001309 ! duration is_a: PATO:0002302 ! decreased process quality intersection_of: PATO:0001309 ! duration intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000498 ! increased duration [Term] id: PATO:0000502 name: delayed namespace: quality def: "A quality of a process which starts later than the natural start time or the reference process." [PATOC:LC] subset: value_slim synonym: "late" RELATED [] is_a: PATO:0002325 ! onset quality [Term] id: PATO:0000513 name: insensitive toward namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's lacking sensitivity toward an external stimulus." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "insensitive" EXACT [] synonym: "resistant" RELATED [] is_a: PATO:0000085 ! sensitivity toward relationship: is_opposite_of PATO:0000516 ! sensitive toward [Term] id: PATO:0000516 name: sensitive toward namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's having sensitivity toward an external stimulus." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "sensitive" EXACT [] is_a: PATO:0000085 ! sensitivity toward relationship: is_opposite_of PATO:0000513 ! insensitive toward [Term] id: PATO:0000569 name: decreased height namespace: quality def: "A height which is relatively low." [PATOC:GVG] subset: value_slim synonym: "short" RELATED [] is_a: PATO:0000119 ! height is_a: PATO:0000587 ! decreased size intersection_of: PATO:0000119 ! height intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000570 ! increased height [Term] id: PATO:0000570 name: increased height namespace: quality def: "A height which is relatively high." [PATOC:GVG] subset: value_slim synonym: "tall" RELATED [] is_a: PATO:0000119 ! height is_a: PATO:0000586 ! increased size intersection_of: PATO:0000119 ! height intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000569 ! decreased height [Term] id: PATO:0000573 name: increased length namespace: quality def: "A length quality which is relatively large." [PATOC:GVG] subset: value_slim synonym: "long" EXACT [] is_a: PATO:0000122 ! length is_a: PATO:0000586 ! increased size intersection_of: PATO:0000122 ! length intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000574 ! decreased length [Term] id: PATO:0000574 name: decreased length namespace: quality def: "A length quality which is relatively small." [PATOC:GVG] subset: value_slim synonym: "short" EXACT [] synonym: "shortened" RELATED [] synonym: "stubby" RELATED [] is_a: PATO:0000122 ! length is_a: PATO:0000587 ! decreased size intersection_of: PATO:0000122 ! length intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000573 ! increased length [Term] id: PATO:0000584 name: hypertrophic namespace: quality def: "An increased size quality inhering in a bearer by virtue of the bearer's exhibiting enlargement of a cell or constituent group of cells (for example, organ)." [PATOC:MAH] subset: mpath_slim subset: value_slim synonym: "hypertrophy" NARROW [] is_a: PATO:0000595 ! increased volume relationship: is_opposite_of PATO:0000585 ! hypotrophic [Term] id: PATO:0000585 name: hypotrophic namespace: quality alt_id: PATO:0000412 def: "A decreased size quality inhering in a bearer by virtue of the bearer's exhibiting reduced size of a cell or constituent group of cells (for example, organ)." [PATOC:MAH] subset: mpath_slim subset: value_slim synonym: "shrunken" EXACT [] is_a: PATO:0000596 ! decreased volume relationship: is_opposite_of PATO:0000584 ! hypertrophic [Term] id: PATO:0000586 name: increased size namespace: quality alt_id: PATO:0001202 def: "A size quality which is relatively high." [PATOC:GVG] subset: value_slim synonym: "big" RELATED [] synonym: "enlarged" RELATED [] synonym: "expanded" RELATED [] synonym: "great" RELATED [] synonym: "large" RELATED [] is_a: PATO:0000117 ! size is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000117 ! size intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000587 ! decreased size [Term] id: PATO:0000587 name: decreased size namespace: quality def: "A size quality which is relatively low." [PATOC:GVG] subset: value_slim synonym: "hypoplasia" NARROW [] synonym: "reduced" RELATED [] synonym: "small" RELATED [] synonym: "tiny" RELATED [] synonym: "underdeveloped" NARROW [] is_a: PATO:0000117 ! size is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000117 ! size intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000586 ! increased size [Term] id: PATO:0000591 name: increased thickness namespace: quality def: "A thickness which is relatively high." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "high thickness" EXACT [] synonym: "stout" EXACT [] synonym: "thick" RELATED [] synonym: "thickened" EXACT [] is_a: PATO:0000586 ! increased size is_a: PATO:0000915 ! thickness intersection_of: PATO:0000915 ! thickness intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000592 ! decreased thickness [Term] id: PATO:0000592 name: decreased thickness namespace: quality def: "A thickness which is relatively low." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "low thickness" EXACT [] synonym: "slender" RELATED [] synonym: "thin" RELATED [] is_a: PATO:0000587 ! decreased size is_a: PATO:0000915 ! thickness intersection_of: PATO:0000915 ! thickness intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000591 ! increased thickness [Term] id: PATO:0000595 name: increased volume namespace: quality def: "A volume which is relatively high." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "high volume" EXACT [] synonym: "large volume" RELATED [] is_a: PATO:0000586 ! increased size is_a: PATO:0000918 ! volume intersection_of: PATO:0000918 ! volume intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000596 ! decreased volume [Term] id: PATO:0000596 name: decreased volume namespace: quality def: "A volume which is relatively low." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "low volume" EXACT [] synonym: "small volume" RELATED [] is_a: PATO:0000587 ! decreased size is_a: PATO:0000918 ! volume intersection_of: PATO:0000918 ! volume intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000595 ! increased volume [Term] id: PATO:0000608 name: closed namespace: quality def: "A morphological quality inhering in a bearer by virtue of the bearer's affording blocked passage or view." [answers.com:answers.com] subset: value_slim synonym: "blocked" RELATED [] is_a: PATO:0000136 ! closure disjoint_from: PATO:0000610 ! open relationship: is_opposite_of PATO:0000610 ! open [Term] id: PATO:0000610 name: open namespace: quality def: "A morphological quality inhering in a bearer by virtue of the bearer's affording unobstructed passage or view." [answers.com:answers.com] subset: value_slim is_a: PATO:0000136 ! closure relationship: is_opposite_of PATO:0000608 ! closed [Term] id: PATO:0000613 name: disoriented namespace: quality def: "A spatial pattern inhering in a bearer by virtue of the bearer's lacking orientation." [PATOC:GVG] subset: value_slim is_a: PATO:0000330 ! irregular spatial pattern relationship: is_opposite_of PATO:0000614 ! oriented [Term] id: PATO:0000614 name: oriented namespace: quality def: "A pattern where all the repeated elements are oriented in the same direction." [PATOC:MAH] subset: value_slim is_a: PATO:0000440 ! regular spatial pattern relationship: is_opposite_of PATO:0000613 ! disoriented [Term] id: PATO:0000616 name: asymmetrical namespace: quality def: "A symmetry quality inhering in a bearer by virtue of the bearer's lacking symmetry." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "asymmetric" EXACT [] synonym: "asymmetry" EXACT [] is_a: PATO:0000965 ! symmetry [Term] id: PATO:0000617 name: bent namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's having one or more angle(s) in its length." [PATOC:MAH] subset: value_slim synonym: "angled" EXACT [] is_a: PATO:0000052 ! shape [Term] id: PATO:0000625 name: inverted namespace: quality def: "An oriented quality inhering in a bearer by virtue of the bearer's being reversed in position, order, or condition." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "backward" RELATED [] synonym: "reversed" RELATED [] is_a: PATO:0000614 ! oriented [Term] id: PATO:0000628 name: mislocalised namespace: quality alt_id: PATO:0000621 def: "A positional quality inhering in a bearer by virtue the bearer's being changed in abnormal position." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "ectopic" EXACT [] synonym: "mislocalized" EXACT [] is_a: PATO:0002181 ! displaced [Term] id: PATO:0000639 name: degenerate namespace: quality def: "A structural quality inhering in a bearer whose structure deteriorates or is lost over time due to an active pathological process." [PATOC:mb, PATOC:PortlandMeetingFeb2015] subset: mpath_slim subset: value_slim synonym: "degeneration" NARROW [] is_a: PATO:0002037 ! degeneration disjoint_from: PATO:0002038 ! non-degenerate relationship: has_part PATO:0000585 ! hypotrophic relationship: is_opposite_of PATO:0002038 ! non-degenerate [Term] id: PATO:0000642 name: fused with namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's being merged with another entity." [PATOC:GVG] subset: mpath_slim subset: relational_slim subset: value_slim synonym: "coalesced" RELATED [] synonym: "fused" EXACT [] synonym: "fused to" EXACT [] synonym: "joined with" RELATED [] synonym: "merged with" RELATED [] is_a: PATO:0000141 ! structure relationship: is_opposite_of PATO:0000651 ! unfused from [Term] id: PATO:0000648 name: obstructed namespace: quality def: "A morphological quality inhering in a bearer by virtue of the bearer's being blocked or filled with obstacles or an obstacle." [thefreedictionary.com:thefreedictionary.com] subset: mpath_slim subset: value_slim is_a: PATO:0000608 ! closed [Term] id: PATO:0000651 name: unfused from namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's being no longer merged with another entity." [PATOC:nw] subset: relational_slim subset: value_slim synonym: "unfused" EXACT [] is_a: PATO:0000141 ! structure relationship: is_opposite_of PATO:0000642 ! fused with [Term] id: PATO:0000665 name: high brightness namespace: quality def: "A color brightness which is relatively high." [PATOC:MAH] subset: value_slim synonym: "light" EXACT [] is_a: PATO:0000016 ! color brightness relationship: is_opposite_of PATO:0000327 ! low brightness [Term] id: PATO:0000688 name: asynchronous namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's not occurring or existing at the same time or having the same period or phase." [WordNet:WordNet] subset: value_slim is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0000695 ! synchronous [Term] id: PATO:0000689 name: continuous namespace: quality alt_id: PATO:0000429 def: "A quality of a single process inhering in a bearer by virtue of the bearer's being uninterrupted in time, sequence, substance, or extent." [thefreedictionary.com:thefreedictionary.com] subset: value_slim synonym: "uninterrupted" EXACT [] is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0000690 ! discontinuous [Term] id: PATO:0000690 name: discontinuous namespace: quality alt_id: PATO:0000426 def: "A quality of a single process inhering in a bearer by virtue of the bearer's being marked by breaks or interruptions." [thefreedictionary.com:thefreedictionary.com] subset: value_slim synonym: "intermittent" RELATED [] synonym: "interrupted" EXACT [] is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0000689 ! continuous [Term] id: PATO:0000694 name: premature namespace: quality alt_id: PATO:0000691 alt_id: PATO:0002086 def: "A quality of a process which starts earlier than the natural start time or the reference process." [PATO:LC] subset: value_slim synonym: "advanced" EXACT [] synonym: "early" RELATED [] synonym: "precocious" RELATED [] is_a: PATO:0002325 ! onset quality [Term] id: PATO:0000695 name: synchronous namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's occurring or existing at the same time or having the same period or phase." [PATOC:GVG] subset: value_slim is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0000688 ! asynchronous [Term] id: PATO:0000718 name: lethal (sensu genetics) namespace: quality def: "A viability quality inhering in a population by virtue of the bearer's long term survival inability." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0000760 name: increased behavioural activity namespace: quality def: "A behavioral quality of a process inhering in a bearer by virtue of the bearer's exhibiting increased activity." [PATOC:GVG] subset: value_slim synonym: "hyperactive" EXACT [] is_a: PATO:0001707 ! behavioural active is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001707 ! behavioural active intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000761 ! decreased behavioural activity [Term] id: PATO:0000761 name: decreased behavioural activity namespace: quality def: "A behavioral quality of a process inhering in a bearer by virtue of the bearer's exhibiting reduced activity." [PATOC:GVG] subset: value_slim synonym: "hypoactive" EXACT [] is_a: PATO:0001707 ! behavioural active is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001707 ! behavioural active intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000760 ! increased behavioural activity [Term] id: PATO:0000763 name: paralysed namespace: quality def: "A behavioral quality inhering in a bearer by virtue of the bearer's being affected by loss of the ability to move a body part." [PATOC:GVG] subset: value_slim synonym: "palsy" NARROW [] is_a: PATO:0002076 ! movement behavioral quality [Term] id: PATO:0000769 name: coordinated namespace: quality def: "A coordination quality of inhering in a bearer by virtue of the bearer's having skillful and effective interaction of movement." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000188 ! coordination disjoint_from: PATO:0000770 ! uncoordinated relationship: is_opposite_of PATO:0000770 ! uncoordinated [Term] id: PATO:0000770 name: uncoordinated namespace: quality def: "A coordination quality of inhering in a bearer by virtue of the bearer's lacking skillful and effective interaction of movement." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000188 ! coordination relationship: is_opposite_of PATO:0000769 ! coordinated [Term] id: PATO:0000911 name: decreased rate namespace: quality def: "A rate which is relatively low." [PATO:GVG] subset: mpath_slim subset: value_slim synonym: "slow rate" EXACT [] is_a: PATO:0000161 ! rate is_a: PATO:0002302 ! decreased process quality intersection_of: PATO:0000161 ! rate intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000912 ! increased rate [Term] id: PATO:0000912 name: increased rate namespace: quality def: "A rate which is relatively high." [PATO:GVG] subset: mpath_slim subset: value_slim synonym: "fast rate" EXACT [] synonym: "high rate" EXACT [] is_a: PATO:0000161 ! rate is_a: PATO:0002304 ! increased process quality intersection_of: PATO:0000161 ! rate intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000911 ! decreased rate [Term] id: PATO:0000915 name: thickness namespace: quality def: "A 1-D extent quality which is equal to the dimension through an object as opposed to its length or width." [WordNet:WordNet] subset: attribute_slim subset: scalar_slim is_a: PATO:0001708 ! 1-D extent [Term] id: PATO:0000918 name: volume namespace: quality def: "A 3-D extent quality inhering in a bearer by virtue of the bearer's amount of 3-dimensional space it occupies." [PATOC:GVG] subset: attribute_slim subset: mpath_slim subset: scalar_slim is_a: PATO:0001710 ! 3-D extent [Term] id: PATO:0000937 name: disorganized namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's lacking organisation." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0002264 ! organization quality disjoint_from: PATO:0000938 ! organized relationship: is_opposite_of PATO:0000938 ! organized [Term] id: PATO:0000938 name: organized namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's exhibiting organisation." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0002264 ! organization quality relationship: is_opposite_of PATO:0000937 ! disorganized [Term] id: PATO:0000947 name: elliptic namespace: quality def: "A spheroid quality inhering in a bearer by virtue of the bearer's being oval with two axes of symmetry, as produced by a conical section." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "ellipse-shaped" EXACT [] synonym: "ellipsoid" EXACT [] synonym: "elliptical" EXACT [] synonym: "oval" RELATED [] synonym: "ovoid" RELATED [] is_a: PATO:0002318 ! superelliptic [Term] id: PATO:0000955 name: fertile namespace: quality def: "A fertility quality inhering in a bearer by virtue of the bearer's being capable of initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000274 ! fertility disjoint_from: PATO:0000956 ! sterile relationship: is_opposite_of PATO:0000956 ! sterile [Term] id: PATO:0000956 name: sterile namespace: quality alt_id: WBPhenotype:0000311 def: "A fertility quality inhering in a bearer by virtue of the bearer's being incapable of initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000274 ! fertility relationship: is_opposite_of PATO:0000955 ! fertile [Term] id: PATO:0000957 name: opacity namespace: quality def: "An optical quality which obtains by virtue of the ability of the bearer to absorb visible light." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001300 ! optical quality [Term] id: PATO:0000963 name: opaque namespace: quality def: "A optical quality inhering in a bearer by virtue of the bearer's not being clear; not transmitting or reflecting light or radiant energy." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "clouding" RELATED [] synonym: "cloudy" RELATED [] synonym: "non-transparent" EXACT [] is_a: PATO:0000957 ! opacity relationship: is_opposite_of PATO:0000964 ! transparent [Term] id: PATO:0000964 name: transparent namespace: quality def: "A optical quality inhering in a bearer by virtue of the bearer's lacking opacity." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "clear" EXACT [] is_a: PATO:0000957 ! opacity relationship: is_opposite_of PATO:0000963 ! opaque [Term] id: PATO:0000965 name: symmetry namespace: quality def: "A pattern quality of inhering in a bearer by virtue of the correspondence in size, shape, and relative position of the bearer's parts on opposite sides of a dividing line or median plane or about a center or axis." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000060 ! spatial pattern [Term] id: PATO:0001005 name: latency namespace: quality def: "A time quality inhering in a bearer by virtue of the time it elapses for the bearer to respond to a stimulus." [PATOC:GVG] comment: This class is a candidate for obsoletion. The definition is not clear, and the placement under "delayed" is not consistent with the definition. subset: value_slim is_a: PATO:0000502 ! delayed [Term] id: PATO:0001018 name: physical quality namespace: quality alt_id: PATO:0002079 def: "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." [PATOC:GVG] subset: attribute_slim synonym: "relational physical quality" EXACT [] xref: Wikipedia:Physical_property is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001029 name: efficiency namespace: quality def: "A physical quality inhering in a bearer by virtue of ratio of the bearer's output to the bearer's input." [WordNet:WordNet] subset: attribute_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001043 name: susceptibility toward namespace: quality def: "A quality inhering in an entity by virtue of the bearer's propensity to resist an external stimulus." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: relational_slim synonym: "susceptibility" EXACT [] is_a: PATO:0000085 ! sensitivity toward relationship: is_opposite_of PATO:0001046 ! resistance to [Term] id: PATO:0001046 name: resistance to namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's disposition to resist to a stimulus." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: relational_slim subset: scalar_slim synonym: "resistance" EXACT [] is_a: PATO:0001995 ! organismal quality relationship: is_opposite_of PATO:0001043 ! susceptibility toward [Term] id: PATO:0001159 name: concentrated namespace: quality def: "A concentration quality inhering in a bearer by virtue of the bearer's exhibiting concentration." [PATOC:GVG] subset: relational_slim subset: value_slim is_a: PATO:0000033 ! concentration of [Term] id: PATO:0001162 name: increased concentration namespace: quality def: "A concentration which is higher relative to the normal or average." [PATOC:GVG] subset: relational_slim subset: value_slim synonym: "high concentration" EXACT [] is_a: PATO:0001159 ! concentrated is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001159 ! concentrated intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001163 ! decreased concentration [Term] id: PATO:0001163 name: decreased concentration namespace: quality def: "A concentration which is lower relative to the normal or average." [PATOC:GVG] subset: relational_slim subset: value_slim synonym: "low concentration" EXACT [] is_a: PATO:0001159 ! concentrated is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001159 ! concentrated intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001162 ! increased concentration [Term] id: PATO:0001178 name: resistant to namespace: quality def: "A resistance quality inhering in a bearer by virtue of the bearer's resistance to a stimulus." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "resistant" EXACT [] is_a: PATO:0001046 ! resistance to [Term] id: PATO:0001192 name: hyperresponsive to namespace: quality def: "A response quality inhering in a bearer by virtue of the bearer's excessive reaction to a stimulus or an agent." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "hyperresponsive" EXACT [] synonym: "increased responsivity" EXACT [] is_a: PATO:0000487 ! responsive to is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000487 ! responsive to intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001194 ! hyporesponsive to [Term] id: PATO:0001194 name: hyporesponsive to namespace: quality def: "A response quality inhering in a bearer by virtue of the bearer's limited reaction to a stimulus or an agent." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "decreased responsivity" EXACT [] synonym: "hyporesponsive" EXACT [] is_a: PATO:0000487 ! responsive to is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000487 ! responsive to intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001192 ! hyperresponsive to [Term] id: PATO:0001227 name: variant namespace: quality def: "A variability quality inhering in a bearer by virtue of whether the bearer exhibits variation or change." [Dictionary:http\://dictionary.reference.com/] subset: relational_slim subset: value_slim synonym: "variable" EXACT [] is_a: PATO:0001303 ! variability relationship: is_opposite_of PATO:0000438 ! invariant [Term] id: PATO:0001229 name: high saturation namespace: quality def: "A color saturation which is of high purity." [PATOC:MAH] subset: value_slim synonym: "bright" EXACT [] synonym: "vivid" RELATED [] is_a: PATO:0000017 ! color saturation relationship: is_opposite_of PATO:0000328 ! low saturation [Term] id: PATO:0001236 name: process quality namespace: quality alt_id: PATO:0001239 alt_id: PATO:0001240 def: "A quality which inheres in an process." [PATOC:GVG] comment: See comments of relational quality of a physical entity. synonym: "quality of a process" EXACT [] synonym: "quality of occurrent" EXACT [] synonym: "quality of process" EXACT [] synonym: "relational quality of occurrent" EXACT [] is_a: PATO:0000001 ! quality [Term] id: PATO:0001241 name: physical object quality namespace: quality alt_id: PATO:0001237 alt_id: PATO:0001238 def: "A quality which inheres in a continuant." [PATOC:GVG] comment: Relational qualities are qualities that hold between multiple entities. Normal (monadic) qualities such as the shape of a eyeball exist purely as a quality of that eyeball. A relational quality such as sensitivity to light is a quality of that eyeball (and connecting nervous system) as it relates to incoming light waves/particles. synonym: "monadic quality of a continuant" EXACT [] synonym: "monadic quality of an object" NARROW [] synonym: "monadic quality of continuant" NARROW [] synonym: "multiply inhering quality of a physical entity" EXACT [] synonym: "quality of a continuant" EXACT [] synonym: "quality of a single physical entity" EXACT [] synonym: "quality of an object" EXACT [] synonym: "quality of continuant" EXACT [] xref: snap:Quality is_a: PATO:0000001 ! quality [Term] id: PATO:0001242 name: wavelength namespace: quality def: "A physical quality which is equal to the distance between repeating units of a wave pattern." [PATOC:GVG] subset: attribute_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001290 name: fluorescent namespace: quality def: "A fluorescence quality inhering in a bearer by virtue of emitting light during exposure to radiation from an external source." [web:www.thefreedictionary.com/] subset: value_slim is_a: PATO:0000018 ! fluorescence [Term] id: PATO:0001291 name: electromagnetic (EM) radiation quality namespace: quality def: "A physical quality that inheres in an bearer by virtue of how that bearer interacts with electromagnetic radiation." [Wikipedia:http\://en.wikipedia.org/wiki/Electromagnetic_radiation] subset: attribute_slim is_a: PATO:0001739 ! radiation quality [Term] id: PATO:0001296 name: luminous flux namespace: quality def: "A scalar optical quality which obtains by the magnitude of the light emitted by the bearer." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001300 ! optical quality [Term] id: PATO:0001300 name: optical quality namespace: quality def: "An EM radiation quality in which the EM radiation is within the fiat range of the spectrum visible deemed to be light." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001291 ! electromagnetic (EM) radiation quality [Term] id: PATO:0001301 name: chromatic property namespace: quality def: "An optical quality that is the mixture, purity or pattern of wavelengths of light perceived by the observer." [PATOC:MAH] subset: attribute_slim is_a: PATO:0001300 ! optical quality [Term] id: PATO:0001303 name: variability namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's disposition to varying or changing." [Dictionary:http\://dictionary.reference.com/] subset: attribute_slim synonym: "variability of a physical quality" RELATED [] is_a: PATO:0001236 ! process quality [Term] id: PATO:0001309 name: duration namespace: quality alt_id: PATO:0000081 def: "A process quality inhering in a bearer by virtue of the bearer's magnitude of the temporal extent between the starting and ending point." [PATOC:mellybelly] subset: attribute_slim subset: hpo_slim synonym: "period" EXACT [] synonym: "time" RELATED [] is_a: PATO:0002062 ! physical quality of a process [Term] id: PATO:0001340 name: hermaphrodite namespace: quality def: "A biological sex quality inhering in an organism or a population with both male and female sexual organs in one individual." [MGED:MGED] subset: value_slim synonym: "intersex" EXACT [] is_a: PATO:0001894 ! phenotypic sex [Term] id: PATO:0001355 name: convex namespace: quality def: "A shape quality that obtains by virtue of the bearer having inward facing edges; having a surface or boundary that curves or bulges outward, as the exterior of a sphere." [PATOC:GVG] subset: cell_quality subset: value_slim is_a: PATO:0002005 ! concavity relationship: is_opposite_of PATO:0001857 ! concave [Term] id: PATO:0001362 name: fragile namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's disposition to being easily damaged or destroyed." [WordNet:WordNet] subset: disposition_slim subset: value_slim is_a: PATO:0001662 ! fragility disjoint_from: PATO:0001716 ! non-fragile relationship: is_opposite_of PATO:0001716 ! non-fragile [Term] id: PATO:0001374 name: ploidy namespace: quality def: "A cellular quality inhering in a bearer by virtue of the bearer's number of homologous sets of chromosomes in the nucleus or primary chromosome-containing compartment of the cell, each set essentially coding for all the biological traits of the organism." [Wikipedia:http\://en.wikipedia.org/wiki/Ploidy] subset: attribute_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001375 name: haploid namespace: quality def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing a single set of homologous chromosomes." [Wikipedia:http\://en.wikipedia.org/wiki/Haploid] subset: cell_quality subset: value_slim is_a: PATO:0001393 ! euploid [Term] id: PATO:0001393 name: euploid namespace: quality def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing an integral multiple of the monoploid number, possibly excluding the sex-determining chromosomes." [Wikipedia:http\://en.wikipedia.org/wiki/Euploid] subset: cell_quality subset: value_slim is_a: PATO:0001374 ! ploidy [Term] id: PATO:0001396 name: cellular quality namespace: quality def: "A monadic quality of continuant that exists at the cellular level of organisation." [PATOC:GVG] is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001397 name: cellular potency namespace: quality def: "A cellular quality that arises by virtue of whether the bearer's disposition to differentiate into one or more mature cell types." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001402 name: multipotent namespace: quality def: "A cellular potency that is the capacity to form multiple differentiated cell types." [Wikipedia:http\://en.wikipedia.org/wiki/Multipotent] subset: cell_quality subset: disposition_slim subset: value_slim is_a: PATO:0001397 ! cellular potency [Term] id: PATO:0001404 name: nucleate quality namespace: quality def: "A cellular quality inhering in a bearer by virtue of bearer's number of nuclei." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001405 name: anucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having no nucleus." [Biology-online:Biology-online] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001404 ! nucleate quality [Term] id: PATO:0001422 name: dead namespace: quality def: "A viability quality inhering in a bearer by virtue of the cessation of the bearer's life." [PATOC:GVG] subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001433 name: growth quality of occurrent namespace: quality alt_id: PATO:0001489 def: "A quality of a single process which describes the growth of an organism, structure, or group of organisms." [PATOC:MAH] subset: attribute_slim synonym: "growth quality of a process" RELATED [] synonym: "growth timing quality" RELATED [] is_a: PATO:0001236 ! process quality [Term] id: PATO:0001434 name: reproductive quality namespace: quality def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to produce new life or offspring." [WordNet:WordNet] is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0001435 name: attachment quality namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's having connection or association with another entity." [PATOC:GVG] subset: attribute_slim subset: relational_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0001442 name: wholeness namespace: quality def: "A structural quality inhering in a bearer by virtue of whether the bearer includes all its components." [thefreedictionary.com:thefreedictionary.com] subset: attribute_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0001444 name: broken namespace: quality alt_id: PATO:0001443 alt_id: PATO:0001820 def: "A broken quality inhering in a bearer by virtue of the bearer's being broken open." [PATOC:GVG] subset: value_slim synonym: "burst" EXACT [] synonym: "cracked" RELATED [] synonym: "fractured" EXACT [] synonym: "fragmented" EXACT [] synonym: "hemorrhaged" RELATED [] synonym: "ruptured" EXACT [] synonym: "split" RELATED [] synonym: "torn" RELATED [] is_a: PATO:0001442 ! wholeness [Term] id: PATO:0001453 name: detached from namespace: quality def: "An attachment quality inhering in a bearer by virtue of the bearer's lacking connection or association with another entity." [PATOC:GVG] subset: mpath_slim subset: relational_slim subset: value_slim synonym: "detached" EXACT [] is_a: PATO:0001435 ! attachment quality [Term] id: PATO:0001457 name: sensitivity of a process namespace: quality def: "A quality of a process inhering in bearer by virtue of the bearer's disposition to respond to stimulation." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: relational_slim synonym: "sensitivity of occurrent" EXACT [] is_a: PATO:0002062 ! physical quality of a process [Term] id: PATO:0001472 name: decreased depth namespace: quality alt_id: PATO:0001692 def: "A depth which is relatively low." [PATOC:GVG] subset: value_slim synonym: "low depth" EXACT [] synonym: "shallow" EXACT [] is_a: PATO:0000587 ! decreased size is_a: PATO:0001595 ! depth intersection_of: PATO:0001595 ! depth intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001596 ! increased depth [Term] id: PATO:0001475 name: increased position namespace: quality def: "A position which is relatively high." [PATOC:GVG] subset: value_slim synonym: "high position" RELATED [] is_a: PATO:0000140 ! position is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000140 ! position intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001476 ! decreased position [Term] id: PATO:0001476 name: decreased position namespace: quality def: "A positional which is relatively low." [PATOC:GVG] subset: value_slim synonym: "low position" RELATED [] is_a: PATO:0000140 ! position is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000140 ! position intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001475 ! increased position [Term] id: PATO:0001477 name: retracted namespace: quality def: "A positional quality inhering in a bearer by virtue of the bearer's being drawn in or pulled back from any given point." [Dictionary.com:Dictionary.com] subset: value_slim synonym: "moved" BROAD [] synonym: "retruded" RELATED [] is_a: PATO:0000140 ! position [Term] id: PATO:0001490 name: heterochronic growth namespace: quality def: "A growth quality of a process inhering in an organism, structure, or group of organisms by virtue of the bearer's reduced or increased growth." [PATOC:MAH] subset: value_slim is_a: PATO:0001433 ! growth quality of occurrent [Term] id: PATO:0001492 name: growth rate namespace: quality comment: This term will be obsoleted; Use GO:growth and PATO:rate. subset: attribute_slim subset: scalar_slim is_a: PATO:0000161 ! rate [Term] id: PATO:0001495 name: notched namespace: quality def: "A concave quality inhering in a bearer by virtue of the bearer's shape being a V-shaped cut." [thefreedictionary.com:thefreedictionary.com] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "indented" RELATED [] is_a: PATO:0001857 ! concave [Term] id: PATO:0001496 name: brood quality namespace: quality def: "A reproductive quality inhering in the young of an animal by virtue of the bearer's being cared for at one time." [WordNet:WordNet] subset: attribute_slim is_a: PATO:0001434 ! reproductive quality [Term] id: PATO:0001509 name: functionality namespace: quality def: "A quality of a single physical entity that arises by virtue of whether the bearer exhibits the ability to perform a regular function(s)." [PATOC:MAH] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001510 name: functional namespace: quality def: "A functionality quality held by the bearer when the latter is able to perform a regular function(s)." [PATOC:MAH] subset: disposition_slim subset: value_slim is_a: PATO:0001509 ! functionality relationship: is_opposite_of PATO:0001511 ! non-functional [Term] id: PATO:0001511 name: non-functional namespace: quality alt_id: PATO:0001640 def: "A disfunctional quality held by the bearer when the latter is unable to perform a regular function(s)." [PATC:MAH] subset: disposition_slim subset: value_slim synonym: "defective" RELATED [] synonym: "disfunctional" EXACT [] synonym: "failure" RELATED [] synonym: "functional failure" EXACT [] is_a: PATO:0001509 ! functionality relationship: is_opposite_of PATO:0001510 ! functional [Term] id: PATO:0001549 name: increased sensitivity toward namespace: quality def: "A sensitivity toward an external stimulus which is higher than normal/average." [PATO:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "high sensitivity toward" EXACT [] synonym: "increased sensitivity" EXACT [] is_a: PATO:0000516 ! sensitive toward is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000516 ! sensitive toward intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001550 ! decreased sensitivity toward [Term] id: PATO:0001550 name: decreased sensitivity toward namespace: quality def: "A sensitivity toward an external stimulus which is lower than normal/average." [PATO:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "decreased sensitivity" EXACT [] synonym: "low sensitivity toward" EXACT [] is_a: PATO:0000516 ! sensitive toward is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000516 ! sensitive toward intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001549 ! increased sensitivity toward [Term] id: PATO:0001551 name: increased sensitivity of a process namespace: quality def: "A sensitivity of a process which is higher than normal or average." [PATO:GVG] subset: relational_slim subset: value_slim synonym: "high sensitivity of occurrent" EXACT [] synonym: "increased sensitivity of occurrent" EXACT [] is_a: PATO:0001457 ! sensitivity of a process is_a: PATO:0002304 ! increased process quality intersection_of: PATO:0001457 ! sensitivity of a process intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001552 ! decreased sensitivity of a process [Term] id: PATO:0001552 name: decreased sensitivity of a process namespace: quality def: "A sensitivity of a process which is lower than normal or average." [PATO:GVG] subset: relational_slim subset: value_slim synonym: "decreased sensitivity of occurrent" EXACT [] synonym: "low sensitivity of occurrent" EXACT [] is_a: PATO:0001457 ! sensitivity of a process is_a: PATO:0002302 ! decreased process quality intersection_of: PATO:0001457 ! sensitivity of a process intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001551 ! increased sensitivity of a process [Term] id: PATO:0001555 name: has number of namespace: quality def: "The number of parts of a particular type that the bearer entity has. This is a relational quality, and thus holds between two entities: the bearer of the quality, and the type of parts." [PATOC:CJM] subset: attribute_slim subset: relational_slim synonym: "cardinality" RELATED [] synonym: "extra or missing physical or functional parts" EXACT [] synonym: "has or lacks parts of type" EXACT [] synonym: "mereological quality" EXACT [] synonym: "number" RELATED [] synonym: "number of" EXACT [] xref: OBO_REL:has_part is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001558 name: lacking processual parts namespace: quality def: "A quality of a process inhering in a bearer by virtue of the bearer's lacking a processual part as specified by the additional entity." [PATOC:GVG] subset: relational_slim subset: value_slim is_a: PATO:0001564 ! extra or missing processual parts [Term] id: PATO:0001559 name: having extra function namespace: quality def: "A functionality quality which is held by the bearer when the latter is able to perform additional or different function(s)." [PATO:MAH] subset: disposition_slim subset: value_slim synonym: "having supernumerary functions" EXACT [] is_a: PATO:0001509 ! functionality is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001509 ! functionality intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal [Term] id: PATO:0001564 name: extra or missing processual parts namespace: quality def: "A quality of a process inhering in a bearer by virtue of the bearer's processual parts." [PATOC:GVG] subset: relational_slim is_a: PATO:0001236 ! process quality [Term] id: PATO:0001570 name: having decreased processual parts namespace: quality def: "A quality of a process inhering in a bearer by virtue of the bearer's having fewer processual parts." [PATO:GVG] subset: relational_slim subset: value_slim is_a: PATO:0001564 ! extra or missing processual parts [Term] id: PATO:0001583 name: decreased variability namespace: quality def: "A variability which is relatively low." [PATO:GVG] subset: value_slim synonym: "low variability" EXACT [] is_a: PATO:0001227 ! variant is_a: PATO:0002302 ! decreased process quality is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001227 ! variant intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001584 ! increased variability [Term] id: PATO:0001584 name: increased variability namespace: quality def: "A variability which is relatively high." [PATO:GVG] subset: value_slim synonym: "high variability" EXACT [] is_a: PATO:0001227 ! variant is_a: PATO:0002304 ! increased process quality is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001227 ! variant intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001583 ! decreased variability [Term] id: PATO:0001595 name: depth namespace: quality def: "A 1-D extent quality inhering in a bearer by virtue of the bearer's downward or backward or inward dimenision." [WordNet:WordNet] subset: attribute_slim subset: scalar_slim is_a: PATO:0001708 ! 1-D extent [Term] id: PATO:0001596 name: increased depth namespace: quality alt_id: PATO:0001666 def: "A depth quality which is relatively high." [PATO:GVG] subset: value_slim synonym: "deep" EXACT [] is_a: PATO:0000586 ! increased size is_a: PATO:0001595 ! depth intersection_of: PATO:0001595 ! depth intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001472 ! decreased depth [Term] id: PATO:0001597 name: everted namespace: quality def: "An oriented quality inhering in a bearer by virtue of the bearer's being turned outward in placement." [thefreedictionary:thefreedictionary] subset: mpath_slim subset: value_slim is_a: PATO:0000614 ! oriented [Term] id: PATO:0001598 name: protruding namespace: quality alt_id: PATO:0001644 def: "A quality inhering in a bearer by virtue of the bearer's extending out above or beyond a surface or boundary." [WordNet:WordNet] subset: value_slim synonym: "protruding" EXACT [] synonym: "relational protruding quality" EXACT [] is_a: PATO:0000140 ! position [Term] id: PATO:0001599 name: rotated namespace: quality def: "An oriented quality inhering in a bearer by virtue of the bearer's being relocated around an axis." [answers.com:answers.com] subset: mpath_slim subset: value_slim synonym: "rotation" EXACT [] is_a: PATO:0000614 ! oriented [Term] id: PATO:0001603 name: increased life span namespace: quality def: "A life span which is relatively high." [PATO:GVG] synonym: "high life span" EXACT [] is_a: PATO:0000050 ! life span is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000050 ! life span intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001604 ! decreased life span [Term] id: PATO:0001604 name: decreased life span namespace: quality def: "A life span which is relatively low." [PATO:GVG] synonym: "low life span" EXACT [] is_a: PATO:0000050 ! life span is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000050 ! life span intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001603 ! increased life span [Term] id: PATO:0001624 name: decreased functionality namespace: quality alt_id: PATO:0001556 alt_id: PATO:0001568 alt_id: PATO:0001641 alt_id: PATO:0001642 def: "A functionality quality held by the bearer when the latter exhibits decreased ability to perform a regular function(s)." [PATO:MAH] subset: disposition_slim subset: value_slim synonym: "dysfunction" BROAD [] synonym: "dysfunctional" BROAD [] synonym: "having decreased function" EXACT [] synonym: "impaired" RELATED [] synonym: "lacks function of type" EXACT [] synonym: "low functionality" EXACT [] synonym: "partial functionality" EXACT [] is_a: PATO:0001510 ! functional is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001510 ! functional intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001625 ! increased functionality [Term] id: PATO:0001625 name: increased functionality namespace: quality def: "A functional quality held by the bearer when the latter exhibits increased ability to perform a regular function(s)." [PATO:MAH] subset: disposition_slim subset: value_slim synonym: "high functionality" EXACT [] is_a: PATO:0001510 ! functional is_a: PATO:0001559 ! having extra function intersection_of: PATO:0001510 ! functional intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001624 ! decreased functionality [Term] id: PATO:0001632 name: anterior to namespace: quality def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the front of an organism relative to another entity." [PATOC:nw] subset: mpath_slim subset: relational_slim subset: value_slim synonym: "preceding" EXACT [] synonym: "ventral_to" EXACT [] is_a: PATO:0000140 ! position [Term] id: PATO:0001633 name: posterior to namespace: quality def: "A spatial quality inhering in a bearer by virtue of the bearer's being located toward the rear of an organism relative to another entity." [PATOC:nw] subset: mpath_slim subset: relational_slim subset: value_slim synonym: "posterior (human torso)" EXACT [] synonym: "superior (human head)" EXACT [] is_a: PATO:0000140 ! position [Term] id: PATO:0001650 name: increased resistance to namespace: quality def: "A resistance to a stimulus which is relatively high." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "high resistance to" EXACT [] synonym: "increased resistance" EXACT [] is_a: PATO:0001178 ! resistant to is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001178 ! resistant to intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001651 ! decreased resistance to [Term] id: PATO:0001651 name: decreased resistance to namespace: quality def: "A resistance to a stimulus which is relatively low." [PATOC:GVG] subset: disposition_slim subset: relational_slim subset: value_slim synonym: "decreased resistance" EXACT [] synonym: "low resistance to" EXACT [] is_a: PATO:0001178 ! resistant to is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001178 ! resistant to intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001650 ! increased resistance to [Term] id: PATO:0001652 name: alignment namespace: quality def: "A spatial quality inhering in a bearer by virtue of the bearer's spatial positioning with respect to an additional entity." [PATOC:GVG] subset: attribute_slim subset: relational_slim is_a: PATO:0000140 ! position relationship: has_part PATO:0000133 ! orientation [Term] id: PATO:0001662 name: fragility namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's disposition to being damaged or destroyed." [WordNet:WordNet] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0001675 name: decreased efficiency namespace: quality def: "An efficiency which is relatively low." [PATOC:GVG] subset: value_slim synonym: "low efficiency" EXACT [] is_a: PATO:0001678 ! efficient is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001678 ! efficient intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001676 ! increased efficiency [Term] id: PATO:0001676 name: increased efficiency namespace: quality def: "An efficiency which is relatively high." [PATOC:GVG] subset: value_slim synonym: "high efficiency" EXACT [] is_a: PATO:0001678 ! efficient is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001678 ! efficient intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001675 ! decreased efficiency [Term] id: PATO:0001677 name: inefficient namespace: quality def: "An efficiency quality inhering in a bearer by virtue of the bearer's lacking efficiency." [PATOC:GVG] subset: value_slim is_a: PATO:0001029 ! efficiency disjoint_from: PATO:0001678 ! efficient relationship: is_opposite_of PATO:0001678 ! efficient [Term] id: PATO:0001678 name: efficient namespace: quality def: "An efficiency quality inhering in a bearer by virtue of the bearer's having efficiency." [PATOC:GVG] subset: value_slim is_a: PATO:0001029 ! efficiency relationship: is_opposite_of PATO:0001677 ! inefficient [Term] id: PATO:0001706 name: behavioural inactive namespace: quality def: "A behavioral quality inhering in a bearer by virtue of the bearer's disposition to lack activity." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0002265 ! behavioural activity disjoint_from: PATO:0001707 ! behavioural active relationship: is_opposite_of PATO:0001707 ! behavioural active [Term] id: PATO:0001707 name: behavioural active namespace: quality def: "A behavioral quality of a process inhering in a bearer by virtue of the bearer's exhibiting marked activity." [PATOC:GVG] subset: value_slim is_a: PATO:0002265 ! behavioural activity relationship: is_opposite_of PATO:0001706 ! behavioural inactive [Term] id: PATO:0001708 name: 1-D extent namespace: quality def: "A size quality inhering in an bearer by virtue of the bearer's extension in one dimension." [PATOC:GVG] subset: attribute_slim synonym: "1-D size" EXACT [] is_a: PATO:0000117 ! size [Term] id: PATO:0001710 name: 3-D extent namespace: quality def: "A size quality inhering in an bearer by virtue of the bearer's extension in three dimensions." [PATOC:GVG] subset: attribute_slim synonym: "3D size" EXACT [] is_a: PATO:0000117 ! size [Term] id: PATO:0001716 name: non-fragile namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's ability to withstand great strain without tearing or breaking." [thefreedictionary.com:thefreedictionary.com] subset: attribute_slim subset: disposition_slim synonym: "resilient" RELATED [] synonym: "strong" RELATED [] synonym: "tough" RELATED [] is_a: PATO:0001662 ! fragility relationship: is_opposite_of PATO:0001362 ! fragile [Term] id: PATO:0001739 name: radiation quality namespace: quality def: "A quality that inheres in an bearer by virtue of how that bearer interacts with radiation." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001749 name: paedomorphic growth namespace: quality def: "A heterochronic growth quality inhering in an organism, structure, or group of organisms by virtue of the bearer's reduced growth." [PATOC:mh] subset: value_slim synonym: "hypoplastic growth" EXACT [] synonym: "pedomorphic growth" EXACT [] is_a: PATO:0001490 ! heterochronic growth relationship: is_opposite_of PATO:0001752 ! peramorphic growth [Term] id: PATO:0001752 name: peramorphic growth namespace: quality def: "A heterochronic growth quality inhering in an organism, structure, or group of organisms by virtue of the bearer's increased growth." [PATOC:mh] subset: attribute_slim synonym: "hyperplastic growth" EXACT [] is_a: PATO:0001490 ! heterochronic growth relationship: is_opposite_of PATO:0001749 ! paedomorphic growth [Term] id: PATO:0001754 name: predisplaced growth namespace: quality def: "A peramorphic growth quality which is due to an earlier onset." [PATOC:mh] subset: value_slim synonym: "precocious growth" EXACT [] is_a: PATO:0001752 ! peramorphic growth [Term] id: PATO:0001767 name: semi-fertile namespace: quality subset: disposition_slim subset: value_slim is_a: PATO:0000274 ! fertility [Term] id: PATO:0001769 name: positional polarity namespace: quality def: "A positional quality inhering in a bearer by virtue of the bearer's location of features or characteristics along an axis." [PATOC:MAH] subset: attribute_slim synonym: "cellular polarity" RELATED [PATOC:MAH] is_a: PATO:0000140 ! position [Term] id: PATO:0001780 name: dystrophic namespace: quality def: "A size quality inhering in a bearer by virtue of the bearer's being abnormally developed, usually due to malnutrition." [Wiikipedia:Wiikipedia] subset: mpath_slim subset: value_slim synonym: "dystrophied" EXACT [] synonym: "dystrophy" RELATED [] is_a: PATO:0000587 ! decreased size [Term] id: PATO:0001794 name: coiling namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being wound in a continuous series of loops." [Online_Dictionary:Online_Dictionary] subset: attribute_slim is_a: PATO:0000052 ! shape [Term] id: PATO:0001795 name: increased coiling namespace: quality def: "A coiling which is relatively high." [PATOC:GVG] subset: cell_quality subset: value_slim synonym: "high coiling" EXACT [] is_a: PATO:0000404 ! coiled is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000404 ! coiled intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001796 ! decreased coiling [Term] id: PATO:0001796 name: decreased coiling namespace: quality def: "A coiling which is relatively low." [PATOC:GVG] subset: cell_quality subset: value_slim synonym: "low coiling" EXACT [] is_a: PATO:0000404 ! coiled is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000404 ! coiled intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001795 ! increased coiling [Term] id: PATO:0001798 name: kinked namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's having multiple angles in its length." [thefreedictionary.com:thefreedictionary.com] subset: cell_quality subset: value_slim synonym: "tightly curled" RELATED [] synonym: "twisted" RELATED [] is_a: PATO:0000617 ! bent [Term] id: PATO:0001810 name: wrinkled namespace: quality def: "A grooved texture quality inhering in a bearer by virtue of the bearer's being marked by one or more creases in a normally smooth surface." [url:http\://www.thefreedictionary.com/wrinkled] subset: mpath_slim subset: value_slim is_a: PATO:0002255 ! grooved [Term] id: PATO:0001818 name: progressive namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's increasing over time." [PATOC:GVG] subset: hpo_slim subset: mpath_slim subset: value_slim is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0002026 ! non-progressive [Term] id: PATO:0001821 name: imperforate namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's having no opening." [thefreedictionary.com:thefreedictionary.com] subset: mpath_slim subset: value_slim synonym: "unperforated" EXACT [] is_a: PATO:0002014 ! structure, cavities relationship: is_opposite_of PATO:0002112 ! perforate [Term] id: PATO:0001834 name: decreased fertility namespace: quality def: "A fertility which is relatively low." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "low fertility" EXACT [] is_a: PATO:0000955 ! fertile is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000955 ! fertile intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001835 ! increased fertility [Term] id: PATO:0001835 name: increased fertility namespace: quality def: "A fertility which is relatively high." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "high fertility" EXACT [] is_a: PATO:0000955 ! fertile is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000955 ! fertile intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001834 ! decreased fertility [Term] id: PATO:0001836 name: congested namespace: quality def: "A structural quality inhering in a bearer with some kind of aperture or opening that is blocked or clogged." [answers.com:answers.com] subset: mpath_slim subset: value_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0001851 name: swollen namespace: quality def: "A structure quality inhering in a bearer by virtue of the bearer's exhibiting transient abnormal enlargement, not due to cell proliferation." [thefreedictionary.com:thefreedictionary.com] subset: mpath_slim subset: value_slim synonym: "swelling" NARROW [] is_a: PATO:0000141 ! structure relationship: has_part PATO:0000586 ! increased size relationship: has_part PATO:0001598 ! protruding [Term] id: PATO:0001852 name: dislocated namespace: quality alt_id: PATO:0001479 alt_id: PATO:0002158 alt_id: PATO:0002159 def: "A positional quality inhering in a bearer by virtue of the bearer's being out of its usual or proper place, or position." [thefreedictionary.com:thefreedictionary.com] subset: mpath_slim subset: value_slim synonym: "dislocation" EXACT [] synonym: "luxated" EXACT [] synonym: "luxation" EXACT [] synonym: "relational dislocated quality" EXACT [] is_a: PATO:0002181 ! displaced [Term] id: PATO:0001857 name: concave namespace: quality def: "A shape quality in a bearer by virtue of the bearer's curving inward." [WordNet:WordNet] subset: cell_quality subset: value_slim is_a: PATO:0002005 ! concavity relationship: is_opposite_of PATO:0001355 ! convex [Term] id: PATO:0001859 name: increased coordination namespace: quality def: "A coordination which is relatively high." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "high coordination" EXACT [] is_a: PATO:0000769 ! coordinated is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000769 ! coordinated intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001860 ! decreased coordination [Term] id: PATO:0001860 name: decreased coordination namespace: quality def: "A coordination which is relatively low." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "low coordination" EXACT [] is_a: PATO:0000769 ! coordinated is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000769 ! coordinated intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001859 ! increased coordination [Term] id: PATO:0001873 name: cylindrical namespace: quality alt_id: PATO:0001203 def: "A convex 3-D shape quality inhering in a bearer by virtue of the bearer's exhibiting a consistently-sized round cross section." [PATOC:MAH] subset: cell_quality subset: value_slim synonym: "rod-like" EXACT [] synonym: "rod-shaped" EXACT [] synonym: "tubulate" NARROW [] is_a: PATO:0002007 ! convex 3-D shape relationship: has_cross_section PATO:0000411 ! circular [Term] id: PATO:0001894 name: phenotypic sex namespace: quality def: "An organismal quality inhering in a bearer by virtue of the bearer's physical expression of sexual characteristics." [] subset: attribute_slim is_a: PATO:0000047 ! biological sex [Term] id: PATO:0001906 name: movement quality namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's participation in movement." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001908 name: multinucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having more than one nucleus." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0002505 ! nucleated [Term] id: PATO:0001912 name: physiological state namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the state of bearer's mechanical, physical, and biochemical processes." [PATOC:mb] is_a: PATO:0001236 ! process quality [Term] id: PATO:0001926 name: increased fluorescence namespace: quality def: "A fluorescence which is higher than normal." [PATOC:GVG] subset: value_slim synonym: "high fluorescence" EXACT [] is_a: PATO:0001290 ! fluorescent is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001290 ! fluorescent intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001927 ! decreased fluorescence [Term] id: PATO:0001927 name: decreased fluorescence namespace: quality def: "A fluorescence which is lower than normal." [PATOC:GVG] subset: value_slim synonym: "low fluorescence" EXACT [] is_a: PATO:0001290 ! fluorescent is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001290 ! fluorescent intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0001926 ! increased fluorescence [Term] id: PATO:0001928 name: blistered namespace: quality def: "A texture quality inhering in a bearer by virtue of a local accumulation of fluid underneath the surface of the bearer." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "blistering" NARROW [] is_a: PATO:0000150 ! texture [Term] id: PATO:0001929 name: variability of shape namespace: quality def: "A variability quality inhering in a bearer by virtue of whether the bearer exhibits shape variation or change." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001303 ! variability relationship: towards PATO:0000052 ! shape [Term] id: PATO:0001930 name: variant shape namespace: quality def: "A quality inhering in a bearer by virtue the bearer's having or exhibiting variation its shape." [PATOC:GVG] subset: value_slim is_a: PATO:0001929 ! variability of shape relationship: is_opposite_of PATO:0001931 ! invariant shape [Term] id: PATO:0001931 name: invariant shape namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's lacking or not exhibiting variation of shape." [PATOC:GVG] subset: value_slim is_a: PATO:0001929 ! variability of shape relationship: is_opposite_of PATO:0001930 ! variant shape [Term] id: PATO:0001995 name: organismal quality namespace: quality def: "A quality that inheres in an entire organism or part of an organism." [PATOC:CJM] is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001997 name: decreased amount namespace: quality alt_id: PATO:0000419 alt_id: PATO:0000468 def: "An amount which is relatively low." [PATOC:GVG] subset: value_slim synonym: "decreased" RELATED [] synonym: "decreased number" EXACT [] synonym: "present in fewer numbers in organism" EXACT [] synonym: "reduced" RELATED [] synonym: "subnumerary" RELATED [] is_a: PATO:0000467 ! present is_a: PATO:0002301 ! decreased quality intersection_of: PATO:0000070 ! amount intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0000470 ! increased amount [Term] id: PATO:0001999 name: lacks parts or has fewer parts of type namespace: quality def: "The bearer of this quality has_part < n of the indicated entity type, where n is the normal amount for a comparable organism. Note that the bearer of the quality is the whole, not the part. Formally: If a bearer entity e has fewer parts of type X at time t, then the number of instances x of X at t such that x part_of e is < n, where n is either the normal number for comparable entities, or n is stated explicitly. This case includes the limit case, where the bearer lacks all parts of the specified type." [PATOC:CJM] subset: relational_slim synonym: "loss of" EXACT [] is_a: PATO:0002083 ! altered number of [Term] id: PATO:0002000 name: lacks all parts of type namespace: quality alt_id: PATO:0001557 def: "A quality of physical entities inhering in a bearer by virtue of the bearer's lacking a physical part as specified by the additional entity." [PATOC:CJM] comment: Example: [E=organism Q=lacks_all_parts_of_type E2=Wing] - applies to an organism. A relational quality in which the bearer entity has no parts of the specified type. The bearer of this quality has_part = 0 of the indicated entity type, where a comparable organism usually has at least 1 part of the same type. Note that the bearer of the quality is the whole, not the part. Formally: If a bearer entity e lacks all parts of type X at time t, then there exists no instances x of X at t such that x part_of e that has no wings, where wings are normally present in that organism type. In OWL this is equivalent to a restriction on the OBO_REL:has_part relation with cardinality=0, i.e has_part 0 E2. subset: relational_slim synonym: "lacks all physical parts of type" EXACT [] xref: OBO_REL:lacks_part is_a: PATO:0001999 ! lacks parts or has fewer parts of type [Term] id: PATO:0002001 name: has fewer parts of type namespace: quality alt_id: PATO:0001569 def: "The bearer of this quality has_part < n AND has_part > 0 of the indicated entity type, where n is the normal amount for a comparable organism. Note that the bearer of the quality is the whole, not the part. Formally: If a bearer entity e has fewer parts of type X at time t, then the number of instances x of X at t such that x part_of e is < n, where n is either the normal number for comparable entities, or n is stated explicitly." [PATOC:CJM] comment: Example: [E=hand Q=has_fewer_parts_of_type E2=digit] - applies to an organism that has no less fingers than is normal for organisms of that type. subset: relational_slim synonym: "decreased number of" EXACT [] synonym: "has decreased number of" EXACT [] synonym: "has fewer physical parts of type" EXACT [] is_a: PATO:0001999 ! lacks parts or has fewer parts of type is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001999 ! lacks parts or has fewer parts of type intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002002 ! has extra parts of type [Term] id: PATO:0002002 name: has extra parts of type namespace: quality alt_id: PATO:0001560 def: "The bearer of this quality has_part > n of the indicated entity type, where n is the normal amount for a comparable organism. Note that the bearer of the quality is the whole, not the part." [PATOC:CJM] comment: In polydactyly, the bearer of the quality is the hand, and the entity type being counted is 'finger'. In EQ syntax, E=hand, Q= E2=finger. subset: relational_slim synonym: "has extra parts of" EXACT [] synonym: "has increased number of" EXACT [] synonym: "having extra physical parts" EXACT [] synonym: "having supernumerary physical parts" EXACT [] synonym: "increased number of" EXACT [] is_a: PATO:0002083 ! altered number of is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0002083 ! altered number of intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002001 ! has fewer parts of type [Term] id: PATO:0002005 name: concavity namespace: quality def: "Surface shape that refers to the inward or outward curvature of the surface." [PATOC:MAH] subset: attribute_slim is_a: PATO:0000052 ! shape [Term] id: PATO:0002006 name: 2-D shape namespace: quality def: "A shape that inheres in a 2 dimensional entity, such as a cross section or projection of a 3 dimensional entity." [PATOC:CJM] subset: attribute_slim synonym: "2-D projection" RELATED [] synonym: "cross-sectional" RELATED [] is_a: PATO:0000052 ! shape [Term] id: PATO:0002007 name: convex 3-D shape namespace: quality def: "A complete three dimensional shape in which for every line connecting pair of points on the object is within the object. Or: a shape lacking cavities. Contrast: concave." [PATOC:CJM] comment: Use this term or an is_a child of this term when the entire shape of the object is known. subset: attribute_slim xref: Image:http\://upload.wikimedia.org/wikipedia/commons/0/06/Convex_polygon_illustration1.png is_a: PATO:0002266 ! 3-D shape relationship: has_cross_section PATO:0002006 ! 2-D shape relationship: is_opposite_of PATO:0002008 ! concave 3-D shape [Term] id: PATO:0002008 name: concave 3-D shape namespace: quality def: "A complete three dimensional shape in which there is a line connecting pair of points on the object that lies outside the object. Or: a shape with cavities. Contrast: concave." [PATOC:CJM] subset: attribute_slim xref: Image:http\://en.wikipedia.org/wiki/Image\:Convex_polygon_illustration2.png is_a: PATO:0002266 ! 3-D shape relationship: has_part PATO:0001857 ! concave relationship: is_opposite_of PATO:0002007 ! convex 3-D shape [Term] id: PATO:0002009 name: branchiness namespace: quality def: "A shape quality inhering in a bearer by virtue of the degree to which there are subdivisions or offshoots in a bearer entity." [PATOC:MAH] subset: attribute_slim subset: cell_quality is_a: PATO:0000052 ! shape [Term] id: PATO:0002014 name: structure, cavities namespace: quality def: "A structural quality that inheres in a bearer by virtue of the bearer's containing hollow areas." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0002016 name: magnitude namespace: quality is_a: PATO:0000068 ! qualitative [Term] id: PATO:0002017 name: increased magnitude namespace: quality synonym: "high magnitude" EXACT [] is_a: PATO:0002016 ! magnitude relationship: is_opposite_of PATO:0002018 ! decreased magnitude [Term] id: PATO:0002018 name: decreased magnitude namespace: quality synonym: "low magnitude" EXACT [] is_a: PATO:0002016 ! magnitude relationship: is_opposite_of PATO:0002017 ! increased magnitude [Term] id: PATO:0002026 name: non-progressive namespace: quality def: "A quality of a single process inhering in a bearer by virtue of the bearer's not increasing over time." [PATOC:GVG] subset: hpo_slim subset: mpath_slim subset: value_slim is_a: PATO:0000057 ! occurrence relationship: is_opposite_of PATO:0001818 ! progressive created_by: george gkoutos creation_date: 2008-12-18T12:49:19Z [Term] id: PATO:0002037 name: degeneration namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer exhibiting deterioration of its structure." [PATOC:GVG] subset: attribute_slim subset: scalar_slim is_a: PATO:0000141 ! structure created_by: george creation_date: 2009-02-03T11:13:19Z [Term] id: PATO:0002038 name: non-degenerate namespace: quality def: "A structural quality inhering in a bearer whose structure which does not deteriorate." [PATOC:GVG] subset: value_slim synonym: "not degenerate" EXACT [] is_a: PATO:0002037 ! degeneration relationship: is_opposite_of PATO:0000639 ! degenerate created_by: george creation_date: 2009-02-03T11:14:54Z [Term] id: PATO:0002051 name: increased occurrence namespace: quality def: "An occurrence which is relatively high." [PATOC:GVG] synonym: "increased incidence" EXACT [] is_a: PATO:0000057 ! occurrence is_a: PATO:0002304 ! increased process quality intersection_of: PATO:0000057 ! occurrence intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002052 ! decreased occurrence created_by: George Gkoutos creation_date: 2009-03-26T11:10:11Z [Term] id: PATO:0002052 name: decreased occurrence namespace: quality def: "An occurrence which is relatively low." [PATOC:GVG] synonym: "decreased incidence" EXACT [] is_a: PATO:0000057 ! occurrence is_a: PATO:0002302 ! decreased process quality intersection_of: PATO:0000057 ! occurrence intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002051 ! increased occurrence created_by: George Gkoutos creation_date: 2009-03-26T11:12:35Z [Term] id: PATO:0002055 name: increased fragility namespace: quality def: "A fragility which is relatively high." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0001362 ! fragile is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001362 ! fragile intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002056 ! decreased fragility created_by: George Gkoutos creation_date: 2009-03-26T04:01:37Z [Term] id: PATO:0002056 name: decreased fragility namespace: quality def: "A fragility which is relatively low." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0001362 ! fragile is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0001362 ! fragile intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002055 ! increased fragility created_by: George Gkoutos creation_date: 2009-03-26T04:02:14Z [Term] id: PATO:0002062 name: physical quality of a process namespace: quality subset: attribute_slim is_a: PATO:0001236 ! process quality created_by: george creation_date: 2009-06-05T09:16:46Z [Term] id: PATO:0002076 name: movement behavioral quality namespace: quality def: "A behavioral quality inhering in a bearer by virtue of the bearer's movement." [PATOC:GVG] subset: attribute_slim synonym: "movement behavioural quality" EXACT [] is_a: PATO:0000186 ! behavioral quality created_by: George Gkoutos creation_date: 2009-09-18T02:04:48Z [Term] id: PATO:0002083 name: altered number of namespace: quality def: "Having extra or fewer parts." [PATOC:GVG] subset: attribute_slim subset: relational_slim is_a: PATO:0001555 ! has number of created_by: George Gkoutos creation_date: 2009-09-21T10:41:58Z [Term] id: PATO:0002112 name: perforate namespace: quality alt_id: PATO:0000649 def: "A structural quality inhering in a bearer by virtue of the bearer's having a hole or holes, especially a row or array of small holes." [answers.com:answers.com] subset: mpath_slim subset: value_slim synonym: "permeable" RELATED [] synonym: "pierced" RELATED [] is_a: PATO:0002014 ! structure, cavities relationship: is_opposite_of PATO:0001821 ! imperforate created_by: george creation_date: 2009-10-05T03:37:05Z [Term] id: PATO:0002124 name: laminar namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's processing the form of a thin plate sheet or layer." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0000141 ! structure created_by: george creation_date: 2009-10-06T04:37:14Z [Term] id: PATO:0002181 name: displaced namespace: quality def: "A positional quality inhering in a bearer by virtue the bearer's being changed in position." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000140 ! position created_by: George Gkoutos creation_date: 2010-03-01T02:56:33Z [Term] id: PATO:0002182 name: molecular quality namespace: quality alt_id: PATO:0002061 def: "A quality which inheres in a molecular entity, a single molecule, atom, ion, radical etc." [PATOC:GVG] synonym: "relational molecular quality" EXACT [] is_a: PATO:0001241 ! physical object quality created_by: George Gkoutos creation_date: 2010-03-10T03:18:15Z [Term] id: PATO:0002247 name: degree of pigmentation namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's having or lacking of substances produced by living organisms that have a color resulting from selective color absorption." [url:http\://en.wikipedia.org/wiki/Biological_pigment] subset: attribute_slim subset: scalar_slim is_a: PATO:0000141 ! structure relationship: correlates_with PATO:0000014 ! color created_by: george creation_date: 2010-08-09T04:14:00Z [Term] id: PATO:0002255 name: grooved namespace: quality def: "Texture quality inhering in a bearer by virtue of the bearer's being marked with one or more channels." [PATOC:JE] subset: value_slim synonym: "channeled" RELATED [] synonym: "creased" RELATED [] is_a: PATO:0000150 ! texture created_by: george creation_date: 2010-09-01T10:27:48Z [Term] id: PATO:0002264 name: organization quality namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's being arranged in a systematic fashion." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000141 ! structure created_by: george creation_date: 2010-09-16T10:22:52Z [Term] id: PATO:0002265 name: behavioural activity namespace: quality def: "A behavioral quality of a process inhering in a bearer by virtue of the bearer's disposition to exhibit marked activity." [PATOC:GVG] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0000186 ! behavioral quality created_by: george creation_date: 2010-09-21T06:56:58Z [Term] id: PATO:0002266 name: 3-D shape namespace: quality def: "A shape that inheres in a 3 dimensional entity." [PATOC:OREGON] is_a: PATO:0000052 ! shape created_by: george creation_date: 2010-10-05T12:31:16Z [Term] id: PATO:0002282 name: increased mobility namespace: quality def: "A mobility which is relative high." [PATO:GVG] subset: value_slim is_a: PATO:0000299 ! mobile is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000299 ! mobile intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002283 ! decreased mobility created_by: george creation_date: 2011-03-09T09:16:03Z [Term] id: PATO:0002283 name: decreased mobility namespace: quality def: "A mobility which is relative low." [PATOC:GVG] subset: value_slim is_a: PATO:0000299 ! mobile is_a: PATO:0002303 ! decreased object quality intersection_of: PATO:0000299 ! mobile intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002282 ! increased mobility created_by: george creation_date: 2011-03-09T09:16:47Z [Term] id: PATO:0002300 name: increased quality namespace: quality def: "A quality that has a value that is increased compared to normal or average." [PATOC:GVG] is_a: PATO:0000069 ! deviation(from_normal) intersection_of: PATO:0000001 ! quality intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002301 ! decreased quality created_by: George Gkoutos creation_date: 2011-06-16T06:39:43Z [Term] id: PATO:0002301 name: decreased quality namespace: quality def: "A quality that has a value that is decreased compared to normal or average." [PATOC:GVG] is_a: PATO:0000069 ! deviation(from_normal) intersection_of: PATO:0000001 ! quality intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002300 ! increased quality created_by: George Gkoutos creation_date: 2011-06-16T06:40:15Z [Term] id: PATO:0002302 name: decreased process quality namespace: quality def: "A quality of a process that has a value that is decreased compared to normal or average." [PATOC:GVG] is_a: PATO:0001236 ! process quality is_a: PATO:0002301 ! decreased quality intersection_of: PATO:0001236 ! process quality intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002304 ! increased process quality created_by: George Gkoutos creation_date: 2011-06-16T06:50:59Z [Term] id: PATO:0002303 name: decreased object quality namespace: quality def: "A quality of an object that has a value that is decreased compared to normal or average." [PATOC:GVG] is_a: PATO:0001241 ! physical object quality is_a: PATO:0002301 ! decreased quality intersection_of: PATO:0001241 ! physical object quality intersection_of: decreased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002305 ! increased object quality created_by: George Gkoutos creation_date: 2011-06-16T06:51:54Z [Term] id: PATO:0002304 name: increased process quality namespace: quality def: "A quality of a process that has a value that is increased compared to normal or average." [PATOC:GVG] is_a: PATO:0001236 ! process quality is_a: PATO:0002300 ! increased quality intersection_of: PATO:0001236 ! process quality intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002302 ! decreased process quality created_by: George Gkoutos creation_date: 2011-06-16T06:53:08Z [Term] id: PATO:0002305 name: increased object quality namespace: quality def: "A quality of an object that has a value that is increased compared to normal or average." [PATOC:GVG] is_a: PATO:0001241 ! physical object quality is_a: PATO:0002300 ! increased quality intersection_of: PATO:0001241 ! physical object quality intersection_of: increased_in_magnitude_relative_to PATO:0000461 ! normal relationship: is_opposite_of PATO:0002303 ! decreased object quality created_by: George Gkoutos creation_date: 2011-06-16T06:54:01Z [Term] id: PATO:0002318 name: superelliptic namespace: quality def: "A shape constituting a transition between a rectangle and a circle; a closed curve, of which the circle and ellipse are special cases, whose parametric equation is x = a.cos2/rt, y = b.cos2/rt" [wiktionary:superellipse] synonym: "Lamé curve" EXACT [] is_a: PATO:0002006 ! 2-D shape created_by: George Gkoutos creation_date: 2011-10-12T12:45:16Z [Term] id: PATO:0002323 name: temporal distribution quality namespace: quality def: "A temporal distribution pattern of process occurrences within a regulation/reference process." [PATOC:LC] subset: attribute_slim is_a: PATO:0002062 ! physical quality of a process created_by: George Gkoutos creation_date: 2011-11-22T01:12:28Z [Term] id: PATO:0002324 name: offset quality namespace: quality def: "The temporal relation between the end of the process with respect to a reference process." [PATOC:LC] subset: attribute_slim synonym: "completeness" RELATED [GOC:CJM] synonym: "extent" RELATED [GOC:CJM] is_a: PATO:0002323 ! temporal distribution quality created_by: George Gkoutos creation_date: 2011-11-23T11:46:00Z [Term] id: PATO:0002325 name: onset quality namespace: quality def: "The temporal relation between the start of the process with respect to a reference process." [PATOC:LC] subset: attribute_slim synonym: "initiation" RELATED [] is_a: PATO:0002323 ! temporal distribution quality created_by: George Gkoutos creation_date: 2011-11-23T11:47:34Z [Term] id: PATO:0002505 name: nucleated namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having one or more nucleus." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0001404 ! nucleate quality created_by: gkoutos creation_date: 2013-10-21T05:44:34Z [Term] id: PATO:0015001 name: absence due to degeneration namespace: quality def: "Absence due to a degenerative process." [PATOC:PortlandMeetingFeb2015] subset: absent_slim subset: value_slim is_a: PATO:0000462 ! absent is_a: PATO:0000639 ! degenerate intersection_of: PATO:0000462 ! absent intersection_of: PATO:0000639 ! degenerate created_by: cjm [Term] id: RO:0002577 name: system def: "A material entity consisting of multiple components that are causally integrated." [] is_a: BFO:0000040 ! material entity property_value: editor_note "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.jbiomedsem.com/content/4/1/43 xsd:string [Term] id: Subset is_a: IAO:0000102 ! data about an ontology part [Term] id: UBERON:0000000 name: processual entity namespace: uberon def: "An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity." [span:ProcessualEntity] subset: upper_level disjoint_from: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000009 name: submucosa namespace: uberon def: "A layer of dense irregular connective tissue that lines organs and supports the mucosa, as well as joins the mucosa to the bulk of underlying smooth muscle. [WP,unvetted]." [http://en.wikipedia.org/wiki/Submucosa] subset: pheno_slim subset: uberon_slim synonym: "organ submucosa" EXACT [FMA:85391] synonym: "region of submucosa" EXACT [FMA:85392] synonym: "submucosa of organ" EXACT [FMA:85391] synonym: "submucosa of region of organ" EXACT [FMA:85392] synonym: "submucous layer" RELATED [BTO:0002107] synonym: "tela submucosa" RELATED [BTO:0002107] synonym: "tunica submucosa" RELATED [] xref: BTO:0002107 xref: FMA:85391 xref: FMA:85392 xref: http://en.wikipedia.org/wiki/Submucosa xref: http://linkedlifedata.com/resource/umls/id/C0225344 xref: http://www.snomedbrowser.com/Codes/Details/68439008 xref: NCIT:C13167 xref: UMLS:C0225344 {source="ncithesaurus:Submucosa"} is_a: BFO:0000040 ! material entity is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue relationship: immediately_deep_to UBERON:0000344 ! mucosa property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png property_value: has_relational_adjective "submucosal" xsd:string [Term] id: UBERON:0000010 name: peripheral nervous system namespace: uberon def: "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." [GO:0007422] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "pars peripherica" EXACT LATIN [FMA:9903, FMA:TA, http://en.wikipedia.org/wiki/Peripheral_nervous_system] synonym: "PNS" BROAD ABBREVIATION [] synonym: "systema nervosum periphericum" EXACT LATIN [FMA:9903, FMA:TA, http://en.wikipedia.org/wiki/Peripheral_nervous_system] xref: AAO:0000429 xref: BAMS:PNS xref: BILA:0000081 xref: birnlex:1111 xref: BTO:0001028 xref: CALOHA:TS-0808 xref: EFO:0000891 xref: EHDAA2:0001445 xref: EHDAA:2893 xref: EMAPA:16665 xref: EV:0100335 xref: FBbt:00005098 xref: FMA:9903 xref: GAID:715 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=3232 xref: http://en.wikipedia.org/wiki/Peripheral_nervous_system xref: http://linkedlifedata.com/resource/umls/id/C0206417 xref: http://linkedlifedata.com/resource/umls/id/C1305921 xref: http://www.snomedbrowser.com/Codes/Details/362292005 xref: MA:0000218 xref: MAT:0000338 xref: MESH:D017933 xref: MIAA:0000338 xref: NCIT:C12465 xref: TAO:0000142 xref: UMLS:C0206417 {source="ncithesaurus:Peripheral_Nervous_System"} xref: UMLS:C0206417 {source="NIFSTD:birnlex_1111"} xref: UMLS:C1305921 {source="NIFSTD:birnlex_1111"} xref: VHOG:0000399 xref: XAO:0000178 xref: ZFA:0000142 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: part_of UBERON:0001016 ! nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png property_value: external_definition "Nervous structures including ganglia outside of the central nervous system. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000142", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Part of nervous system in which nerves extend throughout the body outside of the brain and spinal cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000429", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The peripheral nervous system (PNS) is the part of the nervous system connected to the CNS which contains cranial nerves III - XII, spinal, peripheral and autonomic nerves. (CUMBO)" xsd:string {source="Cumbo:terms"} property_value: homology_notes "(...) specific vertebrate traits within the chordate phylum such as skeletal tissues, PNS, and spectacular head and brain development, are linked to the NC (neural crest) and its derivatives.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000399", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1007/978-0-387-46954-6_6 Dupin E, Creuzet S, Le Douarin NM, The contribution of the neural crest to the vertebrate body. Advances in experimental medicine and biology (2006)"} [Term] id: UBERON:0000014 name: zone of skin namespace: uberon def: "Any portion of the organ that covers that body and consists of a layer of epidermis and a layer of dermis." [http://en.wikipedia.org/wiki/Skin, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "portion of skin" EXACT [] synonym: "region of skin" EXACT [] synonym: "skin" EXACT [MA:0000151] synonym: "skin region" EXACT [] synonym: "skin zone" EXACT [] xref: EHDAA2:0001844 xref: EHDAA:6530 xref: EMAPA:17525 xref: EV:0100152 xref: FMA:86166 xref: GAID:933 xref: http://en.wikipedia.org/wiki/Skin xref: http://www.snomedbrowser.com/Codes/Details/20795001 xref: MA:0000151 xref: MAT:0000284 xref: MESH:D012867 xref: MIAA:0000284 xref: OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA xref: VHOG:0000860 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0034944 {source="FMA"} ! zone of organ relationship: has_part UBERON:0001003 ! skin epidermis relationship: has_part UBERON:0002067 ! dermis relationship: part_of UBERON:0002097 ! skin of body property_value: curator_notes "Note the distinction between the entire skin of the body, of which there is only 1 in an organism, and zones of skin, of which there can be many. Examples: skin of knee" xsd:string property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/HumanSkinDiagram.jpg property_value: external_ontology_notes "we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive" xsd:string property_value: homology_notes "(...) it is well-established that neural crest cells contribute to both the dermal skeleton (craniofacial bone, teeth, and the caudal fin rays of teleosts) and the integument, including craniofacial dermis and all pigment cells outside the retina (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000860", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)"} [Term] id: UBERON:0000015 name: non-material anatomical boundary namespace: uberon def: "A non-material anatomical entity of two dimensions. Anatomical boundaries are contiguous structures." [CARO:0000010] comment: Except in the case of abstracted fiat boundaries such as the midline plane of an organism, all 2D anatomical entities have a 3 dimensional projection. For example, the surface of the shell of a muscle has a distinct shape that projects into the third dimension. Note that boundaries are 2D structures. They have no thickness - and so can not be sites of gene expression or gene product localisation. For this, use boundary region terms. subset: upper_level synonym: "anatomical boundary" EXACT [CARO:0000010] xref: AEO:0000192 xref: CARO:0000010 xref: FMA:50705 is_a: UBERON:0000466 {source="CARO"} ! immaterial anatomical entity [Term] id: UBERON:0000019 name: camera-type eye namespace: uberon def: "An organ of sight that includes the camera-type eyeball and supporting structures such as the lacrimal apparatus, the conjunctiva, the eyelid." [GO:0043010, https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "camera-type eye plus associated structures" RELATED [] synonym: "eye" BROAD [FMA:54448] synonym: "eyes" RELATED PLURAL [TAO:0000107] synonym: "orbital part of face" RELATED [FMA:54448] synonym: "orbital region" RELATED [FMA:54448] synonym: "regio orbitalis" EXACT LATIN [FMA:54448, FMA:TA] synonym: "vertebrate eye" NARROW [] xref: AAO:0010340 xref: birnlex:1169 xref: BTO:0004688 xref: EHDAA2:0000484 xref: EHDAA:936 xref: EMAPA:16198 xref: FMA:54448 xref: http://linkedlifedata.com/resource/umls/id/C0015392 xref: http://linkedlifedata.com/resource/umls/id/C1280202 xref: http://www.snomedbrowser.com/Codes/Details/181143004 xref: MA:0000261 xref: NCIT:C12401 xref: OpenCyc:Mx8Ngx4rwKSh9pwpEbGdrcN5Y29ycB4rvVil5pwpEbGdrcN5Y29ycB4rvViTvpwpEbGdrcN5Y29ycA xref: TAO:0000107 xref: UMLS:C0015392 {source="NIFSTD:birnlex_1169"} xref: UMLS:C0015392 {source="ncithesaurus:Eye"} xref: UMLS:C1280202 {source="NIFSTD:birnlex_1169"} xref: VHOG:0000275 xref: XAO:0000179 xref: ZFA:0000107 is_a: UBERON:0000047 ! simple eye is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0015212 ! lateral structure relationship: develops_from UBERON:0003072 {evidence="definitional"} ! optic cup relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0000965 ! lens of camera-type eye relationship: has_part UBERON:0000966 ! retina relationship: in_lateral_side_of UBERON:0000033 ! head relationship: part_of UBERON:0004088 ! orbital region property_value: external_definition "A cavitated compound organ that transduces light waves into neural signals.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000107", ontology="TAO", source="TAO:wd"} property_value: external_ontology_notes "FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ), as well as other structures, and the orbit of skull. MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class 'orbital content' for this" xsd:string {external_ontology="FMA"} property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000275", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} [Term] id: UBERON:0000020 name: sense organ namespace: uberon def: "An organ that is capable of transducing sensory stimulus to the nervous system." [https://github.com/obophenotype/uberon/issues/549, https://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "organ of sense organ system" EXACT [OBOL:accepted] synonym: "organ of sensory organ system" EXACT [OBOL:accepted] synonym: "organ of sensory system" EXACT [OBOL:accepted] synonym: "sense organ system organ" EXACT [OBOL:automatic] synonym: "sensillum" NARROW [WBbt:0006929] synonym: "sensor" RELATED [] synonym: "sensory organ" EXACT [] synonym: "sensory organ system organ" EXACT [OBOL:automatic] synonym: "sensory system organ" EXACT [OBOL:accepted] synonym: "Sinnesorgan" RELATED [BTO:0000202] xref: AEO:0000094 xref: BSA:0000121 xref: BTO:0000202 xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 xref: FBbt:00005155 xref: GAID:63 xref: HAO:0000930 xref: http://linkedlifedata.com/resource/umls/id/C0935626 xref: http://www.snomedbrowser.com/Codes/Details/244485009 xref: MA:0000017 xref: MESH:D012679 xref: NCIT:C33224 xref: UMLS:C0935626 {source="ncithesaurus:Organ_of_the_Special_Sense"} xref: VHOG:0001407 xref: WBbt:0006929 is_a: UBERON:0000062 ! organ relationship: dc-contributor https://github.com/cmungall relationship: part_of UBERON:0001032 ! sensory system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png [Term] id: UBERON:0000025 name: tube namespace: uberon def: "Any hollow cylindrical anatomical structure containing a lumen through which substances are transported." [http://orcid.org/0000-0002-6601-2165] synonym: "anatomical tube" EXACT [] synonym: "duct" NARROW [] xref: galen:Tube is_a: UBERON:0004111 ! anatomical conduit relationship: has_part UBERON:0013522 ! subdivision of tube property_value: curator_notes "not every anatomical conduit is a tube - for example, a bone foramen is an opening in the bone, and there is no distinct separate tube structure. Tubes may transport large mixed objects (for example, a bolus of food in the digestive tube) or they may transport the secretions of a single gland (for example, gland ducts)" xsd:string property_value: has_relational_adjective "tubular" xsd:string [Term] id: UBERON:0000033 name: head namespace: uberon def: "The head is the anterior-most division of the body [GO]." [GO:0060322, http://en.wikipedia.org/wiki/Head] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adult head" NARROW [] synonym: "cephalic area" RELATED [SPD:0000016] synonym: "head (volume)" EXACT [FMA:7154] xref: AAO:0010335 xref: AEO:0000106 xref: BILA:0000115 xref: birnlex:1230 xref: BTO:0000282 xref: CALOHA:TS-0436 xref: EFO:0000964 xref: EHDAA2:0003106 xref: EMAPA:31858 xref: FBbt:00000004 xref: FMA:7154 xref: GAID:61 xref: galen:Head xref: HAO:0000397 xref: http://en.wikipedia.org/wiki/Head xref: http://linkedlifedata.com/resource/umls/id/C0018670 xref: http://www.snomedbrowser.com/Codes/Details/302548004 xref: MA:0000023 xref: MAT:0000294 xref: MESH:D006257 xref: MIAA:0000294 xref: NCIT:C12419 xref: OpenCyc:Mx4rEOLm4rgPEdmAAAACs6hRjg xref: OpenCyc:Mx4rvVi6YJwpEbGdrcN5Y29ycA xref: SPD:0000016 xref: TAO:0001114 xref: TGMA:0000002 xref: UMLS:C0018670 {source="ncithesaurus:Head"} xref: UMLS:C0018670 {source="NIFSTD:birnlex_1230"} xref: VHOG:0001644 xref: WBbt:0005739 xref: XAO:0003024 xref: ZFA:0001114 is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: part_of UBERON:0007811 ! craniocervical region property_value: external_definition "Organism subdivision that is the part of the body consisting of the cranial and pharyngeal regions.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010335", ontology="AAO", source="AAO:BJB"} property_value: external_definition "Organism subdivision which is the part of the body which consists of the cranial and pharygeal regions.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001114", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001644", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.82"} [Term] id: UBERON:0000042 name: serous membrane namespace: uberon def: "multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer." [http://en.wikipedia.org/wiki/Serous_membrane, https://github.com/obophenotype/uberon/issues/86] subset: uberon_slim subset: vertebrate_core synonym: "serosa" RELATED [http://en.wikipedia.org/wiki/Serous_membrane] synonym: "tunica serosa" EXACT LATIN [FMA:9581] synonym: "wall of serous sac" EXACT [FMA:9581] xref: FMA:9581 xref: GAID:19 xref: http://linkedlifedata.com/resource/umls/id/C0036760 xref: http://www.snomedbrowser.com/Codes/Details/362878009 xref: MESH:D012704 xref: NCIT:C13169 xref: Serous:membrane xref: TAO:0005425 xref: UMLS:C0036760 {source="ncithesaurus:Serosa"} xref: ZFA:0005425 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: dc-contributor https://github.com/cmungall relationship: has_part UBERON:0001136 ! mesothelium relationship: has_part UBERON:0002384 ! connective tissue relationship: part_of UBERON:0000060 ! anatomical wall property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png property_value: external_definition "A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005425", ontology="TAO", source="Serous:membrane"} property_value: external_definition "a smooth membrane consisting of a thin layer of cells which excrete serous fluid. Serous membranes line and enclose several body cavities, known as serous cavities, where they secrete a lubricating fluid which reduces friction from muscle movement. Serosa is not to be confused with adventitia, a connective tissue layer which binds together structures rather than reducing friction between them. Each serous membrane is composed of a secretory epithelial layer and a connective tissue layer underneath. The epithelial layer, known as mesothelium, consists of a single layer of avascular flat nucleated cells (cuboidal epithelium) which produce the lubricating serous fluid. This fluid has a consistency similar to thin mucus. These cells are bound tightly to the underlying connective tissue. The connective tissue layer provides the blood vessels and nerves for the overlying secretory cells, and also serves as the binding layer which allows the whole serous membrane to adhere to organs and other structures.[WP]" xsd:string {source="Serous:membrane"} property_value: external_ontology_notes "in FMA, SM = mesothelium + connective tissue. It excludes the cavity. Serous sac = SM + cavity. Note that the SM is a subtype of wall in FMA." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000047 name: simple eye namespace: uberon def: "An eye with one concave chamber. Note that 'simple' does not imply a reduced level of complexity or acuity." [http://en.wikipedia.org/wiki/Eye#Simple_eyes] subset: grouping_class subset: uberon_slim xref: Simple_eyes xref: TGMA:0000729 is_a: UBERON:0000970 ! eye [Term] id: UBERON:0000055 name: vessel namespace: uberon def: "A tubular structure that contains, conveys body fluid, such as blood or lymph." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: pheno_slim is_a: UBERON:0004111 ! anatomical conduit relationship: channel_for UBERON:0006314 ! bodily fluid [Term] id: UBERON:0000058 name: duct namespace: uberon def: "A tubular structure that transports secreted or excreted substances." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm#ducts] subset: grouping_class synonym: "anatomical duct" EXACT [] synonym: "ducts" RELATED PLURAL [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 xref: Duct:(anatomy) xref: FBbt:00100314 xref: FMA:30320 xref: galen:Duct xref: http://linkedlifedata.com/resource/umls/id/C0687028 xref: http://www.snomedbrowser.com/Codes/Details/91726008 xref: NCIT:C12948 xref: TAO:0005171 xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: XAO:0004000 xref: ZFA:0005171 is_a: UBERON:0000063 ! organ subunit relationship: conduit_for UBERON:0000463 ! organism substance relationship: has_part UBERON:0034969 ! epithelial layer of duct property_value: external_definition "A tube shaped portion of tissue lined with epithelial cells that collects secretions and routes them to their destination[ZFA:0005171]." xsd:string {source="ZFA:0005171"} property_value: external_ontology_notes "Most ducts, but not all, are exocrine gland ducts. Some ontologies classify structures such as the oviduct here." xsd:string [Term] id: UBERON:0000060 name: anatomical wall namespace: uberon alt_id: UBERON:0009915 def: "Organ component adjacent to an organ cavity and which consists of a maximal aggregate of organ component layers." [FMA:82482] subset: upper_level synonym: "organ wall" RELATED [FMA:82482] synonym: "wall" BROAD [] synonym: "wall of organ" EXACT [FMA:82482] xref: EMAPA:25036 xref: FMA:82482 xref: galen:Wall is_a: BFO:0000004 ! independent continuant is_a: UBERON:0000064 ! organ part relationship: adjacent_to UBERON:0002553 ! anatomical cavity relationship: has_part UBERON:0004923 ! organ component layer property_value: external_ontology_notes "in FMA, serosa is a wall" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000061 name: anatomical structure namespace: uberon def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." [CARO:0000003] subset: upper_level synonym: "biological structure" EXACT [] synonym: "connected biological structure" EXACT [CARO:0000003] xref: AAO:0010825 xref: AEO:0000003 xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 xref: FBbt:00007001 xref: FMA:305751 xref: FMA:67135 xref: GAID:781 xref: HAO:0000003 xref: http://dbpedia.org/ontology/AnatomicalStructure xref: http://www.snomedbrowser.com/Codes/Details/362889002 xref: MA:0003000 xref: MESH:D000825 xref: TAO:0000037 xref: TGMA:0001823 xref: VHOG:0001759 xref: XAO:0003000 xref: ZFA:0000037 is_a: BFO:0000002 ! continuant is_a: UBERON:0000465 ! material anatomical entity relationship: existence_ends_during_or_before UBERON:0000071 ! death stage relationship: existence_starts_during_or_after UBERON:0000106 ! zygote stage [Term] id: UBERON:0000062 name: organ namespace: uberon def: "Anatomical structure that performs a specific function or group of functions [WP]." [http://en.wikipedia.org/wiki/Organ_(anatomy)] subset: upper_level synonym: "anatomical unit" RELATED [] synonym: "body organ" RELATED [] synonym: "element" RELATED [http://orcid.org/0000-0002-6601-2165] xref: birnlex:4 xref: CARO:0020004 xref: EFO:0000634 xref: EMAPA:35949 xref: ENVO:01000162 xref: FMA:67498 xref: http://linkedlifedata.com/resource/umls/id/C0178784 xref: http://www.snomedbrowser.com/Codes/Details/272625005 xref: MA:0003001 xref: NCIT:C13018 xref: OpenCyc:Mx4rv5XMb5wpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwP3iWpwpEbGdrcN5Y29ycA xref: Organ:(anatomy) xref: UMLS:C0178784 {source="ncithesaurus:Organ"} xref: WBbt:0003760 is_a: BFO:0000040 ! material entity is_a: UBERON:0010000 ! multicellular anatomical structure disjoint_from: UBERON:0034921 ! multi organ part structure relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_boundary UBERON:0006984 ! anatomical surface relationship: part_of UBERON:0000467 ! anatomical system property_value: external_definition "Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." xsd:string {source="GO:0048513"} property_value: external_ontology_notes "CARO v1 does not include a generic 'organ' class, only simple and compound organ. CARO v2 may include organ, see https://github.com/obophenotype/caro/issues/4" xsd:string [Term] id: UBERON:0000063 name: organ subunit namespace: uberon def: "A part of an organ that constitutes a distinct modular sub-unit. In some cases, the organ may also contain other sub-units of identical or similar types, in other cases this may be a distinct entity." [http://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "organ region with fixed fiat boundary" RELATED [FMA:86140] synonym: "organ segment" RELATED [FMA:86140] synonym: "segment of organ" RELATED [FMA:86140] xref: FMA:86140 is_a: UBERON:0000064 ! organ part property_value: editor_note "FMA distinguishes segment from zone by whether the fiat boundaries are fixed/anchored (segments) or floating (zone). It's not completely clear how to apply this distinction" xsd:string property_value: external_definition "Organ region with one or more anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyeball." xsd:string {source="FMA:86140", version="3"} property_value: external_definition "Organ region with one or more fixed or anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyebal." xsd:string {source="FMA:86140", version="1"} [Term] id: UBERON:0000064 name: organ part namespace: uberon def: "A multicellular structure that is a part of an organ." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: non_informative subset: upper_level synonym: "cardinal organ part" EXACT [FMA:82472] synonym: "regional part of organ" RELATED [NIFSTD:birnlex_16] xref: AAO:0011124 xref: birnlex:16 xref: EFO:0000635 xref: FMA:82472 xref: http://www.snomedbrowser.com/Codes/Details/113343008 xref: http://www.snomedbrowser.com/Codes/Details/91717005 is_a: UBERON:0010000 ! multicellular anatomical structure relationship: part_of UBERON:0000062 ! organ property_value: curator_notes "currently defined in a very broad sense, may be replaced by more specific classes in the future" xsd:string [Term] id: UBERON:0000065 name: respiratory tract namespace: uberon def: "Anatomical structure that is part of the respiratory system. In mammals consists of upper and lower tracts" [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001606 xref: EHDAA:1568 xref: EHDAA:2219 xref: EMAPA:16737 xref: FMA:265130 xref: http://www.snomedbrowser.com/Codes/Details/361110005 xref: OpenCyc:Mx4rvvM--pwpEbGdrcN5Y29ycA xref: VHOG:0000393 is_a: UBERON:0001005 ! respiratory airway is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0007026 {source="NCBIBook:NBK10107"} ! presumptive gut relationship: develops_from UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0000066 name: fully formed stage namespace: uberon def: "The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "adult stage" BROAD [] synonym: "fully formed animal stage" EXACT [] synonym: "juvenile-adult stage" EXACT [] xref: BilaDO:0000004 xref: BTO:0001043 xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage relationship: precedes UBERON:0000071 ! death stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/566 [Term] id: UBERON:0000068 name: embryo stage namespace: uberon def: "A life cycle stage that starts with fertilization and ends with the fully formed embryo." [http://orcid.org/0000-0002-6601-2165] synonym: "embryogenesis" RELATED [] synonym: "embryonic stage" EXACT [] xref: BilaDO:0000002 xref: EV:0300001 xref: FBdv:00005289 xref: FMA:72652 xref: HsapDv:0000002 xref: http://www.snomedbrowser.com/Codes/Details/296280003 xref: MmusDv:0000002 xref: OGES:000000 xref: OGES:000022 xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: precedes UBERON:0000066 ! fully formed stage relationship: precedes UBERON:0000092 ! post-embryonic stage [Term] id: UBERON:0000071 name: death stage namespace: uberon def: "End of the life of an organism." [XAO:0000437] synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: ends UBERON:0000104 ! life cycle property_value: external_ontology_notes "ncit:Death is an outcome" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0000072 name: proximo-distal subdivision of respiratory tract namespace: uberon def: "An section of a respiratory tract." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "respiratory tract" RELATED [MA:0000434] synonym: "subdivision of respiratory tract" RELATED [] xref: EMAPA:16737 xref: FMA:45660 xref: MA:0000434 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: part_of UBERON:0000065 ! respiratory tract property_value: external_ontology_notes "MA:0000434 has subclasses upper and lower, so it corresponds to a segment of the tract, rather than the tract as a whole" xsd:string {external_ontology="MA"} [Term] id: UBERON:0000073 name: regional part of nervous system namespace: uberon def: "Any part or collection of parts of the central or peripheral nervous system. Parts may span both CNS and PNS." [NIFSTD:birnlex_1157] subset: non_informative subset: upper_level synonym: "part of nervous system" EXACT [NIFSTD:birnlex_1157] xref: birnlex:1157 xref: http://linkedlifedata.com/resource/umls/id/C1518256 xref: http://www.snomedbrowser.com/Codes/Details/25087005 xref: NCIT:C13040 xref: UMLS:C1518256 {source="ncithesaurus:Nervous_System_Part"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000481 ! multi-tissue structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system created_by: Melissa Haendel creation_date: 2009-06-18T09:00:04Z [Term] id: UBERON:0000075 name: subdivision of skeletal system namespace: uberon alt_id: UBERON:0010322 def: "Anatomical cluster consisting of the skeletal elements and articular elements that are part of an individual subdivision of the organism." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: non_informative synonym: "skeletal system part" RELATED [] synonym: "skeletal system subdivision" EXACT [FMA:85544] xref: FMA:85544 xref: galen:ComplexSkeletalStructure xref: http://linkedlifedata.com/resource/umls/id/C1519343 xref: http://www.snomedbrowser.com/Codes/Details/118966000 xref: NCIT:C34076 xref: UMLS:C1519343 {source="ncithesaurus:Skeletal_System_Part"} is_a: BFO:0000040 ! material entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: composed_primarily_of UBERON:0004765 ! skeletal element relationship: part_of UBERON:0001434 ! skeletal system [Term] id: UBERON:0000076 name: external ectoderm namespace: uberon def: "The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm." [MGI:anna, MP:0012532] subset: pheno_slim synonym: "surface (external) ectoderm" EXACT [] synonym: "surface ectoderm" EXACT [MP:0012532] xref: EHDAA2:0001968 xref: EHDAA:1494 xref: EHDAA:350 xref: EHDAA:4784 xref: EHDAA:4790 xref: EHDAA:4796 xref: EHDAA:7860 xref: EMAPA:16096 xref: External:ectoderm xref: FMA:87656 xref: http://linkedlifedata.com/resource/umls/id/C1515087 xref: NCIT:C34309 xref: UMLS:C1515087 {source="ncithesaurus:Surface_Ectoderm"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0000924 {source="EHDAA2"} ! ectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png property_value: development_notes "(or external ectoderm) forms the following structures: Skin Epithelium of the mouth and nasal cavity saliavary glands, and glands of mouth and nasal cavity Enamel - as a side note dentin and dental pulp are formed from ectomesenchyme which is derived from ectoderm Epithelium of pineal and pituitary glands Lens and cornea of the eye Apical ectodermal ridge inducing development of the limb buds of the embryo. Sensory receptors in epidermis" xsd:string property_value: editor_note "merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube)" xsd:string [Term] id: UBERON:0000077 name: mixed endoderm/mesoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the endoderm and the mesoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm property_value: curator_notes "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" xsd:string [Term] id: UBERON:0000078 name: mixed ectoderm/mesoderm/endoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the ectoderm, mesoderm and endoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm property_value: curator_notes "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" xsd:string [Term] id: UBERON:0000092 name: post-embryonic stage namespace: uberon def: "stage succeeding embryo, including mature structure" [https://orcid.org/0000-0002-6601-2165] synonym: "post-hatching stage" NARROW [] synonym: "postembryonic" RELATED [] synonym: "postembryonic stage" EXACT [] xref: BilaDO:0000003 xref: OGES:000010 xref: OGES:000014 xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000068 ! embryo stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/344 property_value: taxon_notes "In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997)" xsd:string [Term] id: UBERON:0000094 name: membrane organ namespace: uberon def: "Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]" [FMA:7145] synonym: "membrane" BROAD [] synonym: "membrane of organ" EXACT [] xref: FMA:7145 is_a: UBERON:0000062 ! organ relationship: composed_primarily_of UBERON:0011823 {source="FMA-def"} ! dense connective tissue created_by: cjm creation_date: 2009-07-30T05:19:13Z [Term] id: UBERON:0000102 name: lung vasculature namespace: uberon def: "The lung vasculature is composed of the tubule structures that carry blood or lymph in the lungs[GO]." [GOC:GO] subset: pheno_slim synonym: "lung vascular network" EXACT [OBOL:automatic] synonym: "pulmonary vasculature" EXACT [FMA:73750] synonym: "vascular network of lung" EXACT [OBOL:automatic] synonym: "vasculature of lung" EXACT [OBOL:automatic] xref: FMA:73750 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002201 ! vasculature of trunk is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000104 name: life cycle namespace: uberon def: "An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism." [https://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "entire life cycle" EXACT [] synonym: "entire lifespan" EXACT [] synonym: "life" EXACT [] synonym: "lifespan" EXACT [] xref: FBdv:00000000 xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage relationship: starts_with UBERON:0000106 ! zygote stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/532 [Term] id: UBERON:0000105 name: life cycle stage namespace: uberon def: "A spatiotemporal region encompassing some part of the life cycle of an organism." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: upper_level synonym: "developmental stage" NARROW [] synonym: "stage" NARROW [] xref: BILS:0000105 xref: EFO:0000399 xref: FBdv:00007012 xref: FMA:24120 xref: HsapDv:0000000 xref: MmusDv:0000000 xref: ncithesaurus:Developmental_Stage xref: OlatDv:0000010 xref: PdumDv:0000090 xref: WBls:0000002 xref: XAO:1000000 xref: ZFS:0000000 xref: ZFS:0100000 is_a: UBERON:0000000 ! processual entity relationship: part_of UBERON:0000104 ! life cycle property_value: editor_note "this class represents a proper part of the life cycle of an organism. The class 'life cycle' should not be placed here" xsd:string property_value: external_ontology_notes "the WBls class 'all stages' belongs here as it is the superclass of other WBls stages" xsd:string property_value: external_ontology_notes "we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage" xsd:string [Term] id: UBERON:0000106 name: zygote stage namespace: uberon def: "A stage at which the organism is a single cell produced by means of sexual reproduction." [http://en.wikipedia.org/wiki/Zygote] subset: efo_slim synonym: "1-cell stage" EXACT [] synonym: "fertilized egg stage" EXACT [BTO:0000854] synonym: "fertilized egg stage" RELATED [] synonym: "one cell stage" EXACT [] synonym: "one-cell stage" RELATED [VHOG:0000745] synonym: "zygote" RELATED [VHOG:0000745] synonym: "zygotum" RELATED LATIN [http://en.wikipedia.org/wiki/Zygote] xref: BilaDO:0000005 xref: BILS:0000106 xref: EFO:0001322 xref: EHDAA:27 xref: FBdv:00005288 xref: http://en.wikipedia.org/wiki/Zygote xref: NCIT:C12601 xref: PdumDv:0000100 xref: VHOG:0000745 xref: XAO:1000001 xref: ZFS:0000001 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: starts UBERON:0000104 ! life cycle property_value: homology_notes "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000745", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.107"} property_value: seeAlso EMAPA:16033 [Term] id: UBERON:0000107 name: cleavage stage namespace: uberon def: "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." [GO:0040016, http://en.wikipedia.org/wiki/Cleavage_(embryo)] subset: efo_slim xref: BilaDO:0000006 xref: BILS:0000107 xref: Cleavage:(embryo) xref: EFO:0001290 xref: FBdv:00000054 xref: MESH:A16.254.270 xref: MmusDv:0000004 xref: OGES:000015 xref: OGES:000020 xref: PdumDv:0000200 xref: XAO:1000004 xref: ZFS:0000046 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by UBERON:0000106 ! zygote stage relationship: part_of UBERON:0000068 ! embryo stage [Term] id: UBERON:0000108 name: blastula stage namespace: uberon def: "An early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [http://en.wikipedia.org/wiki/Blastula] subset: efo_slim xref: BilaDO:0000007 xref: BILS:0000108 xref: EFO:0001282 xref: HsapDv:0000006 xref: http://en.wikipedia.org/wiki/Blastula xref: MmusDv:0000007 xref: OGES:000003 xref: OGES:000016 xref: OGES:000021 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg xref: WBls:0000005 xref: XAO:1000003 xref: ZFS:0000045 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png property_value: editor_note "consider adding a preceding stage 'morula stage' as part of cleavage" xsd:string [Term] id: UBERON:0000109 name: gastrula stage namespace: uberon def: "A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GO:0007369] subset: efo_slim synonym: "blastocystis trilaminaris stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastocyst stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastoderm stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disk stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar stage" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BilaDO:0000008 xref: BILS:0000109 xref: EFO:0001296 xref: FBdv:00005317 xref: HsapDv:0000010 xref: MmusDv:0000013 xref: OGES:000004 xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage [Term] id: UBERON:0000110 name: neurula stage namespace: uberon def: "Staged defined by the formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GO:0001841] xref: BilaDO:0000009 xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/343 [Term] id: UBERON:0000111 name: organogenesis stage namespace: uberon def: "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." [http://en.wikipedia.org/wiki/Organogenesis] synonym: "segmentation stage" RELATED [] xref: BilaDO:0000010 xref: BILS:0000111 xref: HsapDv:0000015 xref: http://en.wikipedia.org/wiki/Organogenesis xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 is_a: BFO:0000003 ! occurrent is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000110 ! neurula stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/533 [Term] id: UBERON:0000114 name: lung connective tissue namespace: uberon def: "the connective tissue located between the respiratory (airway and alveolar) epithelium, the capillary endothelium and pleural mesothelium; it contains basement membrane composed of collagen, elastin, proteoglycans, and fibronectin" [http://www.ncbi.nlm.nih.gov/pubmed/14635660, ISBN:0-683-40008-8, MGI:anna, MP:0002276] subset: pheno_slim synonym: "connective tissue of lung" EXACT [OBOL:automatic] synonym: "lung interstitial tissue" RELATED [MA:0001782] synonym: "lung interstitium" RELATED [] synonym: "pulmonary connective tissue" RELATED [EMAPA:35521] synonym: "pulmonary interstitial tissue" RELATED [] synonym: "pulmonary interstitium" EXACT [FMA:27533] xref: EMAPA:35521 xref: FMA:27533 xref: http://www.snomedbrowser.com/Codes/Details/201609008 xref: MA:0001782 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003580 ! lower respiratory tract connective tissue is_a: UBERON:0003837 ! thoracic segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: develops_from UBERON:0004883 ! lung mesenchyme relationship: part_of UBERON:0002048 ! lung relationship: transformation_of UBERON:0004883 ! lung mesenchyme property_value: function_notes "it functions in the mechanical behavior of the lung, and forms a barrier to regulate the flow of plasma constituents from the capillaries to the airway and alveolar spaces" xsd:string [Term] id: UBERON:0000115 name: lung epithelium namespace: uberon def: "The epithelial layer of the lung." [MP:0006382] subset: pheno_slim synonym: "epithelial tissue of lung" EXACT [OBOL:automatic] synonym: "epithelium of lung" EXACT [OBOL:automatic] synonym: "lung epithelial tissue" EXACT [OBOL:automatic] synonym: "pulmonary epithelium" RELATED [BTO:0001653] xref: BTO:0001653 xref: EMAPA:32860 xref: MA:0001783 is_a: UBERON:0004815 ! lower respiratory tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: develops_from UBERON:0001041 ! foregut relationship: part_of UBERON:0002048 ! lung property_value: taxon_notes "A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[doi:10.1242/dev.115469]" xsd:string [Term] id: UBERON:0000117 name: respiratory tube namespace: uberon def: "A tube in the respiratory system. Examples: bronchus, bronchiole, trachea." [GO:0030323, http://orcid.org/0000-0002-6601-2165] synonym: "airway" RELATED [] synonym: "respiratory conducting tube" NARROW [MP:0004391] synonym: "segment of tracheobronchial tree" EXACT [FMA:12224] synonym: "segment of tracheobronchial tree" NARROW [FMA:12224] synonym: "tracheobronchial tree segment" NARROW [FMA:12224] xref: EMAPA:37946 {source="MA:th"} xref: FMA:12224 is_a: UBERON:0000025 ! tube is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000025 ! tube intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: has_part UBERON:0000483 ! epithelium relationship: part_of UBERON:0000065 ! respiratory tract property_value: external_ontology_notes "in GO lung development is part of respiratory tube development. This can lead to inconsistencies with other ontologies, e.g. VT. The GO structure may be better represented by a tree of tubes (see the FMA class)" xsd:string {external_ontology="GO"} [Term] id: UBERON:0000118 name: lung bud namespace: uberon def: "Structure derived from foregut that becomes a lung[GO]." [GO:0060431, http://en.wikipedia.org/wiki/Respiratory_bud] subset: pheno_slim synonym: "gemma pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Lung_buds] synonym: "gemma respiratoria" RELATED LATIN [http://en.wikipedia.org/wiki/Lung_buds] synonym: "lung bud" RELATED PLURAL [] synonym: "primary lung bud" RELATED [GO:0060572] synonym: "respiratory diverticulum" RELATED [http://en.wikipedia.org/wiki/Lung_buds] xref: BTO:0001643 xref: EHDAA2:0004089 xref: http://linkedlifedata.com/resource/umls/id/C1514420 xref: http://linkedlifedata.com/resource/umls/id/C1514897 xref: http://www.snomedbrowser.com/Codes/Details/361427007 xref: NCIT:C34260 xref: NCIT:C34282 xref: Respiratory:bud xref: UMLS:C1514420 {source="ncithesaurus:Primary_Bronchial_Bud"} xref: UMLS:C1514897 {source="ncithesaurus:Respiratory_Diverticulum"} is_a: UBERON:0005153 {source="GO:0060441"} ! epithelial bud is_a: UBERON:0005911 ! endo-epithelium relationship: adjacent_to UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0005597 ! lung primordium relationship: develops_from UBERON:0008947 {source="EHDAA2"} ! respiratory primordium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/71/Gray948.png property_value: editor_note "clarify successors - include bronchi?" xsd:string [Term] id: UBERON:0000153 name: anterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision disjoint_from: UBERON:0000154 {source="lexical"} ! posterior region of body relationship: anterior_to UBERON:0000154 ! posterior region of body [Term] id: UBERON:0000154 name: posterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0000161 name: orifice namespace: uberon def: "Anatomical conduit that connects two adjacent body spaces (or a body space with the space surrounding the organism)[FMA,modified]." [FMA:3724] synonym: "anatomical orifice" EXACT [FMA:3724] synonym: "anatomical ostium" BROAD [FMA:3724] synonym: "hilum" NARROW [] synonym: "ostium" BROAD [] xref: FMA:3724 xref: http://www.snomedbrowser.com/Codes/Details/91837002 is_a: UBERON:0004111 ! anatomical conduit property_value: external_ontology_notes "in FMA, this is an anatomical conduit *space*, rather than anatomical conduit" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000165 name: mouth namespace: uberon def: "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." [http://en.wikipedia.org/wiki/Mouth, https://github.com/obophenotype/uberon/wiki/The-digestive-tract] subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adult mouth" NARROW [] synonym: "cavital oralis" RELATED LATIN [http://en.wikipedia.org/wiki/Mouth] synonym: "cavitas oris" RELATED [BTO:0001090] synonym: "cavum oris" RELATED [BTO:0001090] synonym: "mouth cavity" RELATED [BTO:0001090] synonym: "oral region" RELATED [EHDAA2:0001326] synonym: "oral vestibule" RELATED [BTO:0001090] synonym: "regio oralis" EXACT [BTO:0004698] synonym: "regio oralis" EXACT LATIN [FMA:49184, FMA:TA] synonym: "rima oris" RELATED [BTO:0001090] synonym: "stoma" RELATED [] synonym: "stomatodaeum" RELATED [VHOG:0000812] synonym: "trophic apparatus" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "vestibule of mouth" RELATED [BTO:0001090] synonym: "vestibulum oris" RELATED [BTO:0001090] xref: AAO:0010355 xref: BTO:0001090 xref: BTO:0004698 xref: CALOHA:TS-1315 xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 xref: FBbt:00003126 xref: FMA:49184 xref: GAID:75 xref: galen:Mouth xref: http://en.wikipedia.org/wiki/Mouth xref: http://purl.obolibrary.org/obo/uberon/images/lamprey_sucker_rosava_3238889218.jpg xref: http://www.snomedbrowser.com/Codes/Details/21082005 xref: MA:0000341 xref: MA:0002474 xref: MAT:0000038 xref: MESH:D009055 xref: MIAA:0000038 xref: OpenCyc:Mx4rvVidh5wpEbGdrcN5Y29ycA xref: TADS:0000040 xref: TAO:0000547 xref: TAO:0000590 xref: TGMA:0000131 xref: VHOG:0000280 xref: VHOG:0000812 xref: XAO:0003029 xref: ZFA:0000547 xref: ZFA:0000590 is_a: UBERON:0004921 {notes="the mouth contains structures such as jaw skeleton that may not strictly be considered tract parts"} ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: proximalmost_part_of UBERON:0001555 ! digestive tract relationship: develops_from UBERON:0035804 ! future mouth relationship: part_of UBERON:0000033 ! head relationship: proximalmost_part_of UBERON:0001555 ! digestive tract property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/0/06/Mouth_illustration-Otis_Archives.jpg property_value: development_notes "some AOs place this as developing from the stomodeum but we weaken this to developmental contribution, as the mouth includes non-ectodermal derivatives" xsd:string property_value: external_definition "Cavity in which food is initially ingested and generally contains teeth, tongue and glands.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010355", ontology="AAO", source="AAO:BJB"} property_value: external_ontology_notes "in FMA, the tongue, palate etc are part of the mouth which is itself a subdivision of the face. ZFA includes a separate class 'oral region' which is part of the mouth, but excludes tongue and lips" xsd:string {external_ontology="FMA"} property_value: has_relational_adjective "oral" xsd:string property_value: homology_notes "Molecular and developmental cell lineage data suggest that the acoel mouth opening is homologous to the mouth of protostomes and deuterostomes and that the last common ancestor of the Bilateria (the 'urbilaterian') had only this single digestive opening.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000812", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nature07309 Hejnol A, Martindale MQ, Acoel development indicates the independent evolution of the bilaterian mouth and anus. Nature (2008)"} property_value: seeAlso https://github.com/obophenotype/uberon/issues/661 [Term] id: UBERON:0000166 name: oral opening namespace: uberon def: "The orifice that connects the mouth to the exterior of the body." [https://github.com/obophenotype/uberon/wiki/The-digestive-tract] subset: uberon_slim subset: vertebrate_core synonym: "mouth" RELATED INCONSISTENT [] synonym: "oral fissure" EXACT [FMA:59806] synonym: "oral orifice" EXACT [FMA:59806] synonym: "oral part of face" RELATED [] xref: FMA:59806 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000161 {source="FMA"} ! orifice relationship: part_of UBERON:0000165 ! mouth property_value: homology_notes "(...) mouth development is very similar in protostomes and 'basal' deuterostomes, whereas the chordate mouth seems to develop at a new position. Recent data for echinoderms and hemichordates further suggest that this change in mouth position may result from change in the influence of a conserved ectodermal patterning system on mouth development. It has been suggested that the mouths of vertebrates and urochordates may constitute a 'new' mouth.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000280", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.semcdb.2007.06.002 Christiaen L, Jaszczyszyn Y, Kerfant M, Kanob S, Thermes V, Joly JS, Evolutionary modification of mouth position in deuterostomes. Seminars in Cell and Developmental Biology (2007)"} [Term] id: UBERON:0000167 name: oral cavity namespace: uberon def: "Anatomical cavity at the start of the digestive tract that that is enclosed by the mouth. The boundaries and contents vary depending on the species. In vertebrates, the boundaries are the oral opening, the cheeks, the palate and (if present) the palatoglossal arch - if this is not present then the mouth and pharynx form the oropharyngeal cavity. The buccal cavity contains the teeth, tongue and palate (when present)" [https://github.com/obophenotype/uberon/wiki/The-digestive-tract, https://orcid.org/0000-0002-6601-2165, ISBN10:0073040584] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bucca" RELATED [] synonym: "buccal cavity" EXACT [FMA:20292, ISBN10:0073040584] synonym: "cavity of mouth" EXACT [] xref: AAO:0000053 xref: AAO:0000960 xref: BSA:0000107 xref: CALOHA:TS-1315 xref: EFO:0001975 xref: EHDAA2:0001324 xref: EHDAA:6970 xref: EMAPA:17411 xref: EMAPA:18399 xref: EV:0100057 xref: FMA:20292 xref: HAO:0000669 xref: http://linkedlifedata.com/resource/umls/id/C0226896 xref: http://www.snomedbrowser.com/Codes/Details/181220002 xref: NCIT:C12421 xref: TAO:0001027 xref: TGMA:0000102 xref: UMLS:C0226896 {source="ncithesaurus:Oral_Cavity"} xref: VHOG:0000188 xref: WBbt:0005255 xref: XAO:0000126 xref: ZFA:0001027 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000165 ! mouth relationship: contributes_to_morphology_of UBERON:0000165 ! mouth relationship: luminal_space_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth property_value: external_definition "Anatomical cavity bounded anteriorly by the mouth and posteriorly by the derivatives of the branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000960", ontology="AAO", source="AAO:EJS"} property_value: external_definition "The cavity of the mouth, bounded by the jaw bones and associated structures (muscles and mucosa). [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/oral+cavity"} property_value: homology_notes "Echinoderms, hemichordates, and chordates are called deuterostomes because the mouth arises not from the blastopore but from a second invagination at the anterior end of the larva that pushes in to connect with the archenteron.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.32"} [Term] id: UBERON:0000170 name: pair of lungs namespace: uberon def: "The pair of anatomical structures comprised of a left lung and right lung." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "lungs" EXACT [] synonym: "lungs pair" EXACT [] synonym: "pulmones" EXACT LATIN [FMA:68877, FMA:TA] synonym: "set of lungs" EXACT [] xref: FMA:68877 xref: OpenCyc:Mx4rvVjKy5wpEbGdrcN5Y29ycA is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: has_member UBERON:0002167 ! right lung intersection_of: has_member UBERON:0002168 ! left lung relationship: has_member UBERON:0002167 ! right lung relationship: has_member UBERON:0002167 {minCardinality="1", maxCardinality="1"} ! right lung relationship: has_member UBERON:0002168 ! left lung relationship: has_member UBERON:0002168 {minCardinality="1", maxCardinality="1"} ! left lung relationship: located_in UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0001558 {source="FMA-abduced"} ! lower respiratory tract [Term] id: UBERON:0000171 name: respiration organ namespace: uberon def: "Organ that functions in gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." [GO:0007585] subset: functional_classification subset: organ_slim synonym: "apparatus respiratorius organ" EXACT [OBOL:automatic] synonym: "breathing organ" EXACT [] synonym: "gas exchange organ" RELATED [] synonym: "organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory organ" EXACT [] synonym: "respiratory system organ" EXACT [OBOL:automatic] xref: EMAPA:17607 xref: http://www.snomedbrowser.com/Codes/Details/272626006 xref: SPD:0000428 xref: TGMA:0001247 is_a: UBERON:0000062 ! organ relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0000178 name: blood namespace: uberon def: "A fluid that is composed of blood plasma and erythrocytes." [FMA:9670, http://en.wikipedia.org/wiki/Blood, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/9] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "portion of blood" EXACT [] synonym: "vertebrate blood" EXACT [] synonym: "whole blood" RELATED [BTO:0000089] xref: AAO:0000046 xref: BTO:0000089 xref: CALOHA:TS-0079 xref: EFO:0000296 xref: EHDAA2:0000176 xref: EHDAA:418 xref: EMAPA:16332 xref: ENVO:02000027 xref: EV:0100047 xref: FMA:9670 xref: GAID:965 xref: galen:Blood xref: http://en.wikipedia.org/wiki/Blood xref: http://linkedlifedata.com/resource/umls/id/C0005767 xref: MA:0000059 xref: MESH:D001769 xref: MIAA:0000315 xref: NCIT:C12434 xref: OpenCyc:Mx4rvVjI8JwpEbGdrcN5Y29ycA xref: TAO:0000007 xref: UMLS:C0005767 {source="ncithesaurus:Blood"} xref: VHOG:0000224 xref: XAO:0000124 xref: ZFA:0000007 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/tmeehan relationship: develops_from UBERON:0006596 ! presumptive blood relationship: has_part UBERON:0001969 ! blood plasma relationship: immediate_transformation_of UBERON:0006596 {source="Bgee:AN"} ! presumptive blood relationship: located_in UBERON:0002049 {source="https://github.com/obophenotype/uberon/issues/1330"} ! vasculature relationship: part_of UBERON:0002390 ! hematopoietic system property_value: axiom_lost_from_external_ontology "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000046", ontology="AAO"} property_value: curator_notes "This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid." xsd:string property_value: external_definition "A complex mixture of cells suspended in a liquid matrix that delivers nutrients to cells and removes wastes. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000007", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Highly specialized circulating tissue consisting of several types of cells suspended in a fluid medium known as plasma.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000046", ontology="AAO", source="AAO:LAP"} property_value: homology_notes "Recent findings strongly suggest that the molecular pathways involved in the development and function of blood cells are highly conserved among vertebrates and various invertebrates phyla. (...) There is now good reason to believe that, in vertebrates and invertebrates alike, blood cell lineages diverge from a common type of progenitor cell, the hemocytoblast.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000224", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual review of cell and developmental biology (2006) "} [Term] id: UBERON:0000179 name: haemolymphatic fluid namespace: uberon def: "Circulating fluid that is part of the hemolymphoid system. Blood, lymph, interstitial fluid or its analogs." [http://orcid.org/0000-0002-6601-2165] synonym: "blood or blood analog" RELATED [] synonym: "circulating fluid" RELATED [] xref: CARO:0000081 is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: part_of UBERON:0002193 ! hemolymphoid system relationship: part_of UBERON:0002193 ! hemolymphoid system created_by: cjm creation_date: 2009-04-08T04:38:19Z [Term] id: UBERON:0000307 name: blastula namespace: uberon alt_id: UBERON:0007011 def: "Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [http://en.wikipedia.org/wiki/Blastula] subset: inconsistent_with_fma synonym: "blastosphere" RELATED [http://en.wikipedia.org/wiki/Blastula] synonym: "blastula embryo" EXACT [BILA:0000059] xref: BILA:0000059 xref: BTO:0000128 xref: GAID:1294 xref: http://en.wikipedia.org/wiki/Blastula xref: MESH:A16.254.270.274 xref: OGEM:000006 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000108 ! blastula stage relationship: develops_from UBERON:0007010 ! cleaving embryo relationship: existence_starts_and_ends_during UBERON:0000108 ! blastula stage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png property_value: editor_note "TODO - check relationship with epiblast. Note in FMA this is not a subclass of embryo, but in uberon embryo is the whole organism from zygote onwards and thus includes the blastula" xsd:string [Term] id: UBERON:0000328 name: gut wall namespace: uberon def: "The wall of the digestive tract. This encompasses all parts of the digestive tract with the exception of the lumen (cavity)." [http://orcid.org/0000-0002-6601-2165] synonym: "digestive tract wall" EXACT [] synonym: "wall of alimentary tract" RELATED [] synonym: "wall of digestive tract" EXACT [] synonym: "wall of gut" EXACT [FMA:45653] xref: BTO:0000547 xref: FMA:45653 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000060 ! anatomical wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract property_value: curator_notes "We model the digestive tract as consisting of two parts: the wall and the lumen." xsd:string [Term] id: UBERON:0000344 name: mucosa namespace: uberon def: "A lining of mostly endodermal origin, covered in epithelium, which is involved in absorption and secretion. They line various body cavities that are exposed to the external environment and internal organs. It is at several places continuous with skin: at the nostrils, the lips, the ears, the genital area, and the anus. The sticky, thick fluid secreted by the mucous membranes and gland is termed mucus. The term mucous membrane refers to where they are found in the body and not every mucous membrane secretes mucus[WP]" [http://en.wikipedia.org/wiki/Mucous_membrane] subset: pheno_slim synonym: "mucosa of organ" EXACT [FMA:85355] synonym: "mucosa of organ part" EXACT [FMA:85358] synonym: "mucosal region" EXACT [FMA:85358] synonym: "mucous membrane" EXACT [FMA:85355] synonym: "organ mucosa" EXACT [FMA:85355] synonym: "region of mucosa" RELATED [FMA:85358] synonym: "tunica mucosa" RELATED LATIN [http://en.wikipedia.org/wiki/Mucous_membrane] synonym: "tunica mucosa" RELATED [BTO:0000886] xref: AEO:0000199 xref: BTO:0000886 xref: CALOHA:TS-2031 xref: EHDAA2_RETIRED:0003234 xref: EV:0100382 xref: FMA:85355 xref: FMA:85358 xref: GAID:297 xref: galen:Mucosa xref: http://linkedlifedata.com/resource/umls/id/C0026724 xref: http://www.snomedbrowser.com/Codes/Details/361693009 xref: MESH:D009092 xref: Mucous:membrane xref: NCIT:C13166 xref: OpenCyc:Mx4rvmKNOpwpEbGdrcN5Y29ycA xref: UMLS:C0026724 {source="ncithesaurus:Mucosa"} is_a: UBERON:0004923 ! organ component layer relationship: has_part UBERON:0000483 ! epithelium relationship: has_part UBERON:0002384 ! connective tissue property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png property_value: external_ontology_notes "FMA has mucosa vs region of mucosa; these are subtypes of Mucosa: Mucosa of gallbladder, tongue, .... The following are subtypes of Region of mucosa: Mucosa of zone of stomach, trachea, bronchus, dorsum of tongue.... Depends on whether the covered area is an organ or organ component. Uberon does not regard organ vs organ component as crucial distinction and thus collapses these into a single class deliberately" xsd:string {external_ontology="FMA"} property_value: has_relational_adjective "mucosal" xsd:string [Term] id: UBERON:0000355 name: pharyngeal mucosa namespace: uberon alt_id: UBERON:0003344 def: "A mucosa that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of organ of pharynx" EXACT [OBOL:automatic] synonym: "mucosa of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of pharynx" EXACT [FMA:55031] synonym: "mucous membrane of the pharynx" RELATED [BTO:0001047] synonym: "organ mucosa of pharynx" EXACT [OBOL:automatic] synonym: "pharynx mucosa" EXACT [OBOL:automatic] synonym: "pharynx mucosa of organ" EXACT [OBOL:automatic] synonym: "pharynx mucous membrane" EXACT [OBOL:automatic] synonym: "pharynx organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa pharyngea" EXACT LATIN [FMA:55031, FMA:TA] synonym: "tunica mucosa pharyngis" EXACT [] xref: BTO:0001047 xref: EMAPA:26957 xref: FMA:55031 xref: http://www.snomedbrowser.com/Codes/Details/362121003 xref: MA:0003143 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0000379 name: tracheal mucosa namespace: uberon def: "A mucosa that is part of a respiratory airway." [OBOL:automatic] synonym: "mucosa of organ of trachea" EXACT [OBOL:automatic] synonym: "mucosa of organ of windpipe" EXACT [OBOL:automatic] synonym: "mucosa of trachea" EXACT [OBOL:automatic] synonym: "mucosa of windpipe" EXACT [OBOL:automatic] synonym: "mucous membrane of trachea" EXACT [FMA:7471] synonym: "mucous membrane of trachea" EXACT [OBOL:automatic] synonym: "mucous membrane of windpipe" EXACT [OBOL:automatic] synonym: "organ mucosa of trachea" EXACT [OBOL:automatic] synonym: "organ mucosa of windpipe" EXACT [OBOL:automatic] synonym: "trachea mucosa" EXACT [OBOL:automatic] synonym: "trachea mucosa of organ" EXACT [OBOL:automatic] synonym: "trachea mucous membrane" EXACT [OBOL:automatic] synonym: "trachea organ mucosa" EXACT [OBOL:automatic] synonym: "tracheal mucous membrane" EXACT [FMA:7471] synonym: "tunica mucosa (tracheae)" EXACT [FMA:7471] synonym: "tunica mucosa tracheae" EXACT LATIN [FMA:7471, FMA:TA] synonym: "windpipe mucosa" EXACT [OBOL:automatic] synonym: "windpipe mucosa of organ" EXACT [OBOL:automatic] synonym: "windpipe mucous membrane" EXACT [OBOL:automatic] synonym: "windpipe organ mucosa" EXACT [OBOL:automatic] xref: BTO:0001390 xref: FMA:7471 xref: http://www.snomedbrowser.com/Codes/Details/660006 is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001005 ! respiratory airway relationship: part_of UBERON:0001005 ! respiratory airway [Term] id: UBERON:0000383 name: musculature of body namespace: uberon def: "The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified]." [VSAO:0000033] subset: efo_slim subset: pheno_slim synonym: "muscle system" EXACT [] synonym: "muscle system of body" EXACT [] synonym: "muscular system" EXACT [FMA:72954] synonym: "musculature system" EXACT [BILA:0000088] synonym: "muskelsystem" RELATED [BTO:0001485] synonym: "set of all muscles" EXACT [FMA:72954] synonym: "set of muscles of body" EXACT [FMA:72954] synonym: "vertebrate muscular system" EXACT [BTO:0001369] xref: AAO:0000307 xref: BILA:0000088 xref: BTO:0001369 xref: BTO:0001485 xref: EFO:0000801 xref: EMAPA:35578 xref: FBbt:00005069 xref: FMA:72954 xref: MA:0002888 xref: MAT:0000025 xref: MIAA:0000025 xref: VSAO:0000033 xref: XAO:0004042 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: composed_primarily_of UBERON:0001015 ! musculature relationship: composed_primarily_of UBERON:0001015 ! musculature relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: editor_note "consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77" xsd:string property_value: external_definition "Anatomical system that consists of the muscles of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000033", ontology="VSAO", source="VSAO:curator"} property_value: external_ontology_notes "we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA" xsd:string {external_ontology="MA"} [Term] id: UBERON:0000389 name: lens cortex namespace: uberon def: "Tissue that surrounds the lens nucleus" [http://www.thefreedictionary.com/lens+cortex] synonym: "cortex of lens" EXACT [FMA:58970] xref: BTO:0001632 xref: CALOHA:TS-0542 xref: FMA:58970 xref: http://www.snomedbrowser.com/Codes/Details/280626006 xref: MESH:A09.371.509.225 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000479 ! tissue intersection_of: surrounds UBERON:0000390 ! lens nucleus relationship: develops_from UBERON:0005614 ! lens anterior epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye relationship: surrounds UBERON:0000390 ! lens nucleus [Term] id: UBERON:0000390 name: lens nucleus namespace: uberon def: "The core of the crystalline lens, surrounded by the cortex." [BTO:0001633] synonym: "nucleus of lens" EXACT [FMA:58971] xref: BTO:0001633 xref: FMA:58971 xref: http://www.snomedbrowser.com/Codes/Details/280628007 xref: MESH:A09.371.509.670 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0034944 ! zone of organ intersection_of: UBERON:0034944 ! zone of organ intersection_of: surrounded_by UBERON:0000389 ! lens cortex relationship: develops_from UBERON:0005614 ! lens anterior epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye relationship: surrounded_by UBERON:0000389 ! lens cortex [Term] id: UBERON:0000409 name: serous gland namespace: uberon def: "A gland in which the principal secretory cells are serous secreting cells." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm] subset: organ_slim subset: pheno_slim xref: BTO:0001837 xref: EMAPA:37950 {source="MA:th"} xref: FMA:62889 xref: Serous:gland is_a: UBERON:0002365 ! exocrine gland relationship: has_part UBERON:0013232 ! serous acinus relationship: produces UBERON:0007794 ! secretion of serous gland property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray1021.png property_value: external_definition "glands that secrete watery albuminous material that often contains enzymes[MP:0008052]." xsd:string {source="MP:0008052"} [Term] id: UBERON:0000415 name: artery wall namespace: uberon def: "An anatomical wall that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial wall" EXACT [FMA:14155] synonym: "wall of artery" EXACT [FMA:14155] xref: BTO:0002009 xref: FMA:14155 xref: galen:ArterialWall is_a: UBERON:0035965 ! wall of blood vessel intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0000456 name: secretion of exocrine gland namespace: uberon alt_id: UBERON:0006540 def: "A portion of organism substance that is produced by exocrine glands." [http://orcid.org/0000-0002-6601-2165] synonym: "bodily secretion" EXACT [MESH:D012634] synonym: "exocrine gland fluid" RELATED [] synonym: "exocrine gland fluid or secretion" RELATED [] synonym: "exocrine gland fluid/secretion" EXACT [MA:0002504] synonym: "exocrine gland secretion" RELATED [] synonym: "external secretion" RELATED [BTO:0002977] synonym: "secreted substance" EXACT [] synonym: "secretion" BROAD [FMA:9675] xref: AEO:0001005 xref: BTO:0002977 xref: BTO:0002979 xref: EMAPA:36535 xref: FMA:9675 xref: galen:Secretion xref: http://linkedlifedata.com/resource/umls/id/C1516992 xref: MA:0002504 xref: MESH:D012634 xref: NCIT:C34062 xref: UMLS:C1516992 {source="ncithesaurus:Exocrine_Gland_Fluid_or_Secretion"} is_a: BFO:0000040 ! material entity is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0002365 ! exocrine gland relationship: produced_by UBERON:0002365 ! exocrine gland property_value: external_ontology_notes "BTO has two distunct classes, with exocrine glandular secretion a subtype of secretion - however, all examples in BTO directly under secretion appear to be exocrine gland secretions" xsd:string {external_ontology="BTO"} [Term] id: UBERON:0000463 name: organism substance namespace: uberon def: "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." [http://orcid.org/0000-0001-9114-8737] subset: pheno_slim subset: upper_level synonym: "body fluid or substance" EXACT [MA:0002450] synonym: "body substance" EXACT [FMA:9669] synonym: "organism substance" EXACT [CARO:0000004] synonym: "portion of body substance" EXACT [FMA:9669] synonym: "portion of organism substance" EXACT [ZFA:0001487] xref: AAO:0010839 xref: AEO:0000004 xref: BILA:0000004 xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 xref: FBbt:00007019 xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 xref: MA:0002450 xref: NCIT:C13236 xref: SPD:0000008 xref: TAO:0001487 xref: TGMA:0001824 xref: VHOG:0001726 xref: XAO:0004001 xref: ZFA:0001487 is_a: BFO:0000002 ! continuant is_a: UBERON:0000465 ! material anatomical entity relationship: part_of UBERON:0000468 {notes="this relationship may be too strong and may be weakened in future"} ! multicellular organism [Term] id: UBERON:0000464 name: anatomical space namespace: uberon def: "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." [http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "anatomical spaces" RELATED PLURAL [ZFA:0001643] synonym: "lumen" BROAD [] synonym: "lumen space" EXACT [] synonym: "space" BROAD [] xref: AAO:0010110 xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 xref: FBbt:00007017 xref: FMA:5897 xref: HAO:0000005 xref: http://linkedlifedata.com/resource/umls/id/C0524461 xref: NCIT:C94478 xref: TAO:0001668 xref: TGMA:0001825 xref: UMLS:C0524461 {source="ncithesaurus:Lumen_Space"} xref: VHOG:0001728 xref: XAO:0003190 xref: ZFA:0001643 is_a: BFO:0000004 ! independent continuant is_a: UBERON:0000466 ! immaterial anatomical entity relationship: surrounded_by UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000465 name: material anatomical entity namespace: uberon def: "Anatomical entity that has mass." [http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010264 xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 xref: FBbt:00007016 xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000466 name: immaterial anatomical entity namespace: uberon def: "Anatomical entity that has no mass." [http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "immaterial physical anatomical entity" EXACT [FMA:67112] xref: AAO:0010265 xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 xref: FBbt:00007015 xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000467 name: anatomical system namespace: uberon def: "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." [CARO:0000011] subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "anatomical systems" RELATED PLURAL [ZFA:0001439] synonym: "body system" EXACT [NIFSTD:birnlex_14] synonym: "connected anatomical system" EXACT [CARO:0000011] synonym: "organ system" EXACT [] synonym: "system" BROAD [GO:0048731] xref: AAO:0000007 xref: AEO:0000011 xref: BILA:0000011 xref: birnlex:14 xref: BSA:0000049 xref: CALOHA:TS-2088 xref: CARO:0000011 xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 xref: FBbt:00004856 xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 xref: http://linkedlifedata.com/resource/umls/id/C0460002 xref: http://www.snomedbrowser.com/Codes/Details/278195005 xref: MA:0000003 xref: NCIT:C12919 xref: OpenCyc:Mx4rCWM0QCtDEdyAAADggVbxzQ xref: Organ:system xref: TAO:0001439 xref: TGMA:0001831 xref: UMLS:C0460002 {source="ncithesaurus:Organ_System"} xref: VHOG:0001725 xref: WBbt:0005746 xref: WBbt:0005763 xref: XAO:0003002 xref: ZFA:0001439 is_a: UBERON:0000061 ! anatomical structure relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_part UBERON:0000062 ! organ relationship: part_of UBERON:0000468 ! multicellular organism property_value: seeAlso EHDAA2:0001330 [Term] id: UBERON:0000468 name: multicellular organism namespace: uberon def: "Anatomical structure that is an individual member of a species and consists of more than one cell." [CARO:0000012, http://en.wikipedia.org/wiki/Multi-cellular_organism, http://orcid.org/0000-0001-9114-8737] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "animal" NARROW [BTO:0000042] synonym: "body" RELATED [AEO:0000103, FMA:256135, http://uri.neuinfo.org/nif/nifstd/birnlex_18, NCIT:C13041] synonym: "Koerper" RELATED [BTO:0001489] synonym: "multi-cellular organism" EXACT [CARO:0000012] synonym: "organism" BROAD [FBbt:00000001, VHOG:0000671, WBbt:0007833] synonym: "whole body" RELATED [BTO:0001489] synonym: "whole organism" RELATED [FBbt:00000001] xref: AAO:0010026 xref: AEO:0000191 xref: BILA:0000012 xref: birnlex:18 xref: BSA:0000038 xref: BTO:0000042 xref: CARO:0000012 xref: EFO:0002906 xref: EHDAA2:0003103 xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 xref: FBbt:00000001 xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 xref: http://www.snomedbrowser.com/Codes/Details/243928005 xref: Multi-cellular:organism xref: NCIT:C13041 xref: ncithesaurus:Whole_Organism xref: TADS:0000001 xref: TAO:0001094 xref: TGMA:0001832 xref: VHOG:0000671 xref: WBbt:0007833 xref: XAO:0003004 xref: ZFA:0001094 is_a: UBERON:0010000 ! multicellular anatomical structure property_value: editor_note "TODO - split body and mc organism? body continues after death stage" xsd:string property_value: has_relational_adjective "organismal" xsd:string [Term] id: UBERON:0000475 name: organism subdivision namespace: uberon def: "Anatomical structure which is a subdivision of a whole organism, consisting of components of multiple anatomical systems, largely surrounded by a contiguous region of integument." [CARO:0000032, CARO:DOS, http://orcid.org/0000-0001-9114-8737] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "anatomic region" EXACT [MA:0002433] synonym: "body part" RELATED [] synonym: "body region" RELATED [FMA:7153] synonym: "cardinal body part" RELATED [FMA:7153] xref: AAO:0010053 xref: AEO:0000032 xref: BILA:0000032 xref: birnlex:7 xref: Body:part xref: CALOHA:TS-2084 xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 xref: FBbt:00007009 xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 xref: http://linkedlifedata.com/resource/umls/id/C0229962 xref: MA:0002433 xref: MAT:0000293 xref: MESH:D001829 xref: MIAA:0000293 xref: NCIT:C32221 xref: OpenCyc:Mx4rvViAHJwpEbGdrcN5Y29ycA xref: TAO:0001308 xref: TGMA:0001840 xref: UMLS:C0229962 {source="ncithesaurus:Body_Part"} xref: VHOG:0001758 xref: XAO:0003013 xref: ZFA:0001308 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: part_of UBERON:0000468 ! multicellular organism property_value: editor_note "Reflects CARO2. todo - check the inclusion of FMA 'cardinal body part here', and check child terms for consistency" xsd:string [Term] id: UBERON:0000476 name: acellular anatomical structure namespace: uberon def: "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." [http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "acellular anatomical structures" RELATED PLURAL [ZFA:0000382] xref: AAO:0010268 xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 xref: FBbt:00007013 xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 xref: TGMA:0001841 xref: XAO:0003162 xref: ZFA:0000382 is_a: UBERON:0000061 ! anatomical structure disjoint_from: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure [Term] id: UBERON:0000477 name: anatomical cluster namespace: uberon def: "Anatomical group that has its parts adjacent to one another." [http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010009 xref: AEO:0000041 xref: BILA:0000041 xref: CARO:0000041 xref: EHDAA2:0003041 xref: FBbt:00007277 xref: FMA:49443 xref: HAO:0000041 xref: TADS:0000605 xref: TAO:0001478 xref: TGMA:0001842 xref: VHOG:0001737 xref: XAO:0003160 xref: ZFA:0001478 is_a: UBERON:0001062 ! anatomical entity property_value: editor_note "Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3]" xsd:string [Term] id: UBERON:0000478 name: extraembryonic structure namespace: uberon def: "A multicellular anatomical structure that is associated with an embryo and derived from the zygote from which it develops, but which does not contribute to the embryo proper or to structures that are part of the same organism after embryogenesis." [CARO:DOS, http://orcid.org/0000-0001-9114-8737, https://cedar.bio.indiana.edu/trac/env/ontologies/ticket/279] comment: see also conceptus extraembryonic component in EHDAA2. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "extra-embryonic structure" EXACT [] synonym: "extraembryonic structures" RELATED PLURAL [ZFA:0000020] synonym: "extraembryonic tissue" RELATED [] xref: AAO:0010020 xref: AEO:0000042 xref: BILA:0000042 xref: CALOHA:TS-2119 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 xref: FBbt:00005835 xref: FMA:85537 xref: HAO:0000042 xref: http://linkedlifedata.com/resource/umls/id/C1282438 xref: http://www.snomedbrowser.com/Codes/Details/314908006 xref: NCIT:C34055 xref: TAO:0000020 xref: TGMA:0001843 xref: UMLS:C1282438 {source="ncithesaurus:Extraembryonic_Structure"} xref: VHOG:0000292 xref: XAO:0004005 xref: ZFA:0000020 is_a: BFO:0000002 ! continuant is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: existence_starts_and_ends_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0000479 name: tissue namespace: uberon def: "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." [CARO:0000043] subset: pheno_slim subset: upper_level synonym: "portion of tissue" EXACT [CARO:0000043] synonym: "simple tissue" NARROW [AEO:0000043] synonym: "tissue portion" EXACT [] xref: AAO:0000607 xref: AAO:0010054 xref: AEO:0000043 xref: BILA:0000043 xref: birnlex:19 xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 xref: FBbt:00007003 xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 xref: http://linkedlifedata.com/resource/umls/id/C0040300 xref: MA:0003002 xref: MESH:D014024 xref: NCIT:C12801 xref: TAO:0001477 xref: TGMA:0001844 xref: UMLS:C0040300 {source="ncithesaurus:Tissue"} xref: VHOG:0001757 xref: WBbt:0005729 xref: XAO:0003040 xref: ZFA:0001477 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: part_of UBERON:0000468 ! multicellular organism property_value: editor_note "changed label and definition to reflect CARO2" xsd:string [Term] id: UBERON:0000481 name: multi-tissue structure namespace: uberon def: "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." [CARO:0000055, http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "multi-tissue structures" RELATED PLURAL [ZFA:0001488] xref: AAO:0010048 xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 xref: FBbt:00007010 xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 xref: VHOG:0001762 xref: XAO:0003037 xref: ZFA:0001488 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: has_part UBERON:0000479 ! tissue [Term] id: UBERON:0000483 name: epithelium namespace: uberon def: "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." [http://en.wikipedia.org/wiki/Epithelium, http://orcid.org/0000-0001-9114-8737] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epithelial tissue" EXACT [] synonym: "portion of epithelium" EXACT [FMA:9639] xref: AAO:0000144 xref: AAO:0010055 xref: AEO:0000066 xref: BILA:0000066 xref: BTO:0000416 xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 xref: FBbt:00007005 xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 xref: http://en.wikipedia.org/wiki/Epithelium xref: http://linkedlifedata.com/resource/umls/id/C0014609 xref: http://www.snomedbrowser.com/Codes/Details/31610004 xref: MA:0003060 xref: MESH:D004848 xref: NCIT:C12710 xref: TAO:0001486 xref: UMLS:C0014609 {source="ncithesaurus:Epithelium"} xref: VHOG:0000387 xref: XAO:0003045 xref: ZFA:0001486 is_a: UBERON:0000479 ! tissue union_of: UBERON:0000486 ! multilaminar epithelium union_of: UBERON:0000490 ! unilaminar epithelium relationship: has_part UBERON:0005769 ! basement membrane of epithelium property_value: depicted:by Tkanka:nablonkowa.png property_value: has_relational_adjective "epithelial" xsd:string property_value: homology_notes "The two basic types of metazoan tissue are epithelial and connective. The simplest metazoans, and developmental stages of many primitive invertebrates, consist solely of these two layers. Thus, epithelial and connective tissues may be the primary (original) tissues of metazoans, and both are important in the functional organization of animals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000387", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.59"} [Term] id: UBERON:0000484 name: simple cuboidal epithelium namespace: uberon def: "Unilaminar epithelium that consists of a single layer of cuboidal cells." [http://en.wikipedia.org/wiki/Simple_cuboidal_epithelium, http://orcid.org/0000-0001-9114-8737] subset: uberon_slim subset: vertebrate_core synonym: "epithelium simplex cuboideum" EXACT [] synonym: "simple cuboidal epithelia" RELATED PLURAL [ZFA:0001497] xref: AAO:0010064 xref: AEO:0000067 xref: BILA:0000067 xref: CARO:0000067 xref: EHDAA2:0003067 xref: FMA:45566 xref: HAO:0000067 xref: http://en.wikipedia.org/wiki/Simple_cuboidal_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836134 xref: NCIT:C33553 xref: TAO:0001497 xref: UMLS:C0836134 {source="ncithesaurus:Simple_Cuboidal_Epithelium"} xref: XAO:0004009 xref: ZFA:0001497 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0010077 ! cuboidal epithelium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d0/Gray1133.png property_value: editor_note "needs to be synchronized with CL - there is no distinct cuboidal cell in CL" xsd:string [Term] id: UBERON:0000485 name: simple columnar epithelium namespace: uberon def: "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]" [FMA:FMA, http://en.wikipedia.org/wiki/Simple_columnar_epithelium, http://orcid.org/0000-0001-9114-8737] subset: uberon_slim subset: vertebrate_core synonym: "columnar epithelium" BROAD [EHDAA2:0003068] synonym: "columnar epithlium" BROAD [AEO:0000068] synonym: "epithelium simplex columnare" EXACT [] synonym: "simple columnar epithelia" RELATED PLURAL [ZFA:0001496] synonym: "simple columnar epithelium" EXACT [] xref: AAO:0010063 xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 xref: FBbt:00007027 xref: FMA:45567 xref: HAO:0000068 xref: http://en.wikipedia.org/wiki/Simple_columnar_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836135 xref: http://www.snomedbrowser.com/Codes/Details/32210007 xref: NCIT:C33552 xref: TAO:0001496 xref: UMLS:C0836135 {source="ncithesaurus:Simple_Columnar_Epithelium"} xref: XAO:0004008 xref: ZFA:0001496 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0012274 ! columnar epithelium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray1059.png [Term] id: UBERON:0000486 name: multilaminar epithelium namespace: uberon def: "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]" [FMA:FMA, http://en.wikipedia.org/wiki/Stratified_epithelium, http://orcid.org/0000-0001-9114-8737] subset: uberon_slim subset: vertebrate_core synonym: "laminated epithelium" RELATED [BTO:0002074] synonym: "stratified epithelium" EXACT [] xref: AAO:0010059 xref: AEO:0000069 xref: BILA:0000069 xref: BTO:0002074 xref: CARO:0000069 xref: EHDAA2:0003069 xref: FMA:45562 xref: HAO:0000069 xref: http://linkedlifedata.com/resource/umls/id/C0682575 xref: http://www.snomedbrowser.com/Codes/Details/309044005 xref: NCIT:C33622 xref: Stratified:epithelium xref: TAO:0001494 xref: UMLS:C0682575 {source="ncithesaurus:Stratified_Epithelium"} xref: XAO:0004006 xref: ZFA:0001494 is_a: UBERON:0000483 ! epithelium property_value: external_definition "Epithelium that consists of more than one layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000069", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45562"} [Term] id: UBERON:0000487 name: simple squamous epithelium namespace: uberon def: "Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]" [FMA:45565, http://en.wikipedia.org/wiki/Simple_squamous_epithelium, http://orcid.org/0000-0001-9114-8737] subset: uberon_slim subset: vertebrate_core synonym: "epithelium simplex squamosum" EXACT [] synonym: "simple squamous epithelia" RELATED PLURAL [ZFA:0001498] xref: AAO:0010066 xref: AEO:0000070 xref: BILA:0000070 xref: BTO:0002073 xref: CARO:0000070 xref: EHDAA2:0003070 xref: FMA:45565 xref: HAO:0000070 xref: http://en.wikipedia.org/wiki/Simple_squamous_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836133 xref: NCIT:C13178 xref: TAO:0001498 xref: UMLS:C0836133 {source="ncithesaurus:Simple_Squamous_Epithelium"} xref: XAO:0004010 xref: ZFA:0001498 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0006914 ! squamous epithelium property_value: depicted:by Illu:epithelium.jpg property_value: external_definition "Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000070", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45565"} [Term] id: UBERON:0000488 name: atypical epithelium namespace: uberon def: "Epithelium that consists of epithelial cells not arranged in one ore more layers." [http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "atypical epithelia" RELATED PLURAL [ZFA:0001493] synonym: "heterogenous epithelium" EXACT [] xref: AAO:0010057 xref: AEO:0000071 xref: BILA:0000071 xref: CARO:0000071 xref: EHDAA2:0003071 xref: FMA:61741 xref: HAO:0000071 xref: TAO:0001493 xref: XAO:0004004 xref: ZFA:0001493 is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0000489 name: cavitated compound organ namespace: uberon def: "Compound organ that contains one or more macroscopic anatomical spaces." [http://orcid.org/0000-0001-9114-8737] subset: organ_slim subset: upper_level synonym: "cavitated compound organs" RELATED PLURAL [ZFA:0001490] synonym: "cavitated organ" EXACT [FMA:55671] xref: AAO:0010016 xref: AEO:0000072 xref: BILA:0000072 xref: CARO:0000072 xref: EHDAA2:0003072 xref: FMA:55671 xref: HAO:0000072 xref: TAO:0001490 xref: TGMA:0001857 xref: VHOG:0001730 xref: XAO:0003165 xref: ZFA:0001490 is_a: UBERON:0003103 ! compound organ intersection_of: UBERON:0003103 ! compound organ intersection_of: has_part UBERON:0002553 ! anatomical cavity relationship: has_part UBERON:0002553 ! anatomical cavity property_value: curator_notes "this class was introduced for consistency with CARO, however, it has yet to be used in this or other ontologies. It may be retired in the future" xsd:string [Term] id: UBERON:0000490 name: unilaminar epithelium namespace: uberon def: "Epithelium which consists of a single layer of epithelial cells. Examples: endothelium, mesothelium, glandular squamous epithelium.[FMA]" [FMA:45561, http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "simple epithelium" EXACT [FMA:45561] synonym: "unilaminar epithelia" RELATED PLURAL [ZFA:0001495] xref: AAO:0010062 xref: AEO:0000073 xref: BILA:0000073 xref: BTO:0002073 xref: CARO:0000073 xref: EHDAA2:0003073 xref: FMA:45561 xref: HAO:0000073 xref: http://linkedlifedata.com/resource/umls/id/C0682574 xref: http://www.snomedbrowser.com/Codes/Details/309043004 xref: NCIT:C33554 xref: TAO:0001495 xref: UMLS:C0682574 {source="ncithesaurus:Simple_Epithelium"} xref: XAO:0004007 xref: ZFA:0001495 is_a: UBERON:0000483 ! epithelium property_value: editor_note "consider adding disjointness axiom between unilaminar and multilaminar - but note that this will render EHDAA2:0003244 (chorionic trophoblast) unsatisfiable" xsd:string property_value: external_definition "Epithelium that consists of a single layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000073", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45561"} [Term] id: UBERON:0000915 name: thoracic segment of trunk namespace: uberon def: "Subdivision of trunk that lies between the head and the abdomen." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "anterior subdivision of trunk" RELATED [] synonym: "thorax" EXACT [MA:0000022] synonym: "upper body" RELATED [] synonym: "upper trunk" RELATED [FMA:259209] xref: EMAPA:35862 xref: FMA:259209 xref: http://en.wikipedia.org/wiki/Thorax xref: http://www.snomedbrowser.com/Codes/Details/302551006 xref: MA:0000022 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0009569 {source="FMA"} ! subdivision of trunk is_a: UBERON:0011676 ! subdivision of organism along main body axis intersection_of: UBERON:0011676 ! subdivision of organism along main body axis intersection_of: has_skeleton UBERON:0014477 ! thoracic skeleton relationship: has_skeleton UBERON:0014477 ! thoracic skeleton property_value: curator_notes "note that we use the slightly verbose term 'thoracic segment of trunk' to avoid confusuon with insect thorax. todo - taxonomic constraints. Also, in FMA 'thorax' is a synonym for chest" xsd:string [Term] id: UBERON:0000922 name: embryo namespace: uberon def: "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [BTO:0000379, FB:FBrf0039741, FB:FBrf0041814, GO:0009790, http://en.wikipedia.org/wiki/Embryo] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "developing organism" RELATED [BILA:0000056] synonym: "developmental tissue" RELATED [] synonym: "embryonic organism" EXACT [BILA:0000056] xref: AAO:0011035 xref: AEO:0000169 xref: BILA:0000056 xref: BSA:0000039 xref: BTO:0000379 xref: CALOHA:TS-0229 xref: Category:Embryonic\:organism xref: EFO:0001367 xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 xref: FBbt:00000052 xref: FMA:69068 xref: GAID:963 xref: http://en.wikipedia.org/wiki/Embryo xref: http://linkedlifedata.com/resource/umls/id/C0013935 xref: http://www.snomedbrowser.com/Codes/Details/57991002 xref: MAT:0000226 xref: MESH:D004622 xref: MIAA:0000019 xref: NCIT:C28147 xref: OGEM:000001 xref: OpenCyc:Mx4rwP1ceZwpEbGdrcN5Y29ycA xref: UMLS:C0013935 {source="ncithesaurus:Embryo"} xref: VHOG:0001766 xref: XAO:0000113 xref: ZFA:0000103 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000068 ! embryo stage intersection_of: existence_starts_with UBERON:0000068 ! embryo stage relationship: existence_ends_with UBERON:0000068 ! embryo stage relationship: existence_starts_with UBERON:0000068 ! embryo stage property_value: depicted:by Wrinkledfrog:embryos.jpg property_value: external_ontology_notes "Obsoleted in ZFA. Note that embryo is not classified as an embryonic structure - an embryonic structure is only the parts of an embryo" xsd:string {external_ontology="ZFA"} property_value: has_relational_adjective "embryonic" xsd:string property_value: seeAlso https://github.com/obophenotype/uberon/issues/503 [Term] id: UBERON:0000923 name: germ layer namespace: uberon def: "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." [http://en.wikipedia.org/wiki/Germ_layer, https://github.com/obophenotype/uberon/issues/203] comment: Classically the germ layers are ectoderm, mesoderm and endoderm. Alternatively: primary = ectoderm, endoderm; secondary=mesoderm; tertiary=dorsal mesoderm, NC[https://github.com/obophenotype/uberon/wiki/The-neural-crest] subset: uberon_slim subset: vertebrate_core synonym: "embryonic germ layer" RELATED [] synonym: "embryonic germ layers" RELATED [] synonym: "embryonic tissue" BROAD [FMA:69069] synonym: "germinal layer" EXACT [ncithesaurus:Germinal_Layer] synonym: "primary germ layer" NARROW [GO:0001704, ZFA:0001122] xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 xref: FBbt:00000110 xref: FMA:69069 xref: GAID:1303 xref: Germ:layer xref: http://linkedlifedata.com/resource/umls/id/C0920502 xref: http://linkedlifedata.com/resource/umls/id/C1708239 xref: MESH:A16.254.425 xref: NCIT:C12950 xref: NCIT:C54105 xref: TAO:0001122 xref: UMLS:C0920502 {source="ncithesaurus:Embryonic_Tissue"} xref: UMLS:C1708239 {source="ncithesaurus:Germinal_Layer"} xref: VHOG:0001223 xref: XAO:0003011 xref: ZFA:0001122 is_a: UBERON:0010316 ! germ layer / neural crest property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001223", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} [Term] id: UBERON:0000924 name: ectoderm namespace: uberon def: "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." [http://en.wikipedia.org/wiki/Ectoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic ectoderm" EXACT [VHOG:0000153] xref: AAO:0000137 xref: BILA:0000036 xref: BTO:0000315 xref: CALOHA:TS-0216 xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 xref: FBbt:00000111 xref: FMA:69070 xref: GAID:1304 xref: http://en.wikipedia.org/wiki/Ectoderm xref: http://linkedlifedata.com/resource/umls/id/C0013574 xref: http://www.snomedbrowser.com/Codes/Details/362851007 xref: MAT:0000155 xref: MAT:0000173 xref: MESH:A16.254.425.273 xref: MIAA:0000173 xref: NCIT:C12703 xref: TAO:0000016 xref: UMLS:C0013574 {source="ncithesaurus:Ectoderm"} xref: VHOG:0000153 xref: XAO:0000001 xref: ZFA:0000016 is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006601 ! presumptive ectoderm relationship: immediate_transformation_of UBERON:0006601 {source="Bgee:AN"} ! presumptive ectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png property_value: external_definition "Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000137", ontology="AAO", source="AAO:EJS"} property_value: has_relational_adjective "ectodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000153", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} [Term] id: UBERON:0000925 name: endoderm namespace: uberon def: "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." [http://en.wikipedia.org/wiki/Endoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "entoderm" RELATED DEPRECATED [https://doi.org/10.5962/bhl.title.1013] xref: AAO:0000139 xref: BILA:0000038 xref: BTO:0000800 xref: CALOHA:TS-0273 xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 xref: FBbt:00000125 xref: FMA:69071 xref: GAID:1305 xref: http://en.wikipedia.org/wiki/Endoderm xref: http://linkedlifedata.com/resource/umls/id/C0014144 xref: http://www.snomedbrowser.com/Codes/Details/362855003 xref: MAT:0000175 xref: MESH:A16.254.425.407 xref: MIAA:0000175 xref: NCIT:C12706 xref: TAO:0000017 xref: UMLS:C0014144 {source="ncithesaurus:Endoderm"} xref: VHOG:0000154 xref: XAO:0000090 xref: ZFA:0000017 is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006595 ! presumptive endoderm relationship: immediate_transformation_of UBERON:0006595 {source="Bgee:AN"} ! presumptive endoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png property_value: has_relational_adjective "endodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000154", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} [Term] id: UBERON:0000926 name: mesoderm namespace: uberon alt_id: UBERON:0003263 def: "The middle germ layer of the embryo, between the endoderm and ectoderm." [http://en.wikipedia.org/wiki/Mesoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic mesoderm" RELATED [VHOG:0000152] synonym: "entire mesoderm" RELATED [http://www.snomedbrowser.com/Codes/Details/362854004, https://orcid.org/0000-0002-6601-2165] synonym: "mesodermal mantle" RELATED [] xref: AAO:0000304 xref: BILA:0000037 xref: BTO:0000839 xref: CALOHA:TS-0623 xref: EFO:0001981 xref: EHDAA2:0001128 xref: EHDAA:124 xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 xref: FBbt:00000126 xref: FMA:69072 xref: GAID:522 xref: http://en.wikipedia.org/wiki/Mesoderm xref: http://linkedlifedata.com/resource/umls/id/C0025485 xref: http://www.snomedbrowser.com/Codes/Details/362854004 xref: MAT:0000174 xref: MESH:A16.254.425.660 xref: MIAA:0000174 xref: NCIT:C12750 xref: TAO:0000041 xref: UMLS:C0025485 {source="ncithesaurus:Mesoderm"} xref: VHOG:0000152 xref: XAO:0000050 xref: ZFA:0000041 is_a: UBERON:0000923 {notes="sometimes not considered primary"} ! germ layer relationship: develops_from UBERON:0006603 ! presumptive mesoderm relationship: immediate_transformation_of UBERON:0006603 {source="Bgee:AN"} ! presumptive mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png property_value: external_definition "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000304", ontology="AAO", source="AAO:EJS"} property_value: has_relational_adjective "mesodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000152", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} property_value: taxon_notes "sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates" xsd:string {source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} [Term] id: UBERON:0000930 name: stomodeum namespace: uberon def: "Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity." [http://en.wikipedia.org/wiki/Stomodeum, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/326] subset: grouping_class subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mouth pit" RELATED [EMAPA:16263] synonym: "mouth primordium" EXACT [XAO:0000269] synonym: "oral ectoderm" RELATED [ZFA:0001290\,ZFIN\:ZDB-PUB-100726-23] synonym: "oral pit" RELATED [EMAPA:16263] synonym: "primitive oral cavity" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "stomatodeum" EXACT [http://en.wikipedia.org/wiki/Stomodeum] synonym: "stomodaeum" EXACT [] synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 xref: FBbt:00000439 xref: FMA:295846 xref: http://en.wikipedia.org/wiki/Stomodeum xref: http://linkedlifedata.com/resource/umls/id/C1514977 xref: NCIT:C34306 xref: TAO:0001290 xref: TGMA:0000135 xref: UMLS:C1514977 {source="ncithesaurus:Stomodeum"} xref: XAO:0000269 xref: ZFA:0001290 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube relationship: part_of UBERON:0000924 ! ectoderm relationship: part_of UBERON:0035804 ! future mouth property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png property_value: editor_note "consider indicating location. e.g. anterior. Note some AOs place this as part of oral opening, but it's not clear when this structure comes into existence" xsd:string property_value: external_definition "Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001290", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "the primordial mouth region of the developing head, initially a midline ectodermal depression between the forebrain bulge (cranially) and the heart bulge (caudally) and between the maxillary and mandibular components of the first pharyngeal arch; the stomodeum is separated from the anterior end of the foregut by the buccopharyngeal membrane; the mouth is developed partly from the stomodeum, and partly from the floor of the anterior portion of the foregut; the lips, teeth, and gums are formed from the walls of the stomodeum, but the tongue is developed in the floor of the pharynx" xsd:string {source="MP:0012522", taxon="NCBITaxon:40674"} property_value: has_relational_adjective "stomodeal" xsd:string property_value: taxon_notes "This class groups together disparate structures as all being the anterior part of the early metazoan digestive tract and precursor of the mouth. However, the developmental processes vary, so this class may be split in future. E.g. in mammals it is a rostral depression surrounded by prominences. Outgrowth of the prominences produces a stomodeal cavity." xsd:string [Term] id: UBERON:0000948 name: heart namespace: uberon def: "A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ." [http://en.wikipedia.org/wiki/Heart, http://orcid.org/0000-0002-6601-2165] comment: Taxon notes:" the ascidian tube-like heart lacks chambers....The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepithelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium.... The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates... all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)" https://doi.org/10.1101/gad.1485706 subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "branchial heart" NARROW SENSU [] synonym: "cardium" RELATED [EMAPA:16105] synonym: "chambered heart" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "Herz@de" RELATED [BTO:0000562] synonym: "vertebrate heart" EXACT [] xref: AAO:0010210 xref: BILA:0000020 xref: BTO:0000562 xref: CALOHA:TS-0445 xref: EFO:0000815 xref: EHDAA2:0000738 xref: EHDAA:420 xref: EMAPA:16105 xref: EV:0100018 xref: FMA:7088 xref: GAID:174 xref: galen:Heart xref: http://en.wikipedia.org/wiki/Heart xref: http://linkedlifedata.com/resource/umls/id/C0018787 xref: http://www.snomedbrowser.com/Codes/Details/302509004 xref: MA:0000072 xref: MAT:0000036 xref: MESH:D006321 xref: MIAA:0000036 xref: NCIT:C12727 xref: OpenCyc:Mx4rvVjvDpwpEbGdrcN5Y29ycA xref: TAO:0000114 xref: UMLS:C0018787 {source="ncithesaurus:Heart"} xref: VHOG:0000276 xref: XAO:0000064 xref: ZFA:0000114 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0007100 ! primary circulatory organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0007100 ! primary circulatory organ intersection_of: has_part UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0004535 ! cardiovascular system relationship: develops_from UBERON:0004141 ! heart tube relationship: has_part UBERON:0004151 ! cardiac chamber relationship: part_of UBERON:0015410 {source="MA"} ! heart plus pericardium property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010210", ontology="AAO"} property_value: external_definition "Blood pumping organ composed of four chambers: sinus venosus, atrium, cardiac ventricle and bulbus arteriosus.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000114", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Part of the circulatory system responsible for pumping blood; composed of three chambers--two atria and one ventricle.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010210", ontology="AAO", source="AAO:BJB"} property_value: has_relational_adjective "cardiac" xsd:string property_value: homology_notes "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000276", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} [Term] id: UBERON:0000955 name: brain namespace: uberon def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." [http://en.wikipedia.org/wiki/Brain, https://github.com/obophenotype/uberon/issues/300] subset: cumbo subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "encephalon" RELATED [BTO:0000142] synonym: "suprasegmental levels of nervous system" RELATED [NeuroNames:21] synonym: "suprasegmental structures" RELATED [NeuroNames:21] synonym: "synganglion" RELATED [] synonym: "the brain" RELATED [NeuroNames:21] xref: AAO:0010478 xref: ABA:Brain xref: BAMS:Br xref: BAMS:Brain xref: BILA:0000135 xref: birnlex:796 xref: BTO:0000142 xref: CALOHA:TS-0095 xref: DHBA:10155 xref: EFO:0000302 xref: EHDAA2:0000183 xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 xref: FBbt:00005095 xref: FMA:50801 xref: GAID:571 xref: galen:Brain xref: HBA:4005 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=21 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=21 {source="NIFSTD:birnlex_796"} xref: http://en.wikipedia.org/wiki/Brain xref: http://linkedlifedata.com/resource/umls/id/C0006104 xref: http://linkedlifedata.com/resource/umls/id/C1269537 xref: http://www.snomedbrowser.com/Codes/Details/258335003 xref: MA:0000168 xref: MAT:0000098 xref: MBA:8 xref: MBA:997 xref: MESH:D001921 xref: MIAA:0000098 xref: NCIT:C12439 xref: OpenCyc:Mx4rvVjT65wpEbGdrcN5Y29ycA xref: PBA:3999 xref: TAO:0000008 xref: UMLS:C0006104 {source="NIFSTD:birnlex_796"} xref: UMLS:C0006104 {source="ncithesaurus:Brain"} xref: UMLS:C1269537 {source="NIFSTD:birnlex_796"} xref: VHOG:0000157 xref: XAO:0000010 xref: ZFA:0000008 is_a: UBERON:0000062 {source="GO"} ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0001016 ! nervous system relationship: dc-contributor https://github.com/cmungall relationship: develops_from UBERON:0006238 ! future brain relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: immediate_transformation_of UBERON:0006238 {source="Bgee:AN"} ! future brain relationship: in_anterior_side_of UBERON:0000468 ! multicellular organism relationship: part_of UBERON:0001017 {source="FMA"} ! central nervous system property_value: editor_note "requires review for applicability to invertebrate structures, e.g. synganglion" xsd:string property_value: external_definition "Cavitated compound organ which is comprised of gray and white matter and surrounds the cerebral ventricular system.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000008", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Part of the central nervous system situated within the cranium and composed of both nerve cell bodies and nerve fibers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010478", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The part of the central nervous system contained within the cranium, comprising the forebrain, midbrain, hindbrain, and metencephalon. It is derived from the anterior part of the embryonic neural tube (or the encephalon). Does not include retina. (CUMBO)" xsd:string {source="Cumbo:terms"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000157", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165"} [Term] id: UBERON:0000964 name: cornea namespace: uberon def: "the transparent anterior portion of the fibrous coat of the eye that serves as the chief refractory structure" [ISBN:0-683-40008-8, MESH:A09.371.060.217, MP:0001312] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cornea of camera-type eye" EXACT [GO:0061303] synonym: "corneas" RELATED PLURAL [ZFA:0000640] synonym: "tunica cornea" RELATED [] xref: AAO:0010344 xref: BTO:0000286 xref: CALOHA:TS-0171 xref: EFO:0000377 xref: EHDAA2:0000316 xref: EHDAA:10199 xref: EMAPA:17161 xref: EV:0100341 xref: FMA:58238 xref: GAID:892 xref: http://en.wikipedia.org/wiki/Cornea xref: http://linkedlifedata.com/resource/umls/id/C0010031 xref: http://www.snomedbrowser.com/Codes/Details/181162001 xref: MA:0000266 xref: MESH:D003315 xref: NCIT:C12342 xref: OpenCyc:Mx4rvViBa5wpEbGdrcN5Y29ycA xref: TAO:0000640 xref: UMLS:C0010031 {source="ncithesaurus:Cornea"} xref: VHOG:0000164 xref: XAO:0000180 xref: ZFA:0000640 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0003102 {source="XAO"} ! surface structure is_a: UBERON:0010000 ! multicellular anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: continuous_with UBERON:0001773 ! sclera relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: developmentally_induced_by UBERON:0005426 ! lens vesicle relationship: develops_from UBERON:0004348 {evidence="definitional"} ! optic eminence relationship: develops_from UBERON:0005427 ! corneal primordium relationship: has_part UBERON:0001772 ! corneal epithelium relationship: has_part UBERON:0004370 ! anterior limiting lamina of cornea relationship: part_of UBERON:0001801 {source="MA"} ! anterior segment of eyeball relationship: part_of UBERON:0010409 {source="MA"} ! ocular surface region relationship: part_of UBERON:0012430 {source="FMA-isa"} ! tunica fibrosa of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: has_relational_adjective "corneal" xsd:string property_value: taxon_notes "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals. In fish, and aquatic vertebrates in general, the cornea plays no role in focusing light, since it has virtually the same refractive index as water" xsd:string [Term] id: UBERON:0000965 name: lens of camera-type eye namespace: uberon def: "Transparent part of camera-type eye that helps to refract light to be focused on the retina." [http://en.wikipedia.org/wiki/Lens_(anatomy), http://orcid.org/0000-0002-6601-2165] comment: The lens is avascular and nourished by diffusion from the aqueous and vitreous subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "camera-type eye lens" EXACT [GO:0002088] synonym: "crystalline lens" RELATED [BTO:0000723] synonym: "eye lens" EXACT SENSU [] synonym: "lens" EXACT SENSU [] synonym: "lens crystallina" EXACT [http://en.wikipedia.org/wiki/Lens_%28anatomy%29] synonym: "lenses" RELATED PLURAL [ZFA:0000035] synonym: "ocular lens" RELATED [BTO:0000723] xref: AAO:0010348 xref: BTO:0000723 xref: CALOHA:TS-0545 xref: EHDAA:9057 xref: EMAPA:17838 xref: EV:0100343 xref: FMA:58241 xref: http://linkedlifedata.com/resource/umls/id/C0023317 xref: http://www.snomedbrowser.com/Codes/Details/181169005 xref: Lens:(anatomy) xref: MA:0000275 xref: MAT:0000141 xref: MESH:A09.371.509 xref: MIAA:0000141 xref: NCIT:C12743 xref: OpenCyc:Mx4rvVj0fZwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0000975 xref: TAO:0000035 xref: UMLS:C0023317 {source="ncithesaurus:Crystalline_Lens"} xref: VHOG:0000169 xref: XAO:0000008 xref: ZFA:0000035 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005389 ! transparent eye structure relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: developmentally_induced_by UBERON:0003902 ! retinal neural layer relationship: develops_from UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000169", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: taxon_notes "This class excludes compound eye corneal lenses." xsd:string [Term] id: UBERON:0000966 name: retina namespace: uberon def: "The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [http://en.wikipedia.org/wiki/Retina, ZFIN:curator] comment: Currently this class encompasses only verteberate AOs but could in theory also include cephalopod - we may want to make a more specific class for vertebrate retina. note that this class excludes ommatidial retinas, as the retina must be part of an eyeball. Use the parent class photoreceptor array / light-sensitive tissue for arthropods subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "inner layer of eyeball" EXACT [] synonym: "Netzhaut" RELATED [BTO:0001175] synonym: "retina of camera-type eye" EXACT [GO:0060041] synonym: "retinas" RELATED PLURAL [ZFA:0000152] synonym: "tunica interna of eyeball" EXACT [] xref: AAO:0010352 xref: BAMS:R xref: birnlex:1153 xref: BTO:0001175 xref: CALOHA:TS-0865 xref: EFO:0000832 xref: EHDAA2:0001627 xref: EHDAA:4757 xref: EMAPA:17168 xref: EV:0100348 xref: FMA:58301 xref: GAID:755 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1862 xref: http://en.wikipedia.org/wiki/Retina xref: http://linkedlifedata.com/resource/umls/id/C0035298 xref: http://linkedlifedata.com/resource/umls/id/C1278894 xref: http://www.snomedbrowser.com/Codes/Details/181171005 xref: MA:0000276 xref: MAT:0000142 xref: MBA:304325711 xref: MESH:D012160 xref: MIAA:0000142 xref: NCIT:C12343 xref: NIFSTD_RETIRED:birnlex_1156 xref: OpenCyc:Mx4rvViTfpwpEbGdrcN5Y29ycA xref: TAO:0000152 xref: UMLS:C0035298 {source="NIFSTD:birnlex_1153"} xref: UMLS:C0035298 {source="ncithesaurus:Retina"} xref: UMLS:C1278894 {source="NIFSTD:birnlex_1153"} xref: VHOG:0000229 xref: XAO:0000009 xref: ZFA:0000152 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005388 ! photoreceptor array relationship: develops_from UBERON:0003072 {source="EHDAA2"} ! optic cup relationship: part_of UBERON:0001802 ! posterior segment of eyeball relationship: part_of UBERON:0019207 ! chorioretinal region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png property_value: external_definition "The portion of the eye developing from the optic primordium and including the neural retina and the retinal pigment layer. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000152", ontology="TAO", source="ZFIN:curator"} property_value: has_relational_adjective "retinal" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000229", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} [Term] id: UBERON:0000970 name: eye namespace: uberon def: "An organ that detects light." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: functional_classification subset: major_organ subset: organ_slim subset: uberon_slim synonym: "light-detecting organ" RELATED [] synonym: "visual apparatus" RELATED [EV:0100336] xref: BILA:0000017 xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 xref: FBbt:00005162 xref: GAID:69 xref: http://en.wikipedia.org/wiki/Eye xref: MAT:0000140 xref: MESH:D005123 xref: MIAA:0000140 xref: OpenCyc:Mx4rvViTvpwpEbGdrcN5Y29ycA is_a: UBERON:0000020 ! sense organ relationship: part_of UBERON:0002104 ! visual system property_value: curator_notes "This class encompasses a variety of light-detecting structures from different phyla with no implication of homology, from the compound insect eye to the vertebrate camera-type eye (distinct classes are provided for each)" xsd:string property_value: has_relational_adjective "ocular" xsd:string property_value: has_relational_adjective "optic" xsd:string property_value: structure_notes "Note that whilst this is classified as an organ, it is in fact more of a unit composed of different structures: in Drosophila, it includes the interommatidial bristle as a part; we consider here the vertebrate eye to include the eyeball/eye proper as a part, with the eye having as parts (when present): eyelids, conjuctiva," xsd:string [Term] id: UBERON:0000974 name: neck namespace: uberon def: "An organism subdivision that extends from the head to the pectoral girdle, encompassing the cervical vertebral column." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "collum" RELATED LATIN [http://en.wikipedia.org/wiki/Neck] synonym: "neck (volume)" RELATED [FMA:7155] xref: AEO:0000108 xref: BTO:0000420 xref: CALOHA:TS-2045 xref: EFO:0000967 xref: EHDAA2:0003108 xref: EMAPA:35587 xref: FMA:7155 xref: GAID:86 xref: galen:Neck xref: http://en.wikipedia.org/wiki/Neck xref: http://linkedlifedata.com/resource/umls/id/C0027530 xref: http://www.snomedbrowser.com/Codes/Details/302550007 xref: MA:0000024 xref: MAT:0000297 xref: MESH:D009333 xref: MIAA:0000297 xref: NCIT:C13063 xref: OpenCyc:Mx4rvVjLF5wpEbGdrcN5Y29ycA xref: UMLS:C0027530 {source="ncithesaurus:Neck"} is_a: UBERON:0000475 ! organism subdivision relationship: anteriorly_connected_to UBERON:0000033 ! head relationship: dubious_for_taxon NCBITaxon:32443 {source="ISBN:9780674021839"} ! Teleostei relationship: part_of UBERON:0007811 ! craniocervical region relationship: posteriorly_connected_to UBERON:0002100 ! trunk property_value: curator_notes "true necks are considered to be present when the pectoral girdle is separate from the skull - Tiktaalik is the earliest known fish to have a true neck." xsd:string property_value: depicted:by Female:neck.jpg property_value: has_relational_adjective "cervical" xsd:string [Term] id: UBERON:0000982 name: skeletal joint namespace: uberon def: "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, http://en.wikipedia.org/wiki/Joint, VSAO:0000101] subset: efo_slim subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "articular joint" RELATED [BTO:0001686] synonym: "articulation" BROAD [VSAO:0000101] synonym: "joint" BROAD [FMA:7490, VSAO:0000101] synonym: "joints" RELATED PLURAL [ZFA:0001596] xref: AEO:0000182 xref: BTO:0001686 xref: CALOHA:TS-2023 xref: EFO:0000948 xref: EMAPA:35456 xref: FMA:7490 xref: GAID:102 xref: galen:Joint xref: http://en.wikipedia.org/wiki/Joint xref: http://linkedlifedata.com/resource/umls/id/C0022417 xref: http://www.snomedbrowser.com/Codes/Details/302536002 xref: MA:0000319 xref: MAT:0000188 xref: MESH:D007596 xref: MIAA:0000188 xref: NCIT:C13044 xref: OpenCyc:Mx4rvVjjdpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0003182 xref: TAO:0000367 xref: UMLS:C0022417 {source="ncithesaurus:Joint"} xref: VHOG:0001276 xref: VSAO:0000101 xref: XAO:0000171 xref: ZFA:0001596 is_a: UBERON:0004905 ! articulation union_of: UBERON:0002217 ! synovial joint union_of: UBERON:0011134 ! nonsynovial joint relationship: connects UBERON:0004765 ! skeletal element relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system property_value: external_definition "Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000101", ontology="VSAO", source="PSPUB:0000170"} property_value: external_definition "Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000367", ontology="TAO", source="TAO:pem"} [Term] id: UBERON:0001003 name: skin epidermis namespace: uberon def: "The outer epithelial layer of the skin that is superficial to the dermis." [http://orcid.org/0000-0002-6601-2165, ISBN10:0073040584] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epidermis" BROAD [] synonym: "skin" BROAD [] synonym: "vertebrate epidermis" EXACT [] xref: AAO:0000143 xref: BTO:0000404 xref: CALOHA:TS-0283 xref: EFO:0000954 xref: EMAPA:17528 xref: Epidermis:(skin) xref: EV:0100153 xref: FMA:70596 xref: GAID:932 xref: http://linkedlifedata.com/resource/umls/id/C0014520 xref: http://www.snomedbrowser.com/Codes/Details/361694003 xref: MA:0000153 xref: MAT:0000154 xref: MESH:D004817 xref: MIAA:0000154 xref: NCIT:C12708 xref: TAO:0000105 xref: UMLS:C0014520 {source="ncithesaurus:Epidermis"} xref: VHOG:0000077 xref: XAO:0000028 xref: ZFA:0000105 is_a: UBERON:0007376 ! outer epithelium is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:0007376 ! outer epithelium intersection_of: part_of UBERON:0002097 ! skin of body relationship: adjacent_to UBERON:0002067 ! dermis relationship: developmentally_replaces UBERON:0003055 ! periderm relationship: part_of UBERON:0002097 ! skin of body property_value: axiom_lost_from_external_ontology "relationship loss: subclass external integument structures (AAO:0000961)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000143", ontology="AAO"} property_value: external_definition "A cellular, multilayered epithelium derived from the ectoderm. Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000105", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "The outer epithelial layer of the external integument of the body that is derived from the embryonic epiblast.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000143", ontology="AAO", source="AAO:BJB"} property_value: has_relational_adjective "epidermal" xsd:string property_value: homology_notes "(...) outer epithelia in all metazoan animals are homologous. (...) The ancestor of all metazoans likely had an epidermis with a basal extracellular matrix (ECM), an apical extracellular glycocalyx, and one cilium with a striated rootlet per cell.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000077", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.71-72"} property_value: taxon_notes "Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. In terrestrial vertebrates the epidermis often forms an outer keratinized or cornified layer, the stratum corneum. Interaction between the epideris and dermis gives rise to feathers (birds), hair and mammary glands (mammals), teeth and scales (placoid: chondrichthyans; cosmoids, ganoid, cycloid in bony fishes)." xsd:string [Term] id: UBERON:0001004 name: respiratory system namespace: uberon def: "Functional system which consists of structures involved in respiration." [http://en.wikipedia.org/wiki/Respiratory_system, http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: functional_classification subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "apparatus respiratorius" EXACT [] synonym: "apparatus respiratorius" RELATED [BTO:0000203] synonym: "Atmungssystem" RELATED [BTO:0000203] synonym: "respiratory system" EXACT [] synonym: "systema respiratorium" RELATED LATIN [http://en.wikipedia.org/wiki/Respiratory_system] xref: AAO:0000541 xref: BTO:0000203 xref: CALOHA:TS-1319 xref: EFO:0000804 xref: EHDAA2:0001604 xref: EHDAA:2203 xref: EMAPA:16727 xref: EV:0100036 xref: FMA:7158 xref: GAID:78 xref: http://linkedlifedata.com/resource/umls/id/C0035237 xref: http://www.snomedbrowser.com/Codes/Details/278197002 xref: MA:0000327 xref: MAT:0000030 xref: MESH:D012137 xref: MIAA:0000030 xref: NCIT:C12779 xref: OpenCyc:Mx4rvVjzFJwpEbGdrcN5Y29ycA xref: Respiratory:system xref: TAO:0000272 xref: UMLS:C0035237 {source="ncithesaurus:Respiratory_System"} xref: VHOG:0000202 xref: XAO:0000117 xref: ZFA:0000272 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: existence_ends_during UBERON:0000066 ! fully formed stage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5e/Respiratory_system_complete_en.svg property_value: external_definition "The anatomical system in which the exchange of oxygen and carbon dioxide between the organism and its environment.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000541", ontology="AAO", source="AAO:BJB"} property_value: homology_notes "There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000202", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.599 and Figure 18-23"} [Term] id: UBERON:0001005 name: respiratory airway namespace: uberon def: "An airway through which respiratory air passes in organisms." [http://en.wikipedia.org/wiki/Trachea] subset: grouping_class subset: uberon_slim synonym: "airway" BROAD [http://orcid.org/0000-0002-6601-2165] synonym: "airways" BROAD PLURAL [http://orcid.org/0000-0002-6601-2165] xref: FMA:265130 xref: http://en.wikipedia.org/wiki/Trachea xref: http://www.snomedbrowser.com/Codes/Details/361380005 is_a: UBERON:0003103 ! compound organ is_a: UBERON:0004111 ! anatomical conduit relationship: channel_for UBERON:0034874 ! air in respiratory system relationship: part_of UBERON:0001004 ! respiratory system property_value: curator_notes "This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED). As a grouping class this is quite vague, as it is not clear where the airway begins and ends" xsd:string [Term] id: UBERON:0001007 name: digestive system namespace: uberon def: "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." [FB:gg, http://en.wikipedia.org/wiki/Digestive_system, NLM:alimentary+system] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "alimentary system" RELATED [] synonym: "alimentary tract" RELATED [] synonym: "gastrointestinal system" RELATED [] synonym: "gut" RELATED [] xref: AAO:0000129 xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: Digestive:system xref: EFO:0000793 xref: EV:0100056 xref: FBbt:00005055 xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem xref: http://www.snomedbrowser.com/Codes/Details/278859004 xref: MA:0002431 xref: MAT:0000018 xref: MESH:D004064 xref: MIAA:0000018 xref: ncithesaurus:Digestive_System xref: TADS:0000170 xref: TAO:0000339 xref: WBbt:0005748 xref: XAO:0000125 xref: ZFA:0000339 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: existence_ends_during UBERON:0000066 ! fully formed stage property_value: external_definition "An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000129", ontology="AAO", source="AAO:BJB"} property_value: external_ontology_notes "many anatomy ontologies consider gastrointestinal system synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class" xsd:string {external_ontology="MA"} property_value: has_relational_adjective "digestive" xsd:string [Term] id: UBERON:0001009 name: circulatory system namespace: uberon def: "organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis[WP]." [http://en.wikipedia.org/wiki/Circulatory_system] subset: uberon_slim synonym: "systema cardiovasculare" RELATED LATIN [http://en.wikipedia.org/wiki/Circulatory_system] xref: AAO:0000959 xref: CALOHA:TS-2103 xref: Circulatory:system xref: FBbt:00005057 xref: OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA xref: VHOG:0001248 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: dubious_for_taxon NCBITaxon:6231 {notes="WBbt coelomocyte currently classified as circulating cell"} ! Nematoda relationship: existence_ends_during UBERON:0000066 ! fully formed stage property_value: curator_notes "the cardiovascular system and the lymphatic system are parts of the circulatory system" xsd:string property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg property_value: external_definition "Anatomical system of ion binding, a pumping mechanism, and an efficient vascular system; consisting of the blood, heart, and blood and lymph vessels, respectively.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000959", ontology="AAO", source="AAO:BJB"} property_value: homology_notes "We should divest ourselves of the view that earlier vertebrate groups were 'on their way' to becoming mammals, as clearly they were not such visionaries. Neither were their systems 'imperfect' as earlier anatomists thought. Instead, their circulatory systems served them well to address the ecological demands arising from their lifestyles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001248", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.493"} [Term] id: UBERON:0001013 name: adipose tissue namespace: uberon def: "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue" [http://en.wikipedia.org/wiki/Adipose_tissue, http://orcid.org/0000-0002-6601-2165, MESH:A10.165.114, MGI:cwg, MP:0000003] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adipose" RELATED [BTO:0001487] synonym: "bodyfat" RELATED [BTO:0001487] synonym: "fat" EXACT [MA:0000009] synonym: "fat tissue" EXACT [] synonym: "fatty depot" RELATED [] synonym: "fatty tissue" EXACT [] xref: AAO:0000001 xref: Adipose:tissue xref: AEO:000020 xref: BTO:0001487 xref: CALOHA:TS-0013 xref: EFO:0000790 xref: EHDAA2:0003120 xref: EMAPA:35112 xref: EV:0100381 xref: FMA:20110 xref: GAID:920 xref: galen:FattyTissue xref: http://linkedlifedata.com/resource/umls/id/C0001527 xref: http://www.snomedbrowser.com/Codes/Details/55603005 xref: MA:0000009 xref: MAT:0000015 xref: MESH:D000273 xref: MIAA:0000015 xref: NCIT:C12472 xref: OpenCyc:Mx4rvVjc_ZwpEbGdrcN5Y29ycA xref: TAO:0002134 xref: UMLS:C0001527 {source="ncithesaurus:Adipose_Tissue"} xref: VHOG:0001284 xref: XAO:0003049 xref: ZFA:0005345 is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue disjoint_from: UBERON:0003714 ! neural tissue property_value: axiom_lost_from_external_ontology "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000001", ontology="AAO"} property_value: external_definition "Connective tissue in which fat is stored.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002134", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Tissue that contains adipocytes, used for cushioning, thermal insulation, lubrication (primarily in the pericardium) and energy storage.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000001", ontology="AAO", source="AAO:LAP"} property_value: external_ontology_notes "in FMA this is dense irregular connective tissue" xsd:string {external_ontology="FMA"} property_value: has_relational_adjective "adipose" xsd:string property_value: homology_notes "Adipose tissue is unique to vertebrates. It is found in mostmammals, birds, reptiles and amphibians, and a variety is found in some species of fish. Furthermore, in insects the fat body found in larvae as well as in adults shares some homology with adipose tissue.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001284", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1017/S0029665107005423 Haugen F, Drevon CA, The interplay between nutrients and the adipose tissue. The Proceedings of the Nutrition Society (2007)"} property_value: taxon_notes "In humans, adipose tissue is located beneath the skin (subcutaneous fat), around internal organs (visceral fat), in bone marrow (yellow bone marrow) and in breast tissue. Adipose tissue is found in specific locations, which are referred to as adipose depots. Adipose tissue contains several cell types, with the highest percentage of cells being adipocytes, which contain fat droplets. Other cell types include fibroblasts, macrophages, and endothelial cells. Adipose tissue contains many small blood vessels.; Mice have eight major adipose depots, four of which are within the abdominal cavity. The paired gonadal depots are attached to the uterus and ovaries in females and the epididymis and testes in males; the paired retroperitoneal depots are found along the dorsal wall of the abdomen, surrounding the kidney, and, when massive, extend into the pelvis. The mesenteric depot forms a glue-like web that supports the intestines, and the omental depot, which originates near the stomach and spleen, and, when massive, extends into the ventral abdomen." xsd:string [Term] id: UBERON:0001015 name: musculature namespace: uberon def: "A subdivision of the muscular system corresponding to a subdisivision of an organism." [http://en.wikipedia.org/wiki/Muscular_system, https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "muscle group" EXACT [] synonym: "muscle system" RELATED [] synonym: "muscles" RELATED [] synonym: "muscles set" EXACT [] synonym: "musculature" EXACT [] synonym: "musculature system" RELATED [] synonym: "musculi" EXACT LATIN [FMA:32558, FMA:TA] synonym: "set of muscles" EXACT [FMA:32558] synonym: "set of skeletal muscles" EXACT [MA:0000165] xref: AAO:0011066 xref: BTO:0000887 xref: EFO:0001949 xref: EMAPA:32715 xref: EMAPA:35577 xref: FMA:32558 xref: http://linkedlifedata.com/resource/umls/id/C0026845 xref: MA:0000165 xref: Muscular:system xref: NCIT:C13056 xref: OpenCyc:Mx4rvVjmr5wpEbGdrcN5Y29ycA xref: TAO:0000548 xref: UMLS:C0026845 {source="ncithesaurus:Muscle"} xref: VSAO:0005038 xref: WBbt:0005737 xref: ZFA:0000548 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 ! organ system subdivision relationship: composed_primarily_of UBERON:0001630 ! muscle organ relationship: part_of UBERON:0000383 ! musculature of body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e5/Muscles_anterior_labeled.png property_value: external_ontology_notes "In FMA this is classified as a set of organs. ZFA musculature system has subtypes, so it is classified here. WBbt muscular system has subtypes so it goes here. Note that we use the MA term set of skeletal muscles here as it seems most appropriate (*not* MA:musculature). AAO is generally confused here." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001016 name: nervous system namespace: uberon def: "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organism, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." [http://en.wikipedia.org/wiki/Nervous_system, http://uri.neuinfo.org/nif/nifstd/birnlex_844, ISBN:0-14-051288-8, ISBN:3110148986, NLM:nervous+system, WB:rynl, ZFIN:curator] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "nerve net" NARROW [http://en.wikipedia.org/wiki/Nerve_net] synonym: "neurological system" EXACT [GO:0050877] synonym: "systema nervosum" RELATED LATIN [http://en.wikipedia.org/wiki/Nervous_system] xref: AAO:0000324 xref: BILA:0000079 xref: birnlex:844 xref: BTO:0001484 xref: CALOHA:TS-1313 xref: EFO:0000802 xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 xref: FBbt:00005093 xref: FMA:7157 xref: GAID:466 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=3236 xref: http://linkedlifedata.com/resource/umls/id/C0027763 xref: http://www.snomedbrowser.com/Codes/Details/278196006 xref: MA:0000016 xref: MAT:0000026 xref: MESH:D009420 xref: MIAA:0000026 xref: NCIT:C12755 xref: Nervous:system xref: OpenCyc:Mx4rvViT_pwpEbGdrcN5Y29ycA xref: TAO:0000396 xref: UMLS:C0027763 {source="ncithesaurus:Nervous_System"} xref: VHOG:0000402 xref: WBbt:0005735 xref: XAO:0000177 xref: ZFA:0000396 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: develops_from UBERON:0016880 ! future nervous system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: immediate_transformation_of UBERON:0016880 {source="Bgee:AN"} ! future nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png property_value: external_definition "A regulatory system of the body that consists of neurons and neuroglial cells. The nervous system is divided into two parts, the central nervous system (CNS) and the peripheral nervous system (PNS). (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000396", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Anatomical system consisting of nerve bodies and nerve fibers which regulate the response of the body to external and internal stimuli.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000324", ontology="AAO", source="AAO:BJB"} property_value: has_relational_adjective "nervous" xsd:string property_value: has_relational_adjective "neural" xsd:string property_value: homology_notes "Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000402", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.117"} [Term] id: UBERON:0001017 name: central nervous system namespace: uberon def: "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord." [GO:0021551, http://www.frontiersinzoology.com/content/7/1/29, https://sourceforge.net/p/geneontology/ontology-requests/11422/] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cerebrospinal axis" NARROW [FMA:55675] synonym: "CNS" EXACT ABBREVIATION [] synonym: "neuraxis" RELATED [FMA:55675] synonym: "systema nervosum centrale" EXACT LATIN [FMA:55675, FMA:TA] xref: AAO:0000090 xref: BAMS:CNS xref: BILA:0000080 xref: birnlex:1099 xref: BTO:0000227 xref: CALOHA:TS-0150 xref: EFO:0000908 xref: EHDAA2:0000225 xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 xref: FBbt:00005094 xref: FMA:55675 xref: GAID:570 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=854 xref: http://en.wikipedia.org/wiki/Central_nervous_system xref: http://linkedlifedata.com/resource/umls/id/C0927232 xref: http://www.snomedbrowser.com/Codes/Details/278199004 xref: MA:0000167 xref: MAT:0000457 xref: MESH:D002490 xref: NCIT:C12438 xref: OpenCyc:Mx4rvzYt3pwpEbGdrcN5Y29ycA xref: TAO:0000012 xref: UMLS:C0927232 {source="ncithesaurus:Central_Nervous_System"} xref: UMLS:C0927232 {source="NIFSTD:birnlex_1099"} xref: VHOG:0000293 xref: XAO:0000215 xref: ZFA:0000012 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 {source="FBbt", source="cjm"} ! organ system subdivision relationship: develops_from UBERON:0016879 ! future central nervous system relationship: immediate_transformation_of UBERON:0016879 {source="Bgee:AN"} ! future central nervous system relationship: part_of UBERON:0001016 ! nervous system property_value: external_definition "Part of the nervous system which includes the brain and spinal cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000090", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The brain and spinal cord. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000012", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "The central nervous system (CNS) is the part of the nervous system which includes the brain, spinal cord, and nerve cell layer of the retina (CUMBO)." xsd:string {source="NIFSTD:birnlex_1099"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2); Taken together, our data make a very strong case that the complex molecular mediolateral architecture of the developing trunk CNS (central nervous system), as shared between Platynereis and vertebrates, was already present in their last common ancestor, Urbilateria. The concept of bilaterian nervous system centralization implies that neuron types concentrate on one side of the trunk, as is the case in vertebrates and many invertebrates including Platynereis, where they segregate and become spatially organized (as opposed to a diffuse nerve net). Our data reveal that a large part of the spatial organization of the annelid and vertebrate CNS was already present in their last common ancestor, which implies that Urbilateria had already possessed a CNS (reference 3).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000293", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28 (reference 1), ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165 (reference 2), DOI:10.1016/j.cell.2007.02.040 Denes AS, Jekely G, Steinmetz PRH, Raible F, Snyman H, Prud'homme B, Ferrier DEK, Balavoine G and Arendt D, Molecular architecture of annelid nerve cord supports common origin of nervous system centralization in Bilateria. Cell (2007) (reference 3)"} [Term] id: UBERON:0001032 name: sensory system namespace: uberon def: "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." [http://en.wikipedia.org/wiki/Sensory_system] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "organa sensuum" EXACT LATIN [FMA:75259, FMA:TA] synonym: "organa sensuum" RELATED LATIN [http://en.wikipedia.org/wiki/Sensory_system] synonym: "sense organ subsystem" EXACT [] synonym: "sense organs" EXACT [FMA:75259] synonym: "sense organs set" EXACT [FMA:75259] synonym: "sensory organ system" RELATED [] synonym: "sensory subsystem" EXACT [] synonym: "sensory systems" EXACT PLURAL [TAO:0000282] synonym: "set of sense organs" RELATED [FMA:75259] xref: AAO:0000555 xref: BAMS:SEN xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 xref: FBbt:00007692 xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 xref: MIAA:0000031 xref: nlx_anat:090816 xref: Sensory:system xref: TAO:0000282 xref: VHOG:0001674 xref: XAO:0003194 xref: ZFA:0000282 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0004456 ! entire sense organ system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png property_value: external_ontology_notes "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" xsd:string property_value: homology_notes "An early step in the evolution of neural crest, therefore, may have been the origin of a specific dorsal neural cell population contributing to sensory processing; this would predate the divergence of the amphioxus and vertebrate lineages.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001674", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} [Term] id: UBERON:0001041 name: foregut namespace: uberon def: "Anterior subdivision of a digestive tract." [http://orcid.org/0000-0002-6601-2165] subset: developmental_classification subset: pheno_slim subset: uberon_slim synonym: "praeenteron" RELATED LATIN [http://en.wikipedia.org/wiki/Foregut] synonym: "proenteron" RELATED LATIN [http://en.wikipedia.org/wiki/Foregut] xref: AAO:0011042 xref: BILA:0000085 xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 xref: FBbt:00005379 xref: FMA:45616 xref: http://en.wikipedia.org/wiki/Foregut xref: http://linkedlifedata.com/resource/umls/id/C0231051 xref: http://www.snomedbrowser.com/Codes/Details/361409009 xref: MA:0001526 xref: NCIT:C34180 xref: TGMA:0001014 xref: UMLS:C0231051 {source="ncithesaurus:Foregut"} xref: VHOG:0000285 xref: XAO:0000232 is_a: UBERON:0004921 ! subdivision of digestive tract property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9a/Gray27.png property_value: editor_note "Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. In vertebrates the term may refer to a developmental structure" xsd:string property_value: external_definition "The anterior portion of the primitive digestive tube of the embryo that lies cephalic to the junction of the yolk stalk, consists of endodermal tissue, and gives rise to the the pharynx, lower respiratory system, esophagus, stomach, duodenum proximal to the biliary tract, liver, pancreas, biliary tract, and gall bladder." xsd:string {source="MP:0000474"} property_value: homology_notes "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000285", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11"} [Term] id: UBERON:0001042 name: chordate pharynx namespace: uberon def: "A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]." [http://www.feedexp.org] comment: Consider generalizing to deuterostome pharynx subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "pharynx" BROAD SENSU [FMA:46688] xref: AAO:0000967 xref: BTO:0001049 xref: CALOHA:TS-0785 xref: EFO:0000836 xref: EHDAA2:0001458 xref: EHDAA:2947 xref: EMAPA:16706 xref: EV:0100065 xref: FMA:46688 xref: GAID:155 xref: galen:Pharynx xref: http://en.wikipedia.org/wiki/Pharynx xref: http://linkedlifedata.com/resource/umls/id/C0031354 xref: http://www.snomedbrowser.com/Codes/Details/181211006 xref: MA:0000432 xref: MESH:A03.867 xref: NCIT:C12425 xref: OpenCyc:Mx4rvViv7ZwpEbGdrcN5Y29ycA xref: TAO:0000056 xref: UMLS:C0031354 {source="ncithesaurus:Pharynx"} xref: VHOG:0000462 xref: XAO:0003227 xref: ZFA:0000056 is_a: UBERON:0006562 ! pharynx relationship: develops_from UBERON:0009145 {source="EHDAA2"} ! pharyngeal region of foregut relationship: part_of UBERON:0001004 ! respiratory system property_value: axiom_lost_from_external_ontology "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: develops_from respiratory system (UBERON:0001004)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO"} property_value: axiom_lost_from_external_ontology "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: part_of respiratory system (UBERON:0001004)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO"} property_value: external_definition "A funnel-shaped fibromuscular tube that conducts food to the ESOPHAGUS, and air to the LARYNYX and LUNGS. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH:A03.867]." xsd:string {source="MESH:A03.867"} property_value: external_definition "Anatomical cavity bounded by the derivatives of the branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO", source="AAO:EJS"} property_value: external_definition "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000056", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills[ZFA:0000056, ZFIN:ZDB-PUB-961014-576]." xsd:string {source="ZFIN:ZDB-PUB-961014-576"} property_value: external_definition "The portion of the alimentary canal between the mouth and the oesophagus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: external_ontology_notes "MA/FMA pharynx not part of digestive/alimentary system, we are consistent with this scheme" xsd:string {external_ontology="MA"} property_value: homology_notes "(...) the earliest vertebrates possessed unjointed internal and external branchial arches, and musculature encircling the pharynx.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) Box essay 13.1 and Box figure I, p.502-503"} [Term] id: UBERON:0001048 name: primordium namespace: uberon def: "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt, Hartenstein, V. (2004)]." [BTO:0001886, FB:DJS, FB:FBrf0089570, http://flybase.org/reports/FBrf0178740.html] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "bud" RELATED [] synonym: "future organ" RELATED [] synonym: "placode" RELATED [FBbt:00005495] synonym: "primordia" RELATED PLURAL [XAO:0003043] synonym: "rudiment" RELATED [] xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 xref: FBbt:00005495 xref: FMA:86589 xref: http://en.wikipedia.org/wiki/Primordium xref: http://linkedlifedata.com/resource/umls/id/C0678727 xref: MAT:0000482 xref: NCIT:C34275 xref: UMLS:C0678727 {source="ncithesaurus:Primordium"} xref: XAO:0003043 is_a: BFO:0000002 ! continuant is_a: UBERON:0005423 {source="EHDAA2"} ! developing anatomical structure relationship: part_of UBERON:0000468 ! multicellular organism [Term] id: UBERON:0001049 name: neural tube namespace: uberon def: "In the developing vertebrate, the neural tube is the embryo's precursor to the central nervous system, which comprises the brain and spinal cord. The neural groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or neural canal (which strictly speaking is the center of the neural tube), the ectodermal wall of which forms the rudiment of the nervous system. [WP,unvetted]." [http://en.wikipedia.org/wiki/Neural_tube] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "neural primordium" RELATED [] synonym: "presumptive central nervous system" RELATED [] synonym: "tubus neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_tube] xref: AAO:0010617 xref: BTO:0001057 xref: CALOHA:TS-2371 xref: DHBA:10154 xref: EHDAA2:0001254 xref: EHDAA:2869 xref: EHDAA:908 xref: EMAPA:16164 xref: EMAPA:16757 xref: FMA:293882 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1365 xref: http://linkedlifedata.com/resource/umls/id/C0231024 xref: http://www.snomedbrowser.com/Codes/Details/362852000 xref: MAT:0000069 xref: MIAA:0000069 xref: NCIT:C34226 xref: Neural:tube xref: TAO:0001135 xref: UMLS:C0231024 {source="ncithesaurus:Neural_Tube"} xref: VHOG:0000307 xref: XAO:0003204 xref: ZFA:0001135 is_a: UBERON:0003914 {source="EHDAA2"} ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0005068 ! neural rod property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: development_notes "The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium" xsd:string {source="GO:0021915"} property_value: external_definition "Hollow epithelial tube on dorsal side of the embryo that develops into the central nervous system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010617", ontology="AAO", source="AAO:JOR"} property_value: external_definition "The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/neural+tube"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0001062 name: anatomical entity namespace: uberon def: "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." [FMA:62955, http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010841 xref: AEO:0000000 xref: BILA:0000000 xref: birnlex:6 xref: CARO:0000000 xref: EHDAA2:0002229 xref: FBbt:10000000 xref: FBbt_root:00000000 xref: FMA:62955 xref: HAO:0000000 xref: http://linkedlifedata.com/resource/umls/id/C1515976 xref: MA:0000001 xref: NCIT:C12219 xref: TAO:0100000 xref: TGMA:0001822 xref: UMLS:C1515976 {source="ncithesaurus:Anatomic_Structure_System_or_Substance"} xref: WBbt:0000100 xref: XAO:0000000 xref: ZFA:0100000 [Term] id: UBERON:0001068 name: skin of back namespace: uberon def: "A zone of skin that is part of a back [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "back skin" EXACT [] synonym: "back zone of skin" EXACT [OBOL:automatic] synonym: "skin, dorsal region" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "zone of skin of back" EXACT [OBOL:automatic] xref: EMAPA:36392 xref: FMA:10462 xref: FMA:22985 xref: http://www.snomedbrowser.com/Codes/Details/181492002 xref: MA:0000498 is_a: UBERON:0001085 {source="MA"} ! skin of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0011270 {source="MA"} ! dorsal trunk property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001070 name: external carotid artery namespace: uberon def: "A terminal branch of the left or right common carotid artery which supplies oxygenated blood to to the throat, neck glands, tongue, face, mouth, ear, scalp and dura mater of the meninges[MP]" [MGI:anna] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arteria carotis externa" RELATED LATIN [http://en.wikipedia.org/wiki/External_carotid_artery] synonym: "external carotid" EXACT [AAO:0010218] xref: AAO:0010218 xref: AAO:0010416 xref: BTO:0004696 xref: EFO:0001953 xref: EHDAA2:0000461 xref: EMAPA:18611 xref: FMA:10635 xref: GAID:480 xref: http://en.wikipedia.org/wiki/External_carotid_artery xref: http://linkedlifedata.com/resource/umls/id/C0007275 xref: http://www.snomedbrowser.com/Codes/Details/362044002 xref: MA:0001929 xref: MESH:D002342 xref: NCIT:C32551 xref: OpenCyc:Mx4rwVJkPZwpEbGdrcN5Y29ycA xref: UMLS:C0007275 {source="ncithesaurus:External_Carotid_Artery"} xref: VHOG:0000265 xref: XAO:0000345 is_a: BFO:0000040 ! material entity is_a: UBERON:0005396 {source="MA"} ! carotid artery segment is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branching_part_of UBERON:0001530 {source="FMA"} ! common carotid artery plus branches relationship: develops_from UBERON:0001530 {source="EHDAA2"} ! common carotid artery plus branches relationship: part_of UBERON:0001530 {source="FMA"} ! common carotid artery plus branches property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/13/External_carotid_a.gif property_value: seeAlso https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722 xsd:anyURI property_value: taxon_notes "not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO" xsd:string [Term] id: UBERON:0001071 name: superficial cervical artery namespace: uberon def: "It ascends beneath the anterior margin of the trapezius, distributing branches to it, and to the neighboring muscles and lymph glands in the neck, and anastomosing with the superficial branch of the descending branch of the occipital artery." [http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery] comment: The transverse cervical artery splits into two branches, a superficial one and a deep one[WP] subset: uberon_slim synonym: "superficial branch of transverse cervical artery" EXACT [http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery] xref: EMAPA:37117 {source="MA:th"} xref: FMA:10665 xref: http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery xref: http://linkedlifedata.com/resource/umls/id/C0226271 xref: http://www.snomedbrowser.com/Codes/Details/161746006 xref: MA:0002052 xref: NCIT:C53005 xref: UMLS:C0226271 {source="ncithesaurus:Superficial_Cervical_Artery"} is_a: UBERON:0012320 ! cervical artery intersection_of: UBERON:0012320 ! cervical artery intersection_of: part_of UBERON:0035549 ! vasculature of integument relationship: part_of UBERON:0035549 ! vasculature of integument [Term] id: UBERON:0001084 name: skin of head namespace: uberon def: "A zone of skin that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head zone of skin" EXACT [OBOL:automatic] synonym: "head skin" EXACT [] synonym: "head zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of adult head" EXACT [OBOL:automatic] synonym: "zone of skin of head" EXACT [OBOL:automatic] xref: FMA:12166 xref: FMA:24756 xref: http://linkedlifedata.com/resource/umls/id/C0205029 xref: http://www.snomedbrowser.com/Codes/Details/181484006 xref: MA:0000582 xref: NCIT:C52757 xref: UMLS:C0205029 {source="ncithesaurus:Head_Skin"} is_a: UBERON:0012180 ! head or neck skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001085 name: skin of trunk namespace: uberon def: "A zone of skin that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "torso zone of skin" EXACT [OBOL:automatic] synonym: "trunk skin" EXACT [] synonym: "trunk zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of torso" EXACT [OBOL:automatic] synonym: "zone of skin of trunk" EXACT [OBOL:automatic] xref: EMAPA:37278 {source="MA:th"} xref: FMA:12167 xref: FMA:23093 xref: http://linkedlifedata.com/resource/umls/id/C0205031 xref: http://www.snomedbrowser.com/Codes/Details/181489001 xref: MA:0000517 xref: NCIT:C12295 xref: UMLS:C0205031 {source="ncithesaurus:Skin_of_the_Trunk"} is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001090 name: synovial fluid namespace: uberon def: "Joint fluid is a transudate of plasma that is actively secreted by synovial cells." [https://www.ncbi.nlm.nih.gov/books/NBK274/] subset: uberon_slim subset: vertebrate_core synonym: "joint fluid" EXACT [https://www.ncbi.nlm.nih.gov/books/NBK274/] xref: BTO:0001339 xref: CALOHA:TS-0996 xref: ENVO:02000039 xref: FMA:12277 xref: GAID:265 xref: galen:SynovialFluid xref: http://linkedlifedata.com/resource/umls/id/C0039097 xref: MA:0002544 xref: MESH:D013582 xref: NCIT:C33718 xref: Synovial:fluid xref: TAO:0005154 xref: UMLS:C0039097 {source="ncithesaurus:Synovial_Fluid"} xref: ZFA:0005154 is_a: UBERON:0007779 ! transudate is_a: UBERON:0007794 {source="FMA"} ! secretion of serous gland relationship: located_in UBERON:0007617 ! synovial cavity of joint property_value: external_definition "Portion of organism substance that is a clear fluid that occupies the space in synovial joints.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005154", ontology="TAO", source="ZFIN:curator"} property_value: function_notes "It provides nutrients and lubrication for articular cartilage" xsd:string property_value: structure_notes "The fluid contains hyaluronan secreted by fibroblast-like cells in the synovial membrane, lubricin (proteoglycan 4; PRG4) secreted by the surface chondrocytes of the articular cartilage and interstitial fluid filtered from the blood plasma" xsd:string [Term] id: UBERON:0001135 name: smooth muscle tissue namespace: uberon def: "Muscle tissue which is unstriated, composed primarily of smooth muscle fibers surrounded by a reticulum of collagen and elastic fibers. Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length[GO]." [GO:0006939, http://en.wikipedia.org/wiki/Smooth_muscle_tissue] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "involuntary muscle" EXACT [] synonym: "non-striated muscle" EXACT [] synonym: "smooth muscle" EXACT [] synonym: "textus muscularis levis; textus muscularis nonstriatus" RELATED LATIN [http://en.wikipedia.org/wiki/Smooth_muscle_tissue] synonym: "textus muscularis nonstriatus" EXACT LATIN [FMA:14070, FMA:TA] synonym: "visceral muscle" NARROW SENSU [] synonym: "visceral muscle tissue" NARROW SENSU [] xref: AAO:0010244 xref: AEO:0000141 xref: BTO:0001260 xref: CALOHA:TS-0943 xref: EFO:0000889 xref: EHDAA2:0003141 xref: EMAPA:32717 xref: EV:0100378 xref: FBbt:00003525 xref: FMA:14070 xref: GAID:167 xref: galen:SmoothMuscle xref: galen:SmoothMuscleTissue xref: http://en.wikipedia.org/wiki/Smooth_muscle_tissue xref: http://linkedlifedata.com/resource/umls/id/C1267092 xref: MA:0000166 xref: MAT:0000303 xref: MESH:D009130 xref: MIAA:0000303 xref: NCIT:C12437 xref: OpenCyc:Mx4rvvSS3pwpEbGdrcN5Y29ycA xref: TAO:0005274 xref: UMLS:C1267092 {source="ncithesaurus:Smooth_Muscle_Tissue"} xref: VHOG:0001246 xref: WBbt:0005781 xref: XAO:0000175 xref: ZFA:0005274 is_a: UBERON:0002385 ! muscle tissue property_value: depicted:by Glatte:Muskelzellen.jpg property_value: external_definition "A non-striated muscle that is composed of spindle-shaped cells. Smooth muscle usually is organized into sheets that line cavitated organs.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005274", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Involuntary muscle tissue consisting of uninucleate spindle-shaped fibers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010244", ontology="AAO", source="AAO:CAM"} property_value: homology_notes "(...) the first bilateral animals possessed only smooth muscles with the molecular repertoire necessary to build a striated muscle. (...) it is more parsimonious to regard striated muscle cells as a sister cell type to the smooth muscle cells. In this scenario, striated and smooth muscles would have arisen in the stem lineage that led to the Nephrozoa (i.e. all Bilateria exclusive the acoelomorphs) (Hejnol et al., 2009), from an 'acoel-like' smooth muscle, by segregation and divergence of functions and through differential recruitment of additional genes[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001246", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jez.b.21416 Chiodin M, Achatz JG, Wanninger A, Martinez P, Molecular architecture of muscles in an acoel and its evolutionary implications. Journal of Experimental Zoology (2011)"} property_value: terminology_notes "GO uses visceral and smooth interchangeably. However visceral can also be used in the sense of the viscera. Many fly annotations to smooth muscle terms. If we want to be inclusive of insects have to have a general definition of tissue that includes cells." xsd:string [Term] id: UBERON:0001136 name: mesothelium namespace: uberon def: "Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. http://en.wikipedia.org/wiki/ The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri)." [FMA:14074, http://en.wikipedia.org/wiki/Mesothelium] subset: uberon_slim xref: AEO:0000111 xref: BTO:0002422 xref: CALOHA:TS-1183 xref: EHDAA2_RETIRED:0003111 xref: EHDAA:2331 xref: EHDAA:2349 xref: EHDAA:295 xref: EHDAA:6073 xref: EHDAA:640 xref: EHDAA:646 xref: EMAPA:32856 xref: FMA:14074 xref: http://en.wikipedia.org/wiki/Mesothelium xref: http://linkedlifedata.com/resource/umls/id/C0086610 xref: http://www.snomedbrowser.com/Codes/Details/361918002 xref: MA:0000565 xref: NCIT:C33105 xref: UMLS:C0086610 {source="ncithesaurus:Mesothelium"} is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000487 ! simple squamous epithelium intersection_of: develops_from UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0000042 ! serous membrane relationship: part_of UBERON:0000042 ! serous membrane property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg [Term] id: UBERON:0001137 name: dorsum namespace: uberon def: "A major subdivision of an organism that is the entire part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane. In vertebrares this includes the vertebral column.." [BSPO:0000063, http://en.wikipedia.org/wiki/Dorsum_(anatomy), UBERONREF:0000006] subset: efo_slim subset: uberon_slim synonym: "back" EXACT [FMA:14181] synonym: "back of body proper" EXACT [FMA:14181] synonym: "dorsal part of organism" EXACT [] xref: BTO:0001713 xref: CALOHA:TS-2223 xref: Dorsum:(anatomy) xref: EFO:0001405 xref: FMA:14181 xref: GAID:30 xref: galen:Back xref: http://linkedlifedata.com/resource/umls/id/C0004600 xref: http://www.snomedbrowser.com/Codes/Details/123961009 xref: MESH:A01.176 xref: NCIT:C13062 xref: OpenCyc:Mx4rvVkEU5wpEbGdrcN5Y29ycA xref: UMLS:C0004600 {source="ncithesaurus:Back"} is_a: UBERON:0000475 ! organism subdivision property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/432px-Gray-back.PNG property_value: has_relational_adjective "dorsal" xsd:string property_value: taxon_notes "In humans, called the back, a large posterior area of the human body, rising from the top of the buttocks to the back of the neck and the shoulders. It is the surface opposite to the chest, its height being defined by the vertebral column (commonly referred to as the spine or backbone) and its breadth being supported by the ribcage and shoulders. The spinal canal runs through the spine and provides nerves to the rest of the body" xsd:string [Term] id: UBERON:0001417 name: skin of neck namespace: uberon def: "A zone of skin that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "neck (volume) zone of skin" EXACT [OBOL:automatic] synonym: "neck skin" EXACT [] synonym: "neck zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of neck" EXACT [OBOL:automatic] synonym: "zone of skin of neck (volume)" EXACT [OBOL:automatic] xref: EMAPA:37277 {source="MA:th"} xref: FMA:23021 xref: FMA:23022 xref: http://linkedlifedata.com/resource/umls/id/C0205030 xref: http://www.snomedbrowser.com/Codes/Details/361705004 xref: MA:0000590 xref: NCIT:C52756 xref: UMLS:C0205030 {source="ncithesaurus:Neck_Skin"} is_a: UBERON:0012180 ! head or neck skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0001418 name: skin of thorax namespace: uberon def: "A zone of skin that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "thoracic skin" EXACT [] synonym: "thorax skin" EXACT [] synonym: "thorax zone of skin" EXACT [OBOL:automatic] synonym: "upper body skin" RELATED [] synonym: "zone of skin of thorax" EXACT [OBOL:automatic] xref: EMAPA:37765 {source="MA:th"} xref: FMA:23028 xref: FMA:23029 xref: http://www.snomedbrowser.com/Codes/Details/281723000 xref: MA:0000564 is_a: UBERON:0001085 ! skin of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0001434 name: skeletal system namespace: uberon def: "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000027] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "set of all bones and joints" NARROW SENSU [] synonym: "skeleton system" EXACT [] synonym: "Skelettsystem" RELATED [BTO:0001486] xref: AAO:0000566 xref: BTO:0001486 xref: CALOHA:TS-1320 xref: EFO:0000806 xref: EHDAA2:0003168 xref: EMAPA:35773 xref: FMA:23881 xref: http://linkedlifedata.com/resource/umls/id/C0037253 xref: MA:0000018 xref: NCIT:C12788 xref: OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA xref: TAO:0000434 xref: UMLS:C0037253 {source="ncithesaurus:Skeletal_System"} xref: VHOG:0001254 xref: VSAO:0000027 xref: XAO:0003060 xref: ZFA:0000434 is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: has_part UBERON:0004288 ! skeleton intersection_of: has_part UBERON:0004770 ! articular system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0004288 ! skeleton relationship: has_part UBERON:0004770 ! articular system relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: external_definition "Anatomical system consisting of multiple elements and tissues that provides physical support.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000434", ontology="TAO", source="TAO:wd"} property_value: external_definition "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000027", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: external_definition "System that provides physical support to the organism.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000566", ontology="AAO", source="AAO:LAP"} property_value: external_ontology_notes "GO defines skeletal system very generically: The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton) GO:0001501; however, all annotations are to vertebrates" xsd:string {external_ontology="GO"} property_value: has_relational_adjective "skeletal" xsd:string property_value: homology_notes "By taking a holistic approach, integration of the evidence from molecular and developmental features of model organisms, the phylogenetic distribution in the 'new animal phylogeny' and the earliest fossilized remains of mineralized animal skeletons suggests independent origins of the skeleton at the phylum level.[debated][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001254", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1159/000324245 Donoghue PCJ, Sansom IJ, Origin and early evolution of vertebrate skeletonization. Microscopy research and technique (2002)"} property_value: seeAlso https://github.com/obophenotype/uberon/wiki/The-skeletal-system xsd:anyURI [Term] id: UBERON:0001444 name: subdivision of head namespace: uberon subset: non_informative synonym: "head region" RELATED [] synonym: "head subdivision" EXACT [] synonym: "region of head" RELATED [] xref: FMA:24218 xref: http://www.snomedbrowser.com/Codes/Details/123852005 xref: XAO:0000040 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0001456 name: face namespace: uberon def: "A subdivision of the head that has as parts the layers deep to the surface of the anterior surface, including the mouth, eyes, and nose (when present). In vertebrates, this includes the facial skeleton and structures superficial to the facial skeleton (cheeks, mouth, eyeballs, skin of face, etc)." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "facia/facies" RELATED LATIN [http://en.wikipedia.org/wiki/Face] synonym: "visage" RELATED [BTO:0003369] xref: BTO:0003369 xref: CALOHA:TS-2216 xref: EMAPA:32763 xref: FMA:24728 xref: GAID:64 xref: galen:Face xref: HAO:0000316 xref: http://en.wikipedia.org/wiki/Face xref: http://linkedlifedata.com/resource/umls/id/C0015450 xref: http://www.snomedbrowser.com/Codes/Details/302549007 xref: MA:0002473 xref: MESH:D005145 xref: NCIT:C13071 xref: OpenCyc:Mx4rvVi5GZwpEbGdrcN5Y29ycA xref: UMLS:C0015450 {source="ncithesaurus:Face"} is_a: UBERON:0001444 ! subdivision of head relationship: contributes_to_morphology_of UBERON:0000033 ! head relationship: has_part UBERON:0000165 ! mouth property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/55/Mona_Lisa_headcrop.jpg property_value: development_notes "The face develops from outward growth of tissue located rostral to the cranium & pharynx. The lower jaw and most of the upper jaw are formed by growth of the first pharyngeal (branchial) arch. The upper incisor region and the nose and forehead (frontal region) are formed from tissue located rostral to the neural tube (frontonasal prominence)" xsd:string {source="vanat.cvm.umn.edu/TFFlectPDFs/LectFaceDevelop.pdf"} property_value: external_definition "Subdivision of head which consists of the viscerocranium and all layers superficial to it. Examples: There is only one face." xsd:string {source="FMA:24728"} property_value: external_definition "The area that extends from the median ocellus to the oral foramen[HAO]." xsd:string {source="http://api.hymao.org/api/ref/67791", source="HAO:0000316", taxon="NCBITaxon:7399"} property_value: has_relational_adjective "facial" xsd:string [Term] id: UBERON:0001458 name: skin of lip namespace: uberon def: "A zone of skin that is part of a lip [Automatically generated definition]." [OBOL:automatic] synonym: "lip skin" EXACT [] synonym: "lip zone of skin" EXACT [OBOL:automatic] synonym: "skin of lips" RELATED PLURAL [] synonym: "zone of skin of lip" EXACT [OBOL:automatic] xref: EMAPA:37643 {source="MA:th"} xref: FMA:24764 xref: http://linkedlifedata.com/resource/umls/id/C0222101 xref: http://www.snomedbrowser.com/Codes/Details/244092005 xref: MA:0001579 xref: NCIT:C12291 xref: UMLS:C0222101 {source="ncithesaurus:Skin_of_the_Lip"} is_a: UBERON:0001084 ! skin of head intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip [Term] id: UBERON:0001484 name: articular capsule namespace: uberon def: "An articular capsule (or joint capsule) is an envelope surrounding a synovial joint. [WP,unvetted]." [http://en.wikipedia.org/wiki/Articular_capsule] subset: organ_slim subset: uberon_slim synonym: "capsula articularis" EXACT LATIN [FMA:34836, FMA:TA] synonym: "capsulae articulares" RELATED LATIN [http://en.wikipedia.org/wiki/Articular_capsule] synonym: "fibrous capsule of joint" EXACT [] synonym: "joint capsule" EXACT [] synonym: "joint fibrous capsule" EXACT [] xref: Articular:capsule xref: EMAPA:37621 {source="MA:th"} xref: FMA:34836 xref: GAID:263 xref: galen:JointCapsule xref: http://linkedlifedata.com/resource/umls/id/C0206207 xref: http://www.snomedbrowser.com/Codes/Details/182238002 xref: MA:0001519 xref: MESH:D017746 xref: NCIT:C32259 xref: NCIT:C84388 xref: UMLS:C0206207 {source="ncithesaurus:Joint_Capsule"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000094 ! membrane organ intersection_of: UBERON:0000094 ! membrane organ intersection_of: has_part UBERON:0007616 ! layer of synovial tissue intersection_of: surrounds UBERON:0002217 ! synovial joint relationship: has_part UBERON:0007616 ! layer of synovial tissue relationship: surrounds UBERON:0002217 ! synovial joint property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/19/Joint.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4a/Gray299.png property_value: external_ontology_notes "check ncita" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0001530 name: common carotid artery plus branches namespace: uberon def: "A bilaterally paired branched artery that originates from the aortic arches and divides into and includes as parts the internal and external carotid arteries[cjm]." [http://en.wikipedia.org/wiki/Common_carotid_artery] subset: pheno_slim subset: uberon_slim synonym: "a. carotis communis" RELATED LATIN [http://en.wikipedia.org/wiki/Common_carotid_artery] synonym: "carotid artery" BROAD [FMA:3939] synonym: "carotid artery system" EXACT [EHDAA2:0000217] synonym: "common carotid artery" EXACT INCONSISTENT [FMA:3939] synonym: "trunk of common carotid tree" EXACT [FMA:3939] xref: CALOHA:TS-0116 xref: EHDAA2:0000217 xref: EHDAA:7331 xref: EMAPA:17855 xref: FMA:3939 xref: GAID:479 xref: http://en.wikipedia.org/wiki/Common_carotid_artery xref: http://linkedlifedata.com/resource/umls/id/C0162859 xref: http://www.snomedbrowser.com/Codes/Details/362041005 xref: MA:0001926 xref: MESH:D017536 xref: NCIT:C32352 xref: UMLS:C0162859 {source="ncithesaurus:Common_Carotid_Artery"} xref: VHOG:0000272 is_a: UBERON:0004573 {source="FMA"} ! systemic artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0004363 {source="Wikipedia"} ! pharyngeal arch artery relationship: existence_starts_during UBERON:0000068 ! embryo stage property_value: curator_notes "This class represents the adult and developing structures'" xsd:string property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg property_value: development_notes "in birds and reptiles, develops from arch III and parts of ventral and dorsal aortae" xsd:string property_value: editor_note "we follow the FMA and treat the artery as a tree-structure - here we include the internal and external as parts. For the part that excludes the branches, see 'trunk of common carotid artery'" xsd:string [Term] id: UBERON:0001555 name: digestive tract namespace: uberon def: "A tube extending from the mouth to the anus." [http://en.wikipedia.org/wiki/Talk\:Human_gastrointestinal_tract, http://sourceforge.net/tracker/?func=detail&atid=440764&aid=2991587&group_id=36855] subset: uberon_slim subset: vertebrate_core synonym: "alimentary canal" NARROW [] synonym: "alimentary tract" NARROW [] synonym: "digestive canal" RELATED [BTO:0000058] synonym: "digestive tube" EXACT [] synonym: "enteric tract" EXACT [ZFA:0000112] synonym: "gut" BROAD [] synonym: "gut tube" RELATED [] xref: AAO:0010023 xref: BILA:0000083 xref: BTO:0000511 xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 xref: FBbt:00003125 xref: FMA:45615 xref: galen:AlimentaryTract xref: http://linkedlifedata.com/resource/umls/id/C0017189 xref: MA:0000917 xref: NCIT:C34082 xref: OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA xref: TAO:0000112 xref: TGMA:0001819 xref: UMLS:C0017189 {source="ncithesaurus:Gastrointestinal_Tract"} xref: VHOG:0000309 xref: WBbt:0005743 xref: ZFA:0000112 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000025 ! tube relationship: connects UBERON:0000165 ! mouth relationship: develops_from UBERON:0007026 ! presumptive gut relationship: immediate_transformation_of UBERON:0007026 {source="NCBIBook:NBK10107"} ! presumptive gut relationship: part_of UBERON:0001007 ! digestive system property_value: external_definition "The alimentary or digestive tract, and associated organs.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000112", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "FMA also has a term 'gastrointestinal tract', but this includes the liver." xsd:string {external_ontology="FMA"} property_value: external_ontology_notes "we place the MA and EMAPA class here, although the intent is probably a smaller region. See https://github.com/obophenotype/uberon/issues/509" xsd:string {external_ontology="MA"} property_value: homology_notes "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000309", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11"} property_value: terminology_notes "we following Kardong in naming the entire tube from mouth to anus the alimentary canal. Kardong calls the portion of this tract that excludes buccal cavity and pharynx the 'alimentary canal', consider adding an extra class for this" xsd:string [Term] id: UBERON:0001558 name: lower respiratory tract namespace: uberon def: "The segment of the respiratory tract that starts proximally with the trachea and includes all distal structures including the lungs[WP,modified]" [http://en.wikipedia.org/wiki/Lower_respiratory_tract, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "lower respiratory system" EXACT [] xref: EHDAA2:0001036 xref: EMAPA:16738 xref: FMA:45662 xref: http://en.wikipedia.org/wiki/Lower_respiratory_tract xref: http://www.snomedbrowser.com/Codes/Details/281488008 xref: MA:0000435 xref: OpenCyc:Mx4rQRqjUgAKEdyHxgDggVfs8g xref: VHOG:0000382 is_a: UBERON:0000072 ! proximo-distal subdivision of respiratory tract relationship: has_part UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c3/Illu_conducting_passages.jpg [Term] id: UBERON:0001586 name: internal jugular vein namespace: uberon def: "One of two jugular veins that collect the blood from the brain, the superficial parts of the face, and the neck. [WP,unvetted]." [http://en.wikipedia.org/wiki/Internal_jugular_vein] subset: uberon_slim synonym: "internal jugular" EXACT [EHDAA2:0000877] synonym: "internal jugular venous tree" EXACT [] synonym: "vena jugularis interna" RELATED LATIN [http://en.wikipedia.org/wiki/Internal_jugular_vein] xref: AAO:0010236 xref: EHDAA2:0000877 xref: EHDAA:5407 xref: EMAPA:17620 xref: FMA:4724 xref: galen:InternalJugularVein xref: http://en.wikipedia.org/wiki/Internal_jugular_vein xref: http://linkedlifedata.com/resource/umls/id/C0226550 xref: http://www.snomedbrowser.com/Codes/Details/181372005 xref: MA:0002157 xref: NCIT:C32849 xref: OpenCyc:Mx4rvqdb95wpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0000878 xref: UMLS:C0226550 {source="ncithesaurus:Internal_Jugular_Vein"} xref: XAO:0000382 is_a: UBERON:0004711 ! jugular vein relationship: drains UBERON:0000955 ! brain relationship: drains UBERON:0001456 ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e9/Gray562.png property_value: external_definition "Vein which receives many veins draining the palate, brain, and the orbital, nasal, and auditory regions.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010236", ontology="AAO", source="AAO:BJB"} [Term] id: UBERON:0001605 name: ciliary muscle namespace: uberon def: "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]." [http://en.wikipedia.org/wiki/Ciliary_muscle] subset: pheno_slim subset: uberon_slim synonym: "Bowman`s muscles" RELATED [BTO:0000654] synonym: "ciliaris" RELATED [http://en.wikipedia.org/wiki/Ciliary_muscle] synonym: "musculus ciliaris" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_muscle] synonym: "musculus ciliarus" EXACT [BTO:0000654] xref: BTO:0000654 xref: Ciliary:muscle xref: EMAPA:35240 xref: FMA:49151 xref: http://linkedlifedata.com/resource/umls/id/C0559230 xref: http://www.snomedbrowser.com/Codes/Details/280862009 xref: MA:0001269 xref: NCIT:C32315 xref: UMLS:C0559230 {source="ncithesaurus:Ciliary_Muscle"} is_a: UBERON:0003386 {source="MA"} ! smooth muscle of eye is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011222 {source="FMA"} ! intra-ocular muscle relationship: part_of UBERON:0001775 {source="FMA"} ! ciliary body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png [Term] id: UBERON:0001606 name: muscle of iris namespace: uberon def: "." [http://en.wikipedia.org/wiki/Iris_muscle] subset: uberon_slim synonym: "iris muscle" EXACT [] synonym: "iris muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of iris" EXACT [OBOL:automatic] xref: EMAPA:35448 xref: FMA:49154 xref: http://www.snomedbrowser.com/Codes/Details/280888007 xref: Iris:muscle xref: MA:0001287 is_a: UBERON:0011222 {source="FMA"} ! intra-ocular muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 ! iris property_value: editor_note "revisit this, see issue #331" xsd:string property_value: taxon_notes "in aves, stromal mesenchymal cells may migrate to the iris and become skeletal" xsd:string property_value: taxon_notes "The muscle cells of the iris are smooth muscle in mammals and amphibians, but are striated muscle in birds and reptiles. Many fish have neither, and, as a result, their irides are unable to dilate and contract, so that the pupil always remains of a fixed size[Romer, via WP]" xsd:string [Term] id: UBERON:0001612 name: facial artery namespace: uberon def: "A branch of the external carotid artery that supplies structures of the face. [WP,unvetted]." [http://en.wikipedia.org/wiki/Facial_artery] subset: uberon_slim synonym: "arteria maxillaris externa" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_artery] synonym: "external maxillary artery" RELATED [] xref: EMAPA:19213 xref: Facial:artery xref: FMA:49549 xref: http://linkedlifedata.com/resource/umls/id/C0226109 xref: http://www.snomedbrowser.com/Codes/Details/181328007 xref: MA:0001950 xref: NCIT:C32578 xref: OpenCyc:Mx4rwCt95ZwpEbGdrcN5Y29ycA xref: UMLS:C0226109 {source="ncithesaurus:Facial_Artery"} is_a: UBERON:0035398 ! branch of external carotid artery intersection_of: UBERON:0001637 ! artery intersection_of: branching_part_of UBERON:0001070 ! external carotid artery intersection_of: supplies UBERON:0001456 ! face relationship: supplies UBERON:0001456 ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7b/Gray508.png [Term] id: UBERON:0001616 name: maxillary artery namespace: uberon def: "An artery that supplies deep structures of the face. It comes just out behind the neck of the mandible. [WP,unvetted]." [http://en.wikipedia.org/wiki/Maxillary_artery] subset: uberon_slim synonym: "arteria maxillaris" RELATED LATIN [http://en.wikipedia.org/wiki/Maxillary_artery] synonym: "internal maxillary artery" RELATED [] xref: EHDAA2:0001069 xref: EHDAA:7357 xref: EMAPA:17311 xref: FMA:49675 xref: GAID:498 xref: http://linkedlifedata.com/resource/umls/id/C0024949 xref: http://www.snomedbrowser.com/Codes/Details/181326006 xref: MA:0001919 xref: Maxillary:artery xref: MESH:D008438 xref: NCIT:C34205 xref: OpenCyc:Mx4rwDDJ45wpEbGdrcN5Y29ycA xref: UMLS:C0024949 {source="ncithesaurus:Maxillary_Artery"} is_a: UBERON:0001637 ! artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: directly_develops_from UBERON:0003118 ! pharyngeal arch artery 1 relationship: develops_from UBERON:0003118 ! pharyngeal arch artery 1 relationship: directly_develops_from UBERON:0003118 ! pharyngeal arch artery 1 property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/39/Gray510.png property_value: development_notes "...1st pair undergoes partial regression, the remnants of which becomes part of the maxillary arteries" xsd:string {source="Vascular:Devt.html"} [Term] id: UBERON:0001630 name: muscle organ namespace: uberon def: "Organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work[GO]." [GO:0007517] subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "muscle" BROAD [ZFA:0005145] xref: AAO:0011066 xref: EMAPA:32715 xref: EMAPA:37474 {source="MA:th"} xref: EV:0100146 xref: FMA:5022 xref: GAID:131 xref: galen:Muscle xref: http://www.snomedbrowser.com/Codes/Details/71616004 xref: MA:0000015 xref: OpenCyc:Mx4rv2kf-5wpEbGdrcN5Y29ycA xref: TAO:0005145 xref: VHOG:0001245 xref: XAO:0000172 xref: ZFA:0005145 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000062 ! organ is_a: UBERON:0005090 ! muscle structure intersection_of: UBERON:0000062 ! organ intersection_of: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: part_of UBERON:0001015 ! musculature property_value: external_definition "Portion of tissue composed of contractile fibers.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005145", ontology="TAO", source="ZFIN:curator"} property_value: has_relational_adjective "muscular" xsd:string property_value: homology_notes "It seems clear that the metazoan ancestor inherited from its unicellular descendants an actin cytoskeleton and motor-proteins of the myosin superfamily. Within metazoans, these two molecules were arranged into effective contractile units, the muscles. The basic trends for muscle evolution are already expressed in the diploblastic taxa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001245", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.75"} [Term] id: UBERON:0001637 name: artery namespace: uberon def: "An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]." [AEO:JB] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arterial subtree" EXACT [] synonym: "arterial system" RELATED [] synonym: "arterial tree organ part" EXACT [] synonym: "arterial vessel" RELATED [] synonym: "arteries" EXACT PLURAL [TAO:0000005] xref: AAO:0010211 xref: AEO:0000208 xref: BTO:0000573 xref: CALOHA:TS-0054 xref: EFO:0000814 xref: EHDAA2:0000143 xref: EHDAA2:0003253 xref: EMAPA:35147 xref: EV:0100026 xref: FMA:50720 xref: GAID:468 xref: galen:Artery xref: http://en.wikipedia.org/wiki/Artery xref: http://linkedlifedata.com/resource/umls/id/C0003842 xref: http://www.snomedbrowser.com/Codes/Details/362877004 xref: MA:0000064 xref: MAT:0000034 xref: MESH:D001158 xref: MIAA:0000034 xref: NCIT:C12372 xref: OpenCyc:Mx4rvVjknZwpEbGdrcN5Y29ycA xref: TAO:0000005 xref: UMLS:C0003842 {source="ncithesaurus:Artery"} xref: VHOG:0001251 xref: XAO:0000114 xref: ZFA:0000005 is_a: UBERON:0003509 ! arterial blood vessel relationship: channels_from UBERON:0000948 ! heart relationship: fma_set_term FMA:63812 property_value: editor_note "Note that in FMA an artery is a tree, whereas AEO/JB defines it as a tube; FMA includes a separate class for what it calls the trunk. Classification in this ontology may currently (Jan 2012) represent a mix of both schemes, although we are gradually revising in the direction of the AEO scheme." xsd:string property_value: external_definition "Part of the circulatory system composed of blood vessels which carry oxygenated blood away from the heart to the rest of the body.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010211", ontology="AAO", source="AAO:BJB"} property_value: has_relational_adjective "arterial" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001251", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} [Term] id: UBERON:0001638 name: vein namespace: uberon def: "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." [http://en.wikipedia.org/wiki/Vein] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "vascular element" RELATED [EMAPA:th] synonym: "vena" RELATED LATIN [http://en.wikipedia.org/wiki/Vein] synonym: "venae" RELATED PLURAL [VHOG:0001743] synonym: "venous subtree" BROAD [] synonym: "venous tree organ part" EXACT [] synonym: "venous vessel" BROAD [] xref: AAO:0010212 xref: AEO:0000209 xref: BTO:0000234 xref: CALOHA:TS-1108 xref: EFO:0000816 xref: EHDAA2:0003254 xref: EMAPA:35906 xref: EV:0100031 xref: FMA:50723 xref: GAID:492 xref: galen:Vein xref: http://en.wikipedia.org/wiki/Vein xref: http://linkedlifedata.com/resource/umls/id/C0042449 xref: http://www.snomedbrowser.com/Codes/Details/181367001 xref: MA:0000067 xref: MAT:0000037 xref: MESH:D014680 xref: MIAA:0000037 xref: NCIT:C12814 xref: OpenCyc:Mx4rvVjkWpwpEbGdrcN5Y29ycA xref: TAO:0000082 xref: UMLS:C0042449 {source="ncithesaurus:Vein"} xref: VHOG:0001743 xref: XAO:0000115 xref: ZFA:0000082 is_a: UBERON:0003920 ! venous blood vessel intersection_of: UBERON:0003920 ! venous blood vessel intersection_of: channel_for UBERON:0013756 ! venous blood relationship: channel_for UBERON:0013756 ! venous blood relationship: channels_from UBERON:0001982 ! capillary relationship: fma_set_term FMA:63814 property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c2/Venous_system_en.svg property_value: editor_note "TODO - check with MA - vein vs venous blood vessel" xsd:string property_value: external_definition "Part of the circulatory system composed of blood vessels which carry blood from other organs, tissues, and cells to the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010212", ontology="AAO", source="AAO:BJB"} property_value: has_relational_adjective "venous" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001743", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} [Term] id: UBERON:0001651 name: right pulmonary artery namespace: uberon def: "The pulmonary artery that supplies the right lung." [UBERON:cjm] subset: uberon_slim synonym: "arteria pulmonalis dextra" RELATED LATIN [http://en.wikipedia.org/wiki/Right_pulmonary_artery] synonym: "right main pulmonary artery" EXACT [] synonym: "right pulmonary arterial tree" EXACT [] xref: EMAPA:37378 {source="MA:th"} xref: FMA:50872 xref: galen:RightPulmonaryArtery xref: http://en.wikipedia.org/wiki/Right_pulmonary_artery xref: http://linkedlifedata.com/resource/umls/id/C0923924 xref: http://www.snomedbrowser.com/Codes/Details/244235003 xref: MA:0002500 xref: NCIT:C33489 xref: UMLS:C0923924 {source="ncithesaurus:Right_Pulmonary_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002167 ! right lung relationship: supplies UBERON:0002167 ! right lung property_value: depicted:by Alveoli:diagram.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png property_value: editor_note "TODO - add class 'pulmonary artery tree organ'" xsd:string [Term] id: UBERON:0001652 name: left pulmonary artery namespace: uberon def: "The pulmonary artery that supplies the left lung." [UBERON:cjm] subset: uberon_slim synonym: "arteria pulmonalis sinistra" RELATED LATIN [http://en.wikipedia.org/wiki/Left_pulmonary_artery] synonym: "left main pulmonary artery" EXACT [] synonym: "left pulmonary arterial tree" EXACT [] xref: EMAPA:37097 {source="MA:th"} xref: FMA:50873 xref: galen:LeftPulmonaryArtery xref: http://en.wikipedia.org/wiki/Left_pulmonary_artery xref: http://linkedlifedata.com/resource/umls/id/C0923925 xref: http://www.snomedbrowser.com/Codes/Details/244234004 xref: MA:0002032 xref: NCIT:C32971 xref: UMLS:C0923925 {source="ncithesaurus:Left_Pulmonary_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002168 ! left lung relationship: supplies UBERON:0002168 ! left lung property_value: depicted:by Alveoli:diagram.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png property_value: editor_note "TODO - add class 'pulmonary artery tree organ'" xsd:string [Term] id: UBERON:0001653 name: facial vein namespace: uberon def: "The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]." [http://en.wikipedia.org/wiki/Facial_vein] subset: uberon_slim synonym: "anterior facial vein" RELATED INCONSISTENT [http://en.wikipedia.org/wiki/Facial_vein] synonym: "face vein" EXACT [OBOL:automatic] synonym: "vein of face" EXACT [OBOL:automatic] synonym: "vena facialis anterior" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_vein] xref: AAO:0010513 xref: EMAPA:19220 xref: Facial:vein xref: FMA:50874 xref: http://linkedlifedata.com/resource/umls/id/C0226532 xref: http://www.snomedbrowser.com/Codes/Details/181374006 xref: MA:0002115 xref: NCIT:C32579 xref: OpenCyc:Mx4rvziz3JwpEbGdrcN5Y29ycA xref: UMLS:C0226532 {source="ncithesaurus:Facial_Vein"} is_a: BFO:0000040 ! material entity is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001586 ! internal jugular vein relationship: tributary_of UBERON:0001586 {source="FMA"} ! internal jugular vein property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png property_value: external_definition "Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010513", ontology="AAO", source="AAO:BJB"} property_value: external_ontology_notes "MA and NCITA also has 'anterior facial vein'" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001708 name: jaw skeleton namespace: uberon def: "Subdivision of skeleton which includes upper and lower jaw skeletons." [http://en.wikipedia.org/wiki/Jaw, https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior splanchnocranium" RELATED [] synonym: "jaw" EXACT [MA:0001905] synonym: "jaw cartilage" EXACT [ZFA:0001227] synonym: "jaws" RELATED [] synonym: "mandibular arch" RELATED [TAO:0001227] synonym: "mandibular arch skeleton" EXACT [ZFA:0001227] synonym: "oral jaw skeleton" RELATED [] synonym: "pharyngeal arch 1 skeleton" RELATED [] synonym: "visceral arch 1" RELATED [] xref: AAO:0000988 xref: BTO:0001749 xref: EMAPA:35455 xref: FMA:54396 xref: GAID:214 xref: galen:Jaw xref: http://en.wikipedia.org/wiki/Jaw xref: http://linkedlifedata.com/resource/umls/id/C0022359 xref: http://www.snomedbrowser.com/Codes/Details/181811001 xref: MA:0001905 xref: MESH:D007568 xref: NCIT:C48821 xref: OpenCyc:Mx4rvVjjEZwpEbGdrcN5Y29ycA xref: TAO:0001227 xref: UMLS:C0022359 {source="ncithesaurus:Jaw"} xref: ZFA:0001227 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0011156 {source="cjm"} ! facial skeleton relationship: part_of UBERON:0011595 ! jaw region relationship: skeleton_of UBERON:0011595 ! jaw region property_value: development_notes "There are cellular contributions from all three embryonic germ layers: pharyngeal mesoderm, endoderm and neural crest that migrates out of the ectoderm (Noden, 1983)." xsd:string property_value: editor_note "TODO - move ZFA:0001227 (it is the entire jaw skeleton)." xsd:string property_value: external_definition "Skeletal and cartilage elements of the first pharyngeal arch.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001227", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "in FMA, the jaw is an organism subdivision cluster, and includes mucosal tissue such as the gingiva as parts. It appears to be skeletal in MA (and has teeth as parts). It is reasonable to assume that ZFA and XAO consider the upper and lower jaws to be skeletal elements or clusters. EHDAA2 also considers these clusters. TODO - follow EHDAA2 model. These arbitrary differences in terminology and classification have to be reconciled with the genuine well-known biological differences in the skeletal elements across vertebrates" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001710 name: lower jaw region namespace: uberon def: "Subdivision of head that consists of the lower jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." [http://en.wikipedia.org/wiki/Lower_jaw] comment: See notes for jaw w.r.t skeletal element vs subdivision of head subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "lower part of mouth" RELATED [] synonym: "mandibular part of mouth" EXACT [FMA:59398] synonym: "mandibular series" RELATED [] xref: AAO:0000272 xref: EFO:0003660 xref: EHDAA2:0001018 xref: EHDAA:7995 xref: EMAPA:17906 xref: FMA:59398 xref: http://www.snomedbrowser.com/Codes/Details/362637005 xref: Lower:jaw xref: MESH:D008334 xref: ncithesaurus:Lower_Jaw xref: VHOG:0000453 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000475 ! organism subdivision intersection_of: has_skeleton UBERON:0003278 ! skeleton of lower jaw relationship: develops_from UBERON:0005867 {source="Mandibular:prominence"} ! mandibular prominence relationship: has_skeleton UBERON:0003278 ! skeleton of lower jaw relationship: part_of UBERON:0011595 ! jaw region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png property_value: external_definition "Inferior mandibular arch located on the anterior and lateral sides of the skull.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000272", ontology="AAO", source="AAO:LAP"} property_value: external_ontology_notes "Note isa/partof difference MA/FMA" xsd:string {external_ontology="MA"} property_value: homology_notes "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000453", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0001731 name: cavity of pharynx namespace: uberon def: "A anatomical space that is enclosed by a pharynx." [OBOL:automatic] synonym: "cavitas pharyngealis" RELATED LATIN [] synonym: "cavitas pharyngis" RELATED [BTO:0002097] synonym: "lumen of pharynx" EXACT [] synonym: "pharyngeal cavity" EXACT [] xref: AAO:0010435 xref: BSA:0000113 xref: BTO:0002097 xref: EMAPA:18381 xref: FMA:54935 xref: http://www.snomedbrowser.com/Codes/Details/180543003 xref: XAO:0000105 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0006562 ! pharynx relationship: develops_from UBERON:0001041 {source="XAO"} ! foregut relationship: luminal_space_of UBERON:0006562 ! pharynx relationship: part_of UBERON:0006562 ! pharynx property_value: development_notes "TOODO check" xsd:string property_value: taxon_notes "See notes for pharynx - as a grouping class this is probably too bad. We exclude WBbt:0005790 (pharyngeal lumen) because of the developmental relationship" xsd:string [Term] id: UBERON:0001766 name: anterior chamber of eyeball namespace: uberon def: "the space in the eye, filled with aqueous humor, and bounded anteriorly by the cornea and a small portion of the sclera and posteriorly by a small portion of the ciliary body, the iris, and part of the crystalline lens" [MESH:A09.371.060.067, MP:0005205] subset: pheno_slim synonym: "anterior chamber" EXACT [HP:0000593, MP:0010709] synonym: "anterior chamber of eye" EXACT [] synonym: "camera anterior" EXACT [] synonym: "camera anterior bulbi" RELATED [BTO:0002084] synonym: "camera anterior bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Anterior_chamber_of_eyeball] synonym: "camera oculi anterior" RELATED [BTO:0002084] synonym: "eye anterior chamber" EXACT [] xref: BTO:0002084 xref: EHDAA2:0000129 xref: EHDAA:9033 xref: EMAPA:18231 xref: FMA:58078 xref: GAID:889 xref: http://en.wikipedia.org/wiki/Anterior_chamber_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0003151 xref: http://www.snomedbrowser.com/Codes/Details/181160009 xref: MA:0000262 xref: MESH:D000867 xref: NCIT:C12667 xref: UMLS:C0003151 {source="ncithesaurus:Anterior_Chamber_of_the_Eye"} xref: VHOG:0001431 is_a: UBERON:0006311 {source="FMA"} ! chamber of eyeball relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: external_definition "The part of the eyeball between the cornea and the iris, filled with aqueous humor. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001431", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/anterior+chamber"} property_value: external_ontology_notes "space in EHDAA2 - consider adding Cavity of anterior chamber of eyeball" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0001768 name: uvea namespace: uberon def: "the pigmented middle of the three concentric layers that make up an eye, consisting of the iris, ciliary body and choroid[WP,edited]." [http://en.wikipedia.org/wiki/Uvea, MP:0005197] subset: pheno_slim subset: uberon_slim synonym: "pars iridica retinae" RELATED [http://en.wikipedia.org/wiki/Uvea] synonym: "tunica vasculatis oculi" RELATED [http://en.wikipedia.org/wiki/Uvea] synonym: "tunica vasculosa bulbi" RELATED LATIN [http://en.wikipedia.org/wiki/Uvea] synonym: "tunica vasculosa of eyeball" EXACT [FMA:58103] synonym: "uvea" EXACT [FMA:58103] synonym: "uveal tract" EXACT [FMA:58103] synonym: "vascular layer of eyeball" RELATED [FMA:58103] xref: CALOHA:TS-2228 xref: EMAPA:35901 xref: FMA:58103 xref: GAID:912 xref: http://en.wikipedia.org/wiki/Uvea xref: http://linkedlifedata.com/resource/umls/id/C0042160 xref: http://www.snomedbrowser.com/Codes/Details/280648000 xref: MA:0002480 xref: MESH:D014602 xref: NCIT:C12811 xref: UMLS:C0042160 {source="ncithesaurus:Uvea"} is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: has_part UBERON:0001769 ! iris relationship: has_part UBERON:0001775 ! ciliary body relationship: has_part UBERON:0001776 ! optic choroid relationship: part_of UBERON:0001801 ! anterior segment of eyeball relationship: present_in_taxon NCBITaxon:7955 {source="https://doi.org/10.1177/0192623311409597"} ! Danio rerio property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/eb/Gray869.png property_value: editor_note "TODO - check child terms, isa vs partof. See also MA:0001284 ! tunica vasculosa plexus" xsd:string property_value: has_relational_adjective "uveal" xsd:string [Term] id: UBERON:0001769 name: iris namespace: uberon def: "the adjustable membrane, composed of the stroma and pigmented epithelium, located just in front of the crystalline lens within the eye" [ISBN:0-683-40008-8, MP:0001322] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior uvea" RELATED [] synonym: "irides" RELATED PLURAL [] synonym: "irises" RELATED PLURAL [VHOG:0000101] xref: AAO:0010347 xref: BTO:0000653 xref: CALOHA:TS-0491 xref: EFO:0004245 xref: EMAPA:19154 xref: EV:0100345 xref: FMA:58235 xref: GAID:917 xref: http://linkedlifedata.com/resource/umls/id/C0022077 xref: http://www.snomedbrowser.com/Codes/Details/181164000 xref: Iris:(anatomy) xref: MA:0000273 xref: MESH:D007498 xref: NCIT:C12737 xref: OpenCyc:Mx4rvVjbppwpEbGdrcN5Y29ycA xref: TAO:0001238 xref: UMLS:C0022077 {source="ncithesaurus:Iris"} xref: VHOG:0000101 xref: XAO:0000185 xref: ZFA:0001238 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0011892 ! anterior uvea relationship: develops_from UBERON:0004128 {source="XAO"} ! optic vesicle relationship: part_of UBERON:0011892 ! anterior uvea property_value: external_definition "The opaque muscular contractile diaphragm suspended in the aqueous humour in front of the lens of the eye. The organ is perforated by the pupil and continues peripherally with the ciliary body. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: has_relational_adjective "iridial" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: taxon_notes "The avian iris and ciliary body undergoes a transition from smooth-to-striated muscle during embryonic development [doi:dx.doi.org/10.1006/dbio.1998.9019]" xsd:string [Term] id: UBERON:0001772 name: corneal epithelium namespace: uberon def: "the smooth stratified squamous epithelium that covers the outer surface of the cornea" [MESH:A09.371.060.217.325, MGI:smb, MP:0006000] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior corneal epithelium" EXACT [] synonym: "anterior endothelium of cornea" RELATED [BTO:0000287] synonym: "cornea epithelial tissue" EXACT [OBOL:automatic] synonym: "cornea epithelium" EXACT [OBOL:automatic] synonym: "e. anterius corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_epithelium] synonym: "endothelium anterius corneae" RELATED [BTO:0000287] synonym: "endothelium camerae anterioris bulbi" RELATED [BTO:0000287] synonym: "endothelium corneale" RELATED [BTO:0000287] synonym: "epithelial tissue of cornea" EXACT [OBOL:automatic] synonym: "epithelium anterius (cornea)" EXACT [] synonym: "epithelium anterius corneae" EXACT LATIN [FMA:58263, FMA:TA] synonym: "epithelium corneæ anterior layer" EXACT [] synonym: "epithelium of cornea" EXACT [] synonym: "epithelium posterius corneae" RELATED [BTO:0000287] synonym: "external epithelium of cornea" EXACT [] xref: BTO:0000287 xref: CALOHA:TS-0173 xref: Corneal:epithelium xref: EFO:0001917 xref: EHDAA2:0000319 xref: EMAPA:17162 xref: FMA:58263 xref: GAID:895 xref: http://linkedlifedata.com/resource/umls/id/C0459875 xref: http://www.snomedbrowser.com/Codes/Details/368825001 xref: MA:0001243 xref: MESH:D019573 xref: NCIT:C12928 xref: TAO:0002187 xref: UMLS:C0459875 {source="ncithesaurus:Corneal_Epithelium"} xref: ZFA:0001683 is_a: BFO:0000040 ! material entity is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: bounding_layer_of UBERON:0000964 ! cornea relationship: bounding_layer_of UBERON:0000964 ! cornea relationship: contributes_to_morphology_of UBERON:0000964 ! cornea relationship: develops_from UBERON:0000076 {source="ISBN:0781772214"} ! external ectoderm relationship: part_of UBERON:0000964 ! cornea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png property_value: external_definition "Portion of tissue comprised of four to six layers of nonkeratinized, stratified squamous cells and represents approximately 60% of the thickness of the cornea.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002187", ontology="TAO", source="ZFIN:ZDB-PUB-061010-3"} property_value: taxon_notes "In Humans: It consists of several layers of cells. The cells of the deepest layer are columnar; then follow two or three layers of polyhedral cells, the majority of which are prickle cells similar to those found in the stratum mucosum of the cuticle. Lastly, there are three or four layers of squamous cells, with flattened nuclei" xsd:string property_value: taxon_notes "In zebrafish: nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" xsd:string [Term] id: UBERON:0001773 name: sclera namespace: uberon def: "Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]." [http://en.wikipedia.org/wiki/Sclera, ZFIN:ZDB-PUB-050701-15] comment: Disease notes: implicated in rheumatoid arthritis. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "scleral capsule" RELATED [] xref: AAO:0010354 xref: BTO:0001606 xref: EMAPA:19027 xref: EV:0100342 xref: FMA:58269 xref: GAID:911 xref: http://en.wikipedia.org/wiki/Sclera xref: http://linkedlifedata.com/resource/umls/id/C0036410 xref: http://www.snomedbrowser.com/Codes/Details/181163006 xref: MA:0000280 xref: MESH:D012590 xref: NCIT:C12784 xref: OpenCyc:Mx4rv7yR55wpEbGdrcN5Y29ycA xref: UMLS:C0036410 {source="ncithesaurus:Sclera"} xref: VHOG:0001274 xref: XAO:0000183 xref: ZFA:0005563 is_a: UBERON:0000064 ! organ part is_a: UBERON:0010313 ! neural crest-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003314 {source="ISBN:0781772214"} ! eye mesenchyme relationship: part_of UBERON:0012430 {source="FMA"} ! tunica fibrosa of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: development_notes "Majority derives from NC that surrounds optic cup of neurectoderm; a small temporal portion develops from the mesoderm that contributes to striated extra-ocular muscles and vascular endothelia[Rada&Johnson]." xsd:string property_value: development_notes "Seko et al demonstrate chondrogenic potential and identify this as connective tissue[doi:10.1371/journal.pone.0003709]." xsd:string property_value: external_definition "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." xsd:string {source="http://en.wikipedia.org/wiki/Sclera"} property_value: external_definition "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001274", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/sclera"} property_value: has_relational_adjective "scleral" xsd:string property_value: structure_notes "continuous with the dura mater and the cornea; The sclera forms the posterior five-sixths of the connective tissue coat of the globe." xsd:string property_value: taxon_notes "in fish, reptiles and monotremes the connective tissue of the sclera is skeletal" xsd:string [Term] id: UBERON:0001775 name: ciliary body namespace: uberon def: "the thickened portion of the vascular tunic, which lies between the choroid and the iris, composed of ciliary muscle and ciliary processes" [http://en.wikipedia.org/wiki/Ciliary_body, ISBN:0-683-40008-8, MP:0005099] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior uvea" RELATED [] synonym: "ciliary bodies" RELATED PLURAL [VHOG:0000102] synonym: "corpus ciliare" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_body] synonym: "corpus ciliare" RELATED [http://en.wikipedia.org/wiki/Ciliary_body] synonym: "ocular ciliary body" EXACT [] xref: AAO:0010341 xref: BTO:0000260 xref: CALOHA:TS-0694 xref: Ciliary:body xref: EMAPA:19065 xref: EV:0100346 xref: FMA:58295 xref: GAID:916 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1571 xref: http://linkedlifedata.com/resource/umls/id/C0008779 xref: http://www.snomedbrowser.com/Codes/Details/263340007 xref: MA:0000264 xref: MESH:D002924 xref: NCIT:C12345 xref: UMLS:C0008779 {source="ncithesaurus:Ciliary_Body"} xref: VHOG:0000102 xref: XAO:0000186 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0011892 ! anterior uvea relationship: develops_from UBERON:0002346 {source="ISBN:0781772214"} ! neurectoderm relationship: has_part UBERON:0001605 ! ciliary muscle relationship: has_part UBERON:0010427 ! ciliary processes relationship: part_of UBERON:0011892 ! anterior uvea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000102", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} [Term] id: UBERON:0001776 name: optic choroid namespace: uberon def: "vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." [http://en.wikipedia.org/wiki/Choroid] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "chorioid" RELATED [BTO:0001829] synonym: "choroid" EXACT [MA:0000263] synonym: "choroid coat" EXACT [http://en.wikipedia.org/wiki/Choroid] synonym: "choroidea" EXACT [http://en.wikipedia.org/wiki/Choroid] synonym: "choroidea" RELATED LATIN [http://en.wikipedia.org/wiki/Choroid] synonym: "eye choroid" EXACT [VHOG:0001568] synonym: "optic choroid" RELATED [ZFA:0005229] synonym: "posterior uvea" EXACT [http://en.wikipedia.org/wiki/Uvea#Regions] xref: BTO:0001829 xref: CALOHA:TS-2054 xref: EMAPA:19077 xref: EV:0100347 xref: FMA:58298 xref: GAID:913 xref: http://en.wikipedia.org/wiki/Choroid xref: http://linkedlifedata.com/resource/umls/id/C0008520 xref: http://www.snomedbrowser.com/Codes/Details/181172003 xref: MA:0000263 xref: MESH:D002829 xref: NCIT:C12344 xref: TAO:0005229 xref: UMLS:C0008520 {source="ncithesaurus:Choroid"} xref: VHOG:0001568 xref: ZFA:0005229 is_a: UBERON:0002203 ! vasculature of eye disjoint_from: UBERON:0011892 {source="lexical"} ! anterior uvea relationship: adjacent_to UBERON:0000966 ! retina relationship: adjacent_to UBERON:0001773 ! sclera relationship: adjacent_to UBERON:0011892 ! anterior uvea relationship: contributes_to_morphology_of UBERON:0001768 ! uvea relationship: part_of UBERON:0001768 {source="MA"} ! uvea relationship: part_of UBERON:0019207 ! chorioretinal region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: editor_note "check choroid vs choroid layer; check ZFA/TAO placement - no homology assertion in VHOG. Note this is entirely in the posterior region of eyeball in ZFA" xsd:string property_value: external_ontology_notes "MP treats posterior uvea and optic choroid as distinct" xsd:string {external_ontology="MP"} property_value: has_relational_adjective "choroidal" xsd:string [Term] id: UBERON:0001778 name: ciliary epithelium namespace: uberon def: "A double layer covering the ciliary body that produces aqueous humor." [http://en.wikipedia.org/wiki/Ciliary_body#Ciliary_epithelium] synonym: "ciliary body epithelium" EXACT [FMA:58464] synonym: "epithelium of ciliary body" EXACT [FMA:58464] synonym: "ocular ciliary epithelium" EXACT [] xref: BTO:0001770 xref: CALOHA:TS-0695 xref: Ciliary_epithelium xref: EMAPA:35239 xref: FMA:58464 xref: http://linkedlifedata.com/resource/umls/id/C0459736 xref: http://www.snomedbrowser.com/Codes/Details/280870004 xref: MA:0001238 xref: NCIT:C32314 xref: UMLS:C0459736 {source="ncithesaurus:Ciliary_Epithelium"} is_a: BFO:0000040 ! material entity is_a: UBERON:0000488 {source="FMA"} ! atypical epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001775 ! ciliary body relationship: part_of UBERON:0001775 {source="MA"} ! ciliary body relationship: produces UBERON:0001796 {source="Wikipedia"} ! aqueous humor of eyeball [Term] id: UBERON:0001781 name: layer of retina namespace: uberon def: "Any of the layers that make up the retina[MP]." [MP:0003727] subset: pheno_slim subset: vertebrate_core synonym: "retina layer" EXACT [] synonym: "retina neuronal layer" EXACT [MP:0006069] synonym: "retinal layer" EXACT [] synonym: "retinal neuronal layer" EXACT [MP:0006069] xref: AAO:0010353 xref: EMAPA:35742 xref: FMA:58617 xref: http://linkedlifedata.com/resource/umls/id/C0459649 xref: http://www.snomedbrowser.com/Codes/Details/280657006 xref: MA:0001319 xref: NCIT:C49328 xref: UMLS:C0459649 {source="ncithesaurus:Retina_Layer"} xref: XAO:0000266 is_a: UBERON:0022303 ! nervous system cell part layer relationship: contributes_to_morphology_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina property_value: external_ontology_notes "MA does not treat internal/external limiting memranes as layers - these are classified as laminae. Here we follow other ontologies in grouping with other layers. MA also treats retinal pigment epithelium and neural retina epithelium as distinct from the layers. We follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers - these are also classified as layers, giving us over the usual 10 layers" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001796 name: aqueous humor of eyeball namespace: uberon def: "A thick watery refractive medium that fills the space between the lens and the cornea[WP]." [http://en.wikipedia.org/wiki/Aqueous_humor] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "aqueous humor" EXACT [] synonym: "aqueous humour" EXACT [EHDAA2:0000139] synonym: "humor aquosus" EXACT LATIN [FMA:58819, FMA:TA] xref: Aqueous:humor xref: EHDAA2:0000139 xref: EHDAA:10196 xref: EMAPA:18232 xref: ENVO:02000024 xref: FMA:58819 xref: GAID:890 xref: http://linkedlifedata.com/resource/umls/id/C0003662 xref: http://www.snomedbrowser.com/Codes/Details/280587006 xref: MA:0001236 xref: MESH:D001082 xref: NCIT:C13190 xref: OpenCyc:Mx4rvdGd-5wpEbGdrcN5Y29ycA xref: UMLS:C0003662 {source="ncithesaurus:Aqueous_Humor"} xref: VHOG:0000548 xref: ZFA:0005564 is_a: UBERON:0006312 ! ocular refractive media is_a: UBERON:0006314 ! bodily fluid relationship: contributes_to_morphology_of UBERON:0001766 ! anterior chamber of eyeball relationship: part_of UBERON:0001766 {notes="FMA def states A and P", notes="located_in in EHDAA2", source="VHOG"} ! anterior chamber of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg property_value: external_definition "The fluid produced by the ciliary process in the eye and occupying the anterior and posterior chambers. It provides nourishment for the lens and cornea and maintains the ocular pressure, and hence the optical integrity of the eyeball. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aqueous+humour"} property_value: external_ontology_notes "FMA says A+P chambers, and MA states A chamber. ZFA states A chamber and tha it is produced primarily by dorsal ciliary epithelial cells.To be investigated across taxa." xsd:string {external_ontology="FMA"} property_value: homology_notes "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24"} [Term] id: UBERON:0001801 name: anterior segment of eyeball namespace: uberon def: "any of the parts of the eye that lie in front of, or ventral to, the lens (inclusive)" [ISBN:0-683-40008-8, MESH:A09.371.060, MP:0005193] subset: pheno_slim subset: vertebrate_core synonym: "anterior eye segment" EXACT [] synonym: "anterior segment eye" EXACT [ZFA:0005566] synonym: "anterior segment of eye" EXACT [] synonym: "anterior segment of the eye" EXACT [] synonym: "eye anterior segment" EXACT [] synonym: "segmentum anterius (bulbus oculi)" EXACT [] synonym: "segmentum anterius bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Anterior_segment_of_eyeball] xref: EMAPA:36594 xref: FMA:58865 xref: http://en.wikipedia.org/wiki/Anterior_segment_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0003153 xref: http://www.snomedbrowser.com/Codes/Details/280658001 xref: MA:0002484 xref: MESH:D000869 xref: NCIT:C12668 xref: UMLS:C0003153 {source="ncithesaurus:Anterior_Eye_Segment"} xref: ZFA:0005566 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure disjoint_from: UBERON:0001802 {source="lexical"} ! posterior segment of eyeball relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: in_anterior_side_of UBERON:0010230 {source="cjm"} ! eyeball of camera-type eye relationship: part_of UBERON:0010230 {source="FMA"} ! eyeball of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png [Term] id: UBERON:0001802 name: posterior segment of eyeball namespace: uberon def: "any of the parts of the eye that lie in back of, or dorsal to, the lens (but not inclusive)" [ISBN:0-683-40008-8, MP:0005195] subset: pheno_slim subset: vertebrate_core synonym: "eye posterior segment" EXACT [] synonym: "posterior eye segment" EXACT [] synonym: "posterior segment eye" EXACT [ZFA:0005567] synonym: "posterior segment of eye" EXACT [] synonym: "posterior segment of the eye" EXACT [] synonym: "segmentum posterius (bulbus oculi)" EXACT [] synonym: "segmentum posterius bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Posterior_segment_of_eyeball] xref: EMAPA:36595 xref: FMA:58868 xref: http://en.wikipedia.org/wiki/Posterior_segment_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0278450 xref: http://www.snomedbrowser.com/Codes/Details/280659009 xref: MA:0002485 xref: NCIT:C12906 xref: UMLS:C0278450 {source="ncithesaurus:Posterior_Eye_Segment"} xref: ZFA:0005567 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: in_posterior_side_of UBERON:0010230 {source="cjm"} ! eyeball of camera-type eye relationship: part_of UBERON:0010230 {source="FMA"} ! eyeball of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg [Term] id: UBERON:0001803 name: epithelium of lens namespace: uberon def: "A layer of epithelial cells that is part of the eye." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: vertebrate_core synonym: "epithelial tissue of eye lens" EXACT [OBOL:automatic] synonym: "epithelial tissue of lens" EXACT [OBOL:automatic] synonym: "epithelium lentis" EXACT LATIN [FMA:58871, FMA:TA] synonym: "epithelium of eye lens" EXACT [OBOL:automatic] synonym: "eye lens epithelial tissue" EXACT [OBOL:automatic] synonym: "eye lens epithelium" EXACT [OBOL:automatic] synonym: "lens epithelial tissue" EXACT [OBOL:automatic] synonym: "lens epithelium" EXACT [] xref: BTO:0001873 xref: CALOHA:TS-0543 xref: EMAPA:32871 xref: FMA:58871 xref: http://www.snomedbrowser.com/Codes/Details/362523006 xref: Lens_Epithelium xref: MA:0001301 xref: TAO:0001326 xref: XAO:0004094 xref: ZFA:0001326 is_a: UBERON:0000484 ! simple cuboidal epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000965 ! lens of camera-type eye relationship: contributes_to_morphology_of UBERON:0000965 ! lens of camera-type eye relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: curator_notes "this class is the superclass of the anterior epithelium and equatorial epithlium, although the term 'lens epithelium' may refer specifically to the former" xsd:string [Term] id: UBERON:0001804 name: capsule of lens namespace: uberon def: "the elastic, clear, membrane-like structure, that is outer most layer of the lens" [http://www.ncbi.nlm.nih.gov/pubmed/15483628, MGI:smb, MP:0003236] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "capsula lentis" EXACT LATIN [] synonym: "lens capsule" EXACT [] xref: EHDAA2:0000977 xref: EMAPA:18237 xref: FMA:58881 xref: http://linkedlifedata.com/resource/umls/id/C0229232 xref: http://www.snomedbrowser.com/Codes/Details/244500004 xref: Lens_capsule xref: MA:0001300 xref: NCIT:C32975 xref: UMLS:C0229232 {source="ncithesaurus:Lens_Capsule"} xref: VHOG:0000550 xref: ZFA:0005574 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005764 ! acellular membrane is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000476 ! acellular anatomical structure intersection_of: bounding_layer_of UBERON:0000965 ! lens of camera-type eye relationship: bounding_layer_of UBERON:0000965 ! lens of camera-type eye relationship: develops_from UBERON:0005614 {source="EHDAA2"} ! lens anterior epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png property_value: external_definition "The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: external_ontology_notes "FMA classifies this is a capsule and hence an organ part. In contrast we classify this as acellular" xsd:string {external_ontology="FMA"} property_value: homology_notes "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24"} property_value: structure_notes "synthesized by the lens epithelium and its main components are Type IV collagen and sulfated glycosaminoglycans (GAGs). [Wikipedia:Capsule_of_lens" xsd:string [Term] id: UBERON:0001833 name: lip namespace: uberon def: "One of the two fleshy folds which surround the opening of the mouth." [http://en.wikipedia.org/wiki/Lip, http://www.medterms.com/script/main/art.asp?articlekey=9458] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "labia oris" RELATED LATIN [http://en.wikipedia.org/wiki/Lip] synonym: "lips" RELATED [] xref: BTO:0001647 xref: CALOHA:TS-0558 xref: EMAPA:32839 xref: FMA:59816 xref: GAID:76 xref: galen:Lip xref: http://en.wikipedia.org/wiki/Lip xref: http://linkedlifedata.com/resource/umls/id/C0023759 xref: http://www.snomedbrowser.com/Codes/Details/181221003 xref: MA:0000343 xref: MESH:D008046 xref: NCIT:C12220 xref: OpenCyc:Mx4rvVi4U5wpEbGdrcN5Y29ycA xref: TAO:0007006 xref: UBERON:0001833 xref: UMLS:C0023759 {source="ncithesaurus:Lip"} xref: VHOG:0000677 xref: ZFA:0007006 is_a: UBERON:0003102 {source="ZFA"} ! surface structure relationship: contributes_to_morphology_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 {source="BTO", source="FMA-implicit", source="VHOG", source="ZFA"} ! mouth relationship: surrounds UBERON:0000166 {source="cjm"} ! oral opening property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/90/Lips.JPG property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg property_value: external_definition "Surface structure that is one of the two fleshy folds surrounding the opening of the mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007006", ontology="TAO", source="http://purl.obolibrary.org/obo/uberon/http/:www.medterms.com/script/main/art.asp?articlekey=9458", source="ZFIN:curator"} property_value: has_relational_adjective "labial" xsd:string [Term] id: UBERON:0001835 name: lower lip namespace: uberon alt_id: UBERON:0003392 def: "Lip that covers the lower portion of the mouth.[TAO]." [http://en.wikipedia.org/wiki/Lower_lip, TAO:0002060] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "labium inferius oris" RELATED LATIN [http://en.wikipedia.org/wiki/Lower_lip] synonym: "lower jaw lip" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001020 xref: EMAPA:17909 xref: FMA:59818 xref: http://linkedlifedata.com/resource/umls/id/C0458583 xref: http://www.snomedbrowser.com/Codes/Details/245777007 xref: Lower:lip xref: MA:0000921 xref: NCIT:C94572 xref: OpenCyc:Mx4rv842UpwpEbGdrcN5Y29ycA xref: TAO:0002060 xref: UMLS:C0458583 {source="ncithesaurus:Lower_Lip"} xref: ZFA:0005225 is_a: UBERON:0001833 ! lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: develops_from UBERON:0011596 ! future lower lip relationship: part_of UBERON:0001710 ! lower jaw region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg property_value: external_definition "Lip that covers the lower portion of the mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002060", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0001891 name: midbrain namespace: uberon def: "The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]." [GO:0030901] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "MB" BROAD ABBREVIATION [http://uri.neuinfo.org/nif/nifstd/birnlex_1667, NIFSTD:NeuroNames_abbrevSource] synonym: "mesencephalon" RELATED LATIN [http://en.wikipedia.org/wiki/Midbrain] xref: AAO:0010149 xref: BAMS:MES xref: birnlex:1667 xref: BM:MB xref: BTO:0000138 xref: CALOHA:TS-0630 xref: DHBA:10648 xref: DMBA:16649 xref: EFO:0000919 xref: EHDAA2:0001162 xref: EHDAA:3694 xref: EMAPA:16974 xref: EV:0100242 xref: FMA:61993 xref: HBA:9001 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=462 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=462 {source="NIFSTD:birnlex_1667"} xref: http://en.wikipedia.org/wiki/Midbrain xref: http://linkedlifedata.com/resource/umls/id/C0025462 xref: http://www.snomedbrowser.com/Codes/Details/279099009 xref: MA:0000207 xref: MAT:0000106 xref: MBA:313 xref: MESH:D008636 xref: MIAA:0000106 xref: NCIT:C12510 xref: OpenCyc:Mx4rvsBUqpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001104 xref: TAO:0000128 xref: UMLS:C0025462 {source="ncithesaurus:Mesencephalon"} xref: UMLS:C0025462 {source="NIFSTD:birnlex_1667"} xref: VHOG:0000069 xref: XAO:0000014 xref: ZFA:0000128 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: develops_from UBERON:0009616 ! presumptive midbrain relationship: has_developmental_contribution_from UBERON:0003849 {evidence="definitional"} ! mesencephalic neural crest relationship: immediate_transformation_of UBERON:0009616 {source="Bgee:AN"} ! presumptive midbrain property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG property_value: editor_note "developmental relationships need revised" xsd:string property_value: external_definition "Middle part of the brain composed of the optic tectum and penducular region.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010149", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The brain region between the forebrain anteriorly and the hindbrain posteriorly, including the tectum dorsally and the midbrain tegmentum ventrally. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000128", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "part of brainstem in ABA - we reject this in favor of ISBN10:0471888893 which has an implicit overlaps relationships" xsd:string {external_ontology="ABA"} property_value: has_relational_adjective "mesencephalic" xsd:string property_value: homology_notes "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000069", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)"} [Term] id: UBERON:0001892 name: rhombomere namespace: uberon def: "A segment of the developing hindbrain[ZFA]. In the vertebrate embryo, a rhombomere is a transiently divided segment of the developing neural tube, within the hindbrain region (a neuromere) in the area that will eventually become the rhombencephalon. The rhombomeres appear as a series of slightly constricted swellings in the neural tube, caudal to the cephalic flexure.[WP]." [http://en.wikipedia.org/wiki/Rhombomere, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "future rhombencephalon" RELATED [MIAA:0000272] synonym: "hindbrain neuromere" EXACT [] synonym: "hindbrain neuromeres" EXACT PLURAL [DHBA:HNM] synonym: "hindbrain segment" BROAD [ZFA:0001064] synonym: "rhombomere" EXACT [] synonym: "rhombomeres" RELATED PLURAL [VHOG:0000672] synonym: "segment of hindbrain" BROAD [ZFA:0001064] xref: DHBA:12664 xref: EFO:0003617 xref: EMAPA:16148 xref: FMA:295666 xref: http://en.wikipedia.org/wiki/Rhombomere xref: MAT:0000272 xref: MIAA:0000272 xref: RETIRED_EHDAA2:0000669 xref: TAO:0001064 xref: VHOG:0000672 xref: XAO:0004079 xref: ZFA:0001064 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0007277 ! presumptive hindbrain relationship: part_of UBERON:0007277 ! presumptive hindbrain property_value: external_definition "A segment of the developing hindbrain. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001064", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "DHBA divides this into A(1-3),B(4),C(5-7) and D(8)" xsd:string property_value: homology_notes "Rhombomeric segmentation is found in all living vertebrates and is of fundamental importance to the development of the vertebrate head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000672", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1006/dbio.2002.0831 Mazet F, Shimeld SM, The Evolution of Chordate Neural Segmentation. Developmental Biology (2002)"} property_value: taxon_notes "In human embryonic development, the rhombomeres are present by day 29" xsd:string [Term] id: UBERON:0001896 name: medulla oblongata namespace: uberon def: "Organ component of neuraxis that has as its parts the medullary reticular formation, inferior olivary complex and cochlear nuclear complex, among other structures[FMA]. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate[GO]." [FMA:62004, GO:0021550, http://en.wikipedia.org/wiki/Bone_marrow_of_ovary_oblongata] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bulb" BROAD [] synonym: "bulbus" EXACT LATIN [FMA:62004, FMA:TA] synonym: "medulla" BROAD [ABA:MY] synonym: "medulla oblonzata" RELATED LATIN [http://en.wikipedia.org/wiki/Medulla_oblongata] synonym: "metepencephalon" RELATED [FMA:62004] xref: AAO:0010486 xref: BAMS:Md xref: BAMS:MY xref: birnlex:957 xref: BM:Me xref: BTO:0000041 xref: CALOHA:TS-0607 xref: DMBA:17352 xref: EFO:0000924 xref: EHDAA2:0001088 xref: EHDAA:7588 xref: EMAPA:17550 xref: EV:0100275 xref: FMA:62004 xref: GAID:590 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=698 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=698 {source="NIFSTD:birnlex_957"} xref: http://en.wikipedia.org/wiki/Bone_marrow_of_ovary_oblongata xref: http://linkedlifedata.com/resource/umls/id/C0025148 xref: http://linkedlifedata.com/resource/umls/id/C1269575 xref: http://www.snomedbrowser.com/Codes/Details/279104005 xref: MA:0000206 xref: MAT:0000111 xref: MAT:0000367 xref: MBA:354 xref: MESH:D008526 xref: MIAA:0000111 xref: NCIT:C12442 xref: OpenCyc:Mx4rvVjxSJwpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwCqnXJwpEbGdrcN5Y29ycA xref: TAO:0000545 xref: UMLS:C0025148 {source="ncithesaurus:Medulla_Oblongata"} xref: UMLS:C0025148 {source="NIFSTD:birnlex_957"} xref: UMLS:C1269575 {source="NIFSTD:birnlex_957"} xref: VHOG:0000181 xref: XAO:0003100 xref: ZFA:0000545 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002298 ! brainstem relationship: part_of UBERON:0005290 ! myelencephalon property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6b/Illu_pituitary_pineal_glands.jpg property_value: external_definition "Posterior portion of the hindbrain which controls respiration, heartbeat, digestion, and swallowing as well as some locomotor responses.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010486", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The posterior region of the brain that is continuous with the spinal cord. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-17, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: homology_notes "Classical anatomical studies subdivided the vertebrate rhombencephalon into pons and medulla oblongata. (...) The medulla oblongata appears therefore as a tagma, that is, a group of segmental units (pseudorhombomeres, in this case) sharing some morphological and molecular characteristics, and in some aspects different from the segmental units present in adjoining brain regions, pons and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.ydbio.2008.08.017 Marin F, Aroca P, Puelles L, Hox gene colinear expression in the avian medulla oblongata is correlated with pseudorhombomeric domains. Developmental Biology (2008)"} [Term] id: UBERON:0001915 name: endothelium of capillary namespace: uberon def: "An endothelium that is part of a capillary [Automatically generated definition]." [OBOL:automatic] synonym: "blood capillary endothelium" EXACT [OBOL:automatic] synonym: "capillary endothelium" EXACT [] synonym: "capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel" EXACT [OBOL:automatic] xref: BTO:0004954 xref: CALOHA:TS-0112 xref: EMAPA:36292 xref: FMA:62114 xref: http://linkedlifedata.com/resource/umls/id/C0006904 xref: MA:0000711 xref: NCIT:C49215 xref: UMLS:C0006904 {source="ncithesaurus:Capillary_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001982 ! capillary relationship: part_of UBERON:0001982 ! capillary [Term] id: UBERON:0001916 name: endothelium of arteriole namespace: uberon def: "An endothelium that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] synonym: "arteriole endothelium" EXACT [] xref: EMAPA:36286 xref: FMA:62115 xref: http://linkedlifedata.com/resource/umls/id/C1179024 xref: MA:0000705 xref: NCIT:C49192 xref: UMLS:C1179024 {source="ncithesaurus:Arteriole_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: UBERON:0001917 name: endothelium of artery namespace: uberon def: "An endothelium that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial endothelium" EXACT [] synonym: "artery endothelium" EXACT [] xref: AAO:0011013 xref: BTO:0004757 xref: EMAPA:35148 xref: FMA:62116 xref: http://linkedlifedata.com/resource/umls/id/C1179025 xref: MA:0000707 xref: NCIT:C49194 xref: UMLS:C1179025 {source="ncithesaurus:Artery_Endothelium"} xref: VHOG:0001215 xref: XAO:0000357 is_a: UBERON:0003915 ! endothelial tube is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery property_value: external_definition "The endothelium is the thin layer of cells that lines the interior surface of blood vessels, forming an interface between circulating blood in the lumen and the rest of the vessel wall.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011013", ontology="AAO", source="XAO:curator"} property_value: homology_notes "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001215", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} [Term] id: UBERON:0001918 name: endothelium of venule namespace: uberon def: "An endothelium that is part of a venule [Automatically generated definition]." [OBOL:automatic] synonym: "venule endothelium" EXACT [] xref: EMAPA:36290 xref: FMA:62117 xref: http://linkedlifedata.com/resource/umls/id/C1179026 xref: MA:0000716 xref: NCIT:C49319 xref: UMLS:C1179026 {source="ncithesaurus:Venule_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001979 ! venule relationship: part_of UBERON:0001979 ! venule [Term] id: UBERON:0001919 name: endothelium of vein namespace: uberon def: "An endothelium that is part of a vein [Automatically generated definition]." [OBOL:automatic] synonym: "vein endothelium" EXACT [] synonym: "veinous endothelium" RELATED [VHOG:0001216] synonym: "venous endothelium" EXACT [] xref: AAO:0011110 xref: BTO:0004756 xref: EMAPA:36288 xref: FMA:62118 xref: http://linkedlifedata.com/resource/umls/id/C1179027 xref: MA:0000712 xref: NCIT:C49317 xref: UMLS:C1179027 {source="ncithesaurus:Vein_Endothelium"} xref: VHOG:0001216 xref: XAO:0000358 is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein property_value: homology_notes "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001216", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} [Term] id: UBERON:0001943 name: midbrain tegmentum namespace: uberon def: "Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN10:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]." [FMA:FMA, http://en.wikipedia.org/wiki/Midbrain_tegmentum, ISBN10:0471888893] comment: 'tegmentum' is used generically for the ventral part of the brainstem (ISBN10:0471888893). We use the label 'midbrain tegmentum' to denote the midbrain structure. In NIFSTD tegmentum is a composite structure and there is a separate class for midbrain tegmentum and pontine tegmentum subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mesencephalic tegmentum" RELATED [VHOG:0001367] synonym: "MTg" BROAD ABBREVIATION [http://uri.neuinfo.org/nif/nifstd/birnlex_1200, NIFSTD:NeuroNames_abbrevSource] synonym: "tegmentum" BROAD [ISBN10:0471888893] synonym: "tegmentum mesencephali" EXACT LATIN [http://en.wikipedia.org/wiki/Midbrain_tegmentum] synonym: "tegmentum mesencephalicum" RELATED LATIN [NeuroNames:491] synonym: "tegmentum of midbrain" EXACT [] xref: BAMS:MTg xref: birnlex:1200 xref: BTO:0003388 xref: DHBA:12195 xref: EFO:0000921 xref: EHDAA2:0004475 xref: EMAPA:18215 xref: FMA:62393 xref: HBA:9002 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=491 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=491 {source="NIFSTD:birnlex_1200"} xref: http://linkedlifedata.com/resource/umls/id/C0039441 xref: http://www.snomedbrowser.com/Codes/Details/362392007 xref: MA:0000212 xref: MAT:0000452 xref: Midbrain:tegmentum xref: TAO:0000160 xref: UMLS:C0039441 {source="NIFSTD:birnlex_1200"} xref: VHOG:0001367 xref: XAO:0004271 xref: ZFA:0000160 is_a: UBERON:0002616 ! regional part of brain relationship: develops_from UBERON:0010285 {source="ZFA"} ! midbrain basal plate relationship: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0002298 ! brainstem property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png property_value: homology_notes "Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001367", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.brainresbull.2005.05.001 Villar-Cheda B, Abalo XM, Anadon R, Rodicio MC, The tegmental proliferation region in the sea lamprey. Brain Research Bulletin (2005)"} [Term] id: UBERON:0001948 name: regional part of spinal cord namespace: uberon def: "A multi-tissue structure that is part of a spinal cord." [OBOL:automatic] subset: non_informative synonym: "spinal cord part" RELATED [] xref: birnlex:1496 xref: http://linkedlifedata.com/resource/umls/id/C1268166 xref: http://www.snomedbrowser.com/Codes/Details/244437008 xref: NCIT:C33969 xref: UMLS:C1268166 {source="ncithesaurus:Spinal_Cord_Part"} is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0001969 name: blood plasma namespace: uberon def: "The liquid component of blood, in which erythrocytes are suspended." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "blood plasm" EXACT [] synonym: "plasma" BROAD [MA:0002501] synonym: "portion of blood plasma" EXACT [] synonym: "portion of plasma" BROAD [FMA:62970] xref: Blood:plasma xref: BTO:0000131 xref: CALOHA:TS-0800 xref: EFO:0001905 xref: EMAPA:35690 xref: FMA:62970 xref: GAID:1178 xref: http://linkedlifedata.com/resource/umls/id/C0032105 xref: MA:0002501 xref: MAT:0000052 xref: MESH:D010949 xref: MIAA:0000052 xref: NCIT:C13356 xref: OpenCyc:Mx4rEg4ZYrIbEduAAAAOpmP6tw xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0000178 ! blood [Term] id: UBERON:0001979 name: venule namespace: uberon def: "One of the minute vessels that collect deoxygenated blood from the capillary plexuses returns it to the veins" [MESH:A07.231.432.952, MP:0004125] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "venula" RELATED LATIN [http://en.wikipedia.org/wiki/Venule] xref: BTO:0002626 xref: EMAPA:35917 xref: FMA:63130 xref: http://en.wikipedia.org/wiki/Venule xref: http://linkedlifedata.com/resource/umls/id/C0042520 xref: http://www.snomedbrowser.com/Codes/Details/341687009 xref: MA:0000071 xref: MESH:A07.231.432.952 xref: NCIT:C12818 xref: TAO:0005315 xref: UMLS:C0042520 {source="ncithesaurus:Venule"} xref: VHOG:0001765 xref: ZFA:0005315 is_a: UBERON:0003920 ! venous blood vessel relationship: connects UBERON:0001638 ! vein relationship: connects UBERON:0001982 ! capillary property_value: depicted:by Illu:capillary.jpg property_value: external_definition "Multi-tissue structure part of the blood vasculature formed by the anastomosis of capillaries. Venules carry blood toward the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005315", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001980 name: arteriole namespace: uberon def: "The smallest division of the artery located between the muscular arteries and the capillaries[GO]." [GO:0014830] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arteriola" RELATED LATIN [http://en.wikipedia.org/wiki/Arteriole] xref: AAO:0010253 xref: BTO:0001997 xref: EMAPA:35146 xref: FMA:63182 xref: http://en.wikipedia.org/wiki/Arteriole xref: http://linkedlifedata.com/resource/umls/id/C0003847 xref: http://www.snomedbrowser.com/Codes/Details/337724002 xref: MA:0000063 xref: MESH:D001160 xref: NCIT:C12672 xref: TAO:0002138 xref: UMLS:C0003847 {source="ncithesaurus:Arteriole"} xref: VHOG:0001763 xref: ZFA:0005255 is_a: UBERON:0003509 {source="MA"} ! arterial blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: connects UBERON:0001637 ! artery intersection_of: connects UBERON:0001982 ! capillary relationship: connects UBERON:0001637 ! artery relationship: connects UBERON:0001982 ! capillary relationship: contributes_to_morphology_of UBERON:0001637 ! artery property_value: depicted:by Illu:capillary.jpg property_value: external_definition "Multi-tissue structure part of the blood vasculature, feeds into capillaries. Arterioles carry blood away from the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002138", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Small, terminal branch of an artery which generally connects to capillaries.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010253", ontology="AAO", source="AAO:BJB"} [Term] id: UBERON:0001981 name: blood vessel namespace: uberon def: "A vessel through which blood circulates in the body." [BTO:0001102, http://en.wikipedia.org/wiki/Blood_vessel] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "region of vascular tree organ" EXACT [FMA:50722] synonym: "vas sanguineum" RELATED LATIN [http://en.wikipedia.org/wiki/Blood_vessel] synonym: "vascular element" BROAD [EMAPA:35993] synonym: "vascular tree organ region" EXACT [FMA:50722] xref: AAO:0011004 xref: AEO:0000207 xref: Blood:vessel xref: BTO:0001102 xref: CALOHA:TS-0080 xref: EFO:0000817 xref: EHDAA2:0003252 xref: EHDAA:240 xref: EMAPA:32743 xref: EMAPA:35993 xref: FMA:50722 xref: FMA:63183 xref: GAID:169 xref: http://linkedlifedata.com/resource/umls/id/C0005847 xref: http://www.snomedbrowser.com/Codes/Details/361097006 xref: MA:0000060 xref: MAT:0000393 xref: MESH:D001808 xref: NCIT:C12679 xref: nlx_anat:090901 xref: OpenCyc:Mx4rvVjxlpwpEbGdrcN5Y29ycA xref: TAO:0002137 xref: UMLS:C0005847 {source="ncithesaurus:Blood_Vessel"} xref: VHOG:0001250 xref: XAO:0001011 xref: ZFA:0005314 is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: channel_for UBERON:0000178 ! blood relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0006965 {source="GO:0072360"} ! vascular cord relationship: has_part UBERON:0007500 {source="EHDAA2"} ! epithelial tube open at both ends relationship: part_of UBERON:0004537 ! blood vasculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg property_value: editor_note "consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus" xsd:string property_value: external_definition "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: external_definition "Any of the vessels through which blood circulates in the body.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011004", ontology="AAO", source="AAO:EJS"} property_value: external_ontology_notes "FMA:63183 Blood vessel is categorized as 'general anatomical term'. Suggestion to map to region of vascular tree from Terry H at JAX" xsd:string {external_ontology="FMA"} property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: taxon_notes "annelids have blood vessels, but this class is not applicable to annelids." xsd:string [Term] id: UBERON:0001982 name: capillary namespace: uberon def: "Any of the smallest blood vessels connecting arterioles with venules." [http://en.wikipedia.org/wiki/Capillary, https://github.com/obophenotype/uberon/issues/137, ISBN10:0073040584] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "blood capillary" EXACT [] synonym: "capillary vessel" EXACT [] xref: AAO:0010252 xref: BTO:0002045 xref: CALOHA:TS-2006 xref: EFO:0001906 xref: EMAPA:35198 xref: EV:0100035 xref: FMA:63194 xref: http://en.wikipedia.org/wiki/Capillary xref: http://linkedlifedata.com/resource/umls/id/C0935624 xref: MA:0000065 xref: MESH:A07.231.432.410 xref: NCIT:C12685 xref: nlx_anat:090902 xref: OpenCyc:Mx4rvWEU-5wpEbGdrcN5Y29ycA xref: TAO:0005250 xref: UMLS:C0935624 {source="ncithesaurus:Capillary"} xref: VHOG:0001253 xref: XAO:0000116 xref: ZFA:0005250 is_a: UBERON:0001981 {source="FMA", source="MA", source="XAO"} ! blood vessel is_a: UBERON:0010523 {source="ZFA"} ! microcirculatory vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: connects UBERON:0001979 ! venule intersection_of: connects UBERON:0001980 ! arteriole relationship: connects UBERON:0001979 ! venule relationship: connects UBERON:0001980 ! arteriole property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2f/A_red_blood_cell_in_a_capillary,_pancreatic_tissue_-_TEM.jpg property_value: editor_note "not all sources agree capillary is a blood vessel - consider adopting EMAPA superclass of vascular element" xsd:string property_value: external_definition "Any of the tiny blood vessels connecting the arterioles to the venules.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010252", ontology="AAO", source="AAO:BJB"} property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001253", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: structure_notes "capillaries lack tunica media and tunica adventitia; only the endothelial wall of the tunica intima belongs" xsd:string [Term] id: UBERON:0001985 name: corneal endothelium namespace: uberon def: "A monolayer of specialized, flattened, mitochondria-rich cells that lines the posterior surface of the cornea and faces the anterior chamber of the eye[WP]." [http://en.wikipedia.org/wiki/Corneal_endothelium] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cornea endothelium" EXACT [OBOL:automatic] synonym: "endothelium of cornea" EXACT [OBOL:automatic] synonym: "epithelium posterius corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_endothelium] xref: CALOHA:TS-0172 xref: Corneal:endothelium xref: EMAPA:35935 xref: FMA:63882 xref: GAID:891 xref: http://linkedlifedata.com/resource/umls/id/C0014259 xref: http://www.snomedbrowser.com/Codes/Details/368827009 xref: MA:0001242 xref: MESH:D004728 xref: NCIT:C12707 xref: TAO:0002186 xref: UMLS:C0014259 {source="ncithesaurus:Corneal_Endothelium"} xref: ZFA:0001687 is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000964 ! cornea relationship: adjacent_to UBERON:0001766 ! anterior chamber of eyeball relationship: contributes_to_morphology_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png [Term] id: UBERON:0001986 name: endothelium namespace: uberon def: "A layer of epithelium that lines the heart, blood vessels (endothelium, vascular), lymph vessels (endothelium, lymphatic), and the serous cavities of the body[MESH]. Simple squamous epithelium which lines blood and lymphatic vessels and the heart[FMA]" [FMA:63916, https://github.com/obophenotype/uberon/issues/225, MESH:A10.272.491] comment: The term 'endothelium' has been either restricted to the continuous cell layer of the vertebrates, as we are assuming here, or applied to all the cells able to adhere to the luminal surface of the vascular basement membrane (Casley-Smith 1980) subset: efo_slim subset: uberon_slim xref: BTO:0000393 xref: CALOHA:TS-0278 xref: EFO:0002548 xref: FMA:63916 xref: GAID:520 xref: galen:Endothelium xref: http://linkedlifedata.com/resource/umls/id/C0014257 xref: http://www.snomedbrowser.com/Codes/Details/27168002 xref: MESH:D004727 xref: NCIT:C12481 xref: UMLS:C0014257 {source="ncithesaurus:Endothelium"} is_a: UBERON:0000487 {source="https://github.com/obophenotype/uberon/issues/225", source="FMA-text-def"} ! simple squamous epithelium is_a: UBERON:0012275 ! meso-epithelium property_value: has_relational_adjective "endothelial" xsd:string [Term] id: UBERON:0002012 name: pulmonary artery namespace: uberon def: "An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood.." [http://en.wikipedia.org/wiki/Pulmonary_artery, http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "arteria pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_artery] synonym: "pulmonary arterial subtree" RELATED [FMA:66326] synonym: "pulmonary arterial tree" EXACT [FMA:66326] synonym: "pulmonary arterial tree organ part" EXACT [FMA:66326] synonym: "truncus pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_artery] xref: AAO:0010221 xref: BTO:0000778 xref: CALOHA:TS-0839 xref: EFO:0001399 xref: EHDAA2:0001575 xref: EHDAA:4351 xref: EMAPA:17008 xref: FMA:66326 xref: GAID:505 xref: galen:PulmonaryArtery xref: http://linkedlifedata.com/resource/umls/id/C0034052 xref: http://www.snomedbrowser.com/Codes/Details/181380003 xref: MA:0002031 xref: MESH:D011651 xref: NCIT:C12774 xref: OpenCyc:Mx4rvVjbIpwpEbGdrcN5Y29ycA xref: Pulmonary:artery xref: UMLS:C0034052 {source="ncithesaurus:Pulmonary_Artery"} xref: VHOG:0000982 xref: XAO:0004162 is_a: UBERON:0001637 ! artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013768 ! great vessel of heart intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0008886 ! pulmonary vascular system intersection_of: supplies UBERON:0002048 ! lung disjoint_from: UBERON:0004573 ! systemic artery relationship: continuous_with UBERON:0002333 ! pulmonary trunk relationship: develops_from UBERON:0002061 {source="Wikipedia"} ! truncus arteriosus relationship: develops_from UBERON:0003123 {source="EHDAA2", source="XAO"} ! pharyngeal arch artery 6 relationship: develops_from UBERON:0005339 {source="EHDAA2"} ! outflow tract pulmonary component relationship: part_of UBERON:0008886 ! pulmonary vascular system relationship: supplies UBERON:0002048 ! lung property_value: depicted:by Alveoli:diagram.png property_value: external_definition "Major artery which supplies blood to the lungs.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010221", ontology="AAO", source="AAO:BJB"} property_value: external_definition "One of two arteries, leaving from the heart, the left one supplying the left lung and the right one supplying the right lung. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+artery"} property_value: homology_notes "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: taxon_notes "In the human heart, the pulmonary trunk (pulmonary artery or main pulmonary artery) begins at the base of the right ventricle. It is short and wide - approximately 5 cm (2 inches) in length and 3 cm (1.2 inches) in diameter. It then branches into two pulmonary arteries (left and right), which deliver deoxygenated blood to the corresponding lung[WP]" xsd:string [Term] id: UBERON:0002016 name: pulmonary vein namespace: uberon def: "Pulmonary veins are blood vessels that transport blood from the lungs to the heart[GO]." [GO:0060577] subset: pheno_slim subset: uberon_slim synonym: "pulmonary venous tree organ part" EXACT [] synonym: "venae pulmonales" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_vein] xref: AAO:0010521 xref: BTO:0001799 xref: CALOHA:TS-0840 xref: EHDAA2:0001579 xref: EHDAA:2629 xref: EMAPA:18645 xref: FMA:66643 xref: GAID:543 xref: galen:PulmonaryVein xref: http://linkedlifedata.com/resource/umls/id/C0034090 xref: http://www.snomedbrowser.com/Codes/Details/430160002 xref: MA:0002206 xref: MESH:D011667 xref: NCIT:C12776 xref: Pulmonary:vein xref: UMLS:C0034090 {source="ncithesaurus:Pulmonary_Vein"} xref: VHOG:0001133 xref: XAO:0000394 is_a: UBERON:0001638 ! vein is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013768 ! great vessel of heart intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002048 ! lung relationship: develops_from UBERON:0002061 ! truncus arteriosus relationship: drains UBERON:0002048 ! lung relationship: fma_set_term FMA:70827 relationship: part_of UBERON:0008886 ! pulmonary vascular system property_value: depicted:by Alveoli:diagram.png property_value: external_definition "Any of the veins which collect blood from the lungs and some small vesicles received from the esophagus.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010521", ontology="AAO", source="AAO:BJB"} property_value: external_definition "One of two pairs of large vessels that return oxygenated blood from each lung to the left atrium of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+vein"} property_value: external_definition "the veins that return oxygenated blood from the lungs to the left atrium of the heart" xsd:string {source="MP:0002726,MGI:cwg"} property_value: homology_notes "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} [Term] id: UBERON:0002020 name: gray matter namespace: uberon def: "A nervous system structure composed primarily of nerve cell bodies (somas). May also include dendrites and the initial unmyelinated portion of axons." [http://en.wikipedia.org/wiki/Gray_matter, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "gray mater" RELATED [ZFA:0001681] synonym: "gray matter" EXACT [] synonym: "gray matter of neuraxis" EXACT [FMA:67242] synonym: "grey matter" EXACT [] synonym: "grey matter of neuraxis" EXACT [] synonym: "grey substance" EXACT [] synonym: "grisea" RELATED LATIN [] synonym: "neuronal grey matter" EXACT [AEO:0001012] synonym: "substantia grisea" EXACT LATIN [FMA:67242, FMA:TA] xref: AEO:0001012 xref: EHDAA2:0003136 xref: EHDAA2_RETIRED:0004658 xref: EMAPA:37596 {source="MA:th"} xref: FMA:67242 xref: Gray:matter xref: HBA:4006 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2869 xref: http://linkedlifedata.com/resource/umls/id/C0018220 xref: MA:0001112 xref: NCIT:C32695 xref: OpenCyc:Mx4rwDdKMpwpEbGdrcN5Y29ycA xref: TAO:0002197 xref: UMLS:C0018220 {source="ncithesaurus:Gray_Matter"} xref: VHOG:0001768 xref: ZFA:0001681 is_a: UBERON:0011215 ! central nervous system cell part cluster property_value: depicted:by Spinal:nerve.svg property_value: external_definition "Multi-tissue comprised of neurons, dendrites, axon terminals, glial cells, and capillaries.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002197", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0002028 name: hindbrain namespace: uberon def: "The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]." [http://en.wikipedia.org/wiki/Rhombencephalon, ZFA:0000029, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "rhombencephalon" RELATED [] xref: AAO:0010150 xref: BAMS:HB xref: birnlex:942 xref: BTO:0000672 xref: CALOHA:TS-0457 xref: DHBA:10653 xref: DMBA:16808 xref: EFO:0000923 xref: EHDAA2:0000746 xref: EHDAA:3514 xref: EHDAA:6487 xref: EMAPA:16916 xref: FMA:67687 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=540 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=540 {source="NIFSTD:birnlex_942"} xref: http://en.wikipedia.org/wiki/Rhombencephalon xref: http://linkedlifedata.com/resource/umls/id/C0035507 xref: http://linkedlifedata.com/resource/umls/id/C1522180 xref: http://www.snomedbrowser.com/Codes/Details/303456008 xref: MA:0000195 xref: MAT:0000107 xref: MBA:1065 xref: MESH:D012249 xref: MIAA:0000107 xref: NCIT:C40336 xref: TAO:0000029 xref: UMLS:C0035507 {source="NIFSTD:birnlex_942"} xref: UMLS:C0035507 {source="ncithesaurus:Hind-Brain"} xref: UMLS:C1522180 {source="NIFSTD:birnlex_942"} xref: VHOG:0000070 xref: XAO:0000015 xref: ZFA:0000029 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: develops_from UBERON:0007277 ! presumptive hindbrain relationship: immediate_transformation_of UBERON:0007277 {source="Bgee:AN"} ! presumptive hindbrain relationship: present_in_taxon NCBITaxon:7762 {source="http://www.ncbi.nlm.nih.gov/pubmed/8932866"} ! Myxinidae property_value: axiom_lost_from_external_ontology "relationship loss: develops_from hindbrain neural tube (TAO:0007043)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000029", ontology="TAO"} property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg property_value: external_definition "Posterior part of the brain consisting of the cerebellum and medulla oblongata.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010150", ontology="AAO", source="AAO:BJB"} property_value: external_definition "The most posterior of the three principal regions of the brain, forming the rhombencephalon and all or most of the metencephalon. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000029", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "in MA, brainstem and hindbrain and part-of siblings under brain, consistent with FMA and NIF. See also notes for cerebellum. We weaken the relation in ABA to overlaps" xsd:string {external_ontology="MA"} property_value: has_relational_adjective "rhombencephalic" xsd:string property_value: homology_notes "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000070", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)"} [Term] id: UBERON:0002040 name: bronchial artery namespace: uberon def: "A systemic artery that supplies the lung with with oxygenated blood." [http://en.wikipedia.org/wiki/Bronchial_artery, UBERON:cjm] comment: Although there is much variation, there are usually two bronchial arteries that run to the left lung, and one to the right lung. subset: uberon_slim synonym: "arteriae bronchiales" RELATED LATIN [http://en.wikipedia.org/wiki/Bronchial_artery] synonym: "bronchial arterial tree" EXACT [] synonym: "rami bronchiales partis thoracicae aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Bronchial_artery] xref: Bronchial:artery xref: EMAPA:18608 xref: FMA:68109 xref: GAID:477 xref: http://linkedlifedata.com/resource/umls/id/C0006257 xref: http://www.snomedbrowser.com/Codes/Details/244247009 xref: MA:0001923 xref: MESH:D001981 xref: NCIT:C32230 xref: OpenCyc:Mx4r4sy0UiNbEd2AAAACs6hRXg xref: UMLS:C0006257 {source="ncithesaurus:Bronchial_Artery"} is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0004573 ! systemic artery intersection_of: part_of UBERON:0004571 ! systemic arterial system intersection_of: supplies UBERON:0002048 ! lung relationship: supplies UBERON:0002048 ! lung property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/a7/Gray1032.png [Term] id: UBERON:0002048 name: lung namespace: uberon def: "Respiration organ that develops as an oupocketing of the esophagus." [http://orcid.org/0000-0002-6601-2165] comment: Snakes and limbless lizards typically possess only the right lung as a major respiratory organ; the left lung is greatly reduced, or even absent. Amphisbaenians, however, have the opposite arrangement, with a major left lung, and a reduced or absent right lung [WP] subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "pulmo" EXACT LATIN [] xref: AAO:0000275 xref: AAO:0010567 xref: BTO:0000763 xref: CALOHA:TS-0568 xref: EFO:0000934 xref: EHDAA2:0001042 xref: EHDAA:1554 xref: EHDAA:2205 xref: EMAPA:16728 xref: EV:0100042 xref: FMA:7195 xref: GAID:345 xref: galen:Lung xref: http://en.wikipedia.org/wiki/Lung xref: http://linkedlifedata.com/resource/umls/id/C0024109 xref: http://www.snomedbrowser.com/Codes/Details/181216001 xref: MA:0000415 xref: MAT:0000135 xref: MESH:D008168 xref: MIAA:0000135 xref: NCIT:C12468 xref: OpenCyc:Mx4rvVjKy5wpEbGdrcN5Y29ycA xref: UMLS:C0024109 {source="ncithesaurus:Lung"} xref: VHOG:0000310 xref: XAO:0000119 is_a: UBERON:0000171 ! respiration organ is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005178 ! thoracic cavity element is_a: UBERON:0015212 ! lateral structure relationship: contributes_to_morphology_of UBERON:0001004 ! respiratory system relationship: develops_from UBERON:0000118 ! lung bud relationship: in_lateral_side_of UBERON:0000170 ! pair of lungs relationship: part_of UBERON:0000170 {note="some species only have a single lung"} ! pair of lungs property_value: external_definition "Either of two organs which allow gas exchange absorbing oxygen from inhaled air and releasing carbon dioxide with exhaled air.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010567", ontology="AAO", source="AAO:SBH"} property_value: has_relational_adjective "pulmonary" xsd:string property_value: homology_notes "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata. (...) In actinopterygian fishes, apart from Cladistia, the ventral intestinal pocket migrates dorsally and becomes the swim-bladder, a mainly hydrostatical organ (reference 1); Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000310", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210, DOI:10.1371/journal.pone.0024019 Zheng W, Wang Z, Collins JE, Andrews RM, Stemple D, Gong Z, Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung. PLoS One (2011)"} property_value: seeAlso https://github.com/obophenotype/uberon/issues/701 property_value: taxon_notes "respiration organ in all air-breathing animals, including most tetrapods, a few fish and a few snails. In mammals and the more complex life forms, the two lungs are located in the chest on either side of the heart. Their principal function is to transport oxygen from the atmosphere into the bloodstream, and to release carbon dioxide from the bloodstream into the atmosphere. This exchange of gases is accomplished in the mosaic of specialized cells that form millions of tiny, exceptionally thin-walled air sacs called alveoli. // Avian lungs do not have alveoli as mammalian lungs do, they have Faveolar lungs. They contain millions of tiny passages known as para-bronchi, connected at both ends by the dorsobronchi" xsd:string [Term] id: UBERON:0002049 name: vasculature namespace: uberon def: "An interconnected tubular multi-tissue structure contains fluid that is actively transported around the organism[ZFA]. Examples: vasculature of lung, vasculature of face." [ZFA:0005249] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "vascular network" EXACT [FMA:69050] xref: BTO:0003718 xref: FMA:69050 xref: TAO:0005249 xref: ZFA:0005249 is_a: BFO:0000040 ! material entity is_a: UBERON:0000477 {source="FMA"} ! anatomical cluster relationship: composed_primarily_of UBERON:0000055 ! vessel relationship: has_part UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0007798 ! vascular system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg property_value: editor_note "see also: vascular system. Consider merging?" xsd:string property_value: has_relational_adjective "vascular" xsd:string [Term] id: UBERON:0002050 name: embryonic structure namespace: uberon def: "Anatomical structure that is part of an embryo." [BTO:0000174, ZFIN:curator] subset: efo_slim subset: inconsistent_with_fma subset: vertebrate_core synonym: "developing embryonic structure" EXACT [FBbt:00004208] synonym: "developing structure" RELATED [] synonym: "embryonale Struktur" RELATED [BTO:0000174] synonym: "embryonic anatomical structure" EXACT [RETIRED_EHDAA2:0003169] synonym: "embryonic structures" RELATED PLURAL [ZFA:0001105] xref: AAO:0000138 xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 xref: FBbt:00004208 xref: FMA:69067 xref: GAID:407 xref: http://linkedlifedata.com/resource/umls/id/C0013948 xref: http://www.snomedbrowser.com/Codes/Details/667009 xref: MESH:D004628 xref: NCIT:C13229 xref: RETIRED_EHDAA2:0003169 xref: TAO:0001105 xref: UMLS:C0013948 {source="ncithesaurus:Embryonic_Structure"} xref: VSAO:0000178 xref: XAO:0003042 xref: ZFA:0001105 is_a: BFO:0000002 ! continuant is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000138", ontology="AAO", source="AAO:BJB"} property_value: external_definition "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001105", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000178", ontology="VSAO", source="ZFIN:curator"} property_value: external_ontology_notes "in FMA embryo is_a embryonic structure" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002061 name: truncus arteriosus namespace: uberon def: "The truncus arteriosus and bulbus cordis are divided by the aorticopulmonary septum. The truncus arteriosus gives rise to the ascending aorta and the pulmonary trunk. The bulbus cordis gives rise to the smooth parts (outflow tract) of the left and right ventricles." [http://en.wikipedia.org/wiki/Truncus_arteriosus_(embryology)] subset: uberon_slim xref: EHDAA2:0004143 xref: EMAPA:35887 xref: FMA:70301 xref: GAID:554 xref: http://en.wikipedia.org/wiki/Truncus_arteriosus_(embryology) xref: http://linkedlifedata.com/resource/umls/id/C1519589 xref: http://www.snomedbrowser.com/Codes/Details/308828009 xref: MA:0000103 xref: MESH:D014338 xref: NCIT:C34317 xref: OpenCyc:Mx4rquH9YKgNEdudWQACs5b6Bw xref: UMLS:C1519589 {source="ncithesaurus:Trancus_Arteriosus"} is_a: UBERON:0001637 {source="EHDAA2"} ! artery is_a: UBERON:0002050 {source="FMA"} ! embryonic structure is_a: UBERON:0003498 ! heart blood vessel is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0005432 {source="EHDAA2"} ! aortic sac relationship: part_of UBERON:0004145 {source="MA"} ! outflow tract relationship: part_of UBERON:0005498 {source="EHDAA2"} ! primitive heart tube property_value: external_ontology_notes "assume spelling error for ncit" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0002067 name: dermis namespace: uberon def: "The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]." [http://en.wikipedia.org/wiki/Dermis, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "corium" RELATED [BTO:0000294] synonym: "corium" RELATED LATIN [http://en.wikipedia.org/wiki/Dermis] synonym: "cutis" RELATED [BTO:0000294] synonym: "vertebrate dermis" EXACT [] xref: AAO:0000128 xref: BTO:0000294 xref: CALOHA:TS-2076 xref: EFO:0000953 xref: EMAPA:17527 xref: EV:0100154 xref: FMA:70323 xref: GAID:1321 xref: http://en.wikipedia.org/wiki/Dermis xref: http://linkedlifedata.com/resource/umls/id/C0011646 xref: http://www.snomedbrowser.com/Codes/Details/361696001 xref: MA:0000152 xref: MAT:0000153 xref: MESH:D020405 xref: MIAA:0000153 xref: NCIT:C12701 xref: TAO:0001119 xref: UMLS:C0011646 {source="ncithesaurus:Dermis"} xref: VHOG:0000108 xref: XAO:0000217 xref: ZFA:0001119 is_a: BFO:0000040 ! material entity is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013754 ! integumentary system layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue relationship: deep_to UBERON:0001003 ! skin epidermis relationship: develops_from UBERON:0010083 ! future dermis relationship: has_part UBERON:0011860 ! collection of collagen fibrils relationship: immediate_transformation_of UBERON:0010083 {evidence="definitional"} ! future dermis relationship: part_of UBERON:0002097 {source="FMA"} ! skin of body relationship: superficial_to UBERON:0002072 ! hypodermis property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/23/EpidermisPainted.svg property_value: editor_note "Consider adding a layer-of-skin grouping class for all skin layers" xsd:string property_value: external_definition "A collagenous layer of the skin subjacent to the epidermis and covering the hypodermis. It contains various types of cells (e.g. fibroblasts, pigment cells, nerve, blood vessels and scales. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001119", ontology="TAO", source="ZFIN:curator"} property_value: has_relational_adjective "dermal" xsd:string property_value: homology_notes "When approaching controversies surrounding skin evolution, we need to remember that the skin consists of two layers, an epidermis and a dermis, not a single evolving structure. (...) It is little wonder that controversies about homology exist. If we think of the epidermis, the dermis, and their interactions as an evolving unit, then their specialized products (hair, feathers, and reptilian scales) are broadly homologous.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000108", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.231-232 see also p.209 and p.228 and Figure 6-1"} [Term] id: UBERON:0002072 name: hypodermis namespace: uberon def: "Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]." [http://en.wikipedia.org/wiki/Hypodermis] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "hypoderm" EXACT [] synonym: "sub-tegumental tissue" RELATED [BTO:0004525] synonym: "subcutaneous tissue" RELATED [http://en.wikipedia.org/wiki/Hypodermis] synonym: "subcutis" RELATED [] synonym: "subtegumental tissue" RELATED [BTO:0004525] synonym: "superficial fascia" RELATED INCONSISTENT [] synonym: "tela subcutanea" RELATED LATIN [http://en.wikipedia.org/wiki/Hypodermis] synonym: "vertebrate hypodermis" EXACT [] xref: BTO:0001314 xref: CALOHA:TS-2366 xref: EMAPA:37505 {source="MA:th"} xref: FMA:70544 xref: http://en.wikipedia.org/wiki/Hypodermis xref: http://linkedlifedata.com/resource/umls/id/C0278403 xref: NCIT:C33645 xref: TAO:0001136 xref: UMLS:C0278403 {source="ncithesaurus:Subcutis"} xref: ZFA:0001136 is_a: BFO:0000040 ! material entity is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer relationship: composed_primarily_of UBERON:0001013 ! adipose tissue relationship: composed_primarily_of UBERON:0011825 {source="FMA-modified"} ! loose connective tissue relationship: deep_to UBERON:0002067 ! dermis relationship: part_of UBERON:0002199 {source="ZFA"} ! integument relationship: superficial_to UBERON:0001015 ! musculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg property_value: external_definition "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001136", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells[FMA:70544]." xsd:string {source="FMA:70544"} property_value: external_ontology_notes "BTO has 'subcutis', as part of dermis. We follow FMA in having distinct classes for hypodermis and superficial fascia, and including these as part of the non-skin intgeument." xsd:string {external_ontology="BTO"} property_value: has_relational_adjective "hypodermal" xsd:string property_value: has_relational_adjective "subcutaneous" xsd:string property_value: has_relational_adjective "subcutaneus" xsd:string [Term] id: UBERON:0002075 name: viscus namespace: uberon def: "An organ that is located within the body cavity (or in its extension, in the scrotum); it consists of organ parts that are embryologically derived from endoderm, splanchnic mesoderm or intermediate mesoderm; together with other organs, the viscus constitutes the respiratory, gastrointestinal, urinary, reproductive and immune systems, or is the central organ of the cardiovascular system. Examples: heart, lung, esophagus, kidney, ovary, spleen." [BTO:0001491, http://en.wikipedia.org/wiki/Viscus, https://github.com/obophenotype/mouse-anatomy-ontology/issues/14] subset: organ_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "Organsystem@de" RELATED [BTO:0001491] synonym: "splanchnic tissue" RELATED [BTO:0001491] synonym: "viscera" RELATED [] synonym: "visceral organ" EXACT [RETIRED_EHDAA2:0002201] synonym: "visceral organ system" EXACT [MA:0000019] synonym: "visceral tissue" RELATED [BTO:0001491] xref: AAO:0010386 xref: BTO:0001491 xref: EHDAA:512 xref: EMAPA:16245 xref: FMA:7085 xref: http://en.wikipedia.org/wiki/Viscus xref: http://linkedlifedata.com/resource/umls/id/C0042779 xref: http://www.snomedbrowser.com/Codes/Details/118760003 xref: MA:0000019 xref: MESH:D014781 xref: NCIT:C28287 xref: RETIRED_EHDAA2:0002201 xref: UMLS:C0042779 {source="ncithesaurus:Viscera"} xref: XAO:0003034 is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000062 ! organ intersection_of: located_in UBERON:0002323 ! coelemic cavity lumen relationship: located_in UBERON:0002323 ! coelemic cavity lumen property_value: external_definition "An internal organ of the body; especially: one (as the heart, liver, or intestine) located in the great cavity of the trunk proper.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010386", ontology="AAO", source="BTO:0001491"} property_value: external_ontology_notes "general anatomical term in FMA. Note that we place the MA class here temporarily, although properly systems should be distinguished from organs." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002090 name: postcranial axial skeleton namespace: uberon def: "The postcranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]." [https://sourceforge.net/tracker/?func=detail&aid=2983975&group_id=76834&atid=974957, https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=2983977&group_id=76834, ZFA:0000317] comment: previous some AOs had used the term 'axial skeleton' to include the skull. This is being resolved (see tracker items above). Status: MA - fixed. subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "axial skeleton" BROAD [FMA:71221, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton] synonym: "post-cranial axial skeleton" EXACT [] xref: AAO:0000034 xref: EFO:0000942 xref: EHDAA2:0000161 xref: EHDAA:5049 xref: EMAPA:17214 xref: EMAPA:37721 {source="MA:th"} xref: FMA:71221 xref: MA:0002986 xref: MAT:0000148 xref: MIAA:0000148 xref: TAO:0000317 xref: VHOG:0000317 xref: VSAO:0000093 xref: XAO:0003073 xref: ZFA:0000317 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of UBERON:0011138 ! postcranial axial skeletal system property_value: external_definition "Skeletal subdivision of the central body axis including vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000093", ontology="VSAO", source="PSPUB:0000170"} property_value: external_definition "The axial skeleton is formed by the vertebral column, a metameric, semi-flexible, arched bar located in the dorsal part of the trunk, and is formed by a series of cartilaginous or bony vertebrae. It provides suspension for the appendicular skeleton and protection for the spinal nerve cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000034", ontology="AAO", source="AAO:LAP"} property_value: external_definition "The post-cranial structural components forming the long axis of the vertebrate body; usually consists of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000317", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "The axial musculoskeletal system represents the plesiomorphic locomotor engine of the vertebrate body, playing a central role in locomotion. In craniates, the evolution of the postcranial skeleton is characterized by two major transformations. First, the axial skeleton became increasingly functionally and morphologically regionalized. Second, the axial-based locomotion plesiomorphic for craniates became progressively appendage-based with the evolution of extremities in tetrapods.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000317", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1186/1742-9994-8-4 Schilling N, Evolution of the axial system in craniates: morphology and function of the perivertebral musculature. Frontiers in Zoology (2011)"} property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0002097 name: skin of body namespace: uberon def: "The organ covering the body that consists of the dermis and epidermis." [UBERON:cjm] subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim synonym: "entire integument" RELATED [] synonym: "entire skin" EXACT [] synonym: "integument" RELATED [] synonym: "integumental organ" RELATED [] synonym: "pelt" RELATED [] synonym: "skin" RELATED [] synonym: "skin organ" EXACT [] xref: BTO:0001253 xref: CALOHA:TS-0934 xref: EFO:0000962 xref: EHDAA2:0001844 xref: EMAPA:17525 xref: FMA:7163 xref: galen:Skin xref: http://en.wikipedia.org/wiki/Skin xref: http://linkedlifedata.com/resource/umls/id/C1123023 xref: http://www.snomedbrowser.com/Codes/Details/181469002 xref: MESH:D012867 xref: MFMO:0000099 xref: NCIT:C12470 xref: OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA xref: UMLS:C1123023 {source="ncithesaurus:Skin"} xref: XAO:0000023 is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: composed_primarily_of UBERON:0000014 ! zone of skin relationship: develops_from UBERON:0011272 {source="Wikipathways:WP2062"} ! embryonic skin basal layer relationship: part_of UBERON:0002199 ! integument property_value: curator_notes "consider 'integumentary system' for invertebrates" xsd:string property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg property_value: external_ontology_notes "MA uses the term skin to refer to what is called here: zone of skin" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002099 name: cardiac septum namespace: uberon def: "The thin membranous structure between the two heart atria or the thick muscular structure between the two heart ventricles." [MESH:A07.541.459] subset: pheno_slim subset: uberon_slim synonym: "cardiac septa" EXACT PLURAL [] synonym: "heart septa" EXACT PLURAL [] synonym: "heart septum" EXACT [] synonym: "septum of heart" EXACT [] synonym: "spiral septa" RELATED PLURAL [XAO:0004141] xref: EMAPA:35400 xref: FMA:7180 xref: GAID:562 xref: http://linkedlifedata.com/resource/umls/id/C0018819 xref: http://www.snomedbrowser.com/Codes/Details/362014000 xref: MA:0000083 xref: MESH:D006346 xref: NCIT:C49485 xref: UMLS:C0018819 {source="ncithesaurus:Heart_Septum"} xref: XAO:0004141 is_a: UBERON:0003037 ! septum is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003037 ! septum intersection_of: part_of UBERON:0000948 ! heart relationship: adjacent_to UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: external_ontology_notes "in GO, septum morphogenesis is part of cardiac chamber morphogenesis; need to add axioms to infer this" xsd:string {external_ontology="GO"} property_value: taxon_notes "'Terrestrial vertebrates have divided hearts in which septae separate the oxygenated and deoxygenated blood within the pulmonary and systemic circulations'" xsd:string [Term] id: UBERON:0002100 name: trunk namespace: uberon def: "Organism subdivision which is the part of the body posterior to the cervical region (or head, when cervical region not present) and anterior to the caudal region. Includes the sacrum when present." [http://en.wikipedia.org/wiki/Torso, TAO:0001115, UBERONREF:0000006] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Rumpf" RELATED [BTO:0001493] synonym: "thoracolumbar region" EXACT [] synonym: "torso" EXACT [] synonym: "trunk region" EXACT [XAO:0000054] xref: AAO:0010339 xref: BILA:0000116 xref: BTO:0001493 xref: CALOHA:TS-1071 xref: EFO:0000966 xref: EMAPA:31857 xref: FMA:7181 xref: galen:Trunk xref: http://en.wikipedia.org/wiki/Torso xref: http://linkedlifedata.com/resource/umls/id/C0460005 xref: http://www.snomedbrowser.com/Codes/Details/262225004 xref: MA:0000004 xref: MAT:0000296 xref: MIAA:0000296 xref: NCIT:C33816 xref: OpenCyc:Mx4rvVkJjpwpEbGdrcN5Y29ycA xref: TAO:0001115 xref: UMLS:C0460005 {source="ncithesaurus:Trunk"} xref: XAO:0000054 xref: XAO:0003025 xref: ZFA:0001115 is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: part_of UBERON:0013702 ! body proper property_value: external_definition "Organism subdivision that is the part of the body posterior to the head and anterior to the tail.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010339", ontology="AAO", source="AAO:BJB"} property_value: external_definition "Organism subdivision which is the part of the body posterior to the head and anterior to the tail.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001115", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0002104 name: visual system namespace: uberon alt_id: UBERON:0007036 def: "The sensory system subserving the sense of vision." [NIFSTD:FMAID_7191] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "photosensory system" EXACT [BILA:0000140] synonym: "visual organ system" EXACT [] xref: AAO:0000632 xref: BILA:0000140 xref: EMAPA:36003 xref: FMA:7191 xref: FMAID:7191 xref: http://linkedlifedata.com/resource/umls/id/C0587900 xref: http://www.snomedbrowser.com/Codes/Details/281831001 xref: MA:0002444 xref: NCIT:C12888 xref: OpenCyc:Mx4rvViCtpwpEbGdrcN5Y29ycA xref: TAO:0001127 xref: UMLS:C0587900 {source="ncithesaurus:Visual_System"} xref: Visual:system xref: XAO:0003198 xref: ZFA:0001127 is_a: UBERON:0001032 ! sensory system property_value: external_definition "The sensory system used for sight.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000632", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0002111 name: artery smooth muscle tissue namespace: uberon def: "A portion of smooth muscle tissue that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial smooth muscle" EXACT [BTO:0000087] synonym: "arterial smooth muscle cell" RELATED [BTO:0000087] synonym: "artery smooth muscle" EXACT [] synonym: "artery smooth muscle tissue" EXACT [] synonym: "smooth muscle of artery" EXACT [FMA:72024] xref: BTO:0000087 xref: CALOHA:TS-1198 xref: EMAPA:36285 xref: FMA:72024 xref: http://linkedlifedata.com/resource/umls/id/C1706851 xref: MA:0000708 xref: NCIT:C49195 xref: UMLS:C1706851 {source="ncithesaurus:Artery_Smooth_Muscle_Tissue"} is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0002165 name: endocardium namespace: uberon alt_id: UBERON:0006225 def: "The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]." [GO:0003157] comment: fixed in GO to reflect FMA. See email to David/Varsha June 18 2010 subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "endocardial lining" EXACT [EMAPA:32686] synonym: "endocardial tissue" EXACT [EMAPA:17868] synonym: "heart endocardial tissue" RELATED [VHOG:0000084] synonym: "heart endocardium" EXACT [] xref: AAO:0010408 xref: BTO:0000387 xref: CALOHA:TS-2075 xref: EFO:0000821 xref: EHDAA2:0004153 xref: EMAPA:17868 xref: EMAPA:32686 xref: EV:0100021 xref: FMA:7280 xref: GAID:550 xref: galen:Endocardium xref: http://en.wikipedia.org/wiki/Endocardium xref: http://linkedlifedata.com/resource/umls/id/C0014124 xref: http://www.snomedbrowser.com/Codes/Details/362013006 xref: MA:0000076 xref: MAT:0000455 xref: MESH:D004699 xref: NCIT:C13004 xref: OpenCyc:Mx4rsWA75K1cEduAAADggVaqvw xref: TAO:0001320 xref: UMLS:C0014124 {source="ncithesaurus:Endocardium"} xref: VHOG:0000084 xref: XAO:0000066 xref: ZFA:0001320 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0005983 ! heart layer relationship: develops_from UBERON:0007280 ! presumptive endocardium relationship: has_part UBERON:0005316 ! endocardial endothelium relationship: immediate_transformation_of UBERON:0007280 {source="Bgee:AN"} ! presumptive endocardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png property_value: external_definition "Layer that lines the lumen of the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001320", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010408", ontology="AAO", source="AAO:BJB"} property_value: external_definition "Tunica intima which has as its parts the endothelium of endocardium and the fibroelastic connective tissue that surrounds the cavity of a cardiac chamber." xsd:string {source="FMA:7280"} [Term] id: UBERON:0002167 name: right lung namespace: uberon def: "Lung which consists of the right upper lobe, middle lobe and right lower lobe.[FMA]" [FMA:FMA, http://en.wikipedia.org/wiki/Right_lung] subset: pheno_slim subset: uberon_slim xref: EHDAA2:0001730 xref: EHDAA:4969 xref: EMAPA:17661 xref: FMA:7309 xref: http://linkedlifedata.com/resource/umls/id/C0225706 xref: http://www.snomedbrowser.com/Codes/Details/361967000 xref: MA:0000426 xref: NCIT:C33483 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: Right:lung xref: UMLS:C0225706 {source="ncithesaurus:Right_Lung"} xref: VHOG:0000301 is_a: UBERON:0002048 ! lung intersection_of: UBERON:0002048 ! lung intersection_of: in_right_side_of UBERON:0000170 ! pair of lungs relationship: in_right_side_of UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/32/Gray972.png property_value: homology_notes "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000301", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210"} property_value: implements_design_pattern https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002168 name: left lung namespace: uberon def: "Lung which consists of the left upper lobe and left lower lobe.[FMA]" [FMA:FMA, http://en.wikipedia.org/wiki/Left_lung] subset: pheno_slim subset: uberon_slim xref: EHDAA2:0000943 xref: EHDAA:4947 xref: EMAPA:17653 xref: FMA:7310 xref: http://linkedlifedata.com/resource/umls/id/C0225730 xref: http://www.snomedbrowser.com/Codes/Details/361982005 xref: Left:lung xref: MA:0000425 xref: NCIT:C32967 xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: UMLS:C0225730 {source="ncithesaurus:Left_Lung"} xref: VHOG:0000618 is_a: UBERON:0002048 ! lung intersection_of: UBERON:0002048 ! lung intersection_of: in_left_side_of UBERON:0000170 ! pair of lungs relationship: in_left_side_of UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/dd/Gray973.png property_value: homology_notes "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000618", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210"} property_value: implements_design_pattern https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002190 name: subcutaneous adipose tissue namespace: uberon alt_id: UBERON:0008875 def: "A portion of adipose tissue that is part of the hypodermis, beneath the dermis." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "fatty layer of subcutaneous tissue" EXACT [FMA:74315] synonym: "fatty layer of superficial fascia" RELATED [FMA:74315] synonym: "hypodermis fat layer" EXACT [MP:0011156] synonym: "panniculus adiposus" BROAD [MP:0011156] synonym: "panniculus adiposus (tela subcutanea)" EXACT LATIN [FMA:74315, FMA:TA] synonym: "panniculus adiposus telae subcutaneae" EXACT LATIN [FMA:74315, FMA:TA] synonym: "subcutaneous fat" RELATED [BTO:0004042] synonym: "subcutaneous fat layer" EXACT [MP:0011156] xref: BTO:0004042 xref: EMAPA:35829 xref: FMA:74315 xref: MA:0000473 is_a: UBERON:0001013 ! adipose tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002072 ! hypodermis relationship: contributes_to_morphology_of UBERON:0002072 ! hypodermis relationship: part_of UBERON:0002072 ! hypodermis property_value: external_definition "the superficial portion of the subcutaneous tissue which is specialized for fat storage[MP:0011156]" xsd:string {source="MP:0011156"} [Term] id: UBERON:0002193 name: hemolymphoid system namespace: uberon def: "Anatomical cluster consisting of the hematopoietic system and the lymphoid system, or its analogs." [http://orcid.org/0000-0002-6601-2165] synonym: "haemolymphoid system" RELATED [] synonym: "hematolymphoid system" EXACT [] synonym: "lymphomyeloid complex" EXACT [] xref: CALOHA:TS-2018 xref: EHDAA2:0004615 xref: EMAPA:18765 xref: FMA:74562 xref: MA:0000013 is_a: UBERON:0000467 {source="MA"} ! anatomical system [Term] id: UBERON:0002199 name: integument namespace: uberon def: "The dermis, epidermis and hypodermis." [http://en.wikipedia.org/wiki/Integument] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "dermal system" RELATED [BTO:0000634] synonym: "dermis plus epidermis plus hypodermis" EXACT [] synonym: "dermoid system" RELATED [BTO:0000634] synonym: "Hautsystem@de" RELATED [BTO:0000634] synonym: "integumentum commune" EXACT LATIN [FMA:74657, FMA:TA] synonym: "skin" RELATED [] synonym: "skin and subcutaneous tissue" EXACT [] synonym: "skin plus hypodermis" EXACT [] synonym: "tegument" RELATED [BTO:0000634] synonym: "the integument" EXACT [FMA:74657] synonym: "vertebrate integument" RELATED [] xref: AAO:0000239 xref: BTO:0000634 xref: EMAPA:37504 {source="MA:th"} xref: FMA:74657 xref: galen:Integument xref: http://en.wikipedia.org/wiki/Integument xref: TAO:0000368 xref: VSAO:0000029 xref: ZFA:0000368 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="FMA"} ! organ system subdivision relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: has_part UBERON:0002072 ! hypodermis relationship: has_part UBERON:0002097 ! skin of body relationship: part_of UBERON:0002416 {source="FMA"} ! integumental system property_value: curator_notes "in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term 'integument' used in invertebrates; consider 'integumental system'. Note that the VSAO class appears to include adnexa by its definition." xsd:string property_value: external_definition "Anatomical system that protects the body from damage, comprising the skin and its appendages.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000239", ontology="AAO", source="AAO:EJS"} property_value: external_definition "Surface structure that is the outer protective covering of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000029", ontology="VSAO", source="PSPUB:0000170"} property_value: external_definition "The outer protective barrier that separates the animal from its aquatic environment. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000368", ontology="TAO", source="ZFIN:curator"} property_value: has_relational_adjective "integumental" xsd:string property_value: has_relational_adjective "integumentary" xsd:string [Term] id: UBERON:0002200 name: vasculature of head namespace: uberon def: "Vasculature that is part of a head [Automatically generated definition]." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "adult head vascular network" EXACT [OBOL:automatic] synonym: "adult head vasculature" EXACT [OBOL:automatic] synonym: "cranial vasculature" EXACT [] synonym: "head vascular network" EXACT [OBOL:automatic] synonym: "head vasculature" RELATED [] synonym: "vascular network of adult head" EXACT [OBOL:automatic] synonym: "vascular network of head" EXACT [OBOL:automatic] synonym: "vasculature of adult head" EXACT [OBOL:automatic] xref: EFO:0003656 xref: FMA:74710 xref: TAO:0001267 xref: XAO:0004152 xref: ZFA:0001267 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0002201 name: vasculature of trunk namespace: uberon def: "A vasculature that is part of a trunk [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "torso vascular network" EXACT [OBOL:automatic] synonym: "torso vasculature" EXACT [OBOL:automatic] synonym: "trunk vascular network" EXACT [OBOL:automatic] synonym: "trunk vasculature" EXACT [] synonym: "vascular network of torso" EXACT [OBOL:automatic] synonym: "vascular network of trunk" EXACT [OBOL:automatic] synonym: "vasculature of torso" EXACT [OBOL:automatic] xref: FMA:74712 xref: TAO:0005024 xref: ZFA:0005024 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0002203 name: vasculature of eye namespace: uberon def: "Vasculature that is part of the eye region." [https://sourceforge.net/tracker/?func=detail&aid=3489658&group_id=76834&atid=994726, OBOL:automatic] subset: pheno_slim subset: vertebrate_core synonym: "eye vascular network" EXACT [OBOL:automatic] synonym: "eye vasculature" RELATED [] synonym: "ocular blood vessel" EXACT [ZFA:0007057] synonym: "ocular vasculature" EXACT [] synonym: "optic vasculature" RELATED [] synonym: "vascular network of eye" EXACT [OBOL:automatic] xref: FMA:74743 xref: http://www.snomedbrowser.com/Codes/Details/123846009 xref: TAO:0007057 xref: ZFA:0007057 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003314 {source="ISBN:0781772214"} ! eye mesenchyme relationship: part_of UBERON:0000019 ! camera-type eye property_value: external_ontology_notes "not part of the eye in ZFA. Note this changed to a blood vessel in ZFA" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0002204 name: musculoskeletal system namespace: uberon def: "Anatomical system that consists of the muscular and skeletal systems." [https://github.com/obophenotype/uberon/issues/77, VSAO:0000031, VSAO:curator] subset: uberon_slim synonym: "musculo-skeletal system" EXACT [] xref: AAO:0010546 xref: CALOHA:TS-1311 xref: EMAPA:32714 xref: EV:0100139 xref: FMA:7482 xref: GAID:98 xref: http://linkedlifedata.com/resource/umls/id/C0026860 xref: http://www.snomedbrowser.com/Codes/Details/278858007 xref: MA:0002418 xref: MESH:D009141 xref: Musculoskeletal:system xref: NCIT:C12754 xref: OpenCyc:Mx4rQRpVNgAKEdyHxgDggVfs8g xref: UMLS:C0026860 {source="ncithesaurus:Musculoskeletal_System"} xref: VHOG:0001275 xref: VSAO:0000031 xref: XAO:0000168 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: dc-contributor https://github.com/cmungall relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_developmental_contribution_from UBERON:0000926 {notes="check ctenophore"} ! mesoderm relationship: has_part UBERON:0000383 ! musculature of body relationship: has_part UBERON:0001434 ! skeletal system property_value: external_definition "Anatomical system that provides locomotion and physical support to the organism.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010546", ontology="AAO", source="AAO:EJS"} property_value: has_relational_adjective "musculoskeletal" xsd:string property_value: homology_notes "There are more than 50,000 extant vertebrate species, representing over 500 million years of evolution. During that time, the vertebrate musculoskeletal systems have adapted to aquatic, terrestrial, fossorial, and arboreal lifestyles, while simultaneously retaining functionally integrated axial and appendicular skeletal systems.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001275", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jez.b.21246 Shearman RM, Burke AC, The lateral somitic frontier in ontogeny and phylogeny. Journal of Experimental Zoology (2009)"} [Term] id: UBERON:0002217 name: synovial joint namespace: uberon def: "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]" [FMA:7501, http://en.wikipedia.org/wiki/Synovial_joint] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "articulatio synoviale" EXACT [] synonym: "diarthrodial joints" RELATED PLURAL [ZFA:0005153] synonym: "diarthroses" EXACT PLURAL [ZFA:0005153] synonym: "diarthrosis" EXACT [] synonym: "diarthrosis joint" EXACT [] xref: AEO:0000183 xref: CALOHA:TS-2138 xref: EHDAA2:0003183 xref: FMA:7501 xref: galen:SynovialJoint xref: http://www.snomedbrowser.com/Codes/Details/113234001 xref: MA:0000322 xref: NCIT:C32461 xref: OpenCyc:Mx4rv2bBV5wpEbGdrcN5Y29ycA xref: Synovial:joint xref: TAO:0005153 xref: ZFA:0005153 is_a: UBERON:0000982 ! skeletal joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: surrounded_by UBERON:0001484 ! articular capsule disjoint_from: UBERON:0011134 ! nonsynovial joint relationship: surrounded_by UBERON:0001484 ! articular capsule property_value: external_definition "Is a joint that is located at the point of contact of articulating bones allowing movement. The joint has a capsule containing synovial fluid surrounding the articulating bone surfaces.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005153", ontology="TAO", source="ZFIN:Curator"} [Term] id: UBERON:0002224 name: thoracic cavity namespace: uberon def: "The part of the coelemic cavity lumen that is enclosed by the walls of the thorax." [http://en.wikipedia.org/wiki/Thoracic_cavity, UBERON:cjm] subset: pheno_slim subset: uberon_slim synonym: "cavitas thoracis" EXACT LATIN [http://en.wikipedia.org/wiki/Thoracic_cavity] synonym: "cavity of chest" EXACT [] synonym: "cavity of thorax" EXACT [] synonym: "chest cavity" EXACT [] synonym: "pectoral cavity" EXACT [] synonym: "space of thoracic compartment" EXACT [FMA:7565] synonym: "thoracic lumen" EXACT [] xref: EMAPA:36497 xref: FMA:7565 xref: GAID:93 xref: http://linkedlifedata.com/resource/umls/id/C0230139 xref: http://www.snomedbrowser.com/Codes/Details/243949006 xref: MA:0000032 xref: MESH:A01.911.800 xref: NCIT:C12905 xref: OpenCyc:Mx4rmvyleLfEEduAAAACs6hRXg xref: OpenCyc:Mx4rvhU_TpwpEbGdrcN5Y29ycA xref: Thoracic:cavity xref: UMLS:C0230139 {source="ncithesaurus:Thoracic_Cavity"} is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000915 ! thoracic segment of trunk intersection_of: part_of UBERON:0002323 ! coelemic cavity lumen relationship: luminal_space_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002323 ! coelemic cavity lumen property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/ce/Gray846.png property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg property_value: taxon_notes "In many species, the diaphragm separates thoracic and abdominal cavities" xsd:string [Term] id: UBERON:0002240 name: spinal cord namespace: uberon def: "Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO)" [NIFSTD:birnlex_1709] subset: cumbo subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cerebro-cerebellar fissure" RELATED [NeuroNames:22] synonym: "cerebrocerebellar fissure" RELATED [NeuroNames:22] synonym: "fissura cerebro-cerebellaris" RELATED LATIN [NeuroNames:22] synonym: "fissura cerebrocerebellaris" RELATED LATIN [NeuroNames:22] synonym: "medulla spinalis" RELATED [BTO:0001279] synonym: "medulla spinalis" RELATED LATIN [http://en.wikipedia.org/wiki/Spinal_cord] synonym: "SpC" RELATED ABBREVIATION [] synonym: "spinal cord structure" RELATED [ZFA:0000075] synonym: "spinal medulla" RELATED [BTO:0001279] xref: AAO:0010151 xref: BAMS:SP xref: BAMS:Spinal xref: birnlex:1709 xref: BM:SpC xref: BTO:0001279 xref: CALOHA:TS-0953 xref: DHBA:12890 xref: DMBA:17651 xref: EFO:0000110 xref: EHDAA2:0001255 xref: EHDAA:2863 xref: EMAPA:17577 xref: EV:0100316 xref: FMA:7647 xref: GAID:695 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=22 {source="NIFSTD:birnlex_1709"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=22 xref: http://linkedlifedata.com/resource/umls/id/C0037925 xref: http://www.snomedbrowser.com/Codes/Details/180959008 xref: MA:0000216 xref: MAT:0000183 xref: MESH:D013116 xref: MIAA:0000183 xref: NCIT:C12464 xref: OpenCyc:Mx4rvVjjk5wpEbGdrcN5Y29ycA xref: Spinal:cord xref: TAO:0000075 xref: UMLS:C0037925 {source="ncithesaurus:Spinal_Cord"} xref: UMLS:C0037925 {source="NIFSTD:birnlex_1709"} xref: VHOG:0000601 xref: XAO:0000020 xref: ZFA:0000075 is_a: UBERON:0000489 ! cavitated compound organ is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005174 ! dorsal region element is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003076 ! posterior neural tube relationship: develops_from UBERON:0006241 ! future spinal cord relationship: has_developmental_contribution_from UBERON:0003853 {evidence="definitional"} ! spinal cord neural crest relationship: immediate_transformation_of UBERON:0006241 {evidence="definitional"} ! future spinal cord relationship: part_of UBERON:0001017 ! central nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg property_value: editor_note "TODO - add superclass to unify with VNC?" xsd:string property_value: external_definition "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010151", ontology="AAO", source="AAO:BJB"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000601", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165"} [Term] id: UBERON:0002298 name: brainstem namespace: uberon def: "Stalk-like part of the brain that includes amongst its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,MP,generalized]." [http://en.wikipedia.org/wiki/Brainstem, ISBN10:0471888893, MP:0005277, ZFA:0001707] comment: 'brainstem' is a loose term that sometimes refers to the ventral parts o the brain except for any part of the telencephalon - sometimes it includes the diencephalon or subpallial telencephalon structures (ISBN10:0471888893). Here we use it in a more restriced sense, to include only the medulla oblongata, pons (when present) and the midbrain tegmentum (following the ZFA definitions). subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "accessory medullary lamina of pallidum" RELATED [NeuroNames:236] synonym: "brain stem" EXACT [ABA:BS] synonym: "lamella pallidi incompleta" RELATED LATIN [NeuroNames:236] synonym: "lamina medullaris accessoria" RELATED LATIN [NeuroNames:236] synonym: "lamina medullaris incompleta pallidi" RELATED LATIN [NeuroNames:236] synonym: "lamina pallidi incompleta" RELATED LATIN [NeuroNames:236] synonym: "truncus encephali" EXACT LATIN [http://en.wikipedia.org/wiki/Brainstem] synonym: "truncus encephalicus" RELATED LATIN [BTO:0000146] xref: BAMS:BS xref: birnlex:1565 xref: BTO:0000146 xref: CALOHA:TS-0093 xref: EFO:0001962 xref: EMAPA:32678 xref: EV:0100241 xref: FMA:79876 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=236 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=236 {source="NIFSTD:birnlex_1565"} xref: http://en.wikipedia.org/wiki/Brainstem xref: http://linkedlifedata.com/resource/umls/id/C0006121 xref: http://www.snomedbrowser.com/Codes/Details/180925009 xref: MA:0000169 xref: MBA:343 xref: MESH:D001933 xref: NCIT:C12441 xref: TAO:0002156 xref: UMLS:C0006121 {source="NIFSTD:birnlex_1565"} xref: UMLS:C0006121 {source="ncithesaurus:Brain_Stem"} xref: VHOG:0001457 xref: ZFA:0001707 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0002240 ! spinal cord relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: has_part UBERON:0001896 ! medulla oblongata relationship: has_part UBERON:0001943 ! midbrain tegmentum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray719.png property_value: external_definition "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002156", ontology="TAO", source="ISBN:3764351209"} property_value: external_definition "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted][ZFA:0001707]." xsd:string {source="ZFA:0001707"} property_value: external_definition "the stalk-like part of the brain that comprises the midbrain (aka mesencephalon), the pons (aka pons Varolii), and the medulla oblongata, and connects the cerebral hemispheres with the cervical spinal cord[MP]" xsd:string {source="MP:0005277"} [Term] id: UBERON:0002315 name: gray matter of spinal cord namespace: uberon def: "The ridge-shaped grey matter of the spinal cord that extends longitudunally through the center of each half of the spinal cord, and are largely or entirely composed of nerve cell bodies and their dendrites and some supportive tissue." [MP:0008503] subset: pheno_slim synonym: "gray matter of spinal cord" EXACT [OBOL:automatic] synonym: "gray substance of spinal cord" EXACT [FMA:256580] synonym: "grey matter of spinal cord" EXACT [] synonym: "grey substance of spinal cord" EXACT [] synonym: "spinal cord gray matter" EXACT [OBOL:automatic] synonym: "spinal cord grey matter" EXACT [] synonym: "spinal cord grey substance" EXACT [OBOL:automatic] synonym: "substantia grisea medullae spinalis" EXACT LATIN [FMA:256580, FMA:TA] xref: BAMS:Scgrey xref: DHBA:146035048 xref: EMAPA:35792 xref: FMA:256580 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2619 xref: http://linkedlifedata.com/resource/umls/id/C0475853 xref: http://www.snomedbrowser.com/Codes/Details/279441003 xref: MA:0000002 xref: NCIT:C32696 xref: nlx_anat:100204 xref: UMLS:C0475853 {source="ncithesaurus:Gray_Matter_of_the_Spinal_Cord"} is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0002240 ! spinal cord relationship: contributes_to_morphology_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0002323 name: coelemic cavity lumen namespace: uberon alt_id: UBERON:0000169 def: "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities." [BTO:0001707] subset: uberon_slim subset: vertebrate_core synonym: "body cavity" BROAD [BTO:0001707] synonym: "celom" RELATED [BTO:0001707] synonym: "coelom" RELATED [] synonym: "coelome" RELATED [BTO:0001707] synonym: "coelomic cavity" EXACT [EHDAA2:0000267] synonym: "coelomic cavity lumen" EXACT [EHDAA2:0000267] synonym: "hemocoel" RELATED [FBbt:00005060] synonym: "main body cavity" EXACT [] synonym: "space of body compartment" EXACT [FMA:85006] synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 xref: FBbt:00005060 xref: FMA:85006 xref: galen:BodyCavity xref: http://linkedlifedata.com/resource/umls/id/C0333343 xref: http://www.snomedbrowser.com/Codes/Details/361348008 xref: NCIT:C25444 xref: RETIRED_EHDAA2:0003186 xref: TAO:0001438 xref: UMLS:C0333343 {source="ncithesaurus:Cavity"} xref: ZFA:0001438 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity relationship: develops_from UBERON:0003886 ! future coelemic cavity lumen relationship: luminal_space_of UBERON:0011997 ! coelom relationship: part_of UBERON:0011997 ! coelom relationship: transformation_of UBERON:0003886 {evidence="definitional"} ! future coelemic cavity lumen property_value: editor_note "check the FMA placement here; ncit placement of body cavity here probably not correct" xsd:string property_value: external_definition "Anatomical space, part of the trunk that contains the pericardial and pleuroperitoneal cavities[ZFA]." xsd:string {date_retrieved="2012-09-12", external_class="ZFA:0001438", ontology="ZFA", source="ZFIN:curator"} property_value: external_definition "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities[BTO]." xsd:string {date_retrieved="2012-09-12", external_class="BTO:0001707", ontology="BTO", source="BTO"} property_value: taxon_notes "In mammals it forms the peritoneal, pleural, and pericardial cavities" xsd:string [Term] id: UBERON:0002328 name: notochord namespace: uberon def: "A flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube." [http://en.wikipedia.org/wiki/Notochord, http://tolweb.org/Chordata/2499, https://github.com/obophenotype/uberon/issues/25, https://github.com/obophenotype/uberon/issues/271, ISBN:0815318960] comment: The notochord appears early in embryogeny and plays an important role in promoting or organizing the embryonic development of nearby structures. In most adult chordates the notochord disappears or becomes highly modified. In some non-vertebrate chordates and fishes the notochord persists as a laterally flexible but incompressible skeletal rod that prevents telescopic collapse of the body during swimming[TOLWEB] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic notocord" EXACT [] synonym: "notochorda" RELATED LATIN [http://en.wikipedia.org/wiki/Notochord] synonym: "notocord" EXACT [ZFA:0000135] xref: AAO:0000327 xref: BTO:0001768 xref: CALOHA:TS-0690 xref: EHDAA2:0001277 xref: EHDAA:1241 xref: EHDAA:6021 xref: EMAPA:16191 xref: EV:0100002 xref: FMA:85521 xref: GAID:1311 xref: http://en.wikipedia.org/wiki/Notochord xref: http://evolution.berkeley.edu/evolibrary/images/history/notochords.jpg xref: http://linkedlifedata.com/resource/umls/id/C0028439 xref: http://www.snomedbrowser.com/Codes/Details/308820002 xref: MAT:0000281 xref: MESH:A16.254.610 xref: NCIT:C12463 xref: TAO:0000135 xref: UMLS:C0028439 {source="ncithesaurus:Notochord"} xref: VHOG:0000199 xref: VSAO:0000032 xref: XAO:0000055 xref: ZFA:0000135 is_a: UBERON:0000481 {source="VSAO"} ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/wdahdul relationship: develops_from UBERON:0004880 {source="ZFA"} ! chordamesoderm relationship: develops_from UBERON:0006267 {source="EHDAA2"} ! notochordal plate relationship: dorsal_to UBERON:0001555 ! digestive tract relationship: existence_starts_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0011137 ! axial skeletal system relationship: ventral_to UBERON:0001049 ! neural tube property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000327", ontology="AAO"} property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: development_notes "In between vertebra the notochord becomes the nucleus pulposus, under it degenerates, and at anterior end in some species its tissue merges with some of the cranial bones.. Some organisms retain a post-embryonic notochord." xsd:string property_value: external_definition "Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000032", ontology="VSAO", source="PSPUB:0000170"} property_value: external_definition "Rod-like principal supportive element of the embryo and larva, present in the midline just ventral to the neural tube, and differentiating during the segmentation period to form large vacuolated epithelial cells and a surrounding a sheath of fibrous and elastic layers. Layering of the sheath may differ in structure, thickness and development among groups; in cypriniforms there are actually three very thin layers to the sheath. A functional, well developed notochord is present throughout life in certain basal fish groups but not in cypriniforms. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000135", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Slender rod of fibrous connective tissue surrounding a core of fluid-filled cells of mesodermal origin; it lies above the gut and directly beneath the spinal cord. The notochord is present during early development and in a few cases it is retained through life; however, usually the notochord is replaced by the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000327", ontology="AAO", source="AAO:LAP"} property_value: has_relational_adjective "notochordal" xsd:string property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (3) a stiff, longitudinal rod of turgid cells along the dorsal part of the body that is called a notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000199", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0002329 name: somite namespace: uberon def: "Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm." [http://en.wikipedia.org/wiki/Somite, https://doi.org/10.1111/j.1439-0426.2012.01987.x] comment: When the somite becomes segmented from the segmental plate, it is composed of an epithelial sac enclosing mesenchymal somitocoel cells. Thereafter the somite differentiates into two parts, the ventro-medial mesenchymal sclerotome and the dorso-lateral epithelial dermomyotome. This change in the epithelial somite depends on surrounding tissue [PMID:15906248] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epimere" RELATED [ISBN10:0073040584] synonym: "epimere mesoderm" RELATED [] synonym: "epithelial somite" RELATED [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "mesodermal cluster" BROAD [GO:0001756] synonym: "somites" RELATED PLURAL [] synonym: "somitic mesoderm" RELATED [] synonym: "somitus" RELATED LATIN [http://en.wikipedia.org/wiki/Somite] xref: AAO:0010569 xref: AEO:0001015 xref: BTO:0001558 xref: EHDAA2:0003436 xref: EHDAA:366 xref: EHDAA:699 xref: EMAPA:31169 xref: FMA:85522 xref: GAID:1306 xref: http://en.wikipedia.org/wiki/Somite xref: http://linkedlifedata.com/resource/umls/id/C0376449 xref: MAT:0000068 xref: MESH:A16.254.425.660.750 xref: MIAA:0000068 xref: NCIT:C34302 xref: TAO:0000155 xref: UMLS:C0376449 {source="ncithesaurus:Somite"} xref: VHOG:0000191 xref: XAO:0000058 xref: ZFA:0000155 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle relationship: develops_from UBERON:0003059 {source="ZFA"} ! presomitic mesoderm property_value: axiom_lost_from_external_ontology "relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO"} property_value: axiom_lost_from_external_ontology "relationship type change: OBO_REL:part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO"} property_value: axiom_lost_from_external_ontology "relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010569", ontology="AAO"} property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: editor_note "currently classified as an epithelial vesicle, consistent with EHDAA2 and https://github.com/obophenotype/uberon/wiki/The-neural-crest. Consider making 'somitic mesoderm' a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk" xsd:string property_value: external_definition "Post-cranial axial segments which form sclerotome and dermomyotome.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010569", ontology="AAO", source="AAO:EJS"} property_value: external_definition "Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO", source="ZFIN:curator"} property_value: has_relational_adjective "somitic" xsd:string property_value: homology_notes "(...) cephalocordates and craniates belong to a group known as Somitichordata. Somitichordate synapomorphies include (1) somites (...) (reference 1); The idea that the last common ancestor of bilaterian animals (Urbilateria) was segmented has been raised recently on evidence coming from comparative molecular embryology (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000191", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.40, DOI:10.1093/icb/43.1.137 Balavoine G, Adoutte A, The segmented urbilateria: a testable scenario. Integrative and Comparative Biology (2003)"} [Term] id: UBERON:0002330 name: exocrine system namespace: uberon def: "Anatomical system that consists of the glands and parts of glands that produce exocrine secretions and help to integrate and control bodily metabolic activity. Exocrine glands are glands that secrete their products (hormones) into ducts (duct glands). They are the counterparts to endocrine glands, which secrete their products (hormones) directly into the bloodstream (ductless glands) or release hormones (paracrines) that affect only target cells nearby the release site. [Wikipedia]." [http://en.wikipedia.org/wiki/Exocrine_gland] subset: pheno_slim subset: uberon_slim synonym: "exocrine glandular system" EXACT [EHDAA2:0002225] xref: CALOHA:TS-2057 xref: EHDAA2:0002225 xref: EMAPA:35329 xref: Exocrine:gland xref: FMA:85539 xref: http://linkedlifedata.com/resource/umls/id/C1516995 xref: MA:0002411 xref: NCIT:C12957 xref: UMLS:C1516995 {source="ncithesaurus:Exocrine_System"} xref: WikipediaCategory:Exocrine_system is_a: BFO:0000040 ! material entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: composed_primarily_of UBERON:0002365 ! exocrine gland relationship: existence_ends_during UBERON:0000066 ! fully formed stage [Term] id: UBERON:0002333 name: pulmonary trunk namespace: uberon def: "An arterial trunk which is continuous with the heart and branches into the pulmonary arteries." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "main pulmonary artery" RELATED [http://en.wikipedia.org/wiki/Pulmonary_artery] synonym: "pulmonary artery (trunk)" EXACT [] synonym: "trunk of pulmonary arterial tree" EXACT [] xref: EHDAA2:0001576 xref: EHDAA:9831 xref: EMAPA:17015 xref: FMA:8612 xref: galen:PulmonaryTrunk xref: MA:0002033 xref: NCIT:C116918 xref: OpenCyc:Mx4rv-6d0ZwpEbGdrcN5Y29ycA xref: VHOG:0001134 is_a: UBERON:0001637 {source="MA"} ! artery relationship: continuous_with UBERON:0000948 ! heart relationship: part_of UBERON:0008886 ! pulmonary vascular system property_value: depicted:by Alveoli:diagram.png property_value: external_definition "An arterial trunk with origin from the right ventricle of the heart, and dividing into the right and left pulmonary arteries, which enter the corresponding lungs and branch with the bronchi. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+trunk"} property_value: homology_notes "As in birds, the conus arteriosus split during embryonic development in mammals to produce the pulmonary trunk and single aortic trunk of the adult.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} [Term] id: UBERON:0002342 name: neural crest namespace: uberon def: "A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]." [MP:0009846] comment: Gene notes: Many factors and genes, such as Pax3 (Tremblay et al., 1995), slug (Nieto et al., 1994), AP-2 (Zhang et al., 1996; Schorle et al., 1996), and Wnt-1/3a (Ikeya et al., 1997) are expressed in the dorsal most region of the neural tube, and have been shown to be involved in the generation of neural crest cells. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "crista neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_crest] synonym: "NC" EXACT ABBREVIATION [XAO:0000048] synonym: "neural crest material" RELATED [VHOG:0000057] xref: AAO:0010578 xref: BTO:0001764 xref: CALOHA:TS-0676 xref: EHDAA2:0004419 xref: EMAPA:32737 xref: FMA:86666 xref: GAID:1310 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1366 xref: http://linkedlifedata.com/resource/umls/id/C0027789 xref: http://www.snomedbrowser.com/Codes/Details/361462002 xref: MAT:0000066 xref: MESH:A16.254.600 xref: MIAA:0000066 xref: NCIT:C34222 xref: Neural:crest xref: TAO:0000045 xref: UMLS:C0027789 {source="ncithesaurus:Neural_Crest"} xref: VHOG:0000057 xref: XAO:0000048 xref: ZFA:0000045 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010316 ! germ layer / neural crest relationship: develops_from UBERON:0003075 {source="BTO"} ! neural plate relationship: develops_from UBERON:0005062 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} ! neural fold relationship: dubious_for_taxon NCBITaxon:117565 {source="http://www.ncbi.nlm.nih.gov/pubmed/17377535", source="ISBN10:0073040584"} ! Hyperotreti relationship: existence_starts_during UBERON:0000110 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} ! neurula stage relationship: part_of UBERON:0002346 {source="https://github.com/obophenotype/uberon/wiki/The-neural-crest", source="XAO"} ! neurectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png property_value: depicted:by Neural:Crest.png property_value: editor_note "consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams)." xsd:string property_value: external_definition "A cell population arising from the dorsolateral aspect of the central nervous system primordium during the segmentation period, and later migrating along stereotyped pathways to give rise to a diverse and well-defined set of cell types including pigment cells, peripheral neurons and glia, and head cartilage. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000045", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Migratory cell population which delaminates from neural tube, borders surface ectoderm and neural ectoderm, and gives rise to many different tissue types.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010578", ontology="AAO", source="AAO:EJS"} property_value: homology_notes "A well developed neural crest population is present in lampreys (Horigome et al. 1999 ; Tomsa & Langeland, 1999) and gnathostomes. chordate fossils from the early Cambrian (Yunnanozoan and Haikouella) with apparent neural-crest derived structures (pharyngeal denticles and pharyngeal skeletons resembling the striped mucocartilage of the branchial bars in lamprey ammocoete larvae), suggests that neural crest arose very early in vertebrate evolution (Chen et al. 1999; Holland & Chen, 2001). The invertebrate chordates apparently lack defini- tive neural crest. One marker of migrating neural crest in some vertebrates, the antibody HNK1, does not recognize any cells in amphioxus embryos (Holland, unpublished). Even so, in both amphioxus and tunicates, cells at the edges of the neural plate and adjacent nonneural ectoderm share some properties of neural crest[PMID:11523831]" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} property_value: homology_notes "We conclude that the neural crest is a vertebrate novelty, but that neural crest cells and their derivatives evolved and diversified in a step-wise fashion - first by elaboration of neural plate border cells, then by the innovation or co-option of new or ancient metazoan cell fates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000057", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2012.01495.x Hall BK, Gillis JA, Incremental evolution of the neural crest, neural crest cells and neural crest-derived skeletal tissues. J Anat (2012)"} [Term] id: UBERON:0002346 name: neurectoderm namespace: uberon def: "Embryonic ectoderm that gives rise to nervous tissue." [http://en.wikipedia.org/wiki/Neuroectoderm] subset: uberon_slim subset: vertebrate_core synonym: "epithelium tubi neuralis; neuroectoderma" RELATED LATIN [http://en.wikipedia.org/wiki/Neuroectoderm] synonym: "neuaral ectoderm" RELATED [] synonym: "neural ectoderm" EXACT [] synonym: "neuroectoderm" EXACT [] synonym: "presumptive central nervous system" RELATED [] synonym: "ventral neurogenic region" RELATED [VHOG:0000150] xref: AAO:0011074 xref: BILA:0000039 xref: CALOHA:TS-1212 xref: EHDAA2:0001248 xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 xref: FBbt:00001061 xref: FMA:87657 xref: http://en.wikipedia.org/wiki/Neuroectoderm xref: http://linkedlifedata.com/resource/umls/id/C1518271 xref: MAT:0000176 xref: MIAA:0000176 xref: NCIT:C34228 xref: TAO:0001120 xref: UMLS:C1518271 {source="ncithesaurus:Neuroectoderm"} xref: VHOG:0000150 xref: XAO:0000042 xref: ZFA:0001120 is_a: UBERON:0000923 ! germ layer is_a: UBERON:0004121 ! ectoderm-derived structure property_value: has_relational_adjective "neurectodermal" xsd:string property_value: homology_notes "(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000150", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} property_value: terminology_notes "we prefer neurectoderm to neural ectoderm since placodal ectoderm is not classified here" xsd:string [Term] id: UBERON:0002365 name: exocrine gland namespace: uberon def: "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas" [http://en.wikipedia.org/wiki/Exocrine_gland] subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "ducted gland" EXACT [AEO:0000097] synonym: "glandula exocrina" EXACT LATIN [http://en.wikipedia.org/wiki/Exocrine_gland] xref: AEO:0000097 xref: BTO:0000765 xref: CALOHA:TS-2012 xref: EHDAA2:0003097 xref: EMAPA:35327 xref: Exocrine:gland xref: FMA:9596 xref: GAID:34 xref: http://linkedlifedata.com/resource/umls/id/C0015282 xref: http://www.snomedbrowser.com/Codes/Details/115976003 xref: MA:0002564 xref: MESH:D005088 xref: NCIT:C12712 xref: UMLS:C0015282 {source="ncithesaurus:Exocrine_Gland"} is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system relationship: has_part UBERON:0000058 ! duct relationship: part_of UBERON:0002330 ! exocrine system property_value: editor_note "Currently this is logically defined by the system it belongs to, but a better system may be base this on presence/absence of ducts. However, the dual nature of the liver should be taken into consideration here. Consider adding subclasses" xsd:string [Term] id: UBERON:0002384 name: connective tissue namespace: uberon def: "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/23, PSPUB:0000170, VSAO:0000017] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Bindegewebe" RELATED [BTO:0000421] synonym: "portion of connective tissue" EXACT [FMA:9640] synonym: "textus connectivus" EXACT [] xref: AAO:0000098 xref: BTO:0000421 xref: CALOHA:TS-2009 xref: EFO:0000952 xref: EMAPA:35251 xref: FMA:9640 xref: GAID:100 xref: galen:ConnectiveTissue xref: http://linkedlifedata.com/resource/umls/id/C0009780 xref: http://www.snomedbrowser.com/Codes/Details/361919005 xref: MA:0000011 xref: MAT:0000301 xref: MESH:D003238 xref: MIAA:0000301 xref: NCIT:C12374 xref: OpenCyc:Mx4rv-aBgZwpEbGdrcN5Y29ycA xref: TAO:0001641 xref: UMLS:C0009780 {source="ncithesaurus:Connective_Tissue"} xref: VSAO:0000017 xref: XAO:0001017 xref: ZFA:0001632 is_a: UBERON:0000479 ! tissue relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/wdahdul property_value: external_definition "One of the four types of tissue in traditional classifications. It is largely a category of exclusion rather than one with a precise definition, but there are certain characteristics shared by all or most tissues in this category, such as involvement in structure and support, derived from mesoderm, and characterized largely by the traits of non-living tissue.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000098", ontology="AAO", source="AAO:LAP"} property_value: external_definition "Portion of tissue that consists of mesodermally derived cells and intercellular matrix comprised of protein fibers and carbohydrates, which supports, ensheathes and binds together other tissues.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001641", ontology="TAO", source="TAO:wd"} property_value: external_definition "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000017", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: external_ontology_notes "MA also has set of connective tissues" xsd:string {external_ontology="MA"} [Term] id: UBERON:0002385 name: muscle tissue namespace: uberon def: "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." [GO:0060537, http://en.wikipedia.org/wiki/Muscle_tissue, https://sourceforge.net/tracker/index.php?func=detail&aid=2801266&group_id=36855&atid=440764] comment: Vertebrate muscle is categorized into three major muscle types defined by their structural and functional properties: skeletal, cardiac and smooth. In Dmel the counterparts are somatic, heart/cardiac and visceral. Here we take a cell type based approach. subset: uberon_slim synonym: "muscular tissue" EXACT SENSU [] synonym: "portion of muscle tissue" EXACT [FMA:9641] synonym: "textus muscularis" EXACT [] xref: AAO:0000306 xref: AEO:0000122 xref: CALOHA:TS-0642 xref: EHDAA2:0003122 xref: EMAPA:32715 xref: FMA:9641 xref: galen:MuscleTissue xref: http://linkedlifedata.com/resource/umls/id/C2328219 xref: http://www.snomedbrowser.com/Codes/Details/91727004 xref: MA:0002437 xref: MESH:D009132 xref: Muscle:tissue xref: NCIT:C12435 xref: UMLS:C2328219 {source="ncithesaurus:Muscle_Tissue"} is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure disjoint_from: UBERON:0003714 ! neural tissue relationship: part_of UBERON:0001015 ! musculature property_value: external_definition "One of the four types of tissue in traditional classifications. Tissue that contains cells with contractile filaments that move past each other and change the size of the cell. Muscle tissue also is separated into three distinct categories.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000306", ontology="AAO", source="AAO:LAP"} [Term] id: UBERON:0002390 name: hematopoietic system namespace: uberon def: "Anatomical system that is involved in the production of hematopoietic cells." [http://en.wikipedia.org/wiki/Haematopoiesis] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Blutbildungssystem" RELATED [BTO:0000570] synonym: "haematological system" EXACT [] synonym: "haematopoietic system" RELATED [] synonym: "haemopoietic system" EXACT [] synonym: "hematological system" RELATED [] synonym: "hematolymphoid system" RELATED [] synonym: "hemopoietic system" RELATED [] synonym: "organa haemopoietica" EXACT [] xref: AAO:0011002 xref: BTO:0000570 xref: CALOHA:TS-0449 xref: EFO:0000798 xref: EMAPA:35402 xref: EV:0100045 xref: FMA:9667 xref: GAID:1008 xref: http://en.wikipedia.org/wiki/Haematopoiesis xref: http://linkedlifedata.com/resource/umls/id/C0018957 xref: http://www.snomedbrowser.com/Codes/Details/362587009 xref: MA:0002434 xref: MAT:0000022 xref: MESH:D006413 xref: MIAA:0000022 xref: NCIT:C12909 xref: TAO:0005023 xref: UMLS:C0018957 {source="ncithesaurus:Hematopoietic_System"} xref: VHOG:0001624 xref: XAO:0000122 xref: ZFA:0005023 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004120 ! mesoderm-derived structure disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: develops_from UBERON:0003061 {evidence="definitional"} ! blood island relationship: part_of UBERON:0002193 {source="FMA"} ! hemolymphoid system property_value: external_definition "Anatomical system that consists of the blood and blood forming tissues.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011002", ontology="AAO", source="AAO:EJS"} property_value: has_relational_adjective "hematopoietic" xsd:string property_value: homology_notes "Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001624", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.coph.2010.05.004 Ellett F, Lieschke GJ, Zebrafish as a model for vertebrate hematopoiesis. Current Opinion in Pharmacology (2010)"} property_value: taxon_notes "In humans this is primarily the bone marrow, spleen, tonsils, and lymph nodes" xsd:string {source="WP"} [Term] id: UBERON:0002416 name: integumental system namespace: uberon alt_id: UBERON:0007029 def: "Connected anatomical system that forms a barrier between an animal and its environment. In vertebrates, the integumental system consists of the epidermis, dermis plus associated glands and adnexa such as hair and scales. In invertebrates, the integumental system may include cuticle." [CARO:0002001, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/29] subset: efo_slim subset: grouping_class subset: pheno_slim synonym: "body surface" RELATED [] synonym: "dermal system" RELATED [MIAA:0000033] synonym: "external covering of organism" RELATED [] synonym: "integumentary system" EXACT [FMA:72979] synonym: "integumentum commune" RELATED LATIN [http://en.wikipedia.org/wiki/Integumentary_system] synonym: "organism surface" RELATED [EHDAA2:0003154] synonym: "surface" RELATED [BILA:0000118] xref: AEO:0000154 xref: BILA:0000118 xref: CALOHA:TS-1299 xref: CARO:0002001 xref: EFO:0000807 xref: EHDAA2:0000836 xref: EHDAA2_RETIRED:0003154 xref: EHDAA:6520 xref: EMAPA:17524 xref: EV:0100151 xref: FBbt:00004969 xref: FMA:72979 xref: galen:Surface xref: HAO:0000421 xref: http://linkedlifedata.com/resource/umls/id/C0037267 xref: http://www.snomedbrowser.com/Codes/Details/361692004 xref: Integumentary:system xref: MA:0000014 xref: MAT:0000033 xref: MESH:D034582 xref: MIAA:0000033 xref: NCIT:C12907 xref: TADS:0000108 xref: UMLS:C0037267 {source="ncithesaurus:Integumentary_System"} xref: VHOG:0000403 xref: XAO:0000176 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/tfhayamizu relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0007376 ! outer epithelium relationship: surrounded_by UBERON:0013514 ! space surrounding organism property_value: homology_notes "(...) the integument of many tetrapods is reinforced by a morphologically and structurally diverse assemblage of skeletal elements. These elements are widely understood to be derivatives of the once all-encompassing dermal skeleton of stem-gnathostomes (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000403", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)"} [Term] id: UBERON:0002419 name: skin gland namespace: uberon def: "A gland that is part of a skin of body [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "glandulae cutis" EXACT LATIN [FMA:71878, FMA:TA] synonym: "set of skin glands" RELATED [FMA:71878] synonym: "skin glands" RELATED PLURAL [] synonym: "skin glands set" RELATED PLURAL [] xref: EMAPA:35774 xref: FMA:71878 xref: http://www.snomedbrowser.com/Codes/Details/110485007 xref: MA:0000146 is_a: UBERON:0003297 ! gland of integumental system is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0006003 ! integumentary adnexa intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002097 ! skin of body relationship: part_of UBERON:0002097 ! skin of body property_value: editor_note "check FMA, use plural for now as general class not there" xsd:string [Term] id: UBERON:0002424 name: oral epithelium namespace: uberon def: "An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues" [https://orcid.org/0000-0002-6601-2165] subset: vertebrate_core synonym: "epithelium of mucosa of mouth" EXACT [FMA:265152] synonym: "epithelium of oral mucosa" EXACT [FMA:265152] xref: AAO:0010357 xref: BTO:0001775 xref: CALOHA:TS-0715 xref: EHDAA2:0001325 xref: EHDAA:2187 xref: EMAPA:16839 xref: EMAPA:26942 xref: FMA:265152 xref: http://linkedlifedata.com/resource/umls/id/C1709332 xref: MA:0000344 xref: NCIT:C49595 xref: TAO:0000816 xref: UMLS:C1709332 {source="ncithesaurus:Oral_Cavity_Epithelium"} xref: VHOG:0000187 xref: XAO:0003201 xref: ZFA:0000816 is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003729 ! mouth mucosa relationship: adjacent_to UBERON:0000167 {source="AAO-modified"} ! oral cavity relationship: part_of UBERON:0003729 ! mouth mucosa property_value: development_notes "the avian oral epithelium has the developmental capacity to initiate tooth developmental programs with underlying grafts of non-avian oral ectomesenchyme" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/16488870"} property_value: editor_note "consider including separate class for developmental structure (adult human is stratified; in EHDAA2 is unilaminar)" xsd:string property_value: external_definition "The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]." xsd:string {source="ZFA:0000816"} [Term] id: UBERON:0002443 name: choroidal blood vessel namespace: uberon def: "A blood vessel that is part of a choroid [Automatically generated definition]." [OBOL:automatic] comment: cannot find singular in FMA, using Set class subset: pheno_slim synonym: "blood vessel of choroid" EXACT [OBOL:automatic] synonym: "blood vessel of choroid coat" EXACT [OBOL:automatic] synonym: "blood vessel of choroidea" EXACT [OBOL:automatic] synonym: "blood vessel of posterior uvea" EXACT [OBOL:automatic] synonym: "choroid blood vessel" EXACT [OBOL:automatic] synonym: "choroid blood vessels" EXACT [] synonym: "choroid blood vessels set" EXACT [] synonym: "choroid coat blood vessel" EXACT [OBOL:automatic] synonym: "choroidea blood vessel" EXACT [OBOL:automatic] synonym: "posterior uvea blood vessel" EXACT [OBOL:automatic] synonym: "set of choroid blood vessels" RELATED [FMA:76550] synonym: "vasa sanguinea choroideae" EXACT LATIN [FMA:76550, FMA:TA] xref: EMAPA:17828 xref: FMA:76550 xref: MA:0001237 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001776 ! optic choroid relationship: part_of UBERON:0001776 ! optic choroid [Term] id: UBERON:0002458 name: spinal artery namespace: uberon def: "Arteries that supply the spinal cord." [http://en.wikipedia.org/wiki/Spinal_artery, https://orcid.org/0000-0002-6601-2165] subset: uberon_slim subset: vertebrate_core synonym: "spinal arteries" EXACT PLURAL [ZFA:0000682] xref: EHDAA2:0001890 xref: EHDAA:4355 xref: EMAPA:18241 xref: http://linkedlifedata.com/resource/umls/id/C0447043 xref: http://www.snomedbrowser.com/Codes/Details/244228006 xref: MA:0002043 xref: NCIT:C33587 xref: Spinal:artery xref: TAO:0000682 xref: UMLS:C0447043 {source="ncithesaurus:Spinal_Artery"} xref: ZFA:0000682 is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002240 ! spinal cord relationship: supplies UBERON:0002240 ! spinal cord [Term] id: UBERON:0002506 name: iris epithelium namespace: uberon def: "An epithelium that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "epithelial tissue of iris" EXACT [OBOL:automatic] synonym: "epithelium of iris" EXACT [OBOL:automatic] synonym: "epithelium pigmentosum (iris)" EXACT [FMA:58517] synonym: "epithelium pigmentosum iridis" EXACT LATIN [FMA:58517, FMA:TA] synonym: "iris epithelial tissue" EXACT [OBOL:automatic] synonym: "iris epithelium" EXACT [FMA:58517] synonym: "iris pigmented epithelium" RELATED [MA:0002826] synonym: "pigmented epithelium of iris" EXACT [FMA:58517] xref: EMAPA:35447 xref: FMA:58517 xref: MA:0002826 is_a: UBERON:0000488 {source="FMA"} ! atypical epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001769 ! iris relationship: contributes_to_morphology_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 {source="MA"} ! iris [Term] id: UBERON:0002521 name: elastic tissue namespace: uberon def: "Connective tissue composed of elastic fibers." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "elastic connective tissue" EXACT [] synonym: "elastic fiber" NARROW [] synonym: "textus connectivus elasticus" EXACT LATIN [] xref: Elastic:fiber xref: FMA:20113 xref: GAID:926 xref: http://www.snomedbrowser.com/Codes/Details/27197004 xref: MA:0002853 xref: MESH:D004547 xref: NCIT:C32495 is_a: UBERON:0002384 ! connective tissue property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/cb/Gray377.png [Term] id: UBERON:0002522 name: tunica media namespace: uberon def: "The middle layer of an artery or vein. [WP,unvetted]." [http://en.wikipedia.org/wiki/Tunica_media] comment: May be composed of smooth muscle and elastic tissue subset: uberon_slim synonym: "tunica media vasorum" RELATED [BTO:0002011] synonym: "tunica media vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_media] xref: BTO:0002011 xref: EMAPA:36298 xref: FMA:55590 xref: GAID:170 xref: http://linkedlifedata.com/resource/umls/id/C0162867 xref: http://www.snomedbrowser.com/Codes/Details/61695000 xref: MA:0002855 xref: MESH:D017540 xref: NCIT:C33821 xref: Tunica:media xref: UMLS:C0162867 {source="ncithesaurus:Tunica_Media"} is_a: UBERON:0004797 {source="MA"} ! blood vessel layer relationship: has_part UBERON:0002521 {source="cjm"} ! elastic tissue relationship: has_part UBERON:0004237 {source="cjm"} ! blood vessel smooth muscle relationship: surrounded_by UBERON:0005734 ! tunica adventitia of blood vessel property_value: depicted:by Illu:artery.jpg [Term] id: UBERON:0002523 name: tunica intima namespace: uberon def: "The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]." [http://en.wikipedia.org/wiki/Tunica_intima, ISBN10:0073040584, NCIT:C33820] subset: uberon_slim synonym: "Bichat's tunic" RELATED [BTO:0002012] synonym: "intima" RELATED [BTO:0002012] synonym: "tunica intima vasorum" RELATED [BTO:0002012] xref: BTO:0002012 xref: EMAPA:36297 xref: FMA:55589 xref: GAID:523 xref: http://linkedlifedata.com/resource/umls/id/C0162864 xref: http://www.snomedbrowser.com/Codes/Details/8361002 xref: http://www.snomedbrowser.com/Codes/Details/87483006 xref: MA:0002861 xref: MESH:D017539 xref: NCIT:C33820 xref: Tunica:intima xref: UMLS:C0162864 {source="ncithesaurus:Tunica_Intima"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 {source="FMA"} ! organ component layer relationship: adjacent_to UBERON:0010161 {source="ISBN10:0073040584"} ! lumen of blood vessel relationship: has_part UBERON:0001986 ! endothelium relationship: surrounded_by UBERON:0002522 {notes="check for exceptions, e.g. capillaries"} ! tunica media property_value: depicted:by Illu:artery.jpg property_value: editor_note "the FMA class represents a more generic layer which is the superclass of the layer found in both blood vessels and lymph vessels (and also endocardium) - we should probably follow this structure" xsd:string property_value: editor_note "the FMA class represents a structure which may have both epithelium and fibroelastic connective tissue as parts" xsd:string property_value: external_definition "The tunica intima (or just intima) is the innermost layer of an artery or vein. It is made up of one layer of endothelial cells and is supported by an internal elastic lamina. The endothelial cells are in direct contact with the blood flow. The inner coat (tunica intima) can be separated from the middle by a little maceration, or it may be stripped off in small pieces; but, on account of its friability, it cannot be separated as a complete membrane. It is a fine, transparent, colorless structure which is highly elastic, and, after death, is commonly corrugated into longitudinal wrinkles. The inner coat consists of: A layer of pavement endothelium, the cells of which are polygonal, oval, or fusiform, and have very distinct round or oval nuclei. This endothelium is brought into view most distinctly by staining with silver nitrate. A subendothelial layer, consisting of delicate connective tissue with branched cells lying in the interspaces of the tissue; in arteries of less than 2 mm. in diameter the subendothelial layer consists of a single stratum of stellate cells, and the connective tissue is only largely developed in vessels of a considerable size. An elastic or fenestrated layer, which consists of a membrane containing a net-work of elastic fibers, having principally a longitudinal direction, and in which, under the microscope, small elongated apertures or perforations may be seen, giving it a fenestrated appearance. It was therefore called by Henle the fenestrated membrane. This membrane forms the chief thickness of the inner coat, and can be separated into several layers, some of which present the appearance of a network of longitudinal elastic fibers, and others a more membranous character, marked by pale lines having a longitudinal direction. In minute arteries the fenestrated membrane is a very thin layer; but in the larger arteries, and especially in the aorta, it has a very considerable thickness. [WP,unvetted].[Wikipedia]" xsd:string {ontology="Wikipedia", source="Tunica:intima"} [Term] id: UBERON:0002530 name: gland namespace: uberon alt_id: UBERON:MIAA_0000021 def: "an organ that functions as a secretory or excretory organ" [MGI:csmith, MP:0002163] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "Druese" RELATED [BTO:0000522] synonym: "glandula" RELATED [BTO:0000522] synonym: "glandula" RELATED LATIN [http://en.wikipedia.org/wiki/Gland] synonym: "glandular organ" EXACT [http://orcid.org/0000-0002-6601-2165] xref: AAO:0000212 xref: AEO:0000096 xref: BTO:0000522 xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EHDAA:4475 xref: EHDAA:6522 xref: EMAPA:18425 xref: FBbt:00100317 xref: FMA:7146 xref: FMA:86294 xref: galen:Gland xref: HAO:0000375 xref: http://en.wikipedia.org/wiki/Gland xref: http://linkedlifedata.com/resource/umls/id/C1285092 xref: http://www.snomedbrowser.com/Codes/Details/134358001 xref: MA:0003038 xref: MAT:0000021 xref: MIAA:0000021 xref: NCIT:C13319 xref: OpenCyc:Mx4rwP3vyJwpEbGdrcN5Y29ycA xref: UMLS:C1285092 {source="ncithesaurus:Gland"} xref: WikipediaCategory:Glands is_a: UBERON:0000062 ! organ relationship: produces UBERON:0000463 ! organism substance property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/a1/Gray1026.png property_value: has_relational_adjective "glandular" xsd:string [Term] id: UBERON:0002532 name: epiblast (generic) namespace: uberon def: "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA]" [http://en.wikipedia.org/wiki/Epiblast, ZFIN:curator] subset: early_development subset: grouping_class subset: uberon_slim subset: vertebrate_core synonym: "blastocyst" RELATED [] synonym: "ectoblast" RELATED [MP:0003886] synonym: "epiblast" EXACT [VHOG:0000243] synonym: "epiblastus" RELATED LATIN [http://en.wikipedia.org/wiki/Epiblast] synonym: "primitive ectoderm" RELATED [VHOG:0000243] xref: BTO:0004593 xref: FMA:296704 xref: http://en.wikipedia.org/wiki/Epiblast xref: MAT:0000067 xref: MIAA:0000067 xref: VHOG:0000243 is_a: UBERON:0002050 ! embryonic structure property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png property_value: editor_note "MP says - tissue that gives rise to the ectoderm, endoderm and mesoderm of the embryo proper. In HOG, epiblast is part of primitive streak/blastpore, which is inconsistent with the MP definition of primitive streak as a ridge of the epiblast. Note that these terms, epiblast and hypoblast, are also used to describe layers of the avian embryonic blastoderm, but the layers so-named seem to be altogether different in these two kinds of vertebrate embryos(CVS). Consider obsoleting this as a grouping class" xsd:string property_value: homology_notes "In pregastrula zebrafish embryos, the epiblast is an inverted cup of cells that sits on top of a large yolk cell. (...) In amniote embryos (mammals and birds), gastrulation initiates in an epithelial layer called the epiblast. Cells in the epiblast undergo an epithelial to mesenchymal transition (EMT), migrate through the primitive streak (PS), and incorporate in the middle (mesoderm) or outer (endoderm) layer. The presumptive definitive endoderm (DE) cells invade and displace an outer layer of extraembryonic tissue cells, the hypoblast in chick and the visceral endoderm (VE) in mouse, which form supporting structures such as the yolk sac.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000243", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.042308.113344 Zorn AM, Wells JM, Vertebrate endoderm development and organ formation. Annual Review of Cell Developmental Biology (2009)"} [Term] id: UBERON:0002539 name: pharyngeal arch namespace: uberon def: "One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/16313389, ZFA:yb] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arcus pharyngei" RELATED LATIN [http://en.wikipedia.org/wiki/Pharyngeal_arch] synonym: "branchial arch" NARROW [BTO:0001785, MP:0002884] synonym: "pharyngeal arches" EXACT PLURAL [] synonym: "visceral arch" RELATED [] xref: AAO:0010359 xref: BTO:0001785 xref: EFO:0000959 xref: EHDAA:571 xref: EMAPA:16117 xref: FMA:293015 xref: GAID:1292 xref: http://linkedlifedata.com/resource/umls/id/C0080322 xref: http://www.snomedbrowser.com/Codes/Details/308766004 xref: MAT:0000242 xref: MESH:A16.254.160 xref: MIAA:0000242 xref: NCIT:C34249 xref: Pharyngeal:arch xref: TAO:0001306 xref: UMLS:C0080322 {source="ncithesaurus:Pharyngeal_Arch"} xref: VHOG:0000155 xref: XAO:0000096 xref: ZFA:0001306 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0010188 {source="EHDAA2"} ! protuberance is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: developmentally_induced_by UBERON:0007690 {source="http://www.ncbi.nlm.nih.gov/pubmed/16313389"} ! early pharyngeal endoderm relationship: part_of UBERON:0008814 ! pharyngeal arch system relationship: part_of UBERON:0008816 {source="http://www.ncbi.nlm.nih.gov/pubmed/16313389"} ! embryonic head property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png property_value: external_definition "One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010359", ontology="AAO", source="NLM:branchial+arch"} property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000155", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: terminology_notes "Numbered cranial to caudal. different in mammals. branchial arch = ZFA:0001613 pharyngeal arch 3-7. generally gill arch 1 = pharyngeal arch 3. terminology varies as to whether branchial arch follows gill or pharyngeal numbering" xsd:string [Term] id: UBERON:0002546 name: cranial placode namespace: uberon def: "Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic." [http://www.ncbi.nlm.nih.gov/books/NBK53175/, https://github.com/obophenotype/uberon/issues/135, https://github.com/seger/aao/issues/4, https://orcid.org/0000-0002-6601-2165, https://sourceforge.net/p/obo/xenopus-anatomy-xao-term-requests/11/] subset: efo_slim synonym: "cranial placodes" RELATED PLURAL [XAO:0000305] synonym: "ectodermal cranial placode" EXACT [UBERON:cjm] synonym: "ectodermal placode" BROAD INCONSISTENT [FMA:293966, http://www.ncbi.nlm.nih.gov/pubmed/22512454] synonym: "placode" BROAD [http://en.wikipedia.org/wiki/Placode] xref: AAO:0010466 xref: EFO:0001650 xref: FMA:293966 xref: MAT:0000369 xref: MIAA:0000369 xref: XAO:0000305 is_a: UBERON:0005085 {source="cjm"} ! ectodermal placode relationship: part_of UBERON:0000033 ! head property_value: editor_note "Do not merge with neurogenic placode" xsd:string property_value: taxon_notes "Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} property_value: terminology_notes "The term placode or placodes also applies to developing organs such as teeth, mammary glands, hair follicles, feathers and scales. We include a separate parent class for this. to avoid confusion, we include neurogenic placode as a subclass" xsd:string [Term] id: UBERON:0002553 name: anatomical cavity namespace: uberon def: "Anatomical space which contains portions of one or more body substances and is bounded by the internal surface of one maximally connected anatomical structure. Examples: cranial cavity, pharyngeal recess space, nasal cavity, tooth socket, cavity of serous sac, lumen of stomach, lumen of artery, fornix of vagina." [FMA:67552] subset: upper_level synonym: "cavity" BROAD [] xref: birnlex:1011 xref: EMAPA:37442 {source="MA:th"} xref: FMA:67552 xref: galen:Cavity xref: MA:0002447 xref: NCIT:C34007 is_a: UBERON:0000464 ! anatomical space relationship: location_of UBERON:0000463 ! organism substance [Term] id: UBERON:0002616 name: regional part of brain namespace: uberon def: "Anatomical divisons of the brain according to one or more criteria, e.g. cytoarchitectural, gross anatomy. Parts may be contiguous in 3D or not, e.g., basal ganglia." [NIFSTD:birnlex_1167] subset: non_informative synonym: "anatomical structure of brain" EXACT [OBOL:automatic] synonym: "biological structure of brain" EXACT [OBOL:automatic] synonym: "brain anatomical structure" EXACT [OBOL:automatic] synonym: "brain biological structure" EXACT [OBOL:automatic] synonym: "brain part" EXACT [] synonym: "neuraxis segment" EXACT [FMA:55676] synonym: "neuroanatomical region" EXACT [] synonym: "segment of brain" EXACT [NIFSTD:birnlex_1167] xref: birnlex:1167 xref: FMA:55676 xref: http://linkedlifedata.com/resource/umls/id/C0445620 xref: http://www.snomedbrowser.com/Codes/Details/384763002 xref: NCIT:C13031 xref: UMLS:C0445620 {source="ncithesaurus:Brain_Part"} is_a: BFO:0000040 ! material entity is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0000955 ! brain relationship: composed_primarily_of UBERON:0003714 ! neural tissue relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003037 name: septum namespace: uberon def: "A wall, dividing a cavity or structure into smaller ones[WP]." [http://en.wikipedia.org/wiki/Septum] comment: general anatomical term in FMA subset: pheno_slim synonym: "septa" EXACT PLURAL [] xref: AAO:0011127 xref: FMA:86461 xref: http://en.wikipedia.org/wiki/Septum xref: OpenCyc:Mx4rrqot_on_EdaAAAACs0uFOQ is_a: BFO:0000004 ! independent continuant is_a: UBERON:0000061 ! anatomical structure relationship: located_in UBERON:0002553 ! anatomical cavity property_value: has_relational_adjective "septal" xsd:string [Term] id: UBERON:0003052 name: midbrain-hindbrain boundary namespace: uberon def: "The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate." [GO:0021555] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "isthmic organizer territory" RELATED [XAO:0000016] synonym: "isthmo-cerebellar region" RELATED [VHOG:0000649] synonym: "isthmus" RELATED [] synonym: "isthmus/MHB" RELATED [Geisha:syn, NCBITaxon:8782] synonym: "MHB" EXACT [] synonym: "mid-hindbrain boundary" EXACT [] synonym: "mid-hindbrain junction" EXACT [] synonym: "midbrain hindbrain boundary" EXACT [] xref: AAO:0011064 xref: DMBA:16810 xref: EHDAA2:0004395 xref: EHDAA:5789 xref: EMAPA:32857 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2076 xref: NCIT:C93172 xref: TAO:0000042 xref: VHOG:0000649 xref: XAO:0000016 xref: ZFA:0000042 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 {inconsistent_with="ZFA", source="https://sourceforge.net/p/obo/zebrafish-anatomy-zfa-term-requests/106/"} ! anatomical junction is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: immediate_transformation_of UBERON:0009615 {source="ZFA"} ! midbrain hindbrain boundary neural plate relationship: part_of UBERON:0000955 {source="ZFA"} ! brain property_value: editor_note "consider adding class for organizer. Consider adding separate class for isthmus as a structure" xsd:string property_value: homology_notes "Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000649", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)"} [Term] id: UBERON:0003055 name: periderm namespace: uberon def: "A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis." [ISBN:9780878932504] subset: pheno_slim subset: uberon_slim synonym: "epidermis epithelial layer" RELATED [] synonym: "epidermis outer layer" RELATED [] synonym: "epitrichium" RELATED [MP:0013530] synonym: "EVL" RELATED [ZFA:0001185] synonym: "periderm" RELATED [] synonym: "skin periderm" EXACT [EHDAA2:0001846] xref: EHDAA2:0001846 xref: EHDAA:6538 xref: FMA:295662 xref: http://linkedlifedata.com/resource/umls/id/C1518973 xref: NCIT:C34247 xref: TAO:0001185 xref: UMLS:C1518973 {source="ncithesaurus:Periderm"} xref: VHOG:0001680 xref: XAO:0000029 xref: ZFA:0001185 is_a: UBERON:0000487 {source="EHDAA2"} ! simple squamous epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0007383 {source="ZFA"} ! enveloping layer of ectoderm relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: axiom_lost_from_external_ontology "relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001185", ontology="TAO"} property_value: development_notes "In some mammals, Eyelid Fusion is thought to be driven by a population of cells which are derived from the periderm, the outermost layer of the developing epidermis" xsd:string property_value: development_notes "Originally the epidermis is one layer thick, in most vertebrates it soon becomes a two-layered structure. The outer layer gives rise to the periderm. The periderm goes through distinct developmental phases and is ultimately sloughed into the amniotic fluid when differentiation of the underlying epidermal layers is complete. The function of the periderm is not known, but is thought to be related to transport/exchange between the fetus and the amniotic fluid (http://courses.washington.edu/hubio567/devbio/periderm.html)" xsd:string property_value: external_definition "The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001185", ontology="TAO", source="ZFIN:curator"} property_value: taxon_notes "In mice, the first non-basal layer formed at ~E9.5; it is a temporary structure composed of simple squamous epithelium that serves as the first barrier to the embryo's physical environment, exists throughout the entire keratinocyte stratification process, and sheds off at ~E17, when it is replaced by corneocytes[MP]" xsd:string [Term] id: UBERON:0003056 name: pre-chordal neural plate namespace: uberon def: "The portion of neural plate anterior to the mid-hindbrain junction." [XB:curator] synonym: "anterior neural plate" RELATED [] xref: AAO:0011084 xref: TAO:0007016 xref: VHOG:0001200 xref: XAO:0000045 xref: ZFA:0007016 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: anterior_to UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: part_of UBERON:0003075 ! neural plate property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001200", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003057 name: chordal neural plate namespace: uberon def: "The portion of neural plate posterior to the mid-hindbrain junction." [XB:curator] synonym: "posterior neural plate" RELATED [] xref: TAO:0007017 xref: VHOG:0001201 xref: XAO:0000046 xref: ZFA:0007017 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003075 ! neural plate relationship: posterior_to UBERON:0009615 ! midbrain hindbrain boundary neural plate property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001201", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003059 name: presomitic mesoderm namespace: uberon def: "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form." [ZFIN:curator] subset: efo_slim subset: pheno_slim synonym: "presumptive somite mesoderm" RELATED [] synonym: "PSM" RELATED [] synonym: "segmental plate" EXACT [] synonym: "somitogenic mesoderm" RELATED [] synonym: "somitomeric mesoderm" RELATED [GO:0002075] synonym: "unsegmented mesenchyme" RELATED [VHOG:0000559] synonym: "unsegmented paraxial mesoderm" EXACT [https://orcid.org/0000-0002-6601-2165] xref: AAO:0011086 xref: EFO:0001982 xref: EMAPA:16189 xref: EMAPA:16752 xref: TAO:0000279 xref: VHOG:0000559 xref: XAO:0000057 xref: ZFA:0000279 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0002329 ! somite intersection_of: immediate_transformation_of UBERON:0007282 ! presumptive segmental plate relationship: develops_from UBERON:0007282 ! presumptive segmental plate relationship: has_potential_to_develop_into UBERON:0002329 ! somite relationship: immediate_transformation_of UBERON:0007282 {source="Bgee:AN"} ! presumptive segmental plate relationship: part_of UBERON:0003077 ! paraxial mesoderm property_value: external_definition "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000279", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000559", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1006/dbio.2001.0460 Schubert M, Holland LZ, Dale Stokes M and Holland ND, Three Amphoxius Wnt Genes (AmphiWnt3, AmphiWnt5, and AmphiWnt6) Associated with the Tail Bud: the Evolution of Somitogenesis in Chordates. Developmental Biology (2001)"} [Term] id: UBERON:0003061 name: blood island namespace: uberon def: "Blood islands are structures in the developing embryo which lead to many different parts of the circulatory system. They primarily derive from plexuses formed from angioblasts. Within them, vacuoles appear through liquefaction of the central part of the syncytium into plasma. The lumen of the blood vessels thus formed is probably intracellular. The flattened cells at the periphery form the endothelium. The nucleated red blood corpuscles develop either from small masses of the original angioblast left attached to the inner wall of the lumen or directly from the flat endothelial cells. In either case the syncytial mass thus formed projects from and is attached to the wall of the vessel. Such a mass is known as a blood island and hemoglobin gradually accumulates within it. Later the cells on the surface round up, giving the mass a mulberry-like appearance. Then the red blood cells break loose and are carried away in the plasma. Such free blood cells continue to divide. Blood islands have been seen in the area vasculosa in the omphalomesenteric vein and arteries, and in the dorsal aorta[WP, unvetted]." [http://en.wikipedia.org/wiki/Blood_island_of_umbilical_vesicle] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "blood islands" EXACT PLURAL [] synonym: "caudal hematopoietic tissue" RELATED [] synonym: "posterior blood island" RELATED [] synonym: "posterior ICM" RELATED [] synonym: "VBI" RELATED [] synonym: "ventral blood island" RELATED [] synonym: "ventral lateral plate mesoderm" BROAD [] xref: AAO:0011006 xref: EFO:0003489 xref: EHDAA:207 xref: http://en.wikipedia.org/wiki/Blood_island_of_umbilical_vesicle xref: http://linkedlifedata.com/resource/umls/id/C1511224 xref: NCIT:C34113 xref: TAO:0000094 xref: TE:E5.11.2.0.0.0.4 xref: UMLS:C1511224 {source="ncithesaurus:Blood_Island"} xref: VHOG:0000085 xref: XAO:0000067 xref: ZFA:0000094 is_a: UBERON:0006598 ! presumptive structure relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: has_potential_to_develop_into UBERON:0002390 ! hematopoietic system property_value: axiom_lost_from_external_ontology "relationship loss: part_of intermediate cell mass of mesoderm (TAO:0000033)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000094", ontology="TAO"} property_value: external_definition "Nests of developing blood cells arising late in the segmentation period from the intermediate mass, and located in the anterior-ventral tail, just posterior to the yolk extension. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000094", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Region located on the ventral surface of the developing embryo that is a site of hematopoiesis and that is analogous to the yolk sac blood islands of higher vertebrates.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011006", ontology="AAO", source="AAO:EJS"} property_value: external_ontology_notes "EHDAA2 distinguishes 3 types, but does not have a superclass. The VHOG class may refer to yolk sac" xsd:string {external_ontology="EHDAA2"} property_value: homology_notes "Small clusters of mesodermal cells called blood islands mark the embryonic debut of the cardiovascular system (in vertebrates) (reference 1); In birds and mammals, primitive hemangioblasts are extraembryonic, populating the yolk sac as the so-called blood islands (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000085", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.450, DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual Review of Cell and Developmental Biology (2006)"} [Term] id: UBERON:0003063 name: prechordal plate namespace: uberon alt_id: UBERON:0004881 def: "A horseshoe-shaped thickening of the endoderm at the cranial (rostral) end of the primitive streak formed by the involution of Spemann's organizer cells which, together with the notochord, induces the formation of the neural plate from the overlying ectodermal cells and contributes mesodermal type cells to the surrounding tissue" [ISBN:0838580343, MP:0004387] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "head mesenchyme" BROAD [XAO:0000079] synonym: "head mesoderm" BROAD [XAO:0000079] xref: AAO:0011085 xref: EHDAA2:0001493 xref: EHDAA:181 xref: FMA:295532 xref: Prechordal:plate xref: TAO:0000060 xref: VHOG:0000086 xref: XAO:0000079 xref: ZFA:0000060 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0034878 ! prechordal mesoderm relationship: part_of UBERON:0003068 {source="ZFA"} ! axial mesoderm relationship: transformation_of UBERON:0034878 {todo="PMID:16313393"} ! prechordal mesoderm property_value: editor_note "TODO - check; developmental relationship to anterior hypoblast in ZFA?" xsd:string property_value: external_definition "Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000060", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Axial mesoderm that lies anterior to the notochord and that underlies the forebrain. [Amphioxus_goosecoid_and_the_evolution_of_the_head_organizer_and_prechordal_plate._Evolution_and_Development_(2008)_2(6):303-310, Neidert_AH, Panopoulou_G_and_Langeland_JA][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: homology_notes "There are two opposing models that can potentially explain the differences in gsc (goosecoid) expression between amphioxus and vertebrates. In one model, the vertebrate gsc expression pattern more closely resembles the common ancestral state and the amphioxus gsc expression pattern is a derivation associated with its unique morphology. (...) In an alternate model, the amphioxus gsc expression pattern most closely represents the common ancestral state and the vertebrate pattern is derived. This model suggests that the evolution of vertebrates was accompanied by the segregation of gsc expression, from a more general domain underlying the entire brain anlage to a distinct forebrain organizer domain and subsequent prechordal plate. We feel this second model is more parsimonious than the first model in that what would be novel anterior gsc expression in vertebrates directly correlates with a novel vertebrate anterior structure, the prechordal plate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1525-142x.2000.00073.x Neidert AH, Panopoulou G and Langeland JA, Amphioxus goosecoid and the evolution of the head organizer and prechordal plate. Evolution and Development (2008)"} [Term] id: UBERON:0003068 name: axial mesoderm namespace: uberon def: "The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." [GO:0048318, http://en.wikipedia.org/wiki/Chordamesoderm] subset: efo_slim subset: uberon_slim synonym: "chordamesoderm" RELATED [http://en.wikipedia.org/wiki/Chordamesoderm] xref: AAO:0011017 xref: EFO:0003647 xref: http://en.wikipedia.org/wiki/Chordamesoderm xref: TAO:0001204 xref: VHOG:0000107 xref: XAO:0000205 xref: ZFA:0001204 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000926 ! mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: external_definition "The portion of the mesoderm underlying the midline of the embryo. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000107", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003071 name: eye primordium namespace: uberon alt_id: UBERON:0005060 def: "Portion of tissue that is part of the anterior neural keel and will form the optic vesicle[ZFA]. A paired ectodermal placode that becomes invaginated to form the embryonic lens vesicles." [GO:0046619, ZFA:0000570] subset: efo_slim synonym: "eye anlage" RELATED [XAO:0000227] synonym: "eye field" RELATED [] synonym: "eye placode" EXACT [OBOL:automatic] synonym: "occular primordium" EXACT [] synonym: "ocular primordium" EXACT [] synonym: "optic field" RELATED [] synonym: "optic placode" EXACT [GO:0046619] synonym: "optic placode of camera-type eye" EXACT [GO:0046619, https://orcid.org/0000-0002-6601-2165] synonym: "optic placodes" RELATED PLURAL [] synonym: "optic primordium" EXACT [] xref: AAO:0011038 xref: EFO:0003541 xref: EHDAA2:0004431 xref: TAO:0000570 xref: XAO:0000227 xref: XAO:0004090 xref: ZFA:0000570 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0001048 ! primordium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001048 ! primordium intersection_of: has_potential_to_develop_into UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: has_potential_to_develop_into UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0003056 {source="http://www.ncbi.nlm.nih.gov/pubmed/16496288", source="XAO"} ! pre-chordal neural plate property_value: external_ontology_notes "TODO - check that GO's optic placode is the same as ZFA's eye primordium; we may want to have separate term for ocular primordium precursor. XAO has both optic field and eye primordium." xsd:string {external_ontology="GO"} [Term] id: UBERON:0003072 name: optic cup namespace: uberon def: "Multi-tissue structure that is comprised of neural and non-neural epithelial layers which will form the retina and retinal pigmented epithelium of the mature eye[ZFA]. double walled structured formed by expansion and invagination of the distal end of the optic vesicle that develops into the pigmented and sensory layers of the retina while the mouth of the optic cup eventually forms the pupil of the eye[MP]." [MP:0004269, Optic_cup_(embryology), ZFA:0001202] subset: pheno_slim subset: vertebrate_core synonym: "eye cup" RELATED [] synonym: "eyecup" RELATED [BTO:0005351] synonym: "ocular cup" RELATED [VHOG:0000167] synonym: "ophtalmic cup" RELATED [BTO:0005351] xref: BTO:0005351 xref: EHDAA2:0001303 xref: EHDAA:2912 xref: EMAPA:16674 xref: http://linkedlifedata.com/resource/umls/id/C0231109 xref: http://www.snomedbrowser.com/Codes/Details/308789007 xref: NCIT:C34233 xref: TAO:0001202 xref: UMLS:C0231109 {source="ncithesaurus:Optic_Cup"} xref: VHOG:0000167 xref: ZFA:0001202 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: developmentally_induced_by UBERON:0003073 ! lens placode relationship: develops_from UBERON:0004128 {source="ZFA"} ! optic vesicle relationship: part_of UBERON:0010312 {source="ZFA"} ! immature eye property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000167", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0003073 name: lens placode namespace: uberon def: "A thickened portion of ectoderm which serves as the precursor to the lens. SOX2 and Pou2f1 are involved in its development[WP]." [http://en.wikipedia.org/wiki/Lens_placode, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "lens placodes" RELATED PLURAL [ZFA:0000122] synonym: "placoda lentis" RELATED LATIN [http://en.wikipedia.org/wiki/Lens_placode] xref: AAO:0011055 xref: EFO:0003494 xref: EHDAA2:0000982 xref: EHDAA:2908 xref: EMAPA:16672 xref: FMA:296767 xref: http://linkedlifedata.com/resource/umls/id/C1517770 xref: Lens:placode xref: NCIT:C34202 xref: TAO:0000122 xref: UMLS:C1517770 {source="ncithesaurus:Lens_Placodes"} xref: VHOG:0000166 xref: XAO:0000240 xref: ZFA:0000122 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0002546 ! cranial placode is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010312 ! immature eye is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode intersection_of: has_potential_to_develop_into UBERON:0000965 ! lens of camera-type eye relationship: developmentally_induced_by UBERON:0004128 ! optic vesicle relationship: has_potential_to_develop_into UBERON:0000965 ! lens of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png property_value: development_notes "Classical transplantation experiments using amphibian embryos suggested that the optic vesicle is the source of lens-inducing signals sufficient to generate lens tissues in competent ectoderm (reviewed in Grainger et al., 1996). More recent findings suggest a multistep model for lens induction. There is now good evidence that lens specification occurs at the neurula stage, before the optic vesicle contact the surface ectoderm, and that neural crest cell migration in the frontonasal region is required to restrict the position of the lens placode (Bailey et al., 2006)" xsd:string {source="NCBIBook:NBK53175"} property_value: external_definition "Ectodermal primordium of the lens of the eye. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000122", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000166", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0003075 name: neural plate namespace: uberon def: "A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]" [http://en.wikipedia.org/wiki/Neural_plate, ISBN:0815318960, OMD:neural+plate, ZFIN:curator] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "lamina neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_plate] synonym: "presumptive central nervous system" RELATED [] xref: AAO:0011072 xref: BTO:0001765 xref: DHBA:10153 xref: DMBA:15565 xref: EHDAA:346 xref: EHDAA:902 xref: EMAPA:35593 xref: FMA:293879 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1362 xref: http://linkedlifedata.com/resource/umls/id/C0920623 xref: NCIT:C34225 xref: Neural:plate xref: RETIRED_EHDAA2:0001252 xref: TAO:0000132 xref: UMLS:C0920623 {source="ncithesaurus:Neural_Plate"} xref: VHOG:0000068 xref: XAO:0000249 xref: ZFA:0000132 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0016879 ! future central nervous system relationship: developmentally_induced_by UBERON:0002328 {source="Wikipedia"} ! notochord relationship: develops_from UBERON:0007284 ! presumptive neural plate relationship: immediate_transformation_of UBERON:0007284 {source="Bgee:AN"} ! presumptive neural plate property_value: depicted:by Neural:Crest.png property_value: external_definition "The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000132", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000068", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003076 name: posterior neural tube namespace: uberon xref: AAO:0011082 xref: TAO:0007037 xref: VHOG:0001383 xref: XAO:0000250 xref: ZFA:0007037 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure disjoint_from: UBERON:0003080 {source="lexical"} ! anterior neural tube relationship: develops_from UBERON:0003057 ! chordal neural plate relationship: part_of UBERON:0001049 ! neural tube property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001383", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003077 name: paraxial mesoderm namespace: uberon def: "The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]" [GO:0048339, https://github.com/obophenotype/uberon/issues/30] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "mesoderma paraxiale" RELATED LATIN [http://en.wikipedia.org/wiki/Paraxial_mesoderm] synonym: "paraxial mesenchyme" EXACT [https://github.com/obophenotype/uberon/issues/30, https://github.com/obophenotype/uberon/wiki/The-neural-crest, ZFA:0000255] synonym: "somitic mesoderm" EXACT [ISBN:9780878932504] xref: AAO:0010568 xref: EFO:0003515 xref: EMAPA:16183 xref: EMAPA:16751 xref: FMA:293145 xref: http://linkedlifedata.com/resource/umls/id/C1284009 xref: http://www.snomedbrowser.com/Codes/Details/361475002 xref: NCIT:C34244 xref: Paraxial:mesoderm xref: TAO:0000255 xref: UMLS:C1284009 {source="ncithesaurus:Paraxial_Mesoderm"} xref: VHOG:0000114 xref: XAO:0000259 xref: ZFA:0000255 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0015212 ! lateral structure relationship: develops_from UBERON:0007285 ! presumptive paraxial mesoderm relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: immediate_transformation_of UBERON:0007285 {source="Bgee:AN"} ! presumptive paraxial mesoderm relationship: in_lateral_side_of UBERON:0000922 ! embryo property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: external_definition "Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010568", ontology="AAO", source="AAO:EJS"} property_value: external_ontology_notes "note that all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm'). Also in ZFA it is part of the trunk whereas this conflicts with the division into head and trunk in ehdaa2 (which we follow here)" xsd:string {external_ontology="ZFA"} property_value: homology_notes "Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000114", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/dvdy.21177 Kusakabe R and Kuratani S. Evolutionary perspectives from development of mesodermal components in the lamprey. Developmental dynamics (2007)"} [Term] id: UBERON:0003080 name: anterior neural tube namespace: uberon xref: AAO:0011012 xref: TAO:0007038 xref: VHOG:0001384 xref: XAO:0000307 xref: ZFA:0007038 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "TODO - add grouping class for the anterior end of the neural tube at all stages" xsd:string property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001384", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003081 name: lateral plate mesoderm namespace: uberon alt_id: UBERON:0006258 def: "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm, MP:0010117] subset: pheno_slim subset: uberon_slim synonym: "lateral mesoderm" EXACT [GO:0048368] synonym: "lateral plate" RELATED [] synonym: "lateral plate mesenchyme" RELATED [EHDAA2:0000919] synonym: "LPM" EXACT ABBREVIATION [ZFA:0000121] synonym: "mesoderma laminae lateralis" RELATED LATIN [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm] xref: AAO:0010574 xref: EHDAA2:0000919 xref: EHDAA:379 xref: EMAPA:16179 xref: FMA:293149 xref: http://en.wikipedia.org/wiki/Lateral_plate_mesoderm xref: http://linkedlifedata.com/resource/umls/id/C1517749 xref: http://www.snomedbrowser.com/Codes/Details/361477005 xref: NCIT:C34199 xref: TAO:0000121 xref: UMLS:C1517749 {source="ncithesaurus:Lateral_Mesoderm"} xref: VHOG:0000118 xref: XAO:0000311 xref: ZFA:0000121 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue relationship: part_of UBERON:0000926 {source="EHDAA2", source="VHOG"} ! mesoderm relationship: surrounds UBERON:0003887 ! intraembryonic coelom property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png property_value: external_definition "Portion of mesoderm traditionally thought to give rise to limb bones and parts of the girdles.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010574", ontology="AAO", source="AAO:EJS"} property_value: external_definition "The portion of the mesoderm of the trunk of vertebrate embryos lying lateral to the intermediate mesoderm. [...] [It] subdivides into two plates: one dorsal, called the somatopleure, and one ventral, called the splanchnopleure. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: external_ontology_notes "subclass of mesoderm in ZFA." xsd:string {external_ontology="ZFA"} property_value: homology_notes "A ventrolateral zone of amphioxus mesoderm grows down to surround the gut. Homology of this zone to the lateral plate mesoderm of vertebrates is supported by site of origin and fate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} [Term] id: UBERON:0003084 name: heart primordium namespace: uberon def: "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone." [ZFIN:curator] subset: uberon_slim synonym: "cardiac field" RELATED [ZFA:0000028] synonym: "fused heart primordium" RELATED [] xref: AAO:0011044 xref: BTO:0001887 xref: http://linkedlifedata.com/resource/umls/id/C1514450 xref: NCIT:C34276 xref: TAO:0000028 xref: UMLS:C1514450 {source="ncithesaurus:Primordium_of_the_Heart"} xref: XAO:0000336 xref: ZFA:0000028 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: develops_from UBERON:0003081 {source="ZFA"} ! lateral plate mesoderm relationship: develops_from UBERON:0004140 ! primary heart field relationship: develops_from UBERON:0007005 {source="XAO"} ! cardiogenic splanchnic mesoderm relationship: part_of UBERON:0004535 {source="ZFA"} ! cardiovascular system property_value: axiom_lost_from_external_ontology "relationship loss: develops_from lateral mesoderm (TAO:0001065)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000028", ontology="TAO"} property_value: editor_note "should probably be merged with heart rudiment." xsd:string property_value: external_definition "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000028", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "The fused aspects of ventral mesoderm, which have migrated from either side of the prechordal plate, and fused ventrally, just behind the cement gland. They will give rise to the endocardium at NF stage 27&28.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011044", ontology="AAO", source="XAO:curator"} [Term] id: UBERON:0003089 name: sclerotome namespace: uberon def: "Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]." [http://en.wikipedia.org/wiki/Sclerotome, https://github.com/obophenotype/uberon/issues/316, XB:curator] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "sclerotomes" EXACT PLURAL [TAO:0001080] synonym: "sclerotomus" RELATED LATIN [http://en.wikipedia.org/wiki/Sclerotome] xref: AAO:0010571 xref: AEO:0000212 xref: EHDAA2:0003439 xref: EMAPA:31159 xref: FMA:295652 xref: http://en.wikipedia.org/wiki/Sclerotome xref: http://linkedlifedata.com/resource/umls/id/C0183176 xref: NCIT:C34287 xref: TAO:0001080 xref: UMLS:C0183176 {source="ncithesaurus:Sclerotome"} xref: VHOG:0000680 xref: XAO:0000397 xref: ZFA:0001080 is_a: UBERON:0005856 {source="EHDAA2"} ! developing mesenchymal condensation is_a: UBERON:0007530 {source="EHDAA2"} ! migrating mesenchyme population relationship: develops_from UBERON:0002329 {source="ZFA"} ! somite property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png property_value: external_definition "Skeletogenic portion of somites.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010571", ontology="AAO", source="AAO:EJS"} property_value: external_ontology_notes "part_of somite in XAO" xsd:string {external_ontology="XAO"} property_value: homology_notes "The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000680", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} [Term] id: UBERON:0003099 name: cranial neural crest namespace: uberon def: "neural crest cells (NCCs) originating in the anterior part of the developing embryo and residing between the mid-diencephalon and the forming hindbrain; cranial NCCs migrate dorsolaterally to form the craniofacial mesenchyme that differentiates into various craniofacial cartilages and bones, cranial neurons, glia, and connective tissues of the face; these cells enter the pharyngeal pouches and arches where they give rise to thymic cells, bones of the middle ear and jaw (mandible), and the odontoblasts of the tooth primordia; like their counterparts in the trunk, cranial NCCs also contribute to the developing peripheral nervous system, along with the pigmented cell (i.e. melanocyte) lineage." [MGI:anna] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "cephalic neural crest" EXACT [EMAPA:16091] synonym: "CNC" EXACT ABBREVIATION [XAO:0001001] synonym: "cranial NCC population" EXACT [] synonym: "crista neuralis cranialis" RELATED LATIN [http://en.wikipedia.org/wiki/Cranial_neural_crest] synonym: "head crest" RELATED [] synonym: "head NCC population" EXACT [] synonym: "head neural crest" RELATED [] xref: AAO:0010580 xref: EFO:0003645 xref: EHDAA2:0004420 xref: EMAPA:16091 xref: http://en.wikipedia.org/wiki/Cranial_neural_crest xref: TAO:0001194 xref: VHOG:0000063 xref: XAO:0001001 xref: ZFA:0001194 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002342 ! neural crest property_value: external_definition "Anterior most portion of the neural crest. Migrates in three highly conserved streams: mandibular, hyoid and branchial.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010580", ontology="AAO", source="AAO:EJS"} property_value: external_definition "Neural crest that is part of the head.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001194", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000063", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} [Term] id: UBERON:0003102 name: surface structure namespace: uberon def: "Anatomical structure that overlaps the outer epithelial layer and is adjacent to the space surrounding the organism." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/24] subset: upper_level synonym: "anatomical surface feature" EXACT [EHDAA2:0003010] synonym: "surface feature" RELATED [] synonym: "surface region" RELATED [] synonym: "surface structures" RELATED PLURAL [ZFA:0000292] xref: AAO:0010337 xref: AEO_RETIRED:0000010 xref: EHDAA2_RETIRED:0003010 xref: galen:SurfaceRegion xref: Surface:structure xref: TAO:0000292 xref: VSAO:0000001 xref: XAO:0003028 xref: ZFA:0000292 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure relationship: adjacent_to UBERON:0013514 ! space surrounding organism relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/wdahdul relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "consider obsoleting. See issue/1305" xsd:string property_value: external_definition "Organism subdivision which is the collection of anatomical structures on the body surface.[ZFA]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000292", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003103 name: compound organ namespace: uberon def: "Anatomical structure that has as its parts two or more multi-tissue structures of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona fide boundaries from other distinct anatomical structures of different types." [CARO:0000024] subset: organ_slim subset: upper_level synonym: "organ" RELATED [] xref: AAO:0010015 xref: AEO:0000024 xref: BILA:0000024 xref: CARO:0000024 xref: EHDAA2:0003024 xref: HAO:0000024 xref: TADS:0000598 xref: TAO:0000496 xref: TGMA:0001837 xref: VHOG:0001723 xref: XAO:0003041 xref: ZFA:0000496 is_a: UBERON:0000062 ! organ property_value: curator_notes "this class was introduced for consistency with CARO. However, in this ontology we typically classify organs directly under 'organ' rather than subdividing into compound and simple organs" xsd:string [Term] id: UBERON:0003104 name: mesenchyme namespace: uberon def: "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage[XAO]. A mesh-like cell arrangement, less compact than an epithelium[ZFA]. The part of the embryonic mesoderm, consisting of loosely packed, unspecialized cells set in a gelatinous ground substance, from which connective tissue, bone, cartilage, and the circulatory and lymphatic systems develop[BTO]." [BTO:0001393, http://en.wikipedia.org/wiki/Mesenchyme, ZFIN:curator] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mesenchyma" RELATED LATIN [http://en.wikipedia.org/wiki/Mesenchyme] synonym: "mesenchymal tissue" EXACT [] synonym: "mesenchyme tissue" EXACT [] synonym: "portion of mesenchymal tissue" EXACT [] synonym: "portion of mesenchyme tissue" EXACT [] xref: AAO:0010427 xref: AEO:0000145 xref: BTO:0001393 xref: CALOHA:TS-0620 xref: EHDAA2:0003145 xref: EV:0100007 xref: http://en.wikipedia.org/wiki/Mesenchyme xref: http://linkedlifedata.com/resource/umls/id/C0162415 xref: NCIT:C13301 xref: TAO:0000393 xref: UMLS:C0162415 {source="ncithesaurus:Mesenchyme"} xref: VHOG:0000170 xref: XAO:0003046 xref: ZFA:0000393 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000479 ! tissue relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f4/Mesenchymal_Stem_Cell.jpg property_value: editor_note "the relationship to mesoderm is weaker than develops_from in order to have classes such as 'head mesenchyme from mesoderm' make sense" xsd:string property_value: external_definition "A mesh-like cell arrangement, less compact than an epithelium. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000393", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010427", ontology="AAO", source="AAO:EJS"} property_value: has_relational_adjective "mesenchymal" xsd:string [Term] id: UBERON:0003117 name: pharyngeal arch 6 namespace: uberon alt_id: UBERON:0004349 def: "The 6th pharyngeal arch. contributes to the development of the sternocleidomastoid and trapezius muscles" [MP:0006347] subset: pheno_slim synonym: "6th arch" EXACT [EHDAA2:0004075] synonym: "6th pharyngeal arch" RELATED [VHOG:0001205] synonym: "6th visceral arch" RELATED [VHOG:0001205] synonym: "branchial arch 4" RELATED SENSU [AAO:0010368, ZFA:0001609] synonym: "fourth branchial arch" RELATED SENSU [] synonym: "gill arch 4" EXACT [ZFA:0001609] synonym: "sixth branchial arch" EXACT [] synonym: "sixth pharyngeal arch" RELATED [VHOG:0001205] synonym: "sixth visceral arch" RELATED [XAO:0000453] synonym: "visceral arch 6" EXACT [ZFA:0001609] xref: AAO:0010368 xref: EHDAA2:0004075 xref: EMAPA:32766 xref: FMA:293047 xref: http://www.snomedbrowser.com/Codes/Details/308772004 xref: TAO:0001601 xref: VHOG:0001205 xref: XAO:0000453 xref: ZFA:0001609 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The forth in a series of paired bars in the wall of the pharynx, within which are formed the forth aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010368", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001205", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: pharyngeal_arch_number "6" xsd:nonNegativeInteger [Term] id: UBERON:0003118 name: pharyngeal arch artery 1 namespace: uberon alt_id: UBERON:0004371 def: "The vessels formed within the first pair of branchial arches in embryogenesis" [MP:0010355] subset: pheno_slim subset: vertebrate_core synonym: "1st aortic arch artery" RELATED [EMAPA:16685] synonym: "1st arch artery" EXACT [EMAPA:16685] synonym: "1st branchial arch artery" RELATED [EMAPA:16685] synonym: "1st pharyngeal arch artery" RELATED [EMAPA:16685] synonym: "AA1" EXACT [ZFA:0005005] synonym: "aortic arch 1" EXACT [ZFA:0005005] synonym: "first aortic arch" EXACT [XAO:0000342] synonym: "first arch artery" RELATED [EMAPA:16685] synonym: "first branchial arch artery" EXACT [] synonym: "mandibular aortic arch" EXACT [ZFA:0005005] xref: AAO:0010415 xref: EHDAA2:0000007 xref: EMAPA:16202 xref: EMAPA:16685 xref: http://www.snomedbrowser.com/Codes/Details/308774003 xref: TAO:0005005 xref: VHOG:0000149 xref: XAO:0000342 xref: ZFA:0005005 is_a: UBERON:0004363 ! pharyngeal arch artery intersection_of: UBERON:0004363 ! pharyngeal arch artery intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 relationship: contributes_to_morphology_of UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0004362 ! pharyngeal arch 1 property_value: external_ontology_notes "ZFA states that The paired aortic arch 1 arteries branch off of the ventral aorta, and empty into the right and left lateral dorsal aortas" xsd:string {external_ontology="ZFA"} property_value: taxon_notes "Disappears early in development in tetrapods" xsd:string [Term] id: UBERON:0003123 name: pharyngeal arch artery 6 namespace: uberon alt_id: UBERON:0004351 def: "The vessels formed within the sixth pair of branchial arches in embryogenesis" [MP:0006355] subset: pheno_slim subset: vertebrate_core synonym: "6th aortic arch artery" RELATED [EMAPA:17005] synonym: "6th arch artery" EXACT [EMAPA:17005] synonym: "6th branchial arch artery" RELATED [EMAPA:17005] synonym: "6th pharyngeal arch artery" RELATED [EMAPA:17005] synonym: "AA6" EXACT [ZFA:0005016] synonym: "aortic arch 6" EXACT [ZFA:0005016] synonym: "pulmonary arch" RELATED [ISBN10:0073040584] synonym: "sixth aortic arch" EXACT [XAO:0000353] synonym: "sixth branchial arch artery" EXACT [] xref: AAO:0010422 xref: Arch_6 xref: EHDAA2:0000102 xref: EMAPA:17005 xref: http://www.snomedbrowser.com/Codes/Details/308779008 xref: TAO:0005016 xref: VHOG:0000144 xref: XAO:0000353 xref: ZFA:0005016 is_a: UBERON:0004363 ! pharyngeal arch artery intersection_of: UBERON:0004363 ! pharyngeal arch artery intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0003117 ! pharyngeal arch 6 property_value: development_notes "the distal left sixth arch becomes the ductus arteriosus, the proximal sixth arches bilaterally contribute to the proximal branch pulmonary arteries" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} property_value: external_definition "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005016", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "The sixth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 6 artery is paired and has a common trunk with aortic arch 5 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. It forms part of the pulmonary arteries, and in the later embryo, the ductus arteriosis. Aortic arches 5 and 6 together supply the trunk and tail with oxygenated blood.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010422", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: external_definition "The sixth right arch disappears; the sixth left arch gives off the pulmonary arteries and forms the ductus arteriosus; this duct remains pervious during the whole of fetal life, but then closes within the first few days after birth due to increased O2 concentration. Oxygen concentration causes the production of bradykinin which causes the ductus to constrict occluding all flow. Within 1-3 months, the ductus is obliterated and becomes the ligamentum arteriosus. His showed that in the early embryo the right and left arches each gives a branch to the lungs, but that later both pulmonary arteries take origin from the left arch[WP][Wikipedia:Aortic_arches#Arch_6]." xsd:string {source="Arch_6"} [Term] id: UBERON:0003128 name: cranium namespace: uberon def: "Upper portion of the skull that excludes the mandible (when present in the organism)." [http://en.wikipedia.org/wiki/Cranium_(anatomy), http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bones of cranium" EXACT [FMA:71325] synonym: "calvarium" RELATED [BTO:0001328] synonym: "epicranial plate" RELATED [] synonym: "ossa cranii" EXACT LATIN [FMA:71325, FMA:TA] synonym: "set of bones of cranium" EXACT [FMA:71325] synonym: "skeletal system of head" RELATED [] synonym: "skull minus mandible" EXACT [] synonym: "upper part of skull" EXACT [] xref: BTO:0001328 xref: Cranium:(anatomy) xref: EFO:0000831 xref: EHDAA:6029 xref: EMAPA:17680 xref: FMA:71325 xref: http://www.snomedbrowser.com/Codes/Details/181889008 xref: MA:0000316 xref: MAT:0000340 xref: MIAA:0000340 xref: OpenCyc:Mx4rvVlEyJwpEbGdrcN5Y29ycA xref: VHOG:0000334 is_a: UBERON:0000075 {source="FMA-inferred"} ! subdivision of skeletal system relationship: part_of UBERON:0003129 ! skull property_value: external_ontology_notes "the inclusion of the FMA class here is probably not quite correct, as this class includes as parts sutures, whereas this is not part of the bones of the cranium" xsd:string {external_ontology="FMA"} property_value: has_relational_adjective "cranial" xsd:string property_value: terminology_notes "The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" xsd:string {source="WP"} [Term] id: UBERON:0003129 name: skull namespace: uberon def: "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." [http://en.wikipedia.org/wiki/Skull, http://sourceforge.net/tracker/?func=detail&aid=2962656&group_id=76834&atid=1205376, http://www.ncbi.nlm.nih.gov/pubmed/11523816] subset: pheno_slim subset: uberon_slim synonym: "cranial skeleton" RELATED [] synonym: "skeletal system of head" RELATED [] xref: BTO:0001295 xref: CALOHA:TS-2344 xref: EHDAA2:0000325 xref: EMAPA:17680 xref: FMA:46565 xref: GAID:82 xref: galen:Skull xref: http://en.wikipedia.org/wiki/Skull xref: http://linkedlifedata.com/resource/umls/id/C0037303 xref: http://www.snomedbrowser.com/Codes/Details/110530005 xref: MESH:D012886 xref: NCIT:C12789 xref: OpenCyc:Mx4rvVjOsZwpEbGdrcN5Y29ycA xref: UMLS:C0037303 {source="ncithesaurus:Skull"} xref: WikipediaCategory:Skull is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0003128 ! cranium relationship: has_part UBERON:0003278 ! skeleton of lower jaw relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0010323 ! cranial skeletal system relationship: present_in_taxon NCBITaxon:7762 ! Myxinidae property_value: external_ontology_notes "in FMA the skull is divided into orbit, neurocranium (8 parts), viscerocranium (26 parts). Here we have a separate overlapping division into cranium and mandible." xsd:string {external_ontology="FMA"} property_value: external_ontology_notes "in many ontologies, the structure called the cranium is inclusive of the mandible/lower jaw skeleton" xsd:string property_value: terminology_notes "A skull that is missing a mandible is only a cranium; this is the source of a very commonly made error in terminology. Those animals having skulls are called craniates" xsd:string {source="WP"} [Term] id: UBERON:0003236 name: epithelium of lower jaw namespace: uberon def: "An epithelium that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lower jaw" EXACT [OBOL:automatic] synonym: "epithelial tissue of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "epithelium of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "lower jaw epithelial tissue" EXACT [OBOL:automatic] synonym: "lower jaw epithelium" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelial tissue" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001019 xref: EHDAA:7999 xref: EMAPA:35516 xref: VHOG:0000802 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0035037 ! jaw epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003258 name: endoderm of foregut namespace: uberon def: "An endoderm that is part of a foregut [Automatically generated definition]." [OBOL:automatic] synonym: "foregut endoderm" EXACT [OBOL:automatic] xref: EHDAA2:0004568 xref: EHDAA:524 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0015833 ! foregut epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001041 ! foregut property_value: editor_note "TODO - check" xsd:string [Term] id: UBERON:0003278 name: skeleton of lower jaw namespace: uberon def: "A subdivision of the skeleton that corresponds to the lower part of the mouth. The lower jaw skeleton includes the following elements, when present: lower jaw teeth, the mandible and other lower jaw bones, and Meckel's cartilage." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "lower jaw" BROAD [MA:0001906] synonym: "lower jaw" BROAD [ZFA:0001273] synonym: "lower jaw skeleton" EXACT [AAO:0000274] synonym: "mandible" BROAD [ZFA:0001273] synonym: "mandibles" RELATED PLURAL [TAO:0001273] synonym: "mandibular series" RELATED [ZFA:0001273] xref: AAO:0000274 xref: EHDAA2:0004606 xref: EHDAA:8005 xref: EMAPA:17906 xref: EMAPA:17910 xref: FMA:54398 xref: MA:0001906 xref: TAO:0001273 xref: VHOG:0000428 xref: XAO:0003084 xref: ZFA:0001273 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0001708 ! jaw skeleton relationship: part_of UBERON:0001710 {source="EHDAA2"} ! lower jaw region relationship: skeleton_of UBERON:0001710 ! lower jaw region property_value: external_definition "The ventral portion of the first pharyngeal arch, comprising the lower jaw.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001273", ontology="TAO", source="ZFIN:curator"} property_value: external_ontology_notes "Inclusion of the FMA class 'lower jaw' is debatable - this mostly corresponds to the lower jaw skeleton (with 'maxillary part of mouth' corresponding to the upper jaw region); however, the FMA class also includes gingiva. See also: https://github.com/obophenotype/mouse-anatomy-ontology/issues/102" xsd:string {external_ontology="FMA"} property_value: homology_notes "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000428", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.241 and p.101"} [Term] id: UBERON:0003294 name: gland of foregut namespace: uberon def: "A gland that is part of a foregut [Automatically generated definition]." [OBOL:automatic] synonym: "foregut gland" EXACT [OBOL:automatic] xref: EHDAA2:0000567 xref: EHDAA:950 xref: EMAPA:16557 xref: VHOG:0000650 is_a: UBERON:0003408 ! gland of digestive tract intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0003295 name: pharyngeal gland namespace: uberon def: "Racemose mucous glands beneath the mucous membrane of the pharynx." [Biology-Online_Dictionary:http\://www.biology-online.org/dictionary/] subset: organ_slim synonym: "glandulae pharyngeae" RELATED [BTO:0004849] synonym: "pharynx gland" EXACT [EHDAA2:0001461] xref: BTO:0004849 xref: EHDAA2:0001461 xref: EHDAA:2967 xref: FMA:55075 is_a: UBERON:0003408 ! gland of digestive tract is_a: UBERON:0036225 ! respiratory system gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 {source="BTO"} ! chordate pharynx [Term] id: UBERON:0003297 name: gland of integumental system namespace: uberon def: "A gland that is part of a integumental system [Automatically generated definition]." [OBOL:automatic] synonym: "integumental gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumental system gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumentary gland" EXACT [http://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0000837 xref: EHDAA:6522 xref: EMAPA:17758 xref: MA:0000144 xref: VHOG:0000654 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002416 ! integumental system relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0003304 name: mesoderm blood island namespace: uberon alt_id: UBERON:0003305 def: "A blood island that is part of a mesoderm." [OBOL:automatic] synonym: "mesenchyme blood island" RELATED [OBOL:automatic] synonym: "mesoderm blood islands" EXACT PLURAL [EHDAA2:0003241] xref: EHDAA2:0003241 xref: EHDAA:170 xref: EMAPA:16115 is_a: UBERON:0003061 ! blood island is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0003061 ! blood island intersection_of: part_of UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000926 ! mesoderm relationship: part_of UBERON:0007798 {source="EHDAA2"} ! vascular system property_value: external_ontology_notes "in EHDAA2, gives rise to blood and dorsal aorta" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0003314 name: eye mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing camera-type eye." [OBOL:automatic] synonym: "mesenchyme of eye" EXACT [OBOL:automatic] xref: EHDAA2:0000485 xref: EHDAA:2910 xref: EMAPA:16673 xref: VHOG:0001084 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009891 ! facial mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0009920 {source="EHDAA2"} ! optic neural crest relationship: part_of UBERON:0000019 ! camera-type eye property_value: editor_note "TODO - change mesenchyme relationships to precursor_of" xsd:string [Term] id: UBERON:0003324 name: mesenchyme of lower jaw namespace: uberon def: "Mesenchyme that is part of a developing lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "lower jaw mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "ventral mandibular arch mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001024 xref: EHDAA:8003 xref: EMAPA:17916 xref: VHOG:0001069 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0034995 ! jaw mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: develops_from UBERON:0006905 {source="EHDAA2"} ! mandibular process mesenchyme relationship: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003343 name: mucosa of oral region namespace: uberon def: "A mucosa that is part of a oral opening [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral region" EXACT [OBOL:automatic] synonym: "mucosa of organ of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucous membrane of oral opening" EXACT [OBOL:automatic] synonym: "mucous membrane of oral part of face" EXACT [OBOL:automatic] synonym: "mucous membrane of oral region" EXACT [OBOL:automatic] synonym: "mucous membrane of subdivision of mouth" EXACT [OBOL:automatic] synonym: "oral opening mucosa" EXACT [OBOL:automatic] synonym: "oral opening mucosa of organ" EXACT [OBOL:automatic] synonym: "oral opening mucous membrane" EXACT [OBOL:automatic] synonym: "oral opening organ mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa of organ" EXACT [OBOL:automatic] synonym: "oral part of face mucous membrane" EXACT [OBOL:automatic] synonym: "oral part of face organ mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa of organ" EXACT [OBOL:automatic] synonym: "oral region mucous membrane" EXACT [OBOL:automatic] synonym: "oral region organ mucosa" EXACT [OBOL:automatic] synonym: "organ mucosa of oral opening" EXACT [OBOL:automatic] synonym: "organ mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "organ mucosa of oral region" EXACT [OBOL:automatic] synonym: "organ mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa of organ" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucous membrane" EXACT [OBOL:automatic] synonym: "subdivision of mouth organ mucosa" EXACT [OBOL:automatic] xref: EMAPA:26937 xref: http://www.snomedbrowser.com/Codes/Details/362083000 is_a: UBERON:0003729 ! mouth mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000166 ! oral opening relationship: part_of UBERON:0000166 ! oral opening [Term] id: UBERON:0003350 name: epithelium of mucosa namespace: uberon def: "A layer of epithelial cells on the surface of the mucosa." [BTO:0003752] comment: lies on top of lamina propria synonym: "lamina epithelialis mucosa" RELATED [BTO:0003752] synonym: "lamina epithelialis mucosae" RELATED [BTO:0003752] xref: BTO:0003752 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000344 ! mucosa relationship: part_of UBERON:0000344 ! mucosa [Term] id: UBERON:0003351 name: pharyngeal epithelium namespace: uberon def: "An epithelium that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "epithelial tissue of pharynx" EXACT [OBOL:automatic] synonym: "epithelium of pharynx" EXACT [OBOL:automatic] synonym: "pharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "pharynx epithelium" EXACT [OBOL:automatic] xref: BSA:0000112 xref: BTO:0005240 xref: EMAPA:16708 xref: MA:0002725 xref: RETIRED_EHDAA2:0001460 xref: TAO:0001174 xref: XAO:0003202 xref: ZFA:0001174 is_a: UBERON:0003929 ! digestive tract epithelium is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0005911 ! endo-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: develops_from UBERON:0007690 {source="ZFA"} ! early pharyngeal endoderm relationship: part_of UBERON:0001042 {source="ZFA"} ! chordate pharynx property_value: external_definition "Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001174", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003364 name: epithelium of right lung namespace: uberon def: "An epithelium that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of right lung" EXACT [OBOL:automatic] synonym: "right lung epithelial tissue" EXACT [OBOL:automatic] synonym: "right lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17663 xref: MA:0003132 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002167 ! right lung relationship: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003365 name: epithelium of left lung namespace: uberon def: "An epithelium that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of left lung" EXACT [OBOL:automatic] synonym: "left lung epithelial tissue" EXACT [OBOL:automatic] synonym: "left lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17655 xref: MA:0003131 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002168 ! left lung relationship: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003386 name: smooth muscle of eye namespace: uberon def: "any of the striated muscles that move the eye and include: superior rectus, inferior rectus, medial rectus, lateral rectus, superior oblique, inferior oblique, retractor bulbi" [MGI:cwg, MP:0005247] subset: pheno_slim synonym: "ocular smooth muscle" EXACT [MA:0001268] xref: EMAPA:18807 xref: MA:0001268 is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: contributes_to_morphology_of UBERON:0001015 ! musculature relationship: part_of UBERON:0000019 ! camera-type eye property_value: editor_note "Not clear if we need this and intra-ocular muscle. See issue #331. MA includes ciliary and iris smooth muscle" xsd:string [Term] id: UBERON:0003408 name: gland of digestive tract namespace: uberon def: "A gland that is part of a digestive tract [Automatically generated definition]." [OBOL:automatic] synonym: "digestive tract gland" EXACT [OBOL:automatic] synonym: "gland of digestive tract" EXACT [OBOL:automatic] synonym: "gland of lower gastrointestinal tract" EXACT [OBOL:automatic] synonym: "gut gland" EXACT [MA:0003202] synonym: "lower gastrointestinal tract gland" EXACT [OBOL:automatic] xref: EMAPA:18815 xref: MA:0003202 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002530 ! gland is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0003426 name: dermis adipose tissue namespace: uberon def: "An adipose tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "adipose tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis fat tissue" EXACT [OBOL:automatic] synonym: "dermis fatty tissue" EXACT [OBOL:automatic] synonym: "fat tissue of dermis" EXACT [OBOL:automatic] synonym: "fatty tissue of dermis" EXACT [OBOL:automatic] xref: MA:0000798 is_a: UBERON:0001013 ! adipose tissue is_a: UBERON:0003585 ! dermis connective tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003469 name: respiratory system artery namespace: uberon def: "An artery that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37569 {source="MA:th"} xref: MA:0001804 is_a: UBERON:0001637 ! artery is_a: UBERON:0003643 ! respiratory system arterial blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003471 name: artery of lower lip namespace: uberon def: "The Iinferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery." [http://en.wikipedia.org/wiki/Inferior_labial_artery] synonym: "arteria labialis inferior" EXACT LATIN [http://en.wikipedia.org/wiki/Inferior_labial_artery] synonym: "inferior labial artery" EXACT [FMA:49567] synonym: "inferior labial branch of facial artery" EXACT [FMA:49567] synonym: "ramus labialis inferior (arteria facialis)" EXACT [FMA:TA] synonym: "ramus labialis inferior arteriae facialis" EXACT LATIN [http://en.wikipedia.org/wiki/Inferior_labial_artery] xref: EMAPA:37429 {source="MA:th"} xref: FMA:49567 xref: http://en.wikipedia.org/wiki/Inferior_labial_artery xref: http://www.snomedbrowser.com/Codes/Details/145036002 xref: MA:0001916 is_a: BFO:0000040 ! material entity is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0009657 ! artery of lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001835 ! lower lip relationship: branching_part_of UBERON:0001612 {source="FMA"} ! facial artery relationship: part_of UBERON:0001612 ! facial artery relationship: supplies UBERON:0001835 ! lower lip [Term] id: UBERON:0003473 name: thoracic cavity artery namespace: uberon def: "An artery that is part of a thoracic cavity[cjm]." [https://sourceforge.net/tracker/index.php?func=detail&aid=3317815&group_id=76834&atid=1205376] synonym: "thoracic artery" RELATED [MESH:A07.231.114.891] xref: EMAPA:37241 {source="MA:th"} xref: MA:0001902 xref: MESH:D013895 is_a: UBERON:0001637 ! artery is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: located_in UBERON:0002224 ! thoracic cavity property_value: external_ontology_notes "in MA, aorta is classified here - but this is problematic because the abdominal aorta is not in the thoracic cavity" xsd:string {external_ontology="MA"} [Term] id: UBERON:0003476 name: respiratory system venous blood vessel namespace: uberon def: "A vein that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius vein" EXACT [OBOL:automatic] synonym: "respiratory system vein" EXACT [OBOL:automatic] synonym: "vein of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "vein of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37584 {source="MA:th"} xref: MA:0001809 xref: MA:0001810 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001004 ! respiratory system relationship: drains UBERON:0001004 ! respiratory system [Term] id: UBERON:0003478 name: vein of lower lip namespace: uberon def: "The inferior labial vein is the vein receiving blood from the lower lip." [http://en.wikipedia.org/wiki/Inferior_labial_vein] synonym: "inferior labial vein" EXACT [FMA:52541] synonym: "lower lip vein" EXACT [OBOL:automatic] synonym: "vena labialis inferior" EXACT LATIN [] synonym: "venae labiales inferiores" RELATED LATIN [http://en.wikipedia.org/wiki/Inferior_labial_vein] xref: EMAPA:37202 {source="MA:th"} xref: FMA:52541 xref: http://en.wikipedia.org/wiki/Inferior_labial_vein xref: http://www.snomedbrowser.com/Codes/Details/422955002 xref: MA:0002253 is_a: UBERON:0013136 ! vein of lip intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001835 ! lower lip relationship: drains UBERON:0001835 ! lower lip property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png [Term] id: UBERON:0003479 name: thoracic cavity vein namespace: uberon def: "A vein that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest vein" EXACT [OBOL:automatic] synonym: "cavity of thorax vein" EXACT [OBOL:automatic] synonym: "chest cavity vein" EXACT [OBOL:automatic] synonym: "pectoral cavity vein" EXACT [OBOL:automatic] synonym: "vein of cavity of chest" EXACT [OBOL:automatic] synonym: "vein of cavity of thorax" EXACT [OBOL:automatic] synonym: "vein of chest cavity" EXACT [OBOL:automatic] synonym: "vein of pectoral cavity" EXACT [OBOL:automatic] synonym: "vein of thoracic cavity" EXACT [OBOL:automatic] xref: EMAPA:37242 {source="MA:th"} xref: MA:0001903 is_a: UBERON:0001638 ! vein is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003489 name: respiratory system capillary endothelium namespace: uberon def: "An endothelium of capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary endothelium" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary vessel" EXACT [OBOL:automatic] xref: EMAPA:37575 {source="MA:th"} xref: MA:0001808 is_a: UBERON:0001915 ! endothelium of capillary is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001915 ! endothelium of capillary intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003526 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system capillary [Term] id: UBERON:0003494 name: respiratory system venule namespace: uberon def: "A venule that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius venule" EXACT [OBOL:automatic] synonym: "venule of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "venule of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37587 {source="MA:th"} xref: MA:0001813 is_a: UBERON:0001979 ! venule is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001979 ! venule intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003495 name: respiratory system arteriole namespace: uberon def: "An arteriole that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37568 {source="MA:th"} xref: MA:0001803 is_a: UBERON:0001980 ! arteriole is_a: UBERON:0003643 ! respiratory system arterial blood vessel intersection_of: UBERON:0001980 ! arteriole intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery [Term] id: UBERON:0003496 name: head blood vessel namespace: uberon def: "A blood vessel that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of adult head" EXACT [OBOL:automatic] synonym: "blood vessel of head" EXACT [OBOL:automatic] xref: EMAPA:36610 xref: http://www.snomedbrowser.com/Codes/Details/127865000 xref: MA:0000575 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0011362 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! cranial blood vasculature [Term] id: UBERON:0003498 name: heart blood vessel namespace: uberon def: "A blood vessel that is part of a heart [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of heart" EXACT [OBOL:automatic] synonym: "cardiac blood vessel" RELATED [EMAPA:35397] xref: EMAPA:35397 xref: MA:0002483 is_a: UBERON:0003834 ! thoracic segment blood vessel is_a: UBERON:0005985 ! coronary vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0018674 ! heart vasculature [Term] id: UBERON:0003499 name: brain blood vessel namespace: uberon def: "A blood vessel that is part of a brain [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of brain" EXACT [OBOL:automatic] xref: EMAPA:35182 xref: MA:0002769 is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0008998 ! vasculature of brain [Term] id: UBERON:0003500 name: corneal blood vessel namespace: uberon def: "A blood vessel that is part of a cornea [Automatically generated definition]." [https://orcid.org/0000-0002-6601-2165, https://sourceforge.net/tracker/index.php?func=detail&aid=3564332&group_id=36855&atid=440764] synonym: "blood vessel of cornea" EXACT [OBOL:automatic] synonym: "cornea blood vessel" EXACT [OBOL:automatic] xref: EMAPA:36611 xref: MA:0001241 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea relationship: present_in_taxon NCBITaxon:9775 {source="http://www.ncbi.nlm.nih.gov/pubmed/17051153"} ! Trichechidae property_value: editor_note "follow up on tracker item" xsd:string [Term] id: UBERON:0003501 name: retina blood vessel namespace: uberon def: "A blood vessel that is part of a retina [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of inner layer of eyeball" EXACT [OBOL:automatic] synonym: "blood vessel of retina" EXACT [OBOL:automatic] synonym: "blood vessel of tunica interna of eyeball" EXACT [OBOL:automatic] synonym: "inner layer of eyeball blood vessel" EXACT [OBOL:automatic] synonym: "retinal blood vessel" EXACT [OBOL:automatic] synonym: "tunica interna of eyeball blood vessel" EXACT [OBOL:automatic] xref: EMAPA:36520 xref: GAID:509 xref: http://www.snomedbrowser.com/Codes/Details/280692003 xref: MA:0001317 xref: MESH:D012171 xref: XAO:0004153 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000966 ! retina relationship: contributes_to_morphology_of UBERON:0000966 ! retina relationship: part_of UBERON:0004864 ! vasculature of retina [Term] id: UBERON:0003502 name: neck blood vessel namespace: uberon def: "A blood vessel that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of neck" EXACT [OBOL:automatic] synonym: "blood vessel of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37236 {source="MA:th"} xref: MA:0000583 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003504 name: respiratory system blood vessel namespace: uberon def: "A blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood vessel of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:35731 xref: EMAPA:35995 xref: MA:0001799 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003509 name: arterial blood vessel namespace: uberon def: "A blood vessel that is part of the arterial system. Includes artery, arteriole and aorta." [https://orcid.org/0000-0002-6601-2165] comment: only in MA - supertype of artery, arteriole, aorta. subset: pheno_slim xref: EMAPA:35144 xref: MA:0000061 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0003511 name: iris blood vessel namespace: uberon def: "A blood vessel that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "blood vessel of iris" EXACT [OBOL:automatic] xref: EMAPA:37387 {source="MA:th"} xref: MA:0001290 xref: ZFA:0005568 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0004118 ! vasculature of iris [Term] id: UBERON:0003512 name: lung blood vessel namespace: uberon def: "A blood vessel that is part of a lung [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of lung" EXACT [OBOL:automatic] synonym: "pulmonary vascular element" RELATED [EMAPA:32867] xref: EMAPA:32867 xref: MA:0002457 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003504 ! respiratory system blood vessel is_a: UBERON:0003834 ! thoracic segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003513 name: trunk blood vessel namespace: uberon def: "A blood vessel that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of torso" EXACT [OBOL:automatic] synonym: "blood vessel of trunk" EXACT [OBOL:automatic] synonym: "torso blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37237 {source="MA:th"} xref: MA:0000511 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003519 name: thoracic cavity blood vessel namespace: uberon def: "A blood vessel that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of cavity of chest" EXACT [OBOL:automatic] synonym: "blood vessel of cavity of thorax" EXACT [OBOL:automatic] synonym: "blood vessel of chest cavity" EXACT [OBOL:automatic] synonym: "blood vessel of pectoral cavity" EXACT [OBOL:automatic] synonym: "blood vessel of thoracic cavity" EXACT [OBOL:automatic] synonym: "cavity of chest blood vessel" EXACT [OBOL:automatic] synonym: "cavity of thorax blood vessel" EXACT [OBOL:automatic] synonym: "chest cavity blood vessel" EXACT [OBOL:automatic] synonym: "pectoral cavity blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37240 {source="MA:th"} xref: MA:0000554 is_a: BFO:0000040 ! material entity is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003526 name: respiratory system capillary namespace: uberon def: "A capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel" EXACT [OBOL:automatic] xref: EMAPA:37574 {source="MA:th"} xref: MA:0001807 is_a: UBERON:0001982 ! capillary is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003528 name: brain gray matter namespace: uberon def: "A gray matter that is part of a brain [Automatically generated definition]." [OBOL:automatic] synonym: "brain grey matter" EXACT [MA:0000810] synonym: "brain grey substance" EXACT [OBOL:automatic] synonym: "gray matter of brain" EXACT [OBOL:automatic] synonym: "grey matter of brain" EXACT [OBOL:automatic] synonym: "grey substance of brain" EXACT [OBOL:automatic] xref: EMAPA:35184 xref: http://linkedlifedata.com/resource/umls/id/C1707348 xref: MA:0000810 xref: NCIT:C49333 xref: UMLS:C1707348 {source="ncithesaurus:Cerebral_Gray_Matter"} is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003566 name: head connective tissue namespace: uberon def: "A portion of connective tissue that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head connective tissue" EXACT [OBOL:automatic] synonym: "adult head portion of connective tissue" EXACT [OBOL:automatic] synonym: "adult head textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of adult head" EXACT [OBOL:automatic] synonym: "connective tissue of head" EXACT [OBOL:automatic] synonym: "head portion of connective tissue" EXACT [OBOL:automatic] synonym: "head textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of adult head" EXACT [OBOL:automatic] synonym: "portion of connective tissue of head" EXACT [OBOL:automatic] synonym: "textus connectivus of adult head" EXACT [OBOL:automatic] synonym: "textus connectivus of head" EXACT [OBOL:automatic] xref: EMAPA:16098 xref: MA:0000577 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000033 ! head relationship: develops_from UBERON:0005253 ! head mesenchyme relationship: part_of UBERON:0000033 ! head relationship: transformation_of UBERON:0005253 ! head mesenchyme [Term] id: UBERON:0003568 name: neck connective tissue namespace: uberon def: "A portion of connective tissue that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of neck" EXACT [OBOL:automatic] synonym: "connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) textus connectivus" EXACT [OBOL:automatic] synonym: "neck portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "textus connectivus of neck" EXACT [OBOL:automatic] synonym: "textus connectivus of neck (volume)" EXACT [OBOL:automatic] xref: EMAPA:37250 {source="MA:th"} xref: MA:0000585 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003570 name: respiratory system connective tissue namespace: uberon def: "A portion of connective tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius portion of connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "portion of connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "portion of connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system portion of connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:35968 xref: EMAPA:35977 xref: MA:0001814 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003580 name: lower respiratory tract connective tissue namespace: uberon def: "A portion of connective tissue that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower respiratory tract textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "textus connectivus of lower respiratory tract" EXACT [OBOL:automatic] xref: EMAPA:37548 {source="MA:th"} xref: MA:0002409 is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0003585 name: dermis connective tissue namespace: uberon def: "A portion of connective tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "connective tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis portion of connective tissue" EXACT [OBOL:automatic] synonym: "dermis textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of dermis" EXACT [OBOL:automatic] synonym: "textus connectivus of dermis" EXACT [OBOL:automatic] xref: EMAPA:36509 xref: MA:0000799 is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002067 ! dermis relationship: develops_from UBERON:0004016 ! dermatome relationship: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003586 name: trunk connective tissue namespace: uberon def: "A portion of connective tissue that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of torso" EXACT [OBOL:automatic] synonym: "connective tissue of trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of torso" EXACT [OBOL:automatic] synonym: "portion of connective tissue of trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of torso" EXACT [OBOL:automatic] synonym: "textus connectivus of trunk" EXACT [OBOL:automatic] synonym: "torso connective tissue" EXACT [OBOL:automatic] synonym: "torso portion of connective tissue" EXACT [OBOL:automatic] synonym: "torso textus connectivus" EXACT [OBOL:automatic] synonym: "trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "trunk textus connectivus" EXACT [OBOL:automatic] xref: EMAPA:37252 {source="MA:th"} xref: MA:0000513 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003593 name: thoracic cavity connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest textus connectivus" EXACT [OBOL:automatic] synonym: "cavity of thorax connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax textus connectivus" EXACT [OBOL:automatic] synonym: "chest cavity connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "pectoral cavity connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of chest" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of chest cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of pectoral cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of thoracic cavity" EXACT [OBOL:automatic] synonym: "thoracic cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "thoracic cavity textus connectivus" EXACT [OBOL:automatic] xref: EMAPA:37255 {source="MA:th"} xref: MA:0000555 is_a: BFO:0000040 ! material entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003605 name: eye skin gland namespace: uberon def: "A skin gland that is part of a camera-type eye [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "camera-type eye skin gland" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands set" EXACT [OBOL:automatic] synonym: "skin gland of camera-type eye" EXACT [OBOL:automatic] synonym: "skin gland of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands set of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands set of vertebrate eye" EXACT [OBOL:automatic] synonym: "vertebrate eye skin gland" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands set" EXACT [OBOL:automatic] xref: EMAPA:37530 {source="MA:th"} xref: MA:0002451 is_a: UBERON:0002419 ! skin gland is_a: UBERON:0004859 ! eye gland is_a: UBERON:0015152 ! gland of ocular region intersection_of: UBERON:0002419 ! skin gland intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003610 name: heart elastic tissue namespace: uberon def: "The type of heart connective tissue found in the endocardial layer that consists mainly of elastic fibers." [MP:0009863] subset: pheno_slim synonym: "cardiac elastic tissue" EXACT [MP:0009863] synonym: "elastic connective tissue of heart" EXACT [OBOL:automatic] synonym: "elastic tissue of heart" EXACT [OBOL:automatic] synonym: "heart elastic connective tissue" EXACT [OBOL:automatic] synonym: "heart textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of heart" EXACT [OBOL:automatic] xref: MA:0002858 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0003611 name: respiratory system elastic tissue namespace: uberon def: "An elastic tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius elastic connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius elastic tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "elastic tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37579 {source="MA:th"} xref: MA:0001820 is_a: UBERON:0002521 ! elastic tissue is_a: UBERON:0003570 ! respiratory system connective tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0004777 ! respiratory system submucosa [Term] id: UBERON:0003613 name: cardiovascular system elastic tissue namespace: uberon def: "An elastic tissue that is part of a circulatory system [Automatically generated definition]." [OBOL:automatic] synonym: "cardiovascular system elastic connective tissue" EXACT [OBOL:automatic] synonym: "cardiovascular system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "circulatory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "circulatory system elastic tissue" EXACT [OBOL:automatic] synonym: "circulatory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic connective tissue of circulatory system" EXACT [OBOL:automatic] synonym: "elastic tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic tissue of circulatory system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of cardiovascular system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of circulatory system" EXACT [OBOL:automatic] xref: MA:0002857 is_a: UBERON:0002521 ! elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001009 ! circulatory system relationship: part_of UBERON:0004535 ! cardiovascular system [Term] id: UBERON:0003614 name: blood vessel elastic tissue namespace: uberon def: "Elastic tissue layer that lines a blood vessel layer." [http://orcid.org/0000-0002-6601-2165, https://sourceforge.net/p/obo/mammalian-phenotype-requests/2026/] subset: pheno_slim synonym: "blood vessel elastic connective tissue" EXACT [OBOL:automatic] synonym: "blood vessel textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of blood vessel" EXACT [OBOL:automatic] synonym: "elastic lamina" BROAD [MP:0006083] synonym: "elastic laminae" BROAD PLURAL [MP:0006083] synonym: "elastic tissue of blood vessel" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of blood vessel" EXACT [OBOL:automatic] synonym: "vascular elastic lamina" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "vascular elastic laminae" EXACT PLURAL [http://orcid.org/0000-0002-6601-2165] synonym: "vascular elastic tissue" EXACT [MP:0006083] xref: EMAPA:36300 xref: MA:0002856 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0003615 name: lung elastic tissue namespace: uberon def: "Elastic tissue that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "elastic connective tissue of lung" EXACT [OBOL:automatic] synonym: "elastic tissue of lung" EXACT [OBOL:automatic] synonym: "lung elastic connective tissue" EXACT [OBOL:automatic] synonym: "lung textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "pulmonary elastic fiber" NARROW [http://orcid.org/0000-0002-6601-2165] synonym: "textus connectivus elasticus of lung" EXACT [OBOL:automatic] xref: MA:0002860 is_a: UBERON:0000114 ! lung connective tissue is_a: UBERON:0003611 ! respiratory system elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003643 name: respiratory system arterial blood vessel namespace: uberon def: "An arterial blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37565 {source="MA:th"} xref: MA:0001800 is_a: UBERON:0003504 ! respiratory system blood vessel is_a: UBERON:0003509 ! arterial blood vessel intersection_of: UBERON:0003509 ! arterial blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003714 name: neural tissue namespace: uberon def: "Portion of tissue in the nervous system which consists of neurons and glial cells, and may also contain parts of the vasculature." [FMA:9642] synonym: "nerve tissue" EXACT [FMA:9642] synonym: "nervous tissue" EXACT [FMA:9642] synonym: "portion of neural tissue" EXACT [FMA:9642] xref: AAO:0000325 xref: AEO:0000123 xref: EHDAA2:0003123 xref: FMA:9642 xref: GAID:609 xref: http://linkedlifedata.com/resource/umls/id/C0027757 xref: http://www.snomedbrowser.com/Codes/Details/91728009 xref: MESH:D009417 xref: NCIT:C13052 xref: OpenCyc:Mx4rVmfYCsQ_QdeM_bFAeS8NRQ xref: UMLS:C0027757 {source="ncithesaurus:Nervous_Tissue"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001016 ! nervous system property_value: external_definition "One of the four types of tissue in traditional classifications. Cells forming the brain, spinal cord and peripheral nervous system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000325", ontology="AAO", source="AAO:LAP"} property_value: external_ontology_notes "FMA definition includes vasculature" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003729 name: mouth mucosa namespace: uberon def: "A mucous membrane that lines the mouth." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "buccal mucosa" RELATED [GAID:951] synonym: "mouth mucosa" EXACT [FMA:59660] synonym: "mouth mucous membrane" EXACT [OBOL:accepted] synonym: "mouth organ mucosa" EXACT [OBOL:accepted] synonym: "mucosa of mouth" EXACT [OBOL:accepted] synonym: "mucosal lining of mouth" RELATED [MA:0002794] synonym: "mucous membrane of mouth" EXACT [FMA:59660] synonym: "oral mucosa" RELATED [GAID:951] synonym: "oral mucous membrane" EXACT [] synonym: "oral part of viscerocranial mucosa" EXACT [FMA:59660] synonym: "tunica mucosa oris" EXACT LATIN [FMA:59660, FMA:TA] synonym: "tunica mucosa oris" RELATED LATIN [http://en.wikipedia.org/wiki/Oral_mucosa] xref: BTO:0002860 xref: CALOHA:TS-0716 xref: EMAPA:26937 xref: FMA:59660 xref: GAID:951 xref: http://linkedlifedata.com/resource/umls/id/C0026639 xref: MA:0002794 xref: MESH:D009061 xref: NCIT:C77637 xref: Oral:mucosa xref: UMLS:C0026639 {source="ncithesaurus:Oral_Mucosa"} is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000165 ! mouth relationship: bounding_layer_of UBERON:0000165 ! mouth relationship: continuous_with UBERON:0000355 ! pharyngeal mucosa relationship: continuous_with UBERON:0001458 ! skin of lip relationship: contributes_to_morphology_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0000165 ! mouth property_value: curator_notes "this is defined as any mucous membrane of the mouth - including palate, lips, uvula, etc. ncit split mouth/oral mucosa into lip and buccal. In future we may split into masticatory/keratinized (gingiva + hard palate) vs lining/non-keratinized (lips, cheeks, floor of mouth, soft palate). FMA distinguishes between mucosa of mouth and region of mouth (the latter including the buccal mucosa)" xsd:string property_value: external_definition "the mucous membrane epithelium of the mouth. It can be divided into three categories: masticatory, lining, and specialized[Wikipedia:Oral_mucosa]." xsd:string {source="Oral:mucosa"} [Term] id: UBERON:0003831 name: respiratory system muscle namespace: uberon def: "Any muscle organ that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "muscle organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system muscle organ" EXACT [OBOL:automatic] xref: EMAPA:35733 xref: MA:0001828 is_a: UBERON:0001630 ! muscle organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003834 name: thoracic segment blood vessel namespace: uberon def: "A blood vessel that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of thorax" EXACT [OBOL:automatic] synonym: "thorax blood vessel" EXACT [OBOL:automatic] synonym: "upper body blood vessel" RELATED [MA:0000558] xref: EMAPA:37238 {source="MA:th"} xref: MA:0000558 is_a: UBERON:0003513 ! trunk blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003837 name: thoracic segment connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of thorax" EXACT [OBOL:automatic] synonym: "thorax connective tissue" EXACT [OBOL:automatic] synonym: "thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "thorax textus connectivus" EXACT [OBOL:automatic] synonym: "upper body connective tissue" RELATED [MA:0000560] xref: EMAPA:37253 {source="MA:th"} xref: MA:0000560 is_a: UBERON:0003586 ! trunk connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003842 name: neural tube lumen namespace: uberon alt_id: UBERON:0005713 def: "An anatomical space that surrounded_by a neural tube." [OBOL:automatic] synonym: "cavity of neural tube" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "central lumen" RELATED [] synonym: "lumen of neural tube" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "neural lumen" RELATED [EHDAA:2889] synonym: "neural tube neural lumen" EXACT [EHDAA2:0001269] synonym: "neurocoel" RELATED [VHOG:0001119] synonym: "prosencoel" NARROW [] xref: AAO:0011073 xref: EHDAA2:0001269 xref: EHDAA:2889 xref: EHDAA:914 xref: EMAPA:16167 xref: VHOG:0001119 xref: XAO:0000252 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001049 ! neural tube relationship: luminal_space_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001119", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003849 name: mesencephalic neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a midbrain." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "mesencephalic neural crest" EXACT [ZFA:0000935] synonym: "neural crest midbrain" EXACT [ZFA:0000935] xref: EFO:0003591 xref: EHDAA2:0001101 xref: EHDAA:360 xref: TAO:0000935 xref: VHOG:0000796 xref: ZFA:0000935 is_a: UBERON:0002342 ! neural crest is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0001891 ! midbrain relationship: has_potential_to_developmentally_contribute_to UBERON:0001891 ! midbrain property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000796", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} [Term] id: UBERON:0003852 name: rhombencephalon neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a hindbrain." [OBOL:automatic] subset: vertebrate_core synonym: "neural crest hindbrain" EXACT [ZFA:0007063] synonym: "rhombencephalic neural crest" EXACT [ZFA:0007063] synonym: "rhombomere neural crest" RELATED [EMAPA:35747] xref: EHDAA2:0001628 xref: EHDAA:362 xref: EMAPA:35747 xref: TAO:0007063 xref: VHOG:0001210 xref: ZFA:0007063 is_a: UBERON:0002342 ! neural crest is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0002028 ! hindbrain relationship: has_potential_to_developmentally_contribute_to UBERON:0002028 ! hindbrain property_value: external_definition "Cranial neural crest that is part of the hindbrain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007063", ontology="TAO", source="ZFIN:curator"} property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001210", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} [Term] id: UBERON:0003853 name: spinal cord neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a spinal cord." [OBOL:automatic] synonym: "neural crest spinal cord" EXACT [VHOG:0001006] synonym: "spinal neural crest" RELATED [VHOG:0001006] xref: EHDAA:696 xref: EMAPA:16163 xref: EMAPA:16881 xref: VHOG:0001006 is_a: UBERON:0002342 ! neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0002240 ! spinal cord relationship: has_potential_to_developmentally_contribute_to UBERON:0002240 ! spinal cord property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001006", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} [Term] id: UBERON:0003854 name: spinal cord neural plate namespace: uberon def: "A neural plate that develops_from a future spinal cord." [OBOL:automatic] synonym: "neural plate of spinal cord" EXACT [OBOL:automatic] xref: FMA:312957 xref: TAO:0007021 xref: VHOG:0000439 xref: ZFA:0007021 is_a: UBERON:0003075 ! neural plate intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0006241 ! future spinal cord relationship: develops_from UBERON:0006241 {source="ZFA"} ! future spinal cord property_value: external_definition "Neural plate that is part of the spinal cord. [Bgee_curator][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003886 name: future coelemic cavity lumen namespace: uberon def: "An anatomical cavity that has the potential to develop into a coelemic cavity lumen." [OBOL:automatic] subset: grouping_class subset: non_informative synonym: "body cavity precursor" RELATED [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: has_potential_to_develop_into UBERON:0002323 ! coelemic cavity lumen relationship: existence_ends_during UBERON:0000111 ! organogenesis stage relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: has_potential_to_develop_into UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0000926 ! mesoderm [Term] id: UBERON:0003887 name: intraembryonic coelom namespace: uberon def: "The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom" [MGI:anna, MP:0012187] subset: pheno_slim synonym: "somatic coelom" EXACT [http://en.wikipedia.org/wiki/Intraembryonic_coelom] xref: EHDAA:251 xref: EMAPA:16088 xref: http://linkedlifedata.com/resource/umls/id/C1512940 xref: Intraembryonic:coelom xref: NCIT:C34195 xref: UMLS:C1512940 {source="ncithesaurus:Intraembryonic_Coelom"} xref: VHOG:0000316 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003081 {source="Wikipedia"} ! lateral plate mesoderm relationship: part_of UBERON:0011997 ! coelom property_value: editor_note "consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults" xsd:string property_value: homology_notes "(...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000316", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.166"} [Term] id: UBERON:0003902 name: retinal neural layer namespace: uberon def: "The part of the retina that contains neurons and photoreceptor cells[GO]." [GO:0003407] subset: pheno_slim subset: vertebrate_core synonym: "neural layer of retina" EXACT [FMA:58628] synonym: "neural retina" EXACT [XAO:0003216, ZFA:0000046] synonym: "neural retinal epithelium" RELATED [MA:000027] synonym: "neuroretina" EXACT [ZFA:0000046] synonym: "stratum nervosum (retina)" EXACT [FMA:58628] synonym: "stratum nervosum retinae" EXACT LATIN [FMA:58628, FMA:TA] xref: AAO:0011095 xref: BTO:0000929 xref: CALOHA:TS-0685 xref: EHDAA2:0001253 xref: EHDAA:4763 xref: EMAPA:17171 xref: EMAPA:18590 xref: FMA:58628 xref: http://linkedlifedata.com/resource/umls/id/C1518263 xref: MA:0000277 xref: NCIT:C33166 xref: TAO:0000046 xref: UMLS:C1518263 {source="ncithesaurus:Neural_Retina"} xref: VHOG:0000535 xref: XAO:0003216 xref: ZFA:0000046 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001781 ! layer of retina intersection_of: UBERON:0001781 ! layer of retina intersection_of: immediate_transformation_of UBERON:0005425 ! presumptive neural retina relationship: developmentally_induced_by UBERON:0005426 ! lens vesicle relationship: develops_from UBERON:0005425 ! presumptive neural retina relationship: immediate_transformation_of UBERON:0005425 {source="Bgee:AN"} ! presumptive neural retina property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000535", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0003914 name: epithelial tube namespace: uberon def: "Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GO:0060562, http://www.ncbi.nlm.nih.gov/pubmed/12526790] synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 xref: FBbt:00007474 is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium property_value: curator_notes "contrast with a multi-tissue tube, which has as parts both epithelium, connective tissue, possibly muscle layers" xsd:string [Term] id: UBERON:0003915 name: endothelial tube namespace: uberon def: "Any endothelium that has the quality of being cylindrical [Automatically generated definition]." [OBOL:automatic] is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003914 ! epithelial tube [Term] id: UBERON:0003920 name: venous blood vessel namespace: uberon def: "A blood vessel that carries blood from the capillaries toward the heart" [http://www.thefreedictionary.com/venous+blood+vessel] comment: Compare to: vein synonym: "segment of venous tree organ" EXACT [FMA:86188] synonym: "venous tree organ segment" EXACT [FMA:86188] xref: EMAPA:35932 xref: FMA:86188 xref: MA:0000066 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0003928 name: digestive system duct namespace: uberon def: "A duct that is part of a digestive system [Automatically generated definition]." [OBOL:automatic] synonym: "duct of digestive system" EXACT [OBOL:automatic] synonym: "duct of gastrointestinal system" EXACT [OBOL:automatic] synonym: "gastrointestinal system duct" EXACT [OBOL:automatic] xref: TAO:0005162 xref: ZFA:0005162 is_a: UBERON:0000058 ! duct intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0003929 name: digestive tract epithelium namespace: uberon def: "An epithelium that lines the lumen of the digestive tract." [http://orcid.org/0000-0002-6601-2165] synonym: "alimentary tract epithelium" RELATED [OBOL:automatic] synonym: "digestive tract epithelial tissue" EXACT [OBOL:automatic] synonym: "epithelial tissue of digestive tract" EXACT [OBOL:automatic] synonym: "epithelial tissue of gut" EXACT [OBOL:automatic] synonym: "epithelium of digestive tract" EXACT [OBOL:automatic] synonym: "epithelium of gut" EXACT [OBOL:automatic] synonym: "gastrodermis" EXACT SENSU [BGEE:ANN, NCBITaxon:6073] synonym: "gut epithelial tissue" EXACT [OBOL:automatic] synonym: "gut epithelium" EXACT [EHDAA2:0004567, MA:0003201, ZFA:0005123] xref: BTO:0000956 xref: EHDAA2:0004567 xref: EMAPA:32928 xref: http://linkedlifedata.com/resource/umls/id/C0836205 xref: MA:0003201 xref: NCIT:C12963 xref: TAO:0005123 xref: UMLS:C0836205 {source="ncithesaurus:Gut_Epithelium"} xref: XAO:0003200 xref: ZFA:0005123 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract property_value: external_definition "Epithelium lining the lumen of the gut.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005123", ontology="TAO", source="ZFIN:curator"} property_value: taxon_notes "" xsd:string [Term] id: UBERON:0003967 name: cutaneous elastic tissue namespace: uberon def: "The slender connective tissue fiber in the extracellular matrix of skin tissue that is composed of microfibrils and amorphous elastin and is characterized by great elasticity" [MP:0008418] subset: pheno_slim synonym: "cutaneous elastic fiber" NARROW [MP:0008418] synonym: "dermal elastic fiber" NARROW [MP:0008418] xref: EMAPA:37841 {source="MA:th"} is_a: UBERON:0002521 ! elastic tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000014 ! zone of skin relationship: contributes_to_morphology_of UBERON:0000014 ! zone of skin relationship: part_of UBERON:0000014 ! zone of skin [Term] id: UBERON:0004015 name: embryonic-extraembryonic boundary namespace: uberon def: "The connection between the embryo proper and extraembryonic tissues" [MP:0003890] subset: pheno_slim is_a: BFO:0000004 ! independent continuant is_a: UBERON:0000015 ! non-material anatomical boundary intersection_of: UBERON:0000015 ! non-material anatomical boundary intersection_of: adjacent_to UBERON:0000478 ! extraembryonic structure intersection_of: adjacent_to UBERON:0002050 ! embryonic structure relationship: adjacent_to UBERON:0000478 ! extraembryonic structure relationship: adjacent_to UBERON:0002050 ! embryonic structure [Term] id: UBERON:0004016 name: dermatome namespace: uberon def: "A transitional population of migrating mesenchymal cells that derive from somites and that will become dermal cells." [AEO:0001017, AEO:JB] subset: pheno_slim synonym: "cutis plate" EXACT [http://en.wikipedia.org/wiki/Cutis_plate] synonym: "dermatomal mesenchyme" EXACT [http://en.wikipedia.org/wiki/Cutis_plate] synonym: "epimere mesoderm" RELATED [] synonym: "mesenchyma dermatomiale" RELATED LATIN [http://en.wikipedia.org/wiki/Dermatomal_mesenchyme] xref: AAO:0011028 xref: AEO:0001017 xref: Dermatome:(embryology) xref: EHDAA2_RETIRED:0003428 xref: EHDAA:1719 xref: EHDAA:1725 xref: EHDAA:1731 xref: EHDAA:1737 xref: EMAPA:32838 xref: FMA:295656 xref: http://linkedlifedata.com/resource/umls/id/C0180383 xref: NCIT:C61572 xref: UMLS:C0180383 {source="ncithesaurus:Dermatome"} xref: XAO:0000220 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0017650 {source="AEO"} ! developing mesenchymal structure relationship: develops_from UBERON:0004290 {source="EHDAA2-abduced"} ! dermomyotome property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f3/Gray64.png property_value: terminology_notes "Not to be confused with 'dermatome segment of skin'." xsd:string [Term] id: UBERON:0004022 name: germinal neuroepithelium namespace: uberon def: "The single layer of epithelial cells that lines the early neural tube and develops into the nervous system and into the neural crest cells" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0004261] subset: pheno_slim synonym: "germinal neuroepithelial layer" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "germinal neuroepithelium" EXACT [NCBIBook:NBK10047] synonym: "original neural tube" EXACT [NCBIBook:NBK10047] is_a: BFO:0000040 ! material entity is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034706 {source="NCBIBook:NBK10047"} ! proliferating neuroepithelium relationship: adjacent_to UBERON:0003842 ! neural tube lumen relationship: bounding_layer_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: development_notes "As the cells adjacent to the lumen continue to divide, the migrating cells form a second layer around the original neural tube. This layer becomes progressively thicker as more cells are added to it from the germinal neuroepithelium. This new layer is called the mantle (or intermediate) zone, and the germinal epithelium is now called the ventricular zone (and, later, the ependyma)[NCBIBook:NBK10047]" xsd:string [Term] id: UBERON:0004060 name: neural tube ventricular layer namespace: uberon def: "The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009689] subset: pheno_slim synonym: "ependymal layer" BROAD [NCBIBook:NBK10047] synonym: "neural tube ependymal layer" EXACT [NCBIBook:NBK10047] synonym: "neural tube ependymal zone" NARROW [MP:0009689] synonym: "neural tube ventricular germinal zone" EXACT [NCBIBook:NBK10047] synonym: "neural tube ventricular zone" EXACT [MP:0009689] xref: EMAPA:17152 xref: EMAPA:35362 xref: EMAPA_RETIRED:16783 xref: MA:0003193 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034706 {source="NCBIBook:NBK10047"} ! proliferating neuroepithelium relationship: adjacent_to UBERON:0003842 ! neural tube lumen relationship: develops_from UBERON:0004022 ! germinal neuroepithelium relationship: immediate_transformation_of UBERON:0004022 {source="NCBIBook:NBK10047"} ! germinal neuroepithelium relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure" xsd:string property_value: external_definition "The layer of undifferentiated, proliferating cells that line the neural tube lumen" xsd:string {source="MP:0009689"} [Term] id: UBERON:0004061 name: neural tube mantle layer namespace: uberon def: "The layer of glia and differentiating neurons that forms as a second layer around the germinal neuroepithium; as this develops it comes to lie between the ventricular and marginal layers and includes the basal and alar plates. Develops into neurons and glia forming a gray matter layer." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009690] subset: pheno_slim synonym: "future brain marginal layer" RELATED [EMAPA:35360] synonym: "neural tube intermediate zone" EXACT [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009690] xref: EMAPA:17148 xref: EMAPA:35360 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1367 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034707 {source="NCBIBook:NBK10047"} ! differentiating neuroepithelium relationship: adjacent_to UBERON:0004060 ! neural tube ventricular layer relationship: adjacent_to UBERON:0004062 ! neural tube marginal layer relationship: develops_from UBERON:0004022 {notes="by division", source="NCBIBook:NBK10047"} ! germinal neuroepithelium relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0004062 name: neural tube marginal layer namespace: uberon def: "The outermost layer of the neural tube that consists of axons from the developing mantle layer and will form the white matter" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009691] subset: pheno_slim synonym: "brain marginal zone" RELATED [] synonym: "neural tube marginal zone" EXACT [MP:0009691] xref: EMAPA:17151 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1368 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure relationship: adjacent_to UBERON:0004061 ! neural tube mantle layer relationship: develops_from UBERON:0004061 {notes="forms from axons"} ! neural tube mantle layer relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0004088 name: orbital region namespace: uberon def: "The subdivision of the face that includes the eye (eyeball plus adnexa such as eyelids) and the orbit of the skull and associated parts of the face such as the eyebrows, if present" [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "content of orbital part of eye" EXACT [FMA:260119] synonym: "eye region" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ocular and peri-ocular region" RELATED [] synonym: "ocular region" RELATED [] synonym: "orbital content" RELATED [FMA:260119] synonym: "orbital part of eye" RELATED [FMA:72951] synonym: "orbital part of face" EXACT [http://orcid.org/0000-0002-6601-2165] xref: FMA:260119 is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001456 ! face property_value: editor_note "note the FMA class is more narrow though, and is more like eye + muscles + vasculature. The FMA also has FMA:72951 orbital part of eye" xsd:string property_value: external_ontology_notes "in HP covers eyelid, eyebrow." xsd:string {external_ontology="HP:0000284"} [Term] id: UBERON:0004111 name: anatomical conduit namespace: uberon def: "Any tube, opening or passage that connects two distinct anatomical spaces." [http://orcid.org/0000-0002-6601-2165] synonym: "foramen" NARROW [EHDAA2:0003080] synonym: "foramina" NARROW PLURAL [https://orcid.org/0000-0002-6601-2165] synonym: "opening" RELATED [] synonym: "ostia" RELATED PLURAL [] synonym: "ostium" RELATED [] xref: AEO:0000080 xref: EHDAA2:0003080 xref: FMA:242873 xref: http://en.wikipedia.org/wiki/Foramen xref: http://www.snomedbrowser.com/Codes/Details/346902003 is_a: UBERON:0010000 ! multicellular anatomical structure intersection_of: UBERON:0010000 ! multicellular anatomical structure intersection_of: conduit_for UBERON:0000061 ! anatomical structure intersection_of: has_part UBERON:0013686 ! anatomical conduit space relationship: conduit_for UBERON:0000061 ! anatomical structure relationship: connects UBERON:0000464 {minCardinality="2", maxCardinality="2"} ! anatomical space relationship: has_part UBERON:0013686 ! anatomical conduit space property_value: external_ontology_notes "FMA has both conduit and conduit space. In EHDAA2 this is a surface feature" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004118 name: vasculature of iris namespace: uberon def: "A vasculature that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "iris blood vessels" EXACT [ZFA:0005568] synonym: "iris vascular network" EXACT [OBOL:automatic] synonym: "iris vasculature" EXACT [] synonym: "vascular network of iris" EXACT [OBOL:automatic] xref: ZFA:0005568 is_a: UBERON:0002203 ! vasculature of eye intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 ! iris [Term] id: UBERON:0004119 name: endoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the endoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000925 ! endoderm relationship: develops_from UBERON:0000925 ! endoderm property_value: curator_notes "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004120 name: mesoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the mesoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "mesodermal derivative" EXACT [FBbt:00025998] xref: FBbt:00025998 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000926 ! mesoderm relationship: develops_from UBERON:0000926 ! mesoderm property_value: curator_notes "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004121 name: ectoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the ectoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "ectodermal deriviative" EXACT [FBbt:00025990] xref: FBbt:00025990 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000924 ! ectoderm relationship: develops_from UBERON:0000924 ! ectoderm property_value: curator_notes "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004128 name: optic vesicle namespace: uberon def: "The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, http://en.wikipedia.org/wiki/Optic_vesicles] comment: Genes: Six3, Pax6, Rx1 are expressed together in the tip of the neural plate [ISBN:9780878932504 "Developmental Biology"]. Development notes: During subsequent develop- ment, the optic vesicle invaginates and becomes a two-layered structure with an inner neural retina and outer retinal pigment epithelium. As soon as the developing optic vesicle makes contact with the overlying ectoderm, it induces the ectoderm to thicken and form the lens placode [PMID:16496288] subset: pheno_slim subset: vertebrate_core synonym: "evagination" RELATED [] synonym: "eye vesicle" RELATED [XAO:0000228] synonym: "ocular vesicle" RELATED [VHOG:0000165] synonym: "optic vesicles" RELATED PLURAL [ZFA:0000050] xref: AAO:0011039 xref: EHDAA2:0001320 xref: EMAPA:16540 xref: FMA:293357 xref: http://linkedlifedata.com/resource/umls/id/C0231106 xref: http://www.snomedbrowser.com/Codes/Details/362864008 xref: NCIT:C34236 xref: Optic:vesicles xref: TAO:0000050 xref: UMLS:C0231106 {source="ncithesaurus:Optic_Vesicle"} xref: VHOG:0000165 xref: XAO:0000228 xref: ZFA:0000050 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: developmentally_induced_by UBERON:0004880 ! chordamesoderm relationship: develops_from UBERON:0002346 {source="GO-def"} ! neurectoderm relationship: develops_from UBERON:0003071 {source="ZFA"} ! eye primordium relationship: part_of UBERON:0010312 {source="ZFA"} ! immature eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000165", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0004139 name: cardiogenic plate namespace: uberon def: "The first recognizable structure derived from the heart field" [GO:0003142] subset: pheno_slim synonym: "cardiac crescent" RELATED [EMAPA:16106] synonym: "cardiogenic crescent" RELATED [GO:0003142] synonym: "heart rudiment" RELATED [] synonym: "myocardial plate" EXACT [EHDAA2:0000215] xref: EHDAA2:0000215 xref: EMAPA:16106 xref: VHOG:0000975 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003084 ! heart primordium property_value: editor_note "TODO - check plate vs rudiment vs primordium vs endocardial tube. See XAO" xsd:string property_value: homology_notes "(In vertebrates) The embryonic mesoderm is the source of both the cardiogenic plate, giving rise to the future myocardium as well as the endocardium that will line the system on the inner side.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000975", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:15611355 Gittenberger-de Groot AC, Bartelings MM, Deruiter MC, Poelmann RE, Basics of cardiac development for the understanding of congenital heart malformations. Pediatric Research (2005)"} [Term] id: UBERON:0004140 name: primary heart field namespace: uberon def: "A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle." [GO:0003138, GOC:mtg_heart, GOC:rl] synonym: "FHF" RELATED ABBREVIATION [XAO:0004185] synonym: "first heart field" EXACT [XAO:0004185] synonym: "heart field" RELATED [XAO:0004185] synonym: "PHF" RELATED ABBREVIATION [XAO:0004185] synonym: "primary heart field" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/17276708, XAO:0004185] xref: XAO:0004185 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage relationship: part_of UBERON:0003081 {source="GO:0003128"} ! lateral plate mesoderm relationship: part_of UBERON:0036146 {source="BGEE:ann"} ! cardiopharyngeal field property_value: external_ontology_notes "this term denotes the primary heart field; GO:0003128 denotes the superclass of primary and secondary: specific region of the lateral mesoderm into the area which will form the primary beating heart tube[GO:0003138]" xsd:string {external_ontology="GO"} [Term] id: UBERON:0004141 name: heart tube namespace: uberon def: "An epithelial tube that will give rise to the mature heart." [GO:0003143, GOC:mtg_heart] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "embryonic heart tube" EXACT [GO:0003143] synonym: "endocardial heart tube" EXACT [MP:0012700] synonym: "endocardial tube" EXACT [XAO:0000337] xref: AAO:0010411 xref: EFO:0003526 xref: EMAPA:32685 xref: NCIT:C34161 xref: TAO:0000360 xref: XAO:0000337 xref: ZFA:0000360 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0005498 ! primitive heart tube relationship: immediate_transformation_of UBERON:0005498 {source="ZFA-modified"} ! primitive heart tube property_value: external_definition "the paired, longitudinal, endothelial-lined channels formed from the cardiogenic mesoderm in embryonic development; angiogenic cell clusters (aka angioblastic cords) located in a horse-shoe shape configuration in the cardiogenic plate coalesce to form the right and left endocardial heart tubes which then fuse in cephalo-caudal direction to form a single primitive heart tube." xsd:string {source="MP:0012700"} [Term] id: UBERON:0004142 name: outflow tract septum namespace: uberon def: "The outflow tract septum is a partition in the outflow tract" [GO:0003148] is_a: UBERON:0002099 ! cardiac septum intersection_of: UBERON:0002099 ! cardiac septum intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract [Term] id: UBERON:0004145 name: outflow tract namespace: uberon def: "The outflow tract is the portion of the heart through which blood flows into the arteries" [GO:0003151] subset: pheno_slim synonym: "arterial (outflow) pole" RELATED [http://www.ncbi.nlm.nih.gov/pubmed/20735616] synonym: "cardiac outflow tract" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/20735616] synonym: "heart outflow tract" EXACT [] xref: EHDAA2:0001351 xref: EHDAA:464 xref: EHDAA:798 xref: EMAPA:16346 xref: MA:0000100 xref: VHOG:0000670 xref: XAO:0004139 is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004120 ! mesoderm-derived structure relationship: channel_for UBERON:0000178 ! blood relationship: channels_from UBERON:0000948 ! heart relationship: channels_into UBERON:0001637 ! artery relationship: part_of UBERON:0000948 ! heart property_value: taxon_notes "Depending on the species, attached at the cardiac outflow are described the conus arteriosus, the truncus arteriosus and, or the bulbus arteriosus. At the distal limit of these outflow structures, but lying outside the pericardial cavity, is the ventral aorta[PMID:20735616]" xsd:string [Term] id: UBERON:0004151 name: cardiac chamber namespace: uberon def: "A cardiac chamber surrounds an enclosed cavity within the heart" [GO:0003205] comment: generic enough to cover FBbt:00003156 heart chamber but this is a cavity. GO defines it as the cavity. TODO - move subclasses. Note this also includes sinus venosus synonym: "chamber of heart" EXACT [] synonym: "heart chamber" EXACT [] xref: FMA:7095 xref: http://www.snomedbrowser.com/Codes/Details/276456008 xref: OpenCyc:Mx4rmexpjPdAEduAAAAOpmP6tw is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0004177 name: hemopoietic organ namespace: uberon def: "Organ that is part of the hematopoietic system." [GOC:Obol] subset: organ_slim subset: pheno_slim synonym: "haematological system organ" EXACT [OBOL:automatic] synonym: "haemopoietic system organ" EXACT [OBOL:automatic] synonym: "hematopoeitic or lymphoid organ" NARROW [] synonym: "hematopoeitic organ" EXACT [] synonym: "hematopoietic system organ" EXACT [OBOL:automatic] synonym: "lymph organ" NARROW [MA:0000747] synonym: "lymphoid organ" NARROW [BTO:0004605, FMA:7143] synonym: "organ of haematological system" EXACT [OBOL:automatic] synonym: "organ of haemopoietic system" EXACT [OBOL:automatic] synonym: "organ of hematopoietic system" EXACT [OBOL:automatic] synonym: "organ of organa haemopoietica" EXACT [OBOL:automatic] synonym: "organa haemopoietica organ" EXACT [OBOL:automatic] xref: BTO:0004605 xref: EMAPA:37665 {source="MA:th"} xref: FMA:7143 xref: http://www.snomedbrowser.com/Codes/Details/361338006 xref: MA:0000747 is_a: UBERON:0000062 ! organ is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002390 ! hematopoietic system property_value: editor_note "consider splitting out lymph organ, compare with lymph node" xsd:string property_value: external_definition "the organs in which the formed elements of the blood and lymph are produced[http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs]." xsd:string {source="http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs"} property_value: external_ontology_notes "the FMA class 'lymphoid organ' is a general anatomical term" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004185 name: endodermal part of digestive tract namespace: uberon def: "A portions of the gut that is derived from endoderm." [GO:0061031] synonym: "endodermal gut" EXACT [] synonym: "gut endoderm" EXACT [EMAPA:32930] xref: EMAPA:32930 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0004225 name: respiratory system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "airway smooth muscle" RELATED [BTO:0001660] synonym: "airway smooth muscle cell" RELATED [BTO:0001660] synonym: "respiratory smooth muscle" EXACT [BTO:0001660] synonym: "smooth muscle of respiratory system" EXACT [OBOL:automatic] xref: BTO:0001660 xref: EMAPA:35734 xref: MA:0001830 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0004233 name: lower respiratory tract smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract involuntary muscle" EXACT [OBOL:automatic] synonym: "lower respiratory tract non-striated muscle" EXACT [OBOL:automatic] synonym: "lower respiratory tract smooth muscle tissue" EXACT [OBOL:automatic] synonym: "non-striated muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "smooth muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of lower respiratory tract" EXACT [OBOL:automatic] xref: EMAPA:35520 xref: MA:0002410 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004225 ! respiratory system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0004234 name: iris smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a iris [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of iris" EXACT [OBOL:automatic] synonym: "iridial smooth muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "iris involuntary muscle" EXACT [OBOL:automatic] synonym: "iris non-striated muscle" EXACT [OBOL:automatic] synonym: "iris smooth muscle tissue" EXACT [OBOL:automatic] synonym: "non-striated muscle of iris" EXACT [OBOL:automatic] synonym: "smooth muscle of iris" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of iris" EXACT [OBOL:automatic] xref: BTO:0000655 xref: EMAPA:35448 xref: FMA:312338 xref: MA:0001270 is_a: UBERON:0003386 {source="MA"} ! smooth muscle of eye intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001606 ! muscle of iris property_value: editor_note "see notes for muscle of iris." xsd:string [Term] id: UBERON:0004236 name: arteriole smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36287 xref: FMA:312251 xref: MA:0000706 is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: UBERON:0004237 name: blood vessel smooth muscle namespace: uberon alt_id: UBERON:0010508 def: "smooth muscle found within, and composing the majority of the wall of blood vessels." [http://en.wikipedia.org/wiki/Vascular_smooth_muscle] subset: pheno_slim synonym: "blood vessel involuntary muscle" EXACT [OBOL:automatic] synonym: "blood vessel non-striated muscle" EXACT [OBOL:automatic] synonym: "blood vessel smooth muscle tissue" EXACT [OBOL:automatic] synonym: "involuntary muscle of blood vessel" EXACT [OBOL:automatic] synonym: "non-striated muscle of blood vessel" EXACT [OBOL:automatic] synonym: "smooth muscle of blood vessel" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of blood vessel" EXACT [OBOL:automatic] synonym: "vascular smooth muscle" EXACT [ZFA:0005321] synonym: "vascular smooth muscle tissue" EXACT [] xref: BTO:0001431 xref: CALOHA:TS-1107 xref: EMAPA:35177 xref: http://en.wikipedia.org/wiki/Vascular_smooth_muscle xref: http://linkedlifedata.com/resource/umls/id/C1519956 xref: MA:0000710 xref: MESH:D009131 xref: NCIT:C33853 xref: TAO:0005321 xref: UMLS:C1519956 {source="ncithesaurus:Vascular_Smooth_Muscle_Tissue"} xref: ZFA:0005321 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel property_value: function_notes "Vascular smooth muscle contracts or relaxes to both change the volume of blood vessels and the local blood pressure, a mechanism that is responsible for the redistribution of the blood within the body to areas where it is needed (i.e. areas with temporarily enhanced oxygen consumption). Thus the main function of vascular smooth muscle tonus is to regulate the caliber of the blood vessels in the body. Excessive vasoconstriction leads to hypertension, while excessive vasodilation as in shock leads to hypotension." xsd:string [Term] id: UBERON:0004246 name: outflow tract smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of outflow tract" EXACT [OBOL:automatic] synonym: "non-striated muscle of outflow tract" EXACT [OBOL:automatic] synonym: "outflow tract involuntary muscle" EXACT [OBOL:automatic] synonym: "outflow tract non-striated muscle" EXACT [OBOL:automatic] synonym: "outflow tract smooth muscle tissue" EXACT [OBOL:automatic] synonym: "smooth muscle of outflow tract" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of outflow tract" EXACT [OBOL:automatic] xref: EMAPA:37708 {source="MA:th"} xref: MA:0000492 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract [Term] id: UBERON:0004253 name: skin muscle namespace: uberon alt_id: UBERON:0015797 def: "Any muscle organ that is part of a skin of body [Automatically generated definition]." [OBOL:automatic] synonym: "integumental system muscle" EXACT [MA:0003139] synonym: "muscle of integumental system" EXACT [EMAPA:18187] synonym: "muscle organ of skin" EXACT [OBOL:automatic] synonym: "skin muscle organ" EXACT [OBOL:automatic] xref: EMAPA:18187 xref: EMAPA:35776 xref: MA:0002710 xref: MA:0003139 is_a: UBERON:0001630 ! muscle organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002416 ! integumental system relationship: located_in UBERON:0002097 ! skin of body relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "review as part of general integumentary system review - part of skin, or more generally, integumental system" xsd:string property_value: external_ontology_notes "in MA, the only skin muscle is arrector pili. The only integumental muscle is panniculus carnosus. In EMAPA, the arrector pili only" xsd:string {external_ontology="MA"} [Term] id: UBERON:0004258 name: back blood vessel namespace: uberon def: "A blood vessel that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of back" EXACT [OBOL:automatic] xref: EMAPA:37243 {source="MA:th"} xref: MA:0000493 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004267 name: back connective tissue namespace: uberon def: "A portion of connective tissue that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyne of back" RELATED [OBOL:automatic] xref: EMAPA:37256 {source="MA:th"} xref: MA:0000495 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004277 name: eye muscle namespace: uberon def: "A muscle that is part of the eye region." [OBOL:automatic] subset: pheno_slim xref: AAO:0000156 xref: EMAPA:35335 xref: MA:0000271 xref: OpenCyc:Mx8Ngx4rwKSh9pwpEbGdrcN5Y29ycB4rvViTvpwpEbGdrcN5Y29ycB4rvYA8cJwpEbGdrcN5Y29ycA is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 {source="MA"} ! camera-type eye [Term] id: UBERON:0004288 name: skeleton namespace: uberon def: "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body." [VSAO:0000026] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "set of all bones" EXACT [] synonym: "set of bones of body" EXACT [] xref: AEO:0000168 xref: EHDAA2:0001843 xref: EHDAA:5047 xref: EMAPA:17213 xref: FMA:23875 xref: GAID:177 xref: galen:Skeleton xref: http://en.wikipedia.org/wiki/Skeleton xref: http://www.snomedbrowser.com/Codes/Details/361378004 xref: MA:0003006 xref: MAT:0000032 xref: MESH:D012863 xref: MIAA:0000032 xref: OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA xref: VSAO:0000026 xref: XAO:0004053 is_a: BFO:0000002 ! continuant is_a: UBERON:0034925 ! anatomical collection disjoint_from: UBERON:0004770 ! articular system relationship: has_member UBERON:0004765 ! skeletal element relationship: part_of UBERON:0001434 ! skeletal system property_value: external_definition "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000026", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} property_value: has_relational_adjective "skeletal" xsd:string property_value: seeAlso https://github.com/obophenotype/uberon/wiki/The-skeletal-system xsd:anyURI [Term] id: UBERON:0004290 name: dermomyotome namespace: uberon def: "The bilaminar epithelium formed from the myotome and dermatome." [AEO:0000214] synonym: "dermamyotome" RELATED [VHOG:0000676] synonym: "dermomyotomes" RELATED PLURAL [VHOG:0000676] xref: AAO:0010572 xref: AEO:0000214 xref: EHDAA2:0003259 xref: EMAPA:31109 xref: FMA:295654 xref: http://linkedlifedata.com/resource/umls/id/C1511786 xref: NCIT:C34140 xref: TAO:0001513 xref: UMLS:C1511786 {source="ncithesaurus:Dermomyotome"} xref: VHOG:0000676 xref: ZFA:0001513 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000486 {source="AEO"} ! multilaminar epithelium is_a: UBERON:0016888 {source="AEO"} ! transitional anatomical structure relationship: develops_from UBERON:0002329 {source="EHDAA2", source="ZFA"} ! somite property_value: external_definition "all but the sclerotome of a mesodermal somite; the primordium of skeletal muscle and, perhaps, of the dermis." xsd:string {source="http://medical-dictionary.thefreedictionary.com/dermomyotome"} property_value: external_definition "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]." xsd:string {source="http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768"} property_value: external_definition "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001513", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Portion of somites that gives rise to dermis and muscles.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010572", ontology="AAO", source="AAO:EJS"} property_value: homology_notes "Thus, representatives of the agnathan vertebrates, chondrichthyans, and sarcopterygians all have a layer of undifferentiated cells external to the embryonic myotome. In the amniotes, this external cell layer is the dermomyotome. The simplest interpretation of the similar position, morphology, and lack of myosin labeling is that a dermomyotome epithelium is a shared, ancestral vertebrate characteristic.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000676", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1525-142X.2006.05079.x Devoto SH, Stoiber W, Hammond CL, Steinbacher P, Haslett JR, Barresi MJF, Patterson SE, Adiarte EG and Hughes SM, Generality of vertebrate developmental patterns: evidence for a dermomyotome in fish. Evolution and Development (2006)"} [Term] id: UBERON:0004291 name: heart rudiment namespace: uberon def: "A cone-like structure that is formed when myocardial progenitor cells of the heart field fuse at the midline. The heart rudiment is the first structure of the heart tube." [GO:0003313] synonym: "heart cone" EXACT [GO:0003313] synonym: "rudimentary heart" EXACT [ZFA:0000115] xref: TAO:0000115 xref: ZFA:0000115 is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0004139 ! cardiogenic plate property_value: external_definition "The migrating myocardial precursors of the heart rudiment form a cone like structure between 19.5hpf and 22hpf, and eventually telescope out into the primitive heart tube at 24hpf. Stainier 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000115", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0004297 name: respiratory system blood vessel smooth muscle namespace: uberon def: "A blood vessel smooth muscle that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "smooth muscle tissue of blood vessel of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37573 {source="MA:th"} xref: MA:0001806 is_a: UBERON:0004225 ! respiratory system smooth muscle is_a: UBERON:0004237 ! blood vessel smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003504 ! respiratory system blood vessel relationship: part_of UBERON:0003504 ! respiratory system blood vessel [Term] id: UBERON:0004348 name: optic eminence namespace: uberon def: "The embryonic structure that gives rise to the corneal ectoderm" [MP:0006305] subset: pheno_slim xref: EHDAA:938 xref: EMAPA:16322 xref: RETIRED_EHDAA2:0001308 xref: VHOG:0001296 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0000964 ! cornea [Term] id: UBERON:0004362 name: pharyngeal arch 1 namespace: uberon def: "The first of the series of pharyngeal arches that develop into jaw bones or their homologs, and their associated nerves and arteries" [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "1st arch" RELATED [EHDAA2:0000006] synonym: "1st pharyngeal arch" EXACT [] synonym: "1st visceral arch" RELATED [VHOG:0000296] synonym: "arcus pharyngeus primus" RELATED LATIN [http://en.wikipedia.org/wiki/First_pharyngeal_arch] synonym: "branchial arch 1" EXACT SENSU [] synonym: "first branchial arch" EXACT SENSU [] synonym: "first pharyngeal arch" EXACT [] synonym: "first visceral arch" EXACT SENSU [] synonym: "mandibular arch" EXACT [] synonym: "visceral arch 1" EXACT SENSU [] xref: AAO:0010364 xref: CALOHA:TS-2089 xref: EHDAA2:0000006 xref: EHDAA:573 xref: EMAPA:16118 xref: FMA:293019 xref: http://en.wikipedia.org/wiki/First_pharyngeal_arch xref: http://linkedlifedata.com/resource/umls/id/C1517197 xref: http://www.snomedbrowser.com/Codes/Details/308767008 xref: MFMO:0000095 xref: NCIT:C34175 xref: TAO:0001595 xref: UMLS:C1517197 {source="ncithesaurus:First_Pharyngeal_Arch"} xref: VHOG:0000296 xref: XAO:0000097 xref: ZFA:0001612 is_a: UBERON:0002539 ! pharyngeal arch property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray48.png property_value: external_definition "the first arch which contributes to development of mastication muscles, maxilla, mandible, incus, malleus, Meckel's cartilage, trigeminal nerve, and maxillary artery" xsd:string {source="MP:0006337,MGI:smb"} property_value: external_definition "The first of the series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010364", ontology="AAO", source="XAO:EJS"} property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000296", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: pharyngeal_arch_number "1" xsd:nonNegativeInteger [Term] id: UBERON:0004363 name: pharyngeal arch artery namespace: uberon alt_id: UBERON:0004342 def: "One of a series of paired embryological vascular structures formed within a pharyngeal arch; in the adult, some of these vessels give rise to the great vessels[MP]" [MP:0002672] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "a. arcuum pharyngeorum" RELATED LATIN [http://en.wikipedia.org/wiki/Aortic_arches] synonym: "aortic arch" EXACT [ZFA:0005004] synonym: "aortic arch artery" RELATED [EMAPA:16684] synonym: "aortic arches" EXACT PLURAL [ZFA:0005004] synonym: "arteriae arcuum pharyngeorum" RELATED LATIN [http://en.wikipedia.org/wiki/Aortic_arches] synonym: "branchial aortic arches" EXACT PLURAL [ZFIN:ZDB-PUB-080512-6] synonym: "branchial aortic arches" RELATED PLURAL [ZFA:0005004\,ZFIN\:ZDB-PUB-080512-6] synonym: "branchial arch artery" EXACT [EMAPA:16684] synonym: "embryonic aortic arch artery" EXACT [EMAPA:16684, MP:0002672] synonym: "PAA" EXACT ABBREVIATION [MP:0002672] synonym: "pharyngeal arch arteries" RELATED PLURAL [] synonym: "pharyngeal arch artery" EXACT [MP:0002672] synonym: "pharyngeal arch artery" RELATED [VHOG:0000122] xref: AAO:0010414 xref: Aortic:arches xref: EFO:0003695 xref: EHDAA2:0000186 xref: EHDAA:398 xref: EHDAA:7327 xref: EMAPA:16684 xref: http://linkedlifedata.com/resource/umls/id/C0003489 xref: NCIT:C32123 xref: TAO:0005004 xref: UMLS:C0003489 {source="ncithesaurus:Aortic_Arch"} xref: VHOG:0000122 xref: XAO:0000341 xref: ZFA:0005004 is_a: UBERON:0003469 ! respiratory system artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0002539 ! pharyngeal arch relationship: has_potential_to_develop_into UBERON:0001637 ! artery relationship: part_of UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0007303 {source="ZFA"} ! pharyngeal vasculature property_value: curator_notes "Do not confuse with arch of aorta." xsd:string property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/84/Gray473.png property_value: development_notes "The third, fourth, and sixth arches, along with the seventh intersegmental arteries and the left dorsal aorta, are the primary contributors to the normal aortic arch and its major thoracic branches" xsd:string property_value: editor_note "add specific artery derivatives" xsd:string property_value: external_definition "Paired vessels arching from the ventral to the dorsal aorta through the pharyngeal arches. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aortic+arches"} property_value: homology_notes "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: taxon_notes "Number varies - Lampreys have 8, hagfishes 15; only up to 6 appear in embryonic development in most gnathostome fishes and all tetrapods" xsd:string [Term] id: UBERON:0004370 name: anterior limiting lamina of cornea namespace: uberon def: "A transparent homogeneous acellular layer, 6 to 9 um thick, lying between the basal lamina of the outer layer of stratified epithelium and the substantia propria of the cornea; it is considered to be a basement membrane." [ncithesaurus:Bowman_s_Membrane] subset: pheno_slim subset: vertebrate_core synonym: "anterior elastic lamina" EXACT [ZFA:0001684] synonym: "anterior limiting lamina" EXACT [MA:0001240] synonym: "anterior limiting lamina of cornea" EXACT [FMA:58273] synonym: "anterior limiting membrane" RELATED [ZFA:0001684] synonym: "Bowman's anterior elastic lamina" EXACT [FMA:58273] synonym: "Bowman's layer" EXACT [FMA:58273] synonym: "Bowman's membrane" EXACT [FMA:58273] synonym: "lamina limitans anterior (cornea)" EXACT [FMA:58273] synonym: "lamina limitans anterior corneae" EXACT LATIN [FMA:58273, FMA:TA] synonym: "Reichert's membrane" RELATED DUBIOUS [http://sourceforge.net/tracker/?func=detail&aid=2956371&group_id=76834&atid=974957] xref: Bowman%27s:membrane xref: FMA:58273 xref: http://linkedlifedata.com/resource/umls/id/C0229127 xref: http://www.snomedbrowser.com/Codes/Details/281075003 xref: MA:0001240 xref: NCIT:C32226 xref: TAO:0002155 xref: UMLS:C0229127 {source="ncithesaurus:Bowman_s_Membrane"} xref: ZFA:0001684 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0005769 ! basement membrane of epithelium is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0005769 ! basement membrane of epithelium intersection_of: attaches_to UBERON:0001772 ! corneal epithelium intersection_of: part_of UBERON:0000964 ! cornea relationship: attaches_to UBERON:0001772 ! corneal epithelium relationship: part_of UBERON:0000964 ! cornea property_value: external_definition "Acellular anatomical structure that is the zone of collagen fibers adjacent the basement membrane of the corneal epithelium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002155", ontology="TAO", source="ZFIN:ZDB-PUB-061010-3"} property_value: taxon_notes "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" xsd:string [Term] id: UBERON:0004455 name: neurula embryo namespace: uberon alt_id: UBERON:0007013 def: "An embryo at the neurula stage." [http://orcid.org/0000-0002-6601-2165] synonym: "neurula" EXACT [BTO:0001766] xref: BILA:0000061 xref: BTO:0001766 xref: http://linkedlifedata.com/resource/umls/id/C1518306 xref: NCIT:C34229 xref: UMLS:C1518306 {source="ncithesaurus:Neurula"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000110 ! neurula stage relationship: develops_from UBERON:0004734 ! gastrula relationship: existence_starts_and_ends_during UBERON:0000110 ! neurula stage [Term] id: UBERON:0004456 name: entire sense organ system namespace: uberon def: "Sum of all sensory systems in an organism." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "sense organ system" EXACT [FMA:78499] xref: FMA:78499 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: existence_ends_during UBERON:0000066 ! fully formed stage property_value: external_ontology_notes "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" xsd:string [Term] id: UBERON:0004461 name: skeletal musculature of head namespace: uberon def: "Any collection of skeletal muscles that is part of a head [Automatically generated definition]." [OBOL:automatic] comment: This class is restricted to skeletal muscles that attach to the cranial skeleton. This seems to be consistent with FMA and EMAPA usage. Note that by definition this excludes invertebrate head musculature. It corresponds to the individual muscle organ term UBERON:0002376 subset: non_informative synonym: "head musculature" EXACT [FMA:71287] synonym: "muscle group of head" EXACT [FMA:71287] synonym: "muscles of head" EXACT [FMA:71287] synonym: "musculi capitis" EXACT LATIN [FMA:71287, FMA:TA] synonym: "set of muscles of head" EXACT [FMA:71287] xref: EMAPA:18171 xref: FMA:71287 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: attaches_to UBERON:0003129 ! skull intersection_of: part_of UBERON:0000033 ! head relationship: attaches_to UBERON:0003129 ! skull relationship: develops_from UBERON:0005253 ! head mesenchyme relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0013700 ! axial musculature property_value: seeAlso https://github.com/obophenotype/mouse-anatomy-ontology/issues/4 property_value: seeAlso https://github.com/obophenotype/uberon/issues/1405 [Term] id: UBERON:0004464 name: musculature of thorax namespace: uberon def: "Any collection of muscles that is part of a thorax [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "muscle group of thorax" EXACT [FMA:71293] synonym: "muscles of thorax" EXACT [FMA:71293] synonym: "musculi thoracis" EXACT LATIN [FMA:71293, FMA:TA] synonym: "set of muscles of thorax" EXACT [FMA:71293] synonym: "thoracic musculature" EXACT [FMA:71293] xref: BTO:0000508 xref: EMAPA:37260 {source="MA:th"} xref: FMA:71293 is_a: UBERON:0004479 ! musculature of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk property_value: external_ontology_notes "BTO and FMA do not mean precisely the same thing here. BTO thorax muscle is a pectoral muscle or diaphragm" xsd:string {external_ontology="BTO"} [Term] id: UBERON:0004465 name: musculature of neck namespace: uberon def: "Any collection of muscles that is part of a neck [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "cervical muscles" EXACT [AAO:0000091] synonym: "muscle group of neck" EXACT [FMA:71290] synonym: "muscles of neck" EXACT [FMA:71290] synonym: "musculi cervicis" EXACT LATIN [FMA:71290, FMA:TA] synonym: "musculi colli" EXACT LATIN [FMA:71290, FMA:TA] synonym: "neck musculature" EXACT [FMA:71290] synonym: "set of muscles of neck" EXACT [FMA:71290] xref: AAO:0000091 xref: EMAPA:36050 xref: FMA:71290 xref: MESH:D009334 is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0004469 name: musculature of back namespace: uberon def: "Any collection of muscles that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "muscle group of back" EXACT [FMA:71291] synonym: "muscles of back" EXACT [FMA:71291] synonym: "musculi dorsi" EXACT LATIN [FMA:71291, FMA:TA] synonym: "set of muscles of back" EXACT [FMA:71291] xref: FMA:71291 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004473 name: musculature of face namespace: uberon def: "Any collection of muscles that is part of a face." [OBOL:automatic] subset: pheno_slim synonym: "entire facial musculature" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "facial muscles" EXACT [FMA:71288] synonym: "muscle group of face" EXACT [FMA:71288] synonym: "musculi faciei" EXACT LATIN [FMA:71288, FMA:TA] synonym: "set of facial muscles" RELATED [FMA:71288] synonym: "set of muscles of face" RELATED [FMA:71288] xref: FMA:71288 is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001456 ! face property_value: editor_note "originally created to reflect the distinction drawn in FMA between a facial muscle and the entire musculature of the face. However, naming both does not serve any particular purpose" xsd:string [Term] id: UBERON:0004479 name: musculature of trunk namespace: uberon def: "Any collection of muscles that is part of a trunk [Automatically generated definition]." [OBOL:automatic] subset: efo_slim subset: pheno_slim synonym: "muscle group of trunk" EXACT [FMA:50187] synonym: "muscular system of trunk" RELATED [FMA:50187] synonym: "set of muscles of trunk" EXACT [FMA:50187] xref: AAO:0011572 xref: EFO:0003531 xref: FMA:50187 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0004521 name: vasculature of muscle organ namespace: uberon def: "A vasculature that is part of a muscle organ [Automatically generated definition]." [OBOL:automatic] synonym: "muscular organ vasculature" EXACT [FMA:87123] xref: FMA:87123 is_a: UBERON:0004522 ! vasculature of musculoskeletal system is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001630 ! muscle organ [Term] id: UBERON:0004522 name: vasculature of musculoskeletal system namespace: uberon def: "A vasculature that is part of a musculoskeletal system [Automatically generated definition]." [OBOL:automatic] xref: FMA:239607 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002204 ! musculoskeletal system relationship: part_of UBERON:0002204 ! musculoskeletal system [Term] id: UBERON:0004535 name: cardiovascular system namespace: uberon def: "Anatomical system that has as its parts the heart and blood vessels." [BTO:0000088] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "CV system" RELATED [BTO:0000088] synonym: "Herz und Gefaesssystem" RELATED [BTO:0000088] xref: AAO:0011001 xref: BILA:0000016 xref: BTO:0000088 xref: CALOHA:TS-1297 xref: EFO:0000791 xref: EHDAA2:0000216 xref: EHDAA:394 xref: EMAPA:16104 xref: EMAPA:16370 xref: EV:0100017 xref: FMA:7161 xref: GAID:467 xref: http://linkedlifedata.com/resource/umls/id/C0007226 xref: http://www.snomedbrowser.com/Codes/Details/278198007 xref: MA:0000010 xref: MAT:0000016 xref: MESH:D002319 xref: MIAA:0000016 xref: NCIT:C12686 xref: OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA xref: TAO:0000010 xref: UMLS:C0007226 {source="ncithesaurus:Cardiovascular_System"} xref: VHOG:0000302 xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart intersection_of: has_part UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001009 ! circulatory system relationship: has_part UBERON:0000948 ! heart relationship: has_part UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001009 ! circulatory system property_value: curator_notes "we treat cardiovascular as part of circulatory system, with the latter including other kinds of circulation, including lymph." xsd:string property_value: homology_notes "The vessels of the cardiovascular system are as varied as the diverse organs they supply. However, these variations are based on modifications of a fundamental plan of organization common to vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000302", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.451"} [Term] id: UBERON:0004537 name: blood vasculature namespace: uberon def: "A vascular network consisting of blood vessels." [https://orcid.org/0000-0002-6601-2165] synonym: "blood system" RELATED [] synonym: "blood vascular network" EXACT [] synonym: "blood vessel system" RELATED [] synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: composed_primarily_of UBERON:0001981 ! blood vessel relationship: composed_primarily_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0004548 name: left eye namespace: uberon def: "An eye that is part of a left side of organism [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "left eyeball" EXACT [FMA:12515] synonym: "left orbital part of face" NARROW [FMA:54450] synonym: "left orbital region" NARROW [FMA:54450] xref: EMAPA:37362 {source="MA:th"} xref: FMA:12515 xref: http://www.snomedbrowser.com/Codes/Details/362503005 xref: MA:0002949 xref: NCIT:C119334 is_a: UBERON:0000970 ! eye is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000970 ! eye intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: implements_design_pattern https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0004549 name: right eye namespace: uberon def: "An eye that is part of a right side of organism [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "right eyeball" EXACT [FMA:12514] synonym: "right orbital part of face" NARROW [FMA:54449] synonym: "right orbital region" NARROW [FMA:54449] xref: EMAPA:37363 {source="MA:th"} xref: FMA:12514 xref: http://www.snomedbrowser.com/Codes/Details/362502000 xref: MA:0002950 xref: NCIT:C119333 is_a: UBERON:0000970 ! eye is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000970 ! eye intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: implements_design_pattern https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0004571 name: systemic arterial system namespace: uberon def: "The part of the arterial system which carries oxygenated blood away from the heart to the body, and returns deoxygenated blood back to the heart." [http://en.wikipedia.org/wiki/Systemic_circulation#Arteries, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "systemic arterial circulatory system" EXACT [FMA:45623] xref: Arteries xref: FMA:45623 is_a: UBERON:0007798 {source="MA-inferred"} ! vascular system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004572 name: arterial system namespace: uberon def: "The part of the cardiovascular system consisting of all arteries." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim xref: BTO:0004690 xref: EHDAA2:0000143 xref: EHDAA:396 xref: EMAPA:16201 xref: EMAPA:16371 xref: http://www.snomedbrowser.com/Codes/Details/362030008 xref: MA:0002719 xref: VHOG:0000273 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: has_member UBERON:0001637 ! artery property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000273", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} [Term] id: UBERON:0004573 name: systemic artery namespace: uberon def: "An artery of the systemic circulation, which is the part of the cardiovascular system which carries oxygenated blood away from the heart, to the body, and returns deoxygenated blood back to the heart." [http://en.wikipedia.org/wiki/Artery#Systemic_arteries, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "systemic arterial subtree" EXACT [FMA:66464] xref: EMAPA:37126 {source="MA:th"} xref: FMA:66464 xref: Systemic_arteries is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0004571 ! systemic arterial system relationship: part_of UBERON:0004571 ! systemic arterial system [Term] id: UBERON:0004581 name: systemic venous system namespace: uberon def: "The part of the venous system that drains the general body tissues[Kardong]" [http://en.wikipedia.org/wiki/Systemic_venous_system, ISBN10:0073040584] synonym: "systemic venous circulatory system" EXACT [FMA:45626] xref: FMA:45626 xref: http://en.wikipedia.org/wiki/Systemic_venous_system is_a: UBERON:0002049 ! vasculature relationship: part_of UBERON:0004582 ! venous system property_value: external_definition "In human anatomy, the systemic venous system refers to veins that drain into the right atrium without passing through two vascular beds (i.e. they originate from a set of capillaries and do not pass through a second set of capillaries before reaching the right side of the heart). The term systemic venous system is often used to differentiate veins from veins that drain the pulmonary system (the pulmonary venous system) and veins that drain the digestive tract (the portal venous system). Large veins that are considered part of the systemic venous system are the: Superior vena cava; Inferior vena cava[WP]" xsd:string {source="http://en.wikipedia.org/wiki/Systemic_venous_system"} property_value: external_definition "Subdivision of cardiovascular system which has as its parts the right side of heart, the superior vena cava and the inferior vena cava[FMA]" xsd:string {ontology="FMA", source="FMA:45626"} property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} [Term] id: UBERON:0004582 name: venous system namespace: uberon def: "The part of the cardiovascular system consisting of all venous vessels. In vertebrates with a double circulation, this can be divided into systemic and pulmonary portions." [https://orcid.org/0000-0002-6601-2165] synonym: "vein system" EXACT [] xref: BTO:0004692 xref: EHDAA2:0002171 xref: EHDAA:486 xref: EMAPA:16240 xref: http://linkedlifedata.com/resource/umls/id/C1267406 xref: http://www.snomedbrowser.com/Codes/Details/362060003 xref: MA:0002720 xref: NCIT:C33858 xref: UMLS:C1267406 {source="ncithesaurus:Venous_System"} xref: VHOG:0000277 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: composed_primarily_of UBERON:0001638 ! vein property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} [Term] id: UBERON:0004638 name: blood vessel endothelium namespace: uberon def: "An endothelium that lines the blood vasculature. Other endothelia may line lymph vessels, the heart" [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: vertebrate_core xref: BTO:0000766 xref: CALOHA:TS-2155 xref: EMAPA:35176 xref: http://linkedlifedata.com/resource/umls/id/C1706972 xref: MA:0000709 xref: NCIT:C53395 xref: TAO:0005257 xref: UMLS:C1706972 {source="ncithesaurus:Blood_Vessel_Endothelium"} xref: ZFA:0005257 is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0004688 name: costo-cervical trunk namespace: uberon def: "The costocervical trunk arises from the upper and back part of the subclavian artery, behind the scalenus anterior on the right side, and medial to that muscle on the left side. Passing backward, it splits into the deep cervical artery and the supreme intercostal artery (or the Highest intercostal artery), which descends behind the pleura in front of the necks of the first and second ribs, and anastomoses with the first aortic intercostal (3rd posterior intercostal artery). As it crosses the neck of the first rib it lies medial to the anterior division of the first thoracic nerve, and lateral to the first thoracic ganglion of the sympathetic trunk. In the first intercostal space, it gives off a branch which is distributed in a manner similar to the distribution of the aortic intercostals. The branch for the second intercostal space usually joins with one from the highest aortic intercostal artery. This branch is not constant, but is more commonly found on the right side; when absent, its place is supplied by an intercostal branch from the aorta. Each intercostal gives off a posterior branch which goes to the posterior vertebral muscles, and sends a small spinal branch through the corresponding intervertebral foramen to the medulla spinalis and its membranes. [WP,unvetted]." [http://en.wikipedia.org/wiki/Costocervical_trunk] synonym: "costocervical trunk" EXACT [FMA:10636] synonym: "truncus costocervicalis" RELATED LATIN [http://en.wikipedia.org/wiki/Costocervical_trunk] synonym: "trunk of costocervical artery" EXACT [FMA:10636] xref: Costocervical:trunk xref: EMAPA:37496 {source="MA:th"} xref: FMA:10636 xref: http://www.snomedbrowser.com/Codes/Details/244225009 xref: MA:0001939 is_a: UBERON:0001637 ! artery property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b3/Costocervical_trunk_with_branches.png [Term] id: UBERON:0004695 name: arterial system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of an arterial system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36503 xref: MA:0000704 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004696 name: venous system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a venous system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36613 xref: MA:0000715 is_a: UBERON:0004237 ! blood vessel smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0004699 name: outflow tract endothelium namespace: uberon def: "An endothelium that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] xref: MA:0000490 xref: VHOG:0001524 is_a: UBERON:0008307 ! heart endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract property_value: homology_notes "It is assumed that during evolution, a circulatory system composed of the heart and endothelial tubular system first formed in vertebrates, medial smooth muscle then appeared for regulation of the system, and innervation of the muscle tissue took place. This sequence of development assumed for phylogenesis is actually realized in the ontogenetic processes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001524", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1254/jjp.87.253 Shigei T, Tsuru H, Ishikawa N, Yoshioka K, Absence of endothelium in invertebrate blood vessels: significance of endothelium and sympathetic nerve/medial smooth muscle in the vertebrate vascular system. Japanese Journal of Pharmacology (2001)"} [Term] id: UBERON:0004700 name: arterial system endothelium namespace: uberon def: "An endothelium that is part of an arterial system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35145 xref: http://linkedlifedata.com/resource/umls/id/C1706849 xref: MA:0000703 xref: NCIT:C49329 xref: UMLS:C1706849 {source="ncithesaurus:Arterial_System_Endothelium"} is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004701 name: venous system endothelium namespace: uberon def: "An endothelium that is part of a venous system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35907 xref: http://linkedlifedata.com/resource/umls/id/C1710626 xref: MA:0000714 xref: NCIT:C49320 xref: UMLS:C1710626 {source="ncithesaurus:Venous_System_Endothelium"} is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0004702 name: respiratory system blood vessel endothelium namespace: uberon def: "A blood vessel endothelium that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35732 xref: MA:0001805 is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004807 ! respiratory system epithelium intersection_of: UBERON:0004638 ! blood vessel endothelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003504 ! respiratory system blood vessel [Term] id: UBERON:0004711 name: jugular vein namespace: uberon def: "The jugular veins are veins that bring deoxygenated blood from the head back to the heart via the superior vena cava." [http://en.wikipedia.org/wiki/Jugular_vein] synonym: "jugular" RELATED [] synonym: "vena jugularis" RELATED [BTO:0001744] xref: BTO:0001744 xref: CALOHA:TS-0497 xref: EMAPA:18638 xref: GAID:536 xref: http://linkedlifedata.com/resource/umls/id/C0022427 xref: http://www.snomedbrowser.com/Codes/Details/244403000 xref: Jugular:vein xref: MA:0002154 xref: MESH:D007601 xref: NCIT:C12738 xref: UMLS:C0022427 {source="ncithesaurus:Jugular_Vein"} is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: drains UBERON:0000033 ! head property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f8/Gray558.png [Term] id: UBERON:0004716 name: conceptus namespace: uberon def: "The embryo and its adnexa (appendages or adjunct parts) or associated membranes (i.e. the products of conception) The conceptus includes all structures that develop from the zygote, both embryonic and extraembryonic. It includes the embryo as well as the embryonic part of the placenta and its associated membranes - amnion, chorion (gestational sac), and yolk sac[WP]." [BTO:0003834, http://en.wikipedia.org/wiki/Conceptus] synonym: "embryo plus adnexa" EXACT [] xref: AEO:0000194 xref: BTO:0003834 xref: EHDAA2:0000001 xref: EHDAA2:0003235 xref: EMAPA:36040 xref: http://en.wikipedia.org/wiki/Conceptus xref: http://linkedlifedata.com/resource/umls/id/C1516779 xref: NCIT:C34131 xref: UMLS:C1516779 {source="ncithesaurus:Conceptus"} is_a: UBERON:0000061 ! anatomical structure relationship: existence_ends_with UBERON:0000068 ! embryo stage relationship: existence_starts_with UBERON:0000068 ! embryo stage relationship: has_part UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0016887 ! entire extraembryonic component property_value: editor_note "EHDAA2 places this as a subtype of organism. This leads to the inference that a conceptus is an embryo (if an embryo is defined as an organism at embryo stage), which eliminates the embryonic + extra-embryonic = conceptus" xsd:string [Term] id: UBERON:0004731 name: neuromere namespace: uberon def: "A transverse unitary subdivision of the neural tube that shares a common dorsoventral structure (floor, basal, alar, and roof plates), but each having differential molecular identities and fates; they comprise the secondary prosencephalon, diencephalon (prosomeres), the midbrain (mesomeres), and the hindbrain (rhombomeres)." [https://doi.org/10.1016/j.tins.2013.06.004, https://github.com/obophenotype/uberon/issues/318] subset: pheno_slim synonym: "neural metamere" RELATED [] synonym: "neural segment" RELATED [] synonym: "neural tube metameric segment" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "neural tube segment" EXACT [] synonym: "neuromere" EXACT [] synonym: "neuromeres" EXACT PLURAL [TAO:0001328] xref: http://en.wikipedia.org/wiki/Neuromere xref: nlx:147842 xref: TAO:0001328 xref: ZFA:0001328 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004732 ! segmental subdivision of nervous system intersection_of: UBERON:0004732 ! segmental subdivision of nervous system intersection_of: part_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "We take the definition of neuromere from Puelles et al, although the existence of mesomeres and prosomeres may not be widely accepted" xsd:string property_value: external_definition "A metameric segment of the central nervous system.[ZFA]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001328", ontology="TAO", source="ZFIN:curator"} created_by: Melissa Haendel creation_date: 2009-06-18T09:00:04Z [Term] id: UBERON:0004732 name: segmental subdivision of nervous system namespace: uberon def: "Any segmental subdivision of a nervous system. Includes metameric developmental segments, such as vertebrates neuromeres." [FBbt:00005140, http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "neuromere" RELATED [FBbt:00005140] xref: FBbt:00005140 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000063 ! organ subunit intersection_of: UBERON:0000063 ! organ subunit intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "revisit this after CARO is revised and/or we have defined metameric segment; note that with the additional of an A/P axis constraint this corresponds to what Richter at al call a neuromere (PMID:21062451)" xsd:string [Term] id: UBERON:0004733 name: segmental subdivision of hindbrain namespace: uberon def: "An organ subunit that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] subset: non_informative synonym: "hindbrain segment" EXACT [FMA:61998] synonym: "segment of hindbrain" EXACT [FMA:61998] xref: FMA:61998 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004732 ! segmental subdivision of nervous system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000063 ! organ subunit intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0004734 name: gastrula namespace: uberon alt_id: UBERON:0007012 def: "Organism at the gastrula stage." [http://en.wikipedia.org/wiki/Gastrula, http://en.wikipedia.org/wiki/Trilaminar_blastocyst] subset: pheno_slim synonym: "blastocystis trilaminaris" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "gastrula embryo" EXACT [BILA:0000060] synonym: "tri-laminar disc" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "tri-laminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastocyst" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastoderm" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disc" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 xref: FBbt:00005317 xref: FMA:293108 xref: GAID:1302 xref: http://en.wikipedia.org/wiki/Gastrula xref: http://linkedlifedata.com/resource/umls/id/C0017199 xref: http://linkedlifedata.com/resource/umls/id/C1284022 xref: MESH:A16.254.412 xref: MIAA:0000179 xref: NCIT:C34057 xref: NCIT:C34058 xref: Trilaminar:blastocyst xref: UMLS:C0017199 {source="ncithesaurus:Gastrula"} xref: UMLS:C1284022 {source="ncithesaurus:Trilaminar_Embryonic_Disc"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000109 ! gastrula stage relationship: develops_from UBERON:0000307 ! blastula relationship: existence_starts_and_ends_during UBERON:0000109 ! gastrula stage property_value: external_ontology_notes "We explicitly merge the NCITA terms here" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0004765 name: skeletal element namespace: uberon def: "Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles." [https://orcid.org/0000-0002-6601-2165] subset: organ_slim subset: uberon_slim xref: AAO:0011129 xref: galen:SkeletalStructure xref: TAO:0001890 xref: VSAO:0000128 xref: XAO:0004012 xref: ZFA:0005494 is_a: UBERON:0000062 ! organ relationship: part_of UBERON:0001434 {source="VSAO"} ! skeletal system property_value: external_definition "Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000128", ontology="VSAO", source="PSPUB:0000170"} property_value: external_definition "Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001890", ontology="TAO", source="TAO:VSAO_workshop"} [Term] id: UBERON:0004770 name: articular system namespace: uberon def: "Anatomical system that consists of all the joints of the body." [VSAO:0000181] synonym: "joint system" EXACT [FMA:23878] synonym: "set of all joints" RELATED [] synonym: "set of all joints of body" EXACT [FMA:23878] synonym: "set of joints of body" RELATED [FMA:23878] xref: EMAPA:35150 xref: FMA:23878 xref: http://www.snomedbrowser.com/Codes/Details/361827000 xref: MA:0003007 xref: VSAO:0000181 is_a: BFO:0000002 ! continuant is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: has_member UBERON:0000982 ! skeletal joint relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_member UBERON:0000982 ! skeletal joint relationship: part_of UBERON:0001434 {source="FMA"} ! skeletal system [Term] id: UBERON:0004777 name: respiratory system submucosa namespace: uberon def: "A submucosa that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius submucosa" EXACT [OBOL:automatic] synonym: "submucosa of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "submucosa of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37578 {source="MA:th"} xref: MA:0001822 is_a: UBERON:0000009 ! submucosa intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003570 ! respiratory system connective tissue [Term] id: UBERON:0004785 name: respiratory system mucosa namespace: uberon def: "the mucous membrane lining the respiratory tract" [MESH:A04.760, MGI:cwg, MP:0002277] subset: pheno_slim synonym: "apparatus respiratorius mucosa" EXACT [OBOL:automatic] synonym: "apparatus respiratorius mucosa of organ" EXACT [OBOL:automatic] synonym: "apparatus respiratorius mucous membrane" EXACT [OBOL:automatic] synonym: "laryngeal mucous membrane" RELATED [EMAPA:18334] synonym: "mucosa of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucosa of organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucosa of organ of respiratory system" EXACT [OBOL:automatic] synonym: "mucosa of respiratory system" EXACT [OBOL:automatic] synonym: "mucous membrane of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucous membrane of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory mucosa" RELATED [BTO:0000973] synonym: "respiratory system mucosa of organ" EXACT [OBOL:automatic] synonym: "respiratory system mucous membrane" EXACT [OBOL:automatic] synonym: "respiratory tract mucosa" RELATED [] xref: BTO:0000973 xref: EMAPA:18334 xref: EMAPA:37577 {source="MA:th"} xref: FMA:302092 xref: GAID:304 xref: MA:0001827 xref: MESH:D020545 is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system property_value: editor_note "TODO - split respiratory tract mucosa from respiratory system mucosa" xsd:string [Term] id: UBERON:0004797 name: blood vessel layer namespace: uberon def: "Any of the tissue layers that comprise a blood vessel. Examples: tunica media, tunica adventitia." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:36296 xref: MA:0002854 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0035965 ! wall of blood vessel property_value: depicted:by Blood:vessels.svg [Term] id: UBERON:0004802 name: respiratory tract epithelium namespace: uberon def: "the pseudostratified ciliated epithelium that lines much of the conducting portion of the airway, including part of the nasal cavity and larynx, the trachea, and bronchi" [ISBN:0-683-40008-8, MGI:anna, MP:0010942] subset: pheno_slim synonym: "airway epithelium" RELATED [BTO:0000419] synonym: "epithelial tissue of respiratory tract" EXACT [OBOL:automatic] synonym: "epithelium of respiratory tract" EXACT [OBOL:automatic] synonym: "respiratory epithelium" RELATED [BTO:0000419] synonym: "respiratory tract epithelial tissue" EXACT [OBOL:automatic] xref: BTO:0000419 xref: CALOHA:TS-0023 xref: EMAPA:32827 xref: http://www.snomedbrowser.com/Codes/Details/321764001 xref: MA:0001480 xref: VHOG:0000981 is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010499 ! pseudostratified ciliated columnar epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: contributes_to_morphology_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0000072 ! proximo-distal subdivision of respiratory tract [Term] id: UBERON:0004807 name: respiratory system epithelium namespace: uberon def: "An epithelium that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "apparatus respiratorius epithelial tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "epithelial tissue of respiratory system" EXACT [OBOL:automatic] synonym: "epithelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "epithelium of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system epithelial tissue" EXACT [OBOL:automatic] xref: CALOHA:TS-0023 xref: EMAPA:32826 xref: MA:0001823 xref: VHOG:0000981 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0004815 name: lower respiratory tract epithelium namespace: uberon def: "An epithelium that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "epithelium of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract epithelial tissue" EXACT [OBOL:automatic] xref: EMAPA:37549 {source="MA:th"} xref: MA:0001481 is_a: UBERON:0004802 ! respiratory tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0004848 name: respiratory system arterial endothelium namespace: uberon def: "An endothelium of artery that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius arterial endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius artery endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of artery" EXACT [OBOL:automatic] synonym: "arterial endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "arterial endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "artery endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "artery endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of artery of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of artery of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system artery endothelium" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of artery" EXACT [OBOL:automatic] xref: EMAPA:37566 {source="MA:th"} xref: MA:0001801 is_a: UBERON:0001917 ! endothelium of artery is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001917 ! endothelium of artery intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery [Term] id: UBERON:0004849 name: respiratory system venous endothelium namespace: uberon def: "An endothelium of vein that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius endothelium of vein" EXACT [OBOL:automatic] synonym: "apparatus respiratorius vein endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius venous endothelium" EXACT [OBOL:automatic] synonym: "endothelium of vein of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of vein of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of vein" EXACT [OBOL:automatic] synonym: "respiratory system vein endothelium" EXACT [OBOL:automatic] synonym: "vein endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "vein endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "venous endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "venous endothelium of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37585 {source="MA:th"} xref: MA:0001811 is_a: UBERON:0001919 ! endothelium of vein is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001919 ! endothelium of vein intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003476 ! respiratory system venous blood vessel [Term] id: UBERON:0004852 name: cardiovascular system endothelium namespace: uberon def: "An endothelium that is part of the cardiovascular system." [https://orcid.org/0000-0002-6601-2165] subset: vertebrate_core synonym: "endothelia" RELATED PLURAL [ZFA:0001639] synonym: "vascular endothelia" RELATED PLURAL [XAO:0000356] xref: BTO:0001853 xref: EMAPA:35201 xref: GAID:519 xref: http://linkedlifedata.com/resource/umls/id/C0014261 xref: MA:0000717 xref: MESH:D004730 xref: NCIT:C13053 xref: TAO:0002171 xref: UMLS:C0014261 {source="ncithesaurus:Vascular_Endothelium"} xref: VHOG:0001217 xref: XAO:0000356 xref: ZFA:0001639 is_a: UBERON:0001986 ! endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004535 ! cardiovascular system relationship: part_of UBERON:0004535 ! cardiovascular system property_value: editor_note "consider merging with 'endothelium'" xsd:string property_value: homology_notes "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001217", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} [Term] id: UBERON:0004859 name: eye gland namespace: uberon def: "A gland that is part of a eye. The eye is a compound unit which depending on the species may consist of an eyeballs plus associated ducts and integumentary structures. Eye glands therefore include the various types of lacrimal gland, the various types of apocrine and sebaceous glands associated with the eyelid." [http://orcid.org/0000-0002-6601-2165] comment: Examples: harderian gland, accessory lacrimal gland, gland of Moll, gland of Zeis, nictitating membrane glands subset: organ_slim synonym: "eye-associated gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "gland of eye" EXACT [OBOL:automatic] xref: EMAPA:35334 xref: MA:0000267 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0000970 ! eye [Term] id: UBERON:0004864 name: vasculature of retina namespace: uberon def: "A vasculature that is part of a retina [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "retina vasculature" EXACT [GO:0061298] synonym: "retina vasculature of camera-type eye" EXACT [GO:0061298] synonym: "retinal blood vessels" EXACT [FMA:76552] synonym: "retinal blood vessels set" EXACT [FMA:76552] synonym: "retinal vasculature" EXACT [OBOL:automatic] synonym: "set of blood vessels of retina" EXACT [OBOL:automatic] synonym: "set of retinal blood vessels" EXACT [FMA:76552] synonym: "vasa sanguinea retinae" EXACT LATIN [FMA:76552, FMA:TA] xref: FMA:76552 xref: MESH:D012171 xref: XAO:0004153 is_a: UBERON:0002203 ! vasculature of eye is_a: UBERON:0036302 ! vasculature of central nervous system plus retina intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina [Term] id: UBERON:0004872 name: splanchnic layer of lateral plate mesoderm namespace: uberon def: "Layer of lateral plate mesoderm that forms the circulatory system and future gut wall - overlies endoderm[WP]." [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm#Division_into_layers] subset: pheno_slim synonym: "inner layer of lateral plate mesoderm" EXACT [] synonym: "splanchnic mesoderm" RELATED [ISBN:9780878932504] synonym: "visceral mesoderm" BROAD [BILA:0000044, http://www.drugs.com/dict/visceral-mesoderm.html, http://www.stedmans.com/] xref: AAO:0011102 xref: BILA:0000044 xref: Division_into_layers xref: FMA:295568 xref: XAO:0000276 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003081 ! lateral plate mesoderm property_value: external_ontology_notes "We group the BILA class here. Considering adding more general class for metazoa grouping cardiogenic successors" xsd:string {external_ontology="BILA"} [Term] id: UBERON:0004873 name: splanchnopleure namespace: uberon def: "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the inner (or splanchnic) layer adheres to the endoderm, and with it forms the splanchnopleure[WP]." [http://en.wikipedia.org/wiki/Splanchnopleure] synonym: "ventral splanchnic mesoderm" RELATED [http://en.wikipedia.org/wiki/Intraembryonic_coelom] xref: EHDAA2:0001903 xref: EHDAA:383 xref: EMAPA:16181 xref: FMA:295564 xref: http://en.wikipedia.org/wiki/Splanchnopleure xref: http://linkedlifedata.com/resource/umls/id/C1519472 xref: NCIT:C34303 xref: UMLS:C1519472 {source="ncithesaurus:Splanchnopleure"} xref: VHOG:0000558 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003081 {source="EHDAA2"} ! lateral plate mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png property_value: editor_note "TODO - check relationship to LPM" xsd:string [Term] id: UBERON:0004880 name: chordamesoderm namespace: uberon def: "The central region of trunk mesoderm. This tissue forms the notochord" [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim synonym: "axial chorda mesoderm" EXACT [ZFA:0000091] synonym: "chorda mesoderm" EXACT [] synonym: "dorsal mesoderm" EXACT [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "presumptive notochord" EXACT [ZFA:0000091] xref: AAO:0000478 xref: EFO:0003426 xref: TAO:0000091 xref: ZFA:0000091 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003068 ! axial mesoderm property_value: external_definition "Notochord rudiment[ZFIN:ZDB-PUB-961014-576]." xsd:string {source="ZFIN:ZDB-PUB-961014-576"} property_value: external_ontology_notes "WP treats this as synonym of axial mesoderm. Induces neural tube. Gilbert: contains an anterior head process and the notochord." xsd:string [Term] id: UBERON:0004883 name: lung mesenchyme namespace: uberon def: "The mass of tissue made up of mesenchymal cells in the lung." [GO:0060484] subset: pheno_slim synonym: "lung-associated mesenchyme" EXACT [GO:0060484] synonym: "mesenchyme of lung" EXACT [OBOL:automatic] synonym: "pulmonary mesenchyme" EXACT [GO:0060484] xref: EMAPA:32866 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002048 ! lung relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0004905 name: articulation namespace: uberon def: "Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] xref: FBbt:00005811 is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system [Term] id: UBERON:0004906 name: ectodermal part of digestive tract namespace: uberon def: "A portion of the gut that is derived from ectoderm." [GO:0007439] synonym: "ectodermal gut" EXACT [] synonym: "gut ectoderm" EXACT [EMAPA:32930] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0004921 name: subdivision of digestive tract namespace: uberon def: "A proximal-distal subdivision of the digestive tract." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "alimentary system subdivision" RELATED [FMA:71131] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] xref: FBbt:00100315 xref: FMA:71131 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract relationship: subdivision_of UBERON:0001555 ! digestive tract property_value: curator_notes "intended to denote both embryonic and adult structures. Note the FMA grouping here is not quite correct." xsd:string [Term] id: UBERON:0004923 name: organ component layer namespace: uberon def: "A part of a wall of an organ that forms a layer." [http://orcid.org/0000-0002-6601-2165] subset: upper_level xref: FMA:82485 is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0000060 ! anatomical wall [Term] id: UBERON:0004924 name: submucosa of pharynx namespace: uberon def: "The tissue underlying the tunica mucosa of the pharynx." [BTO:0002113] synonym: "pharyngeal submucosa" EXACT [FMA:75144] synonym: "pharyngobasilar fascia" RELATED [] synonym: "pharynx submucosa" EXACT [OBOL:automatic] synonym: "submucous coat of pharynx" RELATED [BTO:0002113] synonym: "submucous layer of pharynx" RELATED [BTO:0002113] synonym: "tela submucosa pharyngea" EXACT LATIN [FMA:75144, FMA:TA] synonym: "tela submucosa pharyngis" EXACT LATIN [BTO:0002113] xref: BTO:0002113 xref: FMA:75144 xref: http://www.snomedbrowser.com/Codes/Details/19594009 is_a: UBERON:0004777 ! respiratory system submucosa is_a: UBERON:0018257 ! submucosa of digestive tract intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0005032 name: mucosa of lower lip namespace: uberon def: "A mucosa that is part of a lower lip [Automatically generated definition]." [OBOL:automatic] synonym: "lower labial mucosa" EXACT [UBERON:cjm] synonym: "lower lip mucosa" EXACT [OBOL:automatic] synonym: "lower lip mucosa of organ" EXACT [OBOL:automatic] synonym: "lower lip mucous membrane" EXACT [OBOL:automatic] synonym: "lower lip organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of organ of lower lip" EXACT [OBOL:automatic] synonym: "mucous membrane of lower lip" EXACT [OBOL:automatic] synonym: "organ mucosa of lower lip" EXACT [OBOL:automatic] xref: FMA:59833 xref: http://linkedlifedata.com/resource/umls/id/C0226939 xref: http://www.snomedbrowser.com/Codes/Details/362089001 xref: NCIT:C12225 xref: UMLS:C0226939 {source="ncithesaurus:Mucosa_of_the_Lower_Lip"} is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0036294 ! mucosa of lip intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001835 ! lower lip relationship: part_of UBERON:0001835 ! lower lip [Term] id: UBERON:0005058 name: hemolymphoid system gland namespace: uberon def: "A gland that is part of a hemolymphoid system [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "haemolymphoid system gland" RELATED [EMAPA:18766] synonym: "hemopoietic or lymphoid gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "hemopoietic or lymphoid organ" BROAD [GO:0048534] xref: EMAPA:18766 xref: MA:0002962 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002193 ! hemolymphoid system relationship: part_of UBERON:0002193 ! hemolymphoid system [Term] id: UBERON:0005061 name: neural groove namespace: uberon def: "The median dorsal longitudinal groove formed in the embryo by the neural plate after the appearance of the neural folds." [GO:0001842, http://en.wikipedia.org/wiki/Neural_groove, http://orcid.org/0000-0002-6601-2165] xref: AAO:0011071 xref: EMAPA:35594 xref: FMA:295624 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1363 xref: http://linkedlifedata.com/resource/umls/id/C0814992 xref: http://www.snomedbrowser.com/Codes/Details/361463007 xref: NCIT:C34224 xref: Neural:groove xref: UMLS:C0814992 {source="ncithesaurus:Neural_Groove"} xref: XAO:0000248 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003075 ! neural plate property_value: external_definition "The neural groove is a shallow median groove between the neural folds of an embryo. The neural folds are two longitudinal ridges that are caused by a folding up of the ectoderm in front of the primitive streak of the developing embryo. The groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or canal, the ectodermal wall of which forms the rudiment of the nervous system. After the coalescence of the neural folds over the anterior end of the primitive streak, the blastopore no longer opens on the surface but into the closed canal of the neural tube, and thus a transitory communication, the neurenteric canal, is established between the neural tube and the primitive digestive tube. The coalescence of the neural folds occurs first in the region of the hind-brain, and from there extends forward and backward; toward the end of the third week the front opening (anterior neuropore) of the tube finally closes at the anterior end of the future brain, and forms a recess which is in contact, for a time, with the overlying ectoderm; the hinder part of the neural groove presents for a time a rhomboidal shape, and to this expanded portion the term sinus rhomboidalis has been applied. Before the neural groove is closed a ridge of ectodermal cells appears along the prominent margin of each neural fold; this is termed the neural crest or ganglion ridge, and from it the spinal and cranial nerve ganglia and the ganglia of the sympathetic nervous system are developed. By the upward growth of the mesoderm the neural tube is ultimately separated from the overlying ectoderm. The cephalic end of the neural groove exhibits several dilatations, which, when the tube is closed, assume the form of three vesicles; these constitute the three primary cerebral vesicles, and correspond respectively to the future fore-brain (prosencephalon), mid-brain (mesencephalon), and hind-brain (rhombencephalon). The walls of the vesicles are developed into the nervous tissue and neuroglia of the brain, and their cavities are modified to form its ventricles. The remainder of the tube forms the medulla spinalis or spinal cord; from its ectodermal wall the nervous and neuroglial elements of the medulla spinalis are developed while the cavity persists as the central canal[Wikipedia:Neural_groove]." xsd:string {source="Neural:groove"} [Term] id: UBERON:0005062 name: neural fold namespace: uberon def: "One of the two elevated edges of the neural groove[GO,MP]." [GO:0001842, http://en.wikipedia.org/wiki/Neural_fold, MP:0011256] subset: pheno_slim synonym: "medullary fold" EXACT [MP:0011256] xref: EHDAA2:0001249 xref: FMA:295618 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1364 xref: http://linkedlifedata.com/resource/umls/id/C0814993 xref: http://www.snomedbrowser.com/Codes/Details/361461009 xref: NCIT:C34223 xref: Neural:fold xref: UMLS:C0814993 {source="ncithesaurus:Neural_Fold"} xref: XAO:0004087 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005157 ! epithelial fold is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0015212 ! lateral structure relationship: in_lateral_side_of UBERON:0005061 ! neural groove relationship: part_of UBERON:0005061 ! neural groove property_value: external_definition "In front of the primitive streak two longitudinal ridges, caused by a folding up of the ectoderm, make their appearance, one on either side of the middle line. These are named the neural folds; they commence some little distance behind the anterior end of the embryonic disk, where they are continuous with each other, and from there gradually extend backward, one on either side of the anterior end of the primitive streak. Also, after differentiation it turns into the neural tubes[Wikipedia:Neural_fold]." xsd:string {source="Neural:fold"} [Term] id: UBERON:0005068 name: neural rod namespace: uberon def: "A solid rod of neurectoderm derived from the neural keel. The neural rod is roughly circular in cross section. Neural rod formation occurs during primary neurulation in teleosts[GO]. An intermediate stage in the development of the central nervous system present during the segmentation period; the neural rod is roughly cylindrical in shape, forms from the neural keel, and is not yet hollowed out into the neural tube[ZFIN]." [GO:0014024, ZFA:0000133] subset: efo_slim synonym: "neural tube rod" RELATED [GO:0014027] xref: EFO:0003498 xref: TAO:0000133 xref: ZFA:0000133 is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0007135 ! neural keel property_value: external_definition "An intermediate stage in the development of the central nervous system present during the segmentation period; the neural rod is roughly cylindrical in shape, forms from the neural keel, and is not yet hollowed out into the neural tube. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000133", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005076 name: hindbrain-spinal cord boundary namespace: uberon def: "An anatomical boundary that adjacent_to a hindbrain and adjacent_to a spinal cord." [OBOL:automatic] synonym: "hindbrain-spinal cord boundary region" EXACT [] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: adjacent_to UBERON:0002028 ! hindbrain intersection_of: adjacent_to UBERON:0002240 ! spinal cord relationship: adjacent_to UBERON:0002028 ! hindbrain relationship: adjacent_to UBERON:0002240 ! spinal cord relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0005082 name: tube lumen namespace: uberon def: "A hole in a tube[GO]." [GO:0060609] xref: AEO:0000078 xref: EHDAA2:0004618 xref: RETIRED_EHDAA2:0003078 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: surrounded_by UBERON:0000025 ! tube relationship: surrounded_by UBERON:0000025 ! tube [Term] id: UBERON:0005085 name: ectodermal placode namespace: uberon def: "An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm[GO]" [GO:0060788] synonym: "epithelial placode" RELATED [AEO:0000112] xref: AEO:0000218 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 ! primordium is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000924 ! ectoderm property_value: editor_note "consder adding placodal ectoderm as a distinct class? Also place placodal ectoderm as develops_from ectoderm; need to check taxon-appropriateness" xsd:string property_value: external_ontology_notes "in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous - and also insect structures" xsd:string {external_ontology="GO", source="issuecomment-215692347"} property_value: taxon_notes "With the exception of the adenohypophysis, homologues of the nonneurogenic placodes (e.g. placodes giving rise to the teeth, hair follicles and lens), appear to be lacking in invertebrate chordates." xsd:string [Term] id: UBERON:0005090 name: muscle structure namespace: uberon def: "Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms[GO]." [GO:0061061] synonym: "muscle" RELATED [] synonym: "muscle element" RELATED [] synonym: "musculus" EXACT [FMA:30316] xref: EMAPA:32715 xref: FBbt:00005073 xref: FMA:30316 is_a: UBERON:0000061 ! anatomical structure property_value: curator_notes "in some organisms such as drosophila, muscles can be single cells. This class groups together all discrete muscle elements, from multicellular muscle organs in vertebrates, to individual single-cell muscles in drisophila" xsd:string [Term] id: UBERON:0005153 name: epithelial bud namespace: uberon def: "A bud is a protrusion that forms from an epithelial sheet by localized folding." [GO:0060572] xref: BTO:0001639 is_a: UBERON:0005157 ! epithelial fold [Term] id: UBERON:0005157 name: epithelial fold namespace: uberon def: "An epithelial sheet bent on a linear axis." [GO:0060571] is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0005162 name: multi cell part structure namespace: uberon def: "A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part." [CARO:0001000] subset: upper_level synonym: "cell part cluster" RELATED [FMA:83115] synonym: "multi-cell-component structure" EXACT [CARO:0001000] synonym: "multi-cell-part structure" EXACT [CARO:0001000] xref: AAO:0011000 xref: CARO:0001000 xref: FBbt:00007060 xref: FMA:83115 is_a: UBERON:0000477 {source="FMA"} ! anatomical cluster property_value: external_ontology_notes "we go with the FMA classification rather than the CARO one. FMA def: 'Anatomical cluster which has as direct parts cell parts from two or more cells.'" xsd:string {external_ontology="CARO", external_ontology="FMA"} [Term] id: UBERON:0005174 name: dorsal region element namespace: uberon def: "An organ or element that part of the dorsum of the organism. Examples: spinal cord, vertebrae, muscles of back." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "back organ" EXACT [MA:0001901] synonym: "dorsal region organ" EXACT [] xref: EMAPA:37274 {source="MA:th"} xref: MA:0001901 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0005177 name: trunk region element namespace: uberon def: "An organ or element that part of the trunk region. The trunk region can be further subdividied into thoracic (including chest and thoracic cavity) and abdominal (including abdomen and pelbis) regions." [http://orcid.org/0000-0002-6601-2165] subset: non_informative subset: organ_slim synonym: "trunk organ" EXACT [MA:0000516] xref: EMAPA:37270 {source="MA:th"} xref: MA:0000516 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0005178 name: thoracic cavity element namespace: uberon def: "An organ or element that is in the thoracic cavity. Examples: lung, heart, longus colli." [http://orcid.org/0000-0002-6601-2165] subset: non_informative subset: pheno_slim synonym: "thoracic cavity organ" EXACT [MA:0000557] xref: EMAPA:37273 {source="MA:th"} xref: MA:0000557 is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0000062 ! organ intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0005181 name: thoracic segment organ namespace: uberon def: "An organ that part of the thoracic segment region. This region can be further subdividied chest and thoracic cavity regions." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "upper body organ" RELATED [MA:0000563] xref: EMAPA:37271 {source="MA:th"} xref: MA:0000563 is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0005194 name: thoracic vein namespace: uberon def: "A vein that is part of a thorax [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37197 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226629 xref: http://www.snomedbrowser.com/Codes/Details/281472008 xref: MA:0002235 xref: NCIT:C53142 xref: UMLS:C0226629 {source="ncithesaurus:Thoracic_Vein"} is_a: UBERON:0001638 ! vein is_a: UBERON:0003834 ! thoracic segment blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0005216 name: optic eminence surface ectoderm namespace: uberon def: "An external ectoderm that is part of a optic eminence [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:16539 xref: RETIRED_EHDAA2:0001311 xref: VHOG:0000520 is_a: UBERON:0000076 ! external ectoderm intersection_of: UBERON:0000076 ! external ectoderm intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0005234 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! optic eminence ectoderm [Term] id: UBERON:0005234 name: optic eminence ectoderm namespace: uberon def: "An ectoderm that is part of a optic eminence [Automatically generated definition]." [OBOL:automatic] xref: EHDAA:940 xref: EMAPA:16539 xref: RETIRED_EHDAA2:0001309 xref: VHOG:0001105 is_a: UBERON:0000924 ! ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0004348 ! optic eminence [Term] id: UBERON:0005250 name: stomatodeum gland namespace: uberon def: "A gland that is part of a stomodeum." [OBOL:automatic] subset: organ_slim synonym: "stomatodaeum gland" EXACT [VHOG:0000658] xref: VHOG:0000658 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000930 ! stomodeum relationship: part_of UBERON:0000930 ! stomodeum property_value: editor_note "check this" xsd:string [Term] id: UBERON:0005253 name: head mesenchyme namespace: uberon def: "Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells." [ISBN:0683400088, MP:0011260] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "cephalic mesenchyme" EXACT [MP:0011260] synonym: "cranial mesenchyme" RELATED [MGI:anna] synonym: "desmocranium" RELATED PENDING_REVIEW [FMA:76622] xref: EFO:0003492 xref: EHDAA2:0000732 xref: EHDAA:179 xref: EMAPA:16098 xref: EMAPA_RETIRED:16269 xref: FMA:76622 xref: TAO:0000113 xref: VHOG:0000332 xref: ZFA:0000113 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme property_value: external_definition "Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000113", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005256 name: trunk mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing trunk." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "trunk and cervical mesenchyme" RELATED [EHDAA2:0002092] xref: EFO:0003485 xref: EHDAA2:0002092 xref: EHDAA:377 xref: EMAPA:16177 xref: TAO:0000081 xref: VHOG:0000281 xref: ZFA:0000081 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000922 ! embryo intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme [Term] id: UBERON:0005290 name: myelencephalon namespace: uberon def: "The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]." [BTO:0000758, http://en.wikipedia.org/wiki/Myelencephalon] subset: uberon_slim synonym: "myelencephalon (medulla oblongata)" RELATED [DHBA:10662] xref: BTO:0000758 xref: CALOHA:TS-0607 xref: CALOHA:TS-2365 xref: DHBA:10662 xref: EHDAA2:0001207 xref: EHDAA:5526 xref: EMAPA:17082 xref: HBA:9512 xref: http://en.wikipedia.org/wiki/Myelencephalon xref: MA:0000205 xref: VHOG:0000456 is_a: UBERON:0004733 ! segmental subdivision of hindbrain relationship: develops_from UBERON:0010096 ! future myelencephalon relationship: dubious_for_taxon NCBITaxon:7955 ! Danio rerio relationship: immediate_transformation_of UBERON:0010096 {evidence="definitional"} ! future myelencephalon property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg property_value: external_definition "The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/myelencephalon"} property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500"} property_value: terminology_notes "the terms metencephalon and myelencephalon are only meaningful in mammals and birds - Neuroanatomy of the Zebrafish Brain. Note that its not clear if this refers to the developing medulla oblongata - MA (adult) has two distinct classes" xsd:string [Term] id: UBERON:0005291 name: embryonic tissue namespace: uberon def: "A portion of tissue that is part of an embryo." [OBOL:automatic] subset: pheno_slim subset: upper_level synonym: "developing tissue" RELATED [] synonym: "portion of embryonic tissue" EXACT [OBOL:automatic] xref: CALOHA:TS-2100 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0002050 ! embryonic structure [Term] id: UBERON:0005292 name: extraembryonic tissue namespace: uberon def: "Portion of tissue that is contiguous with the embryo and is comprised of portions of tissue or cells that will not contribute to the embryo." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "extra-embryonic tissue" EXACT [] xref: BTO:0003360 xref: CALOHA:TS-2119 xref: EFO:0001406 xref: MAT:0000061 xref: MIAA:0000061 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0005316 name: endocardial endothelium namespace: uberon def: "The endothelial lining of the endocardium." [UBERON:cjm] synonym: "endocardium endothelium" EXACT [FMA:83596] synonym: "endothelium of endocardium" EXACT [FMA:83596] xref: FMA:83596 is_a: UBERON:0008307 ! heart endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0002165 ! endocardium [Term] id: UBERON:0005317 name: pulmonary artery endothelium namespace: uberon def: "An pulmonary artery endothelium is an epithelium that lines the pulmonary artery[GO]." [GO:0061155] synonym: "pulmonary artery endothelial tube" EXACT [GO:0061155] xref: BTO:0000137 is_a: UBERON:0001917 ! endothelium of artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0002012 ! pulmonary artery [Term] id: UBERON:0005339 name: outflow tract pulmonary component namespace: uberon xref: EHDAA2:0001359 xref: EHDAA:4401 xref: EMAPA:17330 xref: MA:0000102 xref: VHOG:0001395 is_a: UBERON:0004145 ! outflow tract property_value: editor_note "merge with RVOT?" xsd:string [Term] id: UBERON:0005388 name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] xref: FBbt:00004200 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer relationship: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0005389 name: transparent eye structure namespace: uberon def: "A transparent structure that is part of a visual sense organ, the function of which is to direct or focus light onto a photoreceptor array." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "lens" NARROW [] is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000970 ! eye property_value: function_notes "directing or focusing light onto light receptors" xsd:string [Term] id: UBERON:0005396 name: carotid artery segment namespace: uberon def: "One of: the common carotid artery, or its branches, the external and internal carotid arteries." [http://en.wikipedia.org/wiki/Carotid_artery, https://sourceforge.net/tracker/?func=detail&aid=3486870&group_id=76834&atid=994764] subset: efo_slim subset: grouping_class subset: pheno_slim subset: vertebrate_core synonym: "carotid" EXACT [AAO:0010217] synonym: "carotid artery" EXACT [MA:0001925] synonym: "common carotid arterial subdivision" RELATED [FMA:70504] synonym: "subdivision of common carotid artery" EXACT [FMA:70504] xref: AAO:0010217 xref: BTO:0000168 xref: CALOHA:TS-0116 xref: Carotid:artery xref: EFO:0000818 xref: EHDAA:6385 xref: EMAPA:18609 xref: EV:0100379 xref: FMA:70504 xref: GAID:478 xref: galen:CarotidArtery xref: http://linkedlifedata.com/resource/umls/id/C0007272 xref: http://www.snomedbrowser.com/Codes/Details/362040006 xref: http://www.snomedbrowser.com/Codes/Details/69105007 xref: MA:0001925 xref: MAT:0000501 xref: MESH:D002339 xref: NCIT:C12687 xref: OpenCyc:Mx4rvg7rcJwpEbGdrcN5Y29ycA xref: TAO:0000097 xref: UMLS:C0007272 {source="ncithesaurus:Carotid_Artery"} xref: VHOG:0000266 xref: ZFA:0000097 is_a: UBERON:0004573 {source="FMA"} ! systemic artery property_value: editor_note "This is a generic grouping class that is the superclass of the trunks/branches of the common carotid artery. Note that AOs vary widely in how they divide up and generalize arteries" xsd:string property_value: external_definition "Artery originating at the junction of the first two aortic arches and supplying the anterior brain. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000097", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005423 name: developing anatomical structure namespace: uberon synonym: "developing structure" RELATED [] synonym: "developmental structure" RELATED [] synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 xref: FBbt:00007006 xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity [Term] id: UBERON:0005425 name: presumptive neural retina namespace: uberon def: "Portion of tissue that is the inner layer of the optic cup and will become the neural retina." [ZFIN:curator] subset: vertebrate_core synonym: "future neural epithelium" RELATED [EMAPA:16675] synonym: "future neural layer" RELATED [EMAPA:16675] synonym: "future neural retina" EXACT [] synonym: "future NR" RELATED [] synonym: "future retinal neural layer" EXACT [] synonym: "inner layer optic cup" EXACT [ZFA:0001071] synonym: "optic cup inner layer" EXACT [EHDAA2:0001304] synonym: "presumptive retina" RELATED [TAO:0001071] synonym: "presumptive retinas" EXACT PLURAL [ZFA:0001071] xref: EHDAA2:0001304 xref: EMAPA:16675 xref: TAO:0001071 xref: VHOG:0000490 xref: ZFA:0001071 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010312 ! immature eye intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003902 ! retinal neural layer relationship: has_potential_to_develop_into UBERON:0003902 ! retinal neural layer relationship: part_of UBERON:0003072 ! optic cup property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000490", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0005426 name: lens vesicle namespace: uberon def: "Portion of tissue that gives rise to the lens." [https://sourceforge.net/tracker/?func=detail&atid=994726&aid=3514998&group_id=76834, ZFIN:curator] subset: pheno_slim subset: vertebrate_core synonym: "hollow lens vesicle" NARROW SENSU [] synonym: "immature lens" RELATED [ZFA:0001679] synonym: "lens mass" RELATED [ZFA:0001679\,ZFIN\:ZDB-PUB-091023-49] synonym: "presumptive lens" RELATED [ZFA:0001679] synonym: "solid lens vesicle" NARROW SENSU [ZFA:0001679] xref: EHDAA2:0000983 xref: EHDAA:4737 xref: EMAPA:17163 xref: http://www.snomedbrowser.com/Codes/Details/361510002 xref: TAO:0002205 xref: VHOG:0001163 xref: ZFA:0001679 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0003073 ! lens placode property_value: development_notes "the lens of zebrafish (and other teleosts) forms from delamination of cells from the lens placode; thus, there is no formation of a hollow lens vesicle, in contrast to the situation in mammals and birds (Glass and Dahm, 2004) [PMID:16496288] The lens of the zebrafish forms by delamination of lens placodal cells and not through invagination. This results in a solid spherical mass as opposed to a hollow lens vesicle. Detachment of the solid lens vesicle of zebrafish at 24b26 hpf is accomplished in part by apoptosis, similar to mammals" xsd:string {source="ZFA"} property_value: external_definition "A vesicle formed from the lens pit of the embryo, developing into the crystalline lens. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/lens+vesicle"} property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0005427 name: corneal primordium namespace: uberon def: "Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea." [ZFIN:ZDB-PUB-061010-3] xref: TAO:0002188 xref: ZFA:0001688 is_a: UBERON:0000479 {source="ZFA"} ! tissue is_a: UBERON:0001048 {source="Obol"} ! primordium is_a: UBERON:0010312 ! immature eye is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0000019 {source="ZFA"} ! camera-type eye [Term] id: UBERON:0005432 name: aortic sac namespace: uberon def: "The dilated structure that is lined by endothelial cells and located at the arterial pole of the heart just above (distal to) the truncus arteriosus in mammalian embryos; it is the primordial vascular channel from which the aortic arches (and eventually the dorsal aortae) arise; the aortic sac is homologous to the ventral aorta of gill-bearing vertebrates" [MP:0012510] subset: pheno_slim synonym: "saccus aorticus" EXACT LATIN [] xref: EHDAA2:0004145 xref: EHDAA:9826 xref: EMAPA:36461 xref: FMA:71008 xref: http://www.snomedbrowser.com/Codes/Details/361527005 xref: RETIRED_EHDAA2:0000133 is_a: UBERON:0001637 {source="EHDAA2"} ! artery is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003498 ! heart blood vessel is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0004363 {source="EHDAA2"} ! pharyngeal arch artery relationship: part_of UBERON:0004145 ! outflow tract property_value: external_definition "the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]." xsd:string {source="http://medical-dictionary.thefreedictionary.com/aortic+sac"} [Term] id: UBERON:0005496 name: neural tube lateral wall namespace: uberon def: "Portion of tissue on the side of the lumen of the neural tube." [ZFA:0001435] subset: vertebrate_core synonym: "lateral wall neural tube" EXACT [ZFA:0001435] xref: EHDAA2:0001257 xref: EHDAA:2873 xref: EHDAA:912 xref: EMAPA:16166 xref: TAO:0001435 xref: VHOG:0000513 xref: ZFA:0001435 is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0005498 name: primitive heart tube namespace: uberon def: "Multi-tissue structure that arises from the heart rudiment and will become the heart tube." [ZFA:0000149] subset: vertebrate_core synonym: "early primitive heart tube" NARROW [EMAPA:16208] synonym: "primitive heart tube" EXACT [EMAPA:16215] xref: EHDAA2:0001512 xref: EHDAA:424 xref: EHDAA:436 xref: EMAPA:16215 xref: FMA:321916 xref: http://en.wikipedia.org/wiki/Primitive_heart_tube xref: http://www.snomedbrowser.com/Codes/Details/361522004 xref: TAO:0000149 xref: ZFA:0000149 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0004291 {source="ZFA"} ! heart rudiment relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0005501 name: rhombomere lateral wall namespace: uberon def: "A neural tube lateral wall that is part of a rhombomere." [OBOL:automatic] synonym: "future hindbrain lateral wall" RELATED [EMAPA:35364] xref: EMAPA:32819 xref: EMAPA:35364 is_a: UBERON:0005496 ! neural tube lateral wall intersection_of: UBERON:0005496 ! neural tube lateral wall intersection_of: part_of UBERON:0001892 ! rhombomere relationship: part_of UBERON:0001892 ! rhombomere [Term] id: UBERON:0005597 name: lung primordium namespace: uberon alt_id: UBERON:3010717 def: "A pair of lateral diverticula just over the liver rudiment representing the primordia of the lungs, formed by the floor of the foregut just anterior to the liver diverticulum." [XAO:0001002] subset: efo_slim synonym: "lateral diverticula" RELATED [XAO:0001002] synonym: "lung diverticulum" RELATED [AAO:3010717] synonym: "lung endoderm" RELATED [EFO:0002578] xref: AAO:0011059 xref: EFO:0002578 xref: EMAPA:36007 xref: XAO:0001002 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="XAO"} ! primordium relationship: develops_from UBERON:0001041 {source="XAO"} ! foregut relationship: has_potential_to_develop_into UBERON:0000170 ! pair of lungs relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0005598 name: trunk somite namespace: uberon def: "A somite that is part of a trunk." [OBOL:automatic] xref: AAO:0010385 xref: EHDAA2:0003438 xref: EMAPA:16184 xref: XAO:0000314 is_a: UBERON:0002329 ! somite intersection_of: UBERON:0002329 ! somite intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0005614 name: lens anterior epithelium namespace: uberon def: "A layer of cuboidal epithelial cells bounded anteriorly by the capsule of the lens and posteriorly by the lens cortex." [http://orcid.org/0000-0002-6601-2165] synonym: "anterior epithelium of lens vesicle" RELATED [EMAPA:17304] synonym: "anterior surface of lens" RELATED [FMA:58889] synonym: "lens epithelium" BROAD [] synonym: "lens subcapsular epithelium" EXACT [http://www.lab.anhb.uwa.edu.au/mb140/corepages/eye/eye.htm] synonym: "subcapsular lens epithelium" EXACT [FMA:70612] xref: EHDAA2:0000984 xref: EHDAA:9059 xref: EMAPA:17304 xref: EMAPA:17839 xref: FMA:70612 xref: http://linkedlifedata.com/resource/umls/id/C1182652 xref: http://www.snomedbrowser.com/Codes/Details/362521008 xref: MA:0001302 xref: NCIT:C33641 xref: RETIRED_EHDAA2:0000976 xref: UMLS:C1182652 {source="ncithesaurus:Subcapsular_Epithelium_of_the_Lens"} xref: VHOG:0001425 is_a: UBERON:0001803 ! epithelium of lens intersection_of: UBERON:0000483 ! epithelium intersection_of: adjacent_to UBERON:0001804 ! capsule of lens intersection_of: part_of UBERON:0000965 ! lens of camera-type eye relationship: adjacent_to UBERON:0000389 ! lens cortex relationship: adjacent_to UBERON:0001804 ! capsule of lens property_value: structure_notes "Cells of the subcapsular epithelium (or anterior lens cells) are mitotically active. In adult individuals they only cover the anterior 'hemisphere' of the lens. As they divide, cells gradually move towards the equator of the lens where they tranform into lens fibres. The apical part of the gradually elongating cell extends between the subcapsular epithelium and adjacent lens fibres towards the anterior pole of the lens. The basal part extends towards the posterior pole. The nucleus remains close to the equatorial plane of the lens - http://www.lab.anhb.uwa.edu.au/mb140/corepages/eye/eye.htm" xsd:string [Term] id: UBERON:0005638 name: anterior chamber epithelium namespace: uberon def: "An epithelium that is part of a anterior chamber of eyeball." [OBOL:automatic] xref: EHDAA2:0000130 is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001766 ! anterior chamber of eyeball relationship: part_of UBERON:0001766 ! anterior chamber of eyeball [Term] id: UBERON:0005656 name: lens vesicle epithelium namespace: uberon def: "An epithelium that is part of a lens vesicle." [OBOL:automatic] xref: EHDAA2:0000987 xref: EMAPA:17165 xref: VHOG:0000532 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0005426 ! lens vesicle [Term] id: UBERON:0005672 name: right lung endothelium namespace: uberon def: "An endothelium that is part of a right lung." [OBOL:automatic] xref: EHDAA2:0001755 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003364 ! epithelium of right lung intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0005673 name: left lung endothelium namespace: uberon def: "An endothelium that is part of a left lung." [OBOL:automatic] xref: EHDAA2:0000961 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003365 ! epithelium of left lung intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0005688 name: lens vesicle cavity namespace: uberon def: "An anatomical cavity that is part of a lens vesicle." [OBOL:automatic] synonym: "cavity of lens" BROAD [] synonym: "cavity of lens vesicle" EXACT [EMAPA:17164] synonym: "lens cavity" BROAD [EHDAA2:0000986] xref: EHDAA2:0000986 xref: EMAPA:17164 xref: VHOG:0000531 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0005426 ! lens vesicle relationship: luminal_space_of UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0005426 ! lens vesicle property_value: homology_notes "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000531", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0005702 name: optic eminence mesenchyme namespace: uberon def: "Mesenchyme that is part of a optic eminence." [OBOL:automatic] xref: EHDAA:942 xref: EMAPA:16324 xref: RETIRED_EHDAA2:0001310 xref: VHOG:0001073 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0004348 ! optic eminence [Term] id: UBERON:0005720 name: hindbrain venous system namespace: uberon def: "A venous system that is part of a hindbrain." [OBOL:automatic] synonym: "rhombencephalon venous system" RELATED [VHOG:0001322] xref: EHDAA2:0000776 xref: EMAPA:18632 xref: VHOG:0001322 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004582 ! venous system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0004582 ! venous system intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0005734 name: tunica adventitia of blood vessel namespace: uberon def: "The outermost layer of a blood vessel, composed mainly of fibrous tissue." [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29, ISBN10:0073040584] synonym: "adventitia externa" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] synonym: "external coat" RELATED [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] synonym: "tunica adventitia" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] synonym: "tunica adventitia of vessel" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] synonym: "tunica adventitia vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] synonym: "tunica externa vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29] xref: BTO:0002010 xref: EMAPA:36299 xref: http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29 xref: http://linkedlifedata.com/resource/umls/id/C0225342 xref: http://www.snomedbrowser.com/Codes/Details/61066005 xref: NCIT:C33818 xref: UMLS:C0225342 {source="ncithesaurus:Tunica_Adventitia"} is_a: UBERON:0004797 {source="cjm"} ! blood vessel layer is_a: UBERON:0005742 ! adventitia relationship: composed_primarily_of UBERON:0011824 ! fibrous connective tissue property_value: depicted:by Illu:artery.jpg property_value: editor_note "TODO - note terminological problems. WP says tunica external layer of blood vessel. FMA says tunica externa = adventitia, and is FMA adventitia covers other kinds of vessels. Here we opt for a lengthier name that attempts to disambiguate. There is no precise FMA equivalent, as FMA has tunica externa of arteries, veins, genital ducts etc as siblings" xsd:string property_value: external_definition "The outermost layer of a blood vessel, surrounding the tunica media. It is mainly composed of collagen. The collagen serves to anchor the blood vessel to nearby organs, giving it stability[Wikipedia:Tunica_externa_%28vessels%29]." xsd:string {source="http://en.wikipedia.org/wiki/Tunica_externa_%28vessels%29"} [Term] id: UBERON:0005740 name: tunica intima of artery namespace: uberon def: "A tunica intima that is part of a artery." [OBOL:automatic] synonym: "arterial intima" EXACT [EV:0100028] synonym: "tunica interna (intima)(arteriae)" EXACT [FMA:14272] xref: EMAPA:36293 xref: EV:0100028 xref: FMA:14272 xref: galen:IntimaOfArtery xref: http://www.snomedbrowser.com/Codes/Details/40022005 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0004797 ! blood vessel layer intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0005742 name: adventitia namespace: uberon def: "An outermost connective tissue covering of an organ, vessel, or other structure[WP]." [http://en.wikipedia.org/wiki/Adventitia] subset: grouping_class synonym: "tunica advetitia" NARROW [http://en.wikipedia.org/wiki/Adventitia] synonym: "tunica externa" NARROW [FMA:45635] xref: BTO:0002010 xref: FMA:45635 xref: http://en.wikipedia.org/wiki/Adventitia xref: http://www.snomedbrowser.com/Codes/Details/30180000 is_a: BFO:0000040 ! material entity is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/Illu_esophageal_layers.jpg [Term] id: UBERON:0005764 name: acellular membrane namespace: uberon def: "A acellular anatomical structure that is the bounding layer of a anatomical structure." [OBOL:automatic] xref: FMA:63871 is_a: BFO:0000040 ! material entity is_a: UBERON:0000476 ! acellular anatomical structure intersection_of: UBERON:0000476 ! acellular anatomical structure intersection_of: bounding_layer_of UBERON:0000061 ! anatomical structure relationship: bounding_layer_of UBERON:0000061 ! anatomical structure [Term] id: UBERON:0005769 name: basement membrane of epithelium namespace: uberon def: "An acellular membrane that is part of the epithelium, lies adjacent to the epithelial cells, and is the fusion of the the basal lamina and the reticular lamina." [http://en.wikipedia.org/wiki/Basement_membrane, http://orcid.org/0000-0002-6601-2165] synonym: "basement membrane" RELATED [FMA:63872] synonym: "basement membrane of connective tissue" EXACT [FMA:63872] synonym: "membrana basalis" EXACT LATIN [http://en.wikipedia.org/wiki/Basement_membrane] xref: AAO:0010596 xref: Basement:membrane xref: FMA:63872 xref: GAID:915 xref: http://linkedlifedata.com/resource/umls/id/C0004799 xref: http://www.snomedbrowser.com/Codes/Details/68989006 xref: NCIT:C13191 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: part_of UBERON:0000483 ! epithelium relationship: present_in_taxon NCBITaxon:80999 {source="http://palaeos.com/metazoa/porifera/homoscleromorpha.html"} ! Homoscleromorpha property_value: curator_notes "this class represents a continuous sheet of basement membrane which can underlie multiple epithelial cells over large regions. In contrast, the GO class 'basal membrane' represents a portion of substance on the scale of a single cell." xsd:string [Term] id: UBERON:0005856 name: developing mesenchymal condensation namespace: uberon def: "A delimited region of dense mesenchyme within looser mesenchyme." [AEO:0000148] synonym: "mesenchyme condensation" EXACT [EMAPA:25351] xref: AEO:0000148 xref: EHDAA2_RETIRED:0003148 xref: EHDAA:8979 is_a: UBERON:0007524 {source="AEO"} ! dense mesenchyme tissue is_a: UBERON:0011585 {source="cjm"} ! cell condensation [Term] id: UBERON:0005867 name: mandibular prominence namespace: uberon def: "the paired ventral prominences formed by bifurcation of the first pharyngeal arches in the embryo; the two prominences unite ventrally and fuse to form the mandible and lower lip" [ISBN:0-683-40008-8, MP:0010939] subset: pheno_slim synonym: "mandibular process" RELATED [http://en.wikipedia.org/wiki/Mandibular_prominence] synonym: "mandibular swelling" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "prominentia mandibularis" RELATED LATIN [http://en.wikipedia.org/wiki/Mandibular_prominence] xref: EHDAA2:0001061 xref: EHDAA:5871 xref: EMAPA:17355 xref: FMA:293051 xref: http://linkedlifedata.com/resource/umls/id/C1512982 xref: Mandibular:prominence xref: NCIT:C34204 xref: UMLS:C1512982 {source="ncithesaurus:Mandibular_Prominence"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0012314 ! embryonic facial prominence relationship: develops_from UBERON:0007237 ! 1st arch mandibular component relationship: part_of UBERON:0000166 ! oral opening property_value: editor_note "check develops_from" xsd:string [Term] id: UBERON:0005906 name: serous sac namespace: uberon def: "Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]" [FMA:9689, https://github.com/obophenotype/uberon/issues/86] comment: See notes for serous membrane xref: EMAPA:16060 xref: FMA:9689 xref: http://www.snomedbrowser.com/Codes/Details/362890006 xref: MA:0000005 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000062 ! organ relationship: dc-contributor https://github.com/cmungall relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity [Term] id: UBERON:0005911 name: endo-epithelium namespace: uberon def: "Epithelium that derives from the endoderm. Examples: urothelium, transitional epithelium of ureter, epithelium of prostatic gland.[FMA]" [FMA:69065] synonym: "endoderm-derived epithelium" EXACT [] synonym: "endoepithelium" EXACT [] xref: FMA:69065 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000925 ! endoderm [Term] id: UBERON:0005944 name: axial skeleton plus cranial skeleton namespace: uberon def: "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]." [FMA:71221, http://en.wikipedia.org/wiki/Axial_skeleton, https://github.com/obophenotype/uberon/issues/44, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton, VSAO:0000056] subset: pheno_slim subset: uberon_slim synonym: "skeleton axiale" RELATED LATIN [http://en.wikipedia.org/wiki/Axial_skeleton] xref: AAO:0000963 xref: Axial:skeleton xref: EMAPA:17214 xref: EMAPA:18043 xref: http://linkedlifedata.com/resource/umls/id/C0222645 xref: http://www.snomedbrowser.com/Codes/Details/361725000 xref: MA:0000308 xref: NCIT:C32172 xref: UMLS:C0222645 {source="ncithesaurus:Axial_Skeleton"} xref: VSAO:0000056 xref: XAO:0004011 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system relationship: dc-contributor https://github.com/cmungall relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0011137 ! axial skeletal system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Axial_skeleton_diagram.svg property_value: external_definition "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000056", ontology="VSAO", source="PSPUB:0000170"} property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0005983 name: heart layer namespace: uberon def: "The laminar structure of the heart" [MP:0010545] subset: non_informative subset: pheno_slim is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000948 ! heart relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0005985 name: coronary vessel namespace: uberon def: "Any of the arteries or veins that supply blood to the heart or return blood from the heart muscles to the circulation" [MP:0010551] subset: pheno_slim xref: Coronary:circulation xref: MESH:D003331 is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000055 ! vessel intersection_of: part_of UBERON:0000948 ! heart relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: editor_note "TODO - change relation from part_of" xsd:string [Term] id: UBERON:0006003 name: integumentary adnexa namespace: uberon def: "Anatomical structure embedded in or located in the integument that is part of the integumental system. Examples: hair, follicles, skin glands, claws, nails, feathers." [http://code.google.com/p/caro2/issues/detail?id=5, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "adnexae cutis" RELATED LATIN [http://en.wikipedia.org/wiki/Skin_appendage] synonym: "body hair or bristle" NARROW [GO:GO] synonym: "skin adnexa" RELATED [http://en.wikipedia.org/wiki/Skin_appendage] synonym: "skin adnexal structure" RELATED [] synonym: "skin appendage" RELATED [http://en.wikipedia.org/wiki/Skin_appendage] xref: EMAPA:37883 {source="MA:th"} xref: Skin:appendage is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "add subclasses based on resolution of CARO tracker item. Also check: adnexal gland. Note that MP implicitly includes hypodermis." xsd:string property_value: external_definition "the tissue or structures associated with or embedded in the skin such as hair and hair follicles, sweat glands, sebaceous glands and claws or nails[MP:0010678]" xsd:string {source="MP:0010678"} [Term] id: UBERON:0006056 name: posterior surface of head namespace: uberon is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: in_posterior_side_of UBERON:0000033 ! head relationship: in_posterior_side_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0006211 name: buccopharyngeal membrane namespace: uberon def: "The thin bilaminar membrane derived from the prechordal plate that is devoid of mesoderm and formed by the apposition of the stomodeal ectoderm with the foregut endoderm; after the embryonic head fold has evolved it lies at the caudal limit of the stomodeum, forming a septum between the primitive mouth and pharynx; the membrane eventually disappears, and thus a communication is established between the mouth and the future pharynx." [MP:0012521] subset: emapa_ehdaa2 subset: pheno_slim synonym: "oral membrane" RELATED [MP:0012521] synonym: "oral plate" RELATED [MP:0012521] synonym: "oropharyngeal membrane" RELATED [http://en.wikipedia.org/wiki/Buccopharyngeal_membrane] synonym: "pharyngeal membrane" RELATED INCONSISTENT [MP:0012521] xref: Buccopharyngeal:membrane xref: EHDAA2:0000189 xref: EHDAA:536 xref: EMAPA:16259 xref: FMA:313607 xref: http://www.snomedbrowser.com/Codes/Details/361412007 xref: VHOG:0000380 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003037 ! septum relationship: has_developmental_contribution_from UBERON:0000924 ! ectoderm relationship: has_developmental_contribution_from UBERON:0000925 ! endoderm relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0006264 {source="EHDAA2"} ! mouth-foregut junction property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png [Term] id: UBERON:0006238 name: future brain namespace: uberon def: "The embryonic precursor of the brain." [NIFSTD:nlx_94995] subset: cumbo subset: efo_slim subset: emapa_ehdaa2 subset: vertebrate_core synonym: "brain rudiment" EXACT [TAO:0000146] synonym: "embryonic brain" RELATED [BTO:0004726] synonym: "encephalon" NARROW [NIFSTD:nlx_94995] synonym: "presumptive brain" EXACT [ZFA:0000146] xref: BAMS:Enc xref: BTO:0004726 xref: EFO:0003431 xref: EHDAA:300 xref: EHDAA:830 xref: EMAPA:16089 xref: FMA:312967 xref: RETIRED_EHDAA2:0000591 xref: TAO:0000146 xref: ZFA:0000146 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0000955 ! brain relationship: part_of UBERON:0002346 ! neurectoderm property_value: external_definition "The embryonic precursor of the brain and the set of mature brain structures that derive from it (CUMBO)" xsd:string {source="Cumbo:terms"} [Term] id: UBERON:0006241 name: future spinal cord namespace: uberon subset: efo_slim subset: vertebrate_core synonym: "presumptive spinal cord" EXACT [ZFA:0000417] synonym: "presumptive spinal cord neural keel" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural plate" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural rod" EXACT [TAO:0000417] xref: EFO:0003438 xref: EHDAA2:0000674 xref: EHDAA:898 xref: EMAPA:16092 xref: EMAPA:16755 xref: TAO:0000417 xref: ZFA:0000417 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0001049 {source="EHDAA2"} ! neural tube relationship: has_potential_to_develop_into UBERON:0002240 ! spinal cord relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0006264 name: mouth-foregut junction namespace: uberon def: "An anatomical junctions that overlaps the mouth and foregut." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA:534 xref: EMAPA:16258 xref: RETIRED_EHDAA2:0001205 xref: VHOG:0000592 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007651 ! anatomical junction relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0006267 name: notochordal plate namespace: uberon def: "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord." [VHOG:0001212] subset: emapa_ehdaa2 xref: EHDAA2:0001278 xref: EHDAA:264 xref: EMAPA:16101 xref: http://linkedlifedata.com/resource/umls/id/C1518429 xref: NCIT:C34231 xref: UMLS:C1518429 {source="ncithesaurus:Notochordal_Plate"} xref: VHOG:0001212 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0006268 {source="EHDAA2"} ! notochordal process property_value: editor_note "TODO - check ordering; awaiting confirmation from JB" xsd:string property_value: external_definition "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001212", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0006268 name: notochordal process namespace: uberon def: "A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot" [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/05embryonicperiod.htm] comment: The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. subset: emapa_ehdaa2 synonym: "chordamesoderm" RELATED [] synonym: "presumptive notochord" RELATED [] xref: EHDAA2:0001279 xref: EHDAA:224 xref: EMAPA:16102 xref: FMA:293135 xref: http://linkedlifedata.com/resource/umls/id/C1518430 xref: NCIT:C34232 xref: UMLS:C1518430 {source="ncithesaurus:Notochordal_Process"} xref: VHOG:0001213 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0000924 {source="EHDAA2"} ! ectoderm [Term] id: UBERON:0006311 name: chamber of eyeball namespace: uberon def: "A segment of the eyeball that is filled with refractive media" [http://orcid.org/0000-0002-6601-2165] synonym: "chamber of eye" RELATED [BTO:0002085] synonym: "eye chamber" EXACT [MA:0002459] synonym: "eyeball chamber" EXACT [FMA:58071] xref: BTO:0002085 xref: EMAPA:37529 {source="MA:th"} xref: FMA:58071 xref: http://linkedlifedata.com/resource/umls/id/C0459556 xref: http://www.snomedbrowser.com/Codes/Details/280540004 xref: MA:0002459 xref: NCIT:C32301 xref: UMLS:C0459556 {source="ncithesaurus:Chamber_of_the_Eye"} is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000063 ! organ subunit intersection_of: location_of UBERON:0006312 ! ocular refractive media intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: location_of UBERON:0006312 ! ocular refractive media relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0006312 name: ocular refractive media namespace: uberon def: "Body substance in a liquid or semi-solid state in the eyeball which serves to refract light." [http://orcid.org/0000-0002-6601-2165] xref: MA:0001911 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000463 ! organism substance relationship: part_of UBERON:0000019 ! camera-type eye property_value: function_notes "ocular refraction" xsd:string [Term] id: UBERON:0006314 name: bodily fluid namespace: uberon def: "Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not." [http://en.wikipedia.org/wiki/Body_fluid, MESH:A12.207] subset: pheno_slim synonym: "body fluid" EXACT [GAID:266] synonym: "fluid" BROAD [] xref: birnlex:20 xref: Body:fluid xref: EMAPA:37441 {source="MA:th"} xref: FMA:280556 xref: GAID:266 xref: galen:BodyFluid xref: MESH:D001826 is_a: UBERON:0000463 ! organism substance [Term] id: UBERON:0006347 name: communicating artery namespace: uberon def: "An artery that connects two larger arteries." [ncithesaurus:Communicating_Artery] comment: Grouping for anterior and posterior xref: EMAPA:18598 xref: http://linkedlifedata.com/resource/umls/id/C1707451 xref: MA:0001938 xref: NCIT:C52851 xref: UMLS:C1707451 {source="ncithesaurus:Communicating_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: connects UBERON:0001637 {minCardinality="2", maxCardinality="2"} ! artery relationship: connects UBERON:0001637 ! artery [Term] id: UBERON:0006535 name: skin secretion namespace: uberon def: "A portion of organism substance that secreted_by a zone of skin." [OBOL:automatic] synonym: "skin fluid" RELATED [] synonym: "skin fluid/secretion" EXACT [MA:0002537] synonym: "skin substance" RELATED [] xref: MA:0002537 is_a: BFO:0000040 ! material entity is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0000014 ! zone of skin relationship: produced_by UBERON:0000014 ! zone of skin [Term] id: UBERON:0006538 name: respiratory system fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a respiratory system." [OBOL:automatic] synonym: "respiratory system fluid" RELATED [] synonym: "respiratory system secretion" RELATED [] xref: EMAPA:36550 xref: http://linkedlifedata.com/resource/umls/id/C1514899 xref: MA:0002533 xref: NCIT:C13722 xref: UMLS:C1514899 {source="ncithesaurus:Respiratory_System_Fluid_or_Secretion"} is_a: BFO:0000040 ! material entity is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0001004 ! respiratory system relationship: produced_by UBERON:0001004 ! respiratory system [Term] id: UBERON:0006562 name: pharynx namespace: uberon def: "The pharynx is the part of the digestive system immediately posterior to the mouth[GO]." [GO:0060465] subset: grouping_class subset: uberon_slim synonym: "anterior part of foregut" RELATED [] synonym: "pharyngeal tube" RELATED [] xref: FBbt:00005380 xref: MAT:0000049 xref: MIAA:0000049 is_a: UBERON:0004921 ! subdivision of digestive tract property_value: curator_notes "currently this is an extremely generic class, encompassing both protostomes and deuterostomes." xsd:string property_value: has_relational_adjective "branchial" xsd:string property_value: has_relational_adjective "pharyngeal" xsd:string [Term] id: UBERON:0006563 name: tunica media of pulmonary trunk namespace: uberon def: "Tunica media of artery which is continuous with the myocardium of right ventricle.[FMA]" [FMA:85030, FMA:FMA] xref: FMA:85030 is_a: UBERON:0007239 ! tunica media of artery intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0002333 ! pulmonary trunk relationship: part_of UBERON:0002333 ! pulmonary trunk [Term] id: UBERON:0006595 name: presumptive endoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into endoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim xref: AAO:0000471 xref: EFO:0003437 xref: TAO:0000416 xref: ZFA:0000416 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000925 ! endoderm relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006596 name: presumptive blood namespace: uberon subset: efo_slim synonym: "future blood" EXACT [] xref: AAO:0000468 xref: EFO:0003439 xref: TAO:0000568 xref: ZFA:0000568 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000178 ! blood relationship: has_potential_to_develop_into UBERON:0000178 ! blood [Term] id: UBERON:0006598 name: presumptive structure namespace: uberon def: "Portion of embryonic tissue determined by fate mapping to become a structure." [GOC:CVS, GOC:YMB, ZFA:0001116] synonym: "future structure" EXACT [] synonym: "presumptive structures" EXACT [ZFA:0001116] xref: AAO:0000479 xref: TAO:0001116 xref: ZFA:0001116 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0000061 ! anatomical structure intersection_of: part_of UBERON:0000922 ! embryo relationship: has_potential_to_develop_into UBERON:0000061 ! anatomical structure property_value: editor_note "Consider merging with anlage" xsd:string [Term] id: UBERON:0006601 name: presumptive ectoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into ectoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "presumptive epidermis" RELATED [ZFA:0001376] xref: AAO:0000470 xref: EFO:0003466 xref: TAO:0001376 xref: XAO:0004132 xref: ZFA:0001376 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000924 ! ectoderm relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006603 name: presumptive mesoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into mesoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim xref: AAO:0000476 xref: EFO:0003467 xref: TAO:0001377 xref: ZFA:0001377 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006677 name: surface of epithelium namespace: uberon def: "An anatomical boundary that adjacent_to a epithelium." [OBOL:automatic] synonym: "epithelium surface" EXACT [FMA:70997] xref: FMA:70997 is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: bounding_layer_of UBERON:0000483 ! epithelium relationship: bounding_layer_of UBERON:0000483 ! epithelium relationship: part_of UBERON:0000483 ! epithelium [Term] id: UBERON:0006761 name: corneo-scleral junction namespace: uberon def: "the edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm" [MP:0013477] comment: This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343 subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "cornea limbus" EXACT [] synonym: "corneal limbus" EXACT [GAID:896] synonym: "corneal limbus" EXACT [FMA:58342] synonym: "corneal-scleral limbus" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/17051547] synonym: "corneoscleral junction" EXACT [GAID:896] synonym: "limbus corneae" EXACT LATIN [http://en.wikipedia.org/wiki/Corneal_limbus] synonym: "limbus corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_limbus] synonym: "sclerocorneal junction" EXACT [FMA:58342] synonym: "sclerocorneal limbus" EXACT [GAID:896] xref: Corneal:limbus xref: EFO:0001403 xref: EMAPA:37835 {source="MA:th"} xref: FMA:58342 xref: GAID:896 xref: http://www.snomedbrowser.com/Codes/Details/63716004 xref: MESH:D016850 xref: ZFA:0005570 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0000964 ! cornea intersection_of: connects UBERON:0001773 ! sclera relationship: connects UBERON:0000964 ! cornea relationship: connects UBERON:0001773 ! sclera relationship: part_of UBERON:0000019 ! camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/3d/Limbus.png [Term] id: UBERON:0006876 name: vasculature of organ namespace: uberon def: "A vasculature that is part of a organ." [OBOL:automatic] subset: non_informative synonym: "organ vasculature" EXACT [FMA:74612] synonym: "set of blood vessels of organ" EXACT [FMA:74612] xref: FMA:74612 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000062 ! organ relationship: part_of UBERON:0000062 ! organ [Term] id: UBERON:0006904 name: head mesenchyme from mesoderm namespace: uberon def: "A head mesenchyme that develops_from a mesoderm." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "cranial mesoderm" RELATED [UBERON:0005280] synonym: "head mesenchyme derived from mesoderm" EXACT [] synonym: "head mesenchyme from head mesoderm" EXACT [EHDAA2:0001118] synonym: "head mesenchyme from mesoderm" EXACT [] synonym: "head mesoderm" RELATED [AAO:0011051, UBERON:0005280] synonym: "mesenchyme derived from head mesoderm" EXACT [EHDAA:1057] synonym: "mesenchyme from head mesoderm" EXACT [] xref: AAO:0011051 xref: EFO:0003337 xref: EFO:0003603 xref: EHDAA2:0001118 xref: EHDAA:655 xref: EMAPA:16099 xref: EMAPA_RETIRED:16270 xref: FMA:293859 xref: TAO:0000998 xref: VHOG:0000185 xref: XAO:0000053 xref: ZFA:0000998 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005253 {source="ZFA"} ! head mesenchyme intersection_of: UBERON:0005253 ! head mesenchyme intersection_of: develops_from UBERON:0000926 ! mesoderm relationship: develops_from UBERON:0003063 {source="EHDAA2", source="XAO"} ! prechordal plate property_value: editor_note "merged in 'head mesoderm' from XAO/AAO and EFO here. Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme" xsd:string [Term] id: UBERON:0006905 name: mandibular process mesenchyme namespace: uberon def: "Mesenchyme that is part of a mandibular prominence." [OBOL:automatic] synonym: "mesenchyme of mandibular process" EXACT [EMAPA:17357] synonym: "mesenchyme of mandibular prominence" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001062 xref: EHDAA:5861 xref: EHDAA:5873 xref: EMAPA:17357 is_a: UBERON:0005253 ! head mesenchyme is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005867 ! mandibular prominence relationship: part_of UBERON:0005867 ! mandibular prominence [Term] id: UBERON:0006909 name: lumen of digestive tract namespace: uberon def: "An anatomical space that surrounded_by a digestive tract." [OBOL:automatic] synonym: "digestive tract lumen" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "gut cavity" EXACT [BTO:0000349] synonym: "gut lumen" EXACT [FMA:45677] synonym: "lumen of alimentary tract" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "lumen of digestive tract" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "lumen of gut" EXACT [FMA:45677] xref: BTO:0000349 xref: EMAPA:32908 xref: FMA:45677 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001555 ! digestive tract relationship: luminal_space_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0006913 name: lip epithelium namespace: uberon def: "An epithelium that is part of a lip." [OBOL:automatic] xref: BTO:0004468 xref: TAO:0005334 xref: ZFA:0005334 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip property_value: external_definition "The thick, high squamous-stratified epithelium that covers the lips. It contains abundant melanocytes, many mucous cells and has well differentiated taste buds.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005334", ontology="TAO", source="ZFIN:ZDB-PUB-060921-12"} [Term] id: UBERON:0006914 name: squamous epithelium namespace: uberon def: "An epithelium characterised by its most superficial layer consisting of squamous epithelial cells." [http://en.wikipedia.org/wiki/Squamous_epithelium] xref: BTO:0002072 xref: http://linkedlifedata.com/resource/umls/id/C0221909 xref: http://www.snomedbrowser.com/Codes/Details/40118003 xref: NCIT:C12848 xref: Squamous:epithelium xref: UMLS:C0221909 {source="ncithesaurus:Squamous_Epithelium"} is_a: UBERON:0000483 ! epithelium property_value: external_ontology_notes "FBbt:00007028 (squamous epithelium) A type of epithelium that is made up of flattened cells which are arranged with their long axes in the plane of the epithelium" xsd:string {external_ontology="FBbt"} [Term] id: UBERON:0006965 name: vascular cord namespace: uberon def: "The vascular cord is the primordial vasculature that will develop into blood vessels by the process of tubulogenesis[GO]. The vascular cord is composed of angioblast or vascular endothelial cells in a solid linear mass called a cord. The cord then undergoes tubulogenesis to form the lumen of the vessels[ZFA]." [GO:0072360, ZFA:0005077] subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 is_a: BFO:0000002 ! continuant is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0014903 ! primordial vasculature [Term] id: UBERON:0006966 name: coronary capillary namespace: uberon def: "A capillary that is part of the coronary system." [http://orcid.org/0000-0002-6601-2165] synonym: "heart capillary" EXACT [GO:0003248] xref: ZFA:0005813 is_a: UBERON:0001982 ! capillary is_a: UBERON:0003498 ! heart blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0006984 name: anatomical surface namespace: uberon def: "A two dimensional anatomical structure that is the boundary between an anatomical structure and an anatomical substance, an anatomical space or the organism's environment. Examples include the surface of your skin, the surface of the lining of your gut; the surface of the endothelium of you aorta that is in contact with blood.n" [CARO:0001002] comment: Old definition: 'Non-material anatomical entity of two dimensions, that is demarcated by anatomical lines or points on the external or internal surfaces of anatomical structures.' Note, in the new definition, the space referred to is not necessarily an anatomical space. It may be the outside of an organism. subset: upper_level xref: BILA:0000010 xref: CARO:0001002 xref: EHDAA2_RETIRED:0003192 xref: FMA:24137 xref: http://linkedlifedata.com/resource/umls/id/C1515977 xref: NCIT:C34022 xref: UMLS:C1515977 {source="ncithesaurus:Anatomic_Surface"} is_a: UBERON:0010199 {notes="via morphological boundary in CARO"} ! bona-fide anatomical boundary [Term] id: UBERON:0007005 name: cardiogenic splanchnic mesoderm namespace: uberon def: "The splanchnic mesoderm in the cardiogenic region where the heart develops; it gives rise to endocardial heart tubes that fuse to form the primordial cardiac tube, the heart primordium[web]. Two migratory heart primordia that move ventrally during the course of neurulation, and then fuse[XAO]." [http://www.drugs.com/dict/cardiogenic-mesoderm.html, https://github.com/obophenotype/insect_neuroanatomy_ontology/issues/7, XAO:0000235] subset: efo_slim subset: pheno_slim synonym: "cardiac mesoderm" RELATED [XAO:0000235] synonym: "cardiogenic mesoderm" RELATED [http://www.drugs.com/dict/cardiogenic-mesoderm.html] synonym: "cardiogenic region" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cardiogenic splanchnopleure" EXACT [EHDAA2:0000214] synonym: "heart primordia" RELATED [XAO:0000235] xref: AAO:0011021 xref: BILA:0000051 xref: EFO:0000315 xref: EHDAA2:0000214 xref: EHDAA:385 xref: FMA:293143 xref: http://www.snomedbrowser.com/Codes/Details/360387000 xref: VHOG:0001641 xref: XAO:0000235 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: developmentally_induced_by UBERON:0009881 ! anterior lateral plate mesoderm relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: part_of UBERON:0004140 ! primary heart field relationship: part_of UBERON:0009881 ! anterior lateral plate mesoderm property_value: editor_note "consider FBbt:00005541 ! cardiogenic mesoderm" xsd:string property_value: editor_note "review EHDAA2 placement" xsd:string [Term] id: UBERON:0007010 name: cleaving embryo namespace: uberon def: "Organism at the cleavage stage." [OBOL:automatic] xref: BILA:0000058 is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000107 ! cleavage stage intersection_of: existence_starts_with UBERON:0000107 ! cleavage stage relationship: existence_ends_with UBERON:0000107 ! cleavage stage relationship: existence_starts_with UBERON:0000107 ! cleavage stage [Term] id: UBERON:0007026 name: presumptive gut namespace: uberon synonym: "embryonic digestive tube" RELATED [] synonym: "future digestive tract" EXACT [] synonym: "future digestive tube" EXACT [] synonym: "future gut" EXACT [] synonym: "primitive gut" EXACT [] synonym: "primordial digestive tube" RELATED [] synonym: "primordial gut" RELATED [] xref: BILA:0000084 xref: http://linkedlifedata.com/resource/umls/id/C1514442 xref: http://www.snomedbrowser.com/Codes/Details/360394002 xref: NCIT:C34268 xref: UMLS:C1514442 {source="ncithesaurus:Primordial_Gut"} is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001555 ! digestive tract relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: has_developmental_contribution_from UBERON:0000925 ! endoderm relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: has_potential_to_develop_into UBERON:0001555 ! digestive tract property_value: development_notes "The endodermal cells generate only the lining of the digestive tube and its glands; mesodermal mesenchyme cells will surround this tube to provide the muscles for peristalsis" xsd:string {source="NCBIBook:NBK10107"} [Term] id: UBERON:0007098 name: mandibular neural crest namespace: uberon def: "Cranial neural crest that migrates into the mandibular arch." [ZFA:0007064] xref: TAO:0007064 xref: XAO:0000024 xref: ZFA:0007064 is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest relationship: part_of UBERON:0003852 {source="ZFA"} ! rhombencephalon neural crest [Term] id: UBERON:0007100 name: primary circulatory organ namespace: uberon def: "A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]." [GO:0007507] comment: Gene notes: Bmp, Nkx, Gata subset: grouping_class synonym: "adult heart" RELATED [FBbt:00003154] synonym: "dorsal tube" NARROW [http://en.wikipedia.org/wiki/Heart] synonym: "heart" NARROW [GO:0007507] xref: FBbt:00003154 xref: http://www.sciencemag.org/content/313/5795/1922/F1.large.jpg xref: SPD:0000130 xref: TADS:0000147 is_a: UBERON:0015228 ! circulatory organ property_value: taxon_notes "note we reserve the subclass 'heart' from the vertebrate multi-chambered heart. 'The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian'. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis" xsd:string [Term] id: UBERON:0007135 name: neural keel namespace: uberon def: "An intermediate stage (between the neural plate and neural rod) during the early segmentation period in the morphogenesis of the central nervous system primordium; the keel is roughly triangular shaped in cross section." [ZFIN:ZDB-PUB-961014-576] subset: efo_slim synonym: "presumptive central nervous system" RELATED [ZFA:0000131] xref: EFO:0003497 xref: TAO:0000131 xref: ZFA:0000131 is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0003075 ! neural plate property_value: external_definition "An intermediate stage (between the neural plate and neural rod) during the early segmentation period in the morphogenesis of the central nervous system primordium; the keel is roughly triangular shaped in cross section. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000131", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007213 name: mesenchyme derived from head neural crest namespace: uberon def: "Mesenchyme that develops_from a cranial neural crest." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "head mesenchyme from cranial neural crest" EXACT [] synonym: "head mesenchyme from neural crest" EXACT [EHDAA2:0000735] synonym: "head neural crest derived mesenchyme" EXACT [] xref: EFO:0003572 xref: EHDAA2:0000735 xref: EMAPA:16169 xref: EMAPA:16271 xref: EMAPA_RETIRED:16271 xref: TAO:0000787 xref: ZFA:0000787 is_a: UBERON:0005253 {source="ZFA"} ! head mesenchyme is_a: UBERON:0014387 ! mesenchyme derived from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003099 ! cranial neural crest relationship: develops_from UBERON:0003099 ! cranial neural crest [Term] id: UBERON:0007237 name: 1st arch mandibular component namespace: uberon synonym: "ventral mandibular arch" RELATED [VHOG:0000510] synonym: "ventral pharyngeal arch 1" EXACT [VHOG:0000510] synonym: "ventral visceral arch 1" RELATED [VHOG:0000510] xref: EHDAA2:0000031 xref: EHDAA:583 xref: EMAPA:16382 xref: VHOG:0000510 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004362 {source="EHDAA2"} ! pharyngeal arch 1 property_value: editor_note "relationship to Meckel's cartilage to be added" xsd:string property_value: homology_notes "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000510", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0007239 name: tunica media of artery namespace: uberon def: "A tunica media that is part of a artery." [OBOL:automatic] synonym: "arterial media" EXACT [EV:0100029] synonym: "tunica media (arteriae)" EXACT [FMA:14273] xref: EMAPA:36294 xref: EV:0100029 xref: FMA:14273 xref: http://linkedlifedata.com/resource/umls/id/C1710627 xref: http://www.snomedbrowser.com/Codes/Details/84300001 xref: NCIT:C49321 xref: UMLS:C1710627 {source="ncithesaurus:Venous_System_Smooth_Muscle_Tissue"} is_a: UBERON:0002522 ! tunica media intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0007240 name: tunica adventitia of artery namespace: uberon def: "A tunica adventitia that is part of a artery." [OBOL:automatic] synonym: "arterial adventitia" EXACT [EV:0100030] synonym: "tunica externa (adventitia)(arteriae)" EXACT [FMA:14274] xref: EMAPA:36295 xref: EV:0100030 xref: FMA:14274 xref: http://www.snomedbrowser.com/Codes/Details/113261001 is_a: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0007241 name: tunica adventitia of vein namespace: uberon def: "A tunica adventitia that is part of a vein." [OBOL:automatic] synonym: "tunica externa (adventitia)(venae)" EXACT [FMA:14355] synonym: "venous adventitia" EXACT [EV:0100034] xref: EMAPA:36310 xref: EV:0100034 xref: FMA:14355 xref: http://www.snomedbrowser.com/Codes/Details/13202006 is_a: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007242 name: tunica intima of vein namespace: uberon def: "A tunica intima that is part of a vein." [OBOL:automatic] synonym: "tunica interna (intima)(venae)" EXACT [FMA:14353] synonym: "venous intima" EXACT [EV:0100032] xref: EMAPA:36308 xref: EV:0100032 xref: FMA:14353 xref: http://www.snomedbrowser.com/Codes/Details/2436009 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0004797 ! blood vessel layer intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007243 name: tunica media of vein namespace: uberon def: "A tunica media that is part of a vein." [OBOL:automatic] synonym: "tunica media (venae)" EXACT [FMA:14354] synonym: "venous media" EXACT [EV:0100033] xref: EMAPA:36309 xref: EV:0100033 xref: FMA:14354 xref: http://www.snomedbrowser.com/Codes/Details/42049001 is_a: UBERON:0002522 ! tunica media intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007277 name: presumptive hindbrain namespace: uberon def: "The rhombencephalon (or hindbrain) is a developmental categorization of portions of the central nervous system in vertebrates. The rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. In the human embryo eight rhombomeres can be distinguished, from caudal to rostral: Rh7-Rh1 and the isthmus (the most rostral rhombomere). A rare disease of the rhombencephalon, 'rhombencephalosynapsis' is characterized by a missing vermis resulting in a fused cerebellum. Patients generally present with cerebellar ataxia. The caudal rhombencephalon has been generally considered as the initiation site for neural tube closure." [http://en.wikipedia.org/wiki/Rhombencephalon] subset: efo_slim synonym: "embryonic rhombencephalon" RELATED [CALOHA:TS-2118] synonym: "future hindbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "presumptive rhombencephalon" EXACT [ZFA:0000569] synonym: "rhombencephalon" RELATED [EHDAA2:0001630] xref: BAMS:HB xref: CALOHA:TS-2118 xref: EFO:0003440 xref: EHDAA2:0001630 xref: FMA:295640 xref: http://en.wikipedia.org/wiki/Rhombencephalon xref: TAO:0000569 xref: ZFA:0000569 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0002028 ! hindbrain relationship: develops_from UBERON:0003076 {source="XAO-abduced"} ! posterior neural tube relationship: has_developmental_contribution_from UBERON:0003852 {source="cjm"} ! rhombencephalon neural crest relationship: has_potential_to_develop_into UBERON:0002028 ! hindbrain relationship: part_of UBERON:0006238 ! future brain property_value: editor_note "TODO - unify naming conventions" xsd:string property_value: external_definition "The embryonic rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. Rhombomeres Rh7-Rh4 form the myelencephalon that will give the medulla oblongata. Rhombomeres Rh3-Rh1 form the metencephalon that will form the pons and the cerebellum[NPX:PDR]." xsd:string {source="NPX:PDR"} [Term] id: UBERON:0007280 name: presumptive endocardium namespace: uberon def: "A presumptive structure that has the potential to develop into a endocardium." [OBOL:automatic] xref: TAO:0002233 xref: ZFA:0001724 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0002165 ! endocardium relationship: develops_from UBERON:0003084 ! heart primordium relationship: has_potential_to_develop_into UBERON:0002165 ! endocardium relationship: part_of UBERON:0005498 ! primitive heart tube property_value: external_definition "Portion of tissue that is part of the heart tube and will become the endocardium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002233", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007281 name: presumptive midbrain hindbrain boundary namespace: uberon def: "Embryonic structure that gives rise to the midbrain hindbrain boundary." [ZFA:0001187] subset: efo_slim synonym: "presumptive MHB" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "presumptive midbrain-hindbrain boundary" EXACT [ZFA:0001187] xref: EFO:0003446 xref: TAO:0001187 xref: XAO:0004086 xref: ZFA:0001187 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003052 ! midbrain-hindbrain boundary relationship: has_potential_to_develop_into UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of UBERON:0006238 {source="ZFA"} ! future brain [Term] id: UBERON:0007282 name: presumptive segmental plate namespace: uberon def: "A presumptive structure that has the potential to develop into a presomitic mesoderm." [OBOL:automatic] subset: efo_slim synonym: "presumptive segmental plates" RELATED PLURAL [ZFA:0000053] xref: EFO:0003421 xref: TAO:0000053 xref: ZFA:0000053 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003059 ! presomitic mesoderm relationship: develops_from UBERON:0009618 {consistent_with="https://github.com/obophenotype/uberon/wiki/The-neural-crest", source="EDHAA2"} ! trunk paraxial mesoderm relationship: has_potential_to_develop_into UBERON:0003059 ! presomitic mesoderm [Term] id: UBERON:0007284 name: presumptive neural plate namespace: uberon def: "A presumptive structure that has the potential to develop into a neural plate." [OBOL:automatic] subset: efo_slim synonym: "prospective neuroectoderm" EXACT [ZFA:0000063] synonym: "prospective vegetal ectoderm" EXACT [ZFA:0000063] xref: EFO:0003424 xref: TAO:0000063 xref: ZFA:0000063 is_a: UBERON:0016879 ! future central nervous system intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003075 ! neural plate relationship: develops_from UBERON:0002346 ! neurectoderm relationship: has_potential_to_develop_into UBERON:0003075 ! neural plate relationship: part_of UBERON:0004734 ! gastrula property_value: editor_note "consider merging" xsd:string property_value: external_definition "Region of the gastrula which gives rise to the neural plate.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000063", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007285 name: presumptive paraxial mesoderm namespace: uberon def: "The part of the blastula that has the potential to develop into a paraxial mesoderm." [https://github.com/obophenotype/uberon/issues/1277, UBERON:cjm] subset: efo_slim synonym: "future paraxial mesenchyme" EXACT [UBERON:cjm] synonym: "future paraxial mesoderm" EXACT [] xref: EFO:0003443 xref: TAO:0000591 xref: XAO:0004134 xref: ZFA:0000591 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 {source="https://github.com/obophenotype/uberon/issues/1277"} ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003077 {source="https://github.com/obophenotype/uberon/issues/1277"} ! paraxial mesoderm intersection_of: part_of UBERON:0000307 {source="https://github.com/obophenotype/uberon/issues/1277"} ! blastula relationship: has_potential_to_develop_into UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0007303 name: pharyngeal vasculature namespace: uberon def: "A vasculature that is part of a chordate pharynx." [OBOL:automatic] synonym: "branchial vasculature" EXACT [ZFA:0005003] xref: TAO:0005003 xref: ZFA:0005003 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0007376 name: outer epithelium namespace: uberon def: "The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]." [GO:0008544] subset: grouping_class synonym: "epidermis" EXACT [GO:0008544] synonym: "epidermis (sensu Metazoa)" EXACT [] synonym: "hypoderm" RELATED INCONSISTENT [BTO:0000313] synonym: "hypodermis" RELATED INCONSISTENT [GO:0008544, WBbt:0005733] synonym: "outer epidermal layer" EXACT [] synonym: "outer epithelial layer" EXACT [] xref: BSA:0000073 xref: BTO:0000313 xref: Epidermis:(zoology) xref: FBbt:00004993 xref: HAO:0000298 xref: TADS:0000109 xref: WBbt:0005733 is_a: BFO:0000040 ! material entity is_a: UBERON:0003102 ! surface structure is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: bounding_layer_of UBERON:0000468 ! multicellular organism intersection_of: develops_from UBERON:0007383 ! enveloping layer of ectoderm relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: develops_from UBERON:0007383 ! enveloping layer of ectoderm property_value: editor_note "this grouping class exists primarily to align with GO - see GO:0008544." xsd:string [Term] id: UBERON:0007377 name: stratum compactum of dermis namespace: uberon def: "Portion of the dermis characterized by a well-arranged, plywood-like, collagenous network." [ISBN10:0073040584, ZFIN:ZDB-PUB-040726-12] synonym: "dermal deep region" EXACT [ZFA:0001182] synonym: "stratum compactum" EXACT [AAO:0010600] xref: AAO:0010600 xref: TAO:0001182 xref: ZFA:0001182 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer relationship: part_of UBERON:0002067 ! dermis property_value: axiom_lost_from_external_ontology "relationship loss: develops_from collagenous dermal stroma (TAO:0001186)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001182", ontology="TAO"} property_value: external_definition "Portion of the dermis characterized by a well-arranged, plywood-like, collagenous network. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001182", ontology="TAO", source="ZFIN:curator"} property_value: structure_notes "connective tissue in the skin is usually diffuse and irregular, although in some species collagen bundles are arranged in a distinct ordered layer in the dermis" xsd:string [Term] id: UBERON:0007383 name: enveloping layer of ectoderm namespace: uberon def: "Outermost layer of cells surrounding the embryo." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "enveloping layer" EXACT [ZFIN:ZDB-PUB-961014-576] synonym: "EVL" EXACT [ZFA:0000086] xref: EFO:0003425 xref: TAO:0000086 xref: ZFA:0000086 is_a: BFO:0000040 ! material entity is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: bounding_layer_of UBERON:0000922 ! embryo relationship: develops_from UBERON:0000076 ! external ectoderm property_value: axiom_lost_from_external_ontology "relationship loss: develops_from superficial blastomere (TAO:0001484)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000086", ontology="TAO"} property_value: external_definition "Outermost monolayer of cells surrounding the embryo that become very flattened in the blastula and give rise to the periderm. Sometimes used synonymously with periderm. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000086", ontology="TAO", source="ZFIN:curator"} property_value: taxon_notes "Originally this tissue is one cell layer thick but in most vertebrates it soon becomes a two layered structure. The outer layer gives rise to the periderm." xsd:string [Term] id: UBERON:0007473 name: lumen of epithelial sac namespace: uberon alt_id: EHDAA2:0003079 def: "The space within an epithelial sphere." [AEO:JB] synonym: "cavity of vesicle" EXACT [AEO:0000079] xref: AEO:0000079 is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0012467 ! enclosed anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0007499 ! epithelial sac relationship: luminal_space_of UBERON:0007499 ! epithelial sac relationship: part_of UBERON:0007499 ! epithelial sac [Term] id: UBERON:0007499 name: epithelial sac namespace: uberon def: "An epithelial tube that is open at one end only." [AEO:JB, UBERONREF:0000001] xref: AEO:0000115 xref: EHDAA2:0003115 is_a: UBERON:0003914 {source="AEO"} ! epithelial tube is_a: UBERON:0009856 ! sac [Term] id: UBERON:0007500 name: epithelial tube open at both ends namespace: uberon def: "An epithelial tube open at both ends that allows fluid flow." [AEO:JB, UBERONREF:0000001] xref: AEO_RETIRED:0000116 xref: RETIRED_EHDAA2:0003116 is_a: UBERON:0003914 {source="AEO"} ! epithelial tube [Term] id: UBERON:0007503 name: epithelial vesicle namespace: uberon alt_id: EHDAA2:0003119 def: "A closed epithelium with a lumen." [AEO:JB] xref: AEO:0000119 xref: EHDAA2:0003119 is_a: UBERON:0000483 {source="AEO"} ! epithelium [Term] id: UBERON:0007524 name: dense mesenchyme tissue namespace: uberon alt_id: EHDAA2:0003146 def: "Mesenchyme with little extracellular matrix." [AEO:JB] xref: AEO:0000146 xref: EHDAA2:0003146 is_a: UBERON:0003104 {source="AEO"} ! mesenchyme [Term] id: UBERON:0007530 name: migrating mesenchyme population namespace: uberon alt_id: EHDAA2:0003152 def: "Mesenchymal cells that are migrating." [AEO:JB] xref: AEO:0000152 xref: EHDAA2:0003152 is_a: UBERON:0003104 ! mesenchyme property_value: editor_note "this class will be an important part of the NC reorganization" xsd:string [Term] id: UBERON:0007592 name: ciliated columnar epithelium namespace: uberon def: "Simple columnar epithelium in which the luminal side of the cells bears cilia. Examples: epithelium of trachea, epithelium of uterine tube.[FMA]" [FMA:64798] xref: FMA:64798 is_a: UBERON:0000485 {source="FMA"} ! simple columnar epithelium is_a: UBERON:0007601 ! ciliated epithelium property_value: function_notes "Ciliated columnar epithelium in the pulmonary system is interspersed with goblet cells that secrete mucous to form a mucosal layer apical to the epithelial layer. The rowing-like action of epithelial cilia work in tandem with goblet cells to propel mucus away from the lungs, preventing particulate matter from causing infection[http://www.bio.davidson.edu/people/kabernd/berndcv/lab/epithelialinfoweb/ciliated%20columnar%20epithelium.html]" xsd:string property_value: taxon_notes "In humans, Ciliated columnar epithelial cells are found mainly in the tracheal and bronchial regions of the pulmonary system and also in the fallopian tubes of the female reproductive system" xsd:string [Term] id: UBERON:0007601 name: ciliated epithelium namespace: uberon def: "Epithelium bearing vibratile cilia on the free surface." [http://medical-dictionary.thefreedictionary.com/ciliated+epithelium] is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0007616 name: layer of synovial tissue namespace: uberon def: "A thin, loose vascular connective tissue that makes up the membranes surrounding joints and the sheaths protecting tendons (particularly flexor tendons in the hands and feet) where they pass over bony prominences. Synovial tissue contains synovial cells, which secrete a viscous liquid called synovial fluid; this liquid contains protein and hyaluronic acid and serves as a lubricant and nutrient for the joint cartilage surfaces[BTO]. Synovial tissue can be found in tendons (tissues that connect muscle to bone), bursae (fluid-filled, cushioning sacs found in spaces between tendons, ligaments, and bones), and the cavity (hollow enclosed area) that separates the bones of a freely movable joint, such as the knee or elbow[BTO]." [BTO:0001338, http://www.britannica.com/EBchecked/topic/578563/synovial-tissue] synonym: "stratum synoviale" NARROW [FMA:TA] synonym: "synovial layer" NARROW [FMA:66762] synonym: "synovial membrane" NARROW [FMA:66762] synonym: "synovial tissue" RELATED [BTO:0001338] synonym: "synovium" EXACT [CALOHA:TS-0998] xref: BTO:0001338 xref: CALOHA:TS-0998 xref: FMA:66762 is_a: BFO:0000040 ! material entity is_a: UBERON:0000042 ! serous membrane intersection_of: UBERON:0000042 ! serous membrane intersection_of: produces UBERON:0001090 ! synovial fluid relationship: composed_primarily_of UBERON:0002384 {source="BTO"} ! connective tissue relationship: produces UBERON:0001090 ! synovial fluid [Term] id: UBERON:0007617 name: synovial cavity of joint namespace: uberon def: "An anatomical cavity that surrounded_by a synovial joint." [OBOL:automatic] synonym: "articular cavity (synovial joint)" EXACT [FMA:11356] synonym: "cavitas articularis (junctura synovialis)" EXACT [FMA:11356] synonym: "cavity of synovial joint" EXACT [FMA:11356] synonym: "joint cavity" RELATED [FMA:11356] synonym: "synovial cavity" RELATED [FMA:11356] xref: FMA:11356 is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002217 ! synovial joint relationship: luminal_space_of UBERON:0002217 ! synovial joint relationship: part_of UBERON:0002217 ! synovial joint [Term] id: UBERON:0007625 name: pigment epithelium of eye namespace: uberon def: "epithelial layer of the retina, ciliary body, or iris composed of cells containing pigment granules." [MP:0005200] subset: pheno_slim synonym: "eye pigment epithelium" RELATED [MESH:A09.371.670] xref: GAID:907 xref: MESH:D010857 is_a: UBERON:0019304 ! sensory organ epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0000970 ! eye [Term] id: UBERON:0007651 name: anatomical junction namespace: uberon def: "An anatomical structure that connects two structures" [http://code.google.com/p/caro2/issues/detail?id=15] subset: upper_level synonym: "anatomical junction" EXACT [] synonym: "junction" BROAD [] xref: FMA:5898 xref: http://www.snomedbrowser.com/Codes/Details/91833003 is_a: UBERON:0000061 {source="FMA"} ! anatomical structure relationship: connects UBERON:0000061 {minCardinality="2"} ! anatomical structure [Term] id: UBERON:0007688 name: anlage namespace: uberon def: "Anlagen are populations of contiguous cells, typically arranged in one plane, that are morphologically indistinct, but that already correspond in extent to a later organ/tissue." [FBbt:00005426, http://flybase.org/reports/FBrf0178740.html, JB:DEF] subset: efo_slim synonym: "developmental field" EXACT [] synonym: "field" BROAD [] synonym: "future organ" RELATED [] synonym: "organ field" RELATED [] xref: AEO:0000170 xref: Anlage:(biology) xref: EFO:0001649 xref: EHDAA2:0003170 xref: FBbt:00005426 is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure [Term] id: UBERON:0007690 name: early pharyngeal endoderm namespace: uberon def: "." [http://dev.biologists.org/content/128/22/4573.full] comment: relation conflict: ZFA vs EHDAA2. Note EHDAA2 term renamed to 'early PA endoderm' subset: efo_slim synonym: "early pharyngeal arch endoderm" EXACT [EHDAA2:0001457] synonym: "pharyngeal arch endoderm" RELATED [] synonym: "pharyngeal endoderm" RELATED [ZFA:0001104] synonym: "pharyngeal region endoderm" RELATED [EHDAA2:0001456] xref: EFO:0003626 xref: EHDAA2:0001457 xref: EHDAA:962 xref: EMAPA:32754 xref: FMA:293087 xref: TAO:0001104 xref: ZFA:0001104 is_a: UBERON:0003258 ! endoderm of foregut is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0009722 {source="cjm"} ! entire pharyngeal arch endoderm [Term] id: UBERON:0007771 name: epidermis gland namespace: uberon def: "A gland that is part of a epidermis." [OBOL:automatic] subset: grouping_class synonym: "epidermal gland" EXACT [] synonym: "gland of epidermis" EXACT [FMA:59153] xref: FMA:59153 is_a: UBERON:0002419 ! skin gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001003 ! skin epidermis relationship: part_of UBERON:0001003 ! skin epidermis [Term] id: UBERON:0007779 name: transudate namespace: uberon def: "Any bodily fluid that has passed through a membrane such as the capillary wall, as a result of unbalanced hydrostatic and osmotic forces" [http://medical-dictionary.thefreedictionary.com/transudate] synonym: "plasma ultrafiltrate" RELATED [] xref: FMA:12276 xref: GAID:1195 xref: MESH:D005122 xref: ncithesaurus:Transudate is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006314 ! bodily fluid relationship: develops_from UBERON:0001969 ! blood plasma relationship: filtered_through UBERON:0001982 ! capillary relationship: transformation_of UBERON:0001969 ! blood plasma property_value: has_relational_adjective "transudative" xsd:string property_value: structure_notes "characteristically low in protein and cellular content (unless there has been secondary concentration)" xsd:string [Term] id: UBERON:0007794 name: secretion of serous gland namespace: uberon def: "Any fluid produced by a serous gland." [UBERON:cjm] synonym: "serosal fluid" EXACT [http://en.wikipedia.org/wiki/Serous_fluid] synonym: "serous fluid" BROAD [] synonym: "serous gland fluid" EXACT [] xref: Serous:fluid is_a: UBERON:0000456 ! secretion of exocrine gland is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: produced_by UBERON:0000409 ! serous gland relationship: produced_by UBERON:0000409 ! serous gland [Term] id: UBERON:0007798 name: vascular system namespace: uberon def: "Anatomical system that consists of all blood and lymph vessels." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "Gefaesssystem@de" RELATED [BTO:0001085] xref: BTO:0001085 xref: CALOHA:TS-2053 xref: EHDAA2:0004520 xref: EMAPA:35905 xref: http://linkedlifedata.com/resource/umls/id/C0489903 xref: MA:0002718 xref: NCIT:C33854 xref: UMLS:C0489903 {source="ncithesaurus:Vascular_System"} is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0004535 {source="MA"} ! cardiovascular system property_value: editor_note "consider merging with vasculature" xsd:string property_value: external_definition "The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]." xsd:string {source="ncithesaurus:Vascular_System"} property_value: external_ontology_notes "in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system" xsd:string {external_ontology="MA"} [Term] id: UBERON:0007811 name: craniocervical region namespace: uberon def: "The anteriormost subdivision of the body that includes the head, jaws, pharyngeal region and the neck (if present). In vertebrates this is the subdivision that includes the cervical vertebrae." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "cephalic area" RELATED [https://github.com/obophenotype/uberon/issues/379] synonym: "cephalic part of animal" RELATED [http://en.wikipedia.org/wiki/Head] synonym: "cephalic region" RELATED [https://github.com/obophenotype/uberon/issues/379] synonym: "head and neck" RELATED [FMA:280881] synonym: "head or neck" RELATED [] xref: CALOHA:TS-2356 xref: EV:0100009 xref: FMA:280881 xref: galen:HeadAndNeck xref: http://linkedlifedata.com/resource/umls/id/C0460004 xref: http://www.snomedbrowser.com/Codes/Details/361355005 xref: MA:0000006 xref: NCIT:C12418 xref: UMLS:C0460004 {source="ncithesaurus:Head_and_Neck"} xref: WikipediaCategory:Head_and_neck is_a: UBERON:0000475 {source="MA"} ! organism subdivision relationship: has_part UBERON:0000033 ! head relationship: has_part UBERON:0006562 ! pharynx relationship: part_of UBERON:0000153 ! anterior region of body relationship: part_of UBERON:0013702 ! body proper [Term] id: UBERON:0008229 name: craniocervical region musculature namespace: uberon def: "Musculature system of the pharyngeal and head regions." [ZFA:0000328, ZFA:curator] synonym: "head muscles" RELATED [ZFA:0000328] synonym: "head or neck muscle" EXACT [MA:0000571] synonym: "head or neck muscle" RELATED [MA:0000571] xref: EMAPA:37259 {source="MA:th"} xref: MA:0000571 xref: TAO:0000328 xref: ZFA:0000328 is_a: UBERON:0001015 {source="MA"} ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 {source="MA"} ! craniocervical region property_value: external_ontology_notes "in MA this is restricted to skeletal muscles" xsd:string {external_ontology="MA"} [Term] id: UBERON:0008307 name: heart endothelium namespace: uberon def: "An endothelium that is part of a heart [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac endothelium" RELATED [BTO:0004293] xref: BTO:0004293 is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: curator_notes "this class includes any endothelia that are part of the heart. This might include the endocardial epithelia, as well as endothelia of vessels that are considered strictly part of the heart (e.g. outflow tract). As a grouping class, this may lack utility, and pending review this class may be obsoleted. For annotation consider a more specific class." xsd:string [Term] id: UBERON:0008814 name: pharyngeal arch system namespace: uberon def: "A transient embryonic complex that comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming, which may include (depending on species) the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear[GO,modified]." [GO:0060037, GOC:dph] synonym: "embryonic pharyngeal complex" EXACT [] synonym: "pharyngeal apparatus" EXACT [] synonym: "pharyngeal arch complex" RELATED [] synonym: "pharyngeal arch region" RELATED [EHDAA2:0000187] synonym: "pharyngeal arches and clefts" RELATED [] synonym: "pharyngeal complex" RELATED [] synonym: "pharyngeal system" EXACT [GO:0060037] xref: EHDAA2:0000187 xref: FMA:293041 xref: http://linkedlifedata.com/resource/umls/id/C1519038 xref: NCIT:C34248 xref: UMLS:C1519038 {source="ncithesaurus:Pharyngeal_Apparatus"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0009145 ! pharyngeal region of foregut property_value: editor_note "Currently defined in a vertebrate specific manner. The arch system has origins in basal deuterostomes, consider generalizing" xsd:string [Term] id: UBERON:0008816 name: embryonic head namespace: uberon def: "A head that is part of a embryo." [OBOL:automatic] subset: non_informative xref: CALOHA:TS-0246 xref: FBbt:00000155 xref: FMA:293011 is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0008823 name: neural tube derived brain namespace: uberon def: "A brain that develops_from a neural tube." [https://github.com/obophenotype/uberon/issues/338, OBOL:automatic] synonym: "vertebrate brain" NARROW [] is_a: UBERON:0000489 {source="ZFA"} ! cavitated compound organ is_a: UBERON:0000955 ! brain intersection_of: UBERON:0000955 ! brain intersection_of: develops_from UBERON:0001049 ! neural tube relationship: develops_from UBERON:0001049 ! neural tube relationship: part_of UBERON:0000033 {source="FMA"} ! head property_value: editor_note "a reasoner should automatically classify all the vertebrate ontology brain classes here" xsd:string property_value: seeAlso https://github.com/obophenotype/uberon/issues/338 [Term] id: UBERON:0008886 name: pulmonary vascular system namespace: uberon def: "The part of the cardiovascular system consisting of all pulmonary arteries and all pulmonary veins." [http://en.wikipedia.org/wiki/Pulmonary_circulation, ISBN10:0073040584] synonym: "pulmonary circulatory system" EXACT [FMA:45621] synonym: "pulmonary system" EXACT [ISBN10:0073040584] xref: FMA:45621 xref: Pulmonary:circulation is_a: UBERON:0007798 {source="Obol"} ! vascular system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0002012 ! pulmonary artery relationship: has_part UBERON:0002016 ! pulmonary vein property_value: external_definition "Subdivision of cardiovascular system which has as its parts the pulmonary arterial and venous tree organs.[FMA]" xsd:string {ontology="FMA", source="FMA:45621"} [Term] id: UBERON:0008895 name: splanchnocranium namespace: uberon def: "Subdivision of endoskeleton derived from pharyngeal arches" [http://en.wikipedia.org/wiki/Facial_skeleton, https://orcid.org/0000-0002-6601-2165, ISBN10:0073040584] synonym: "branchial arch skeleton" RELATED [] synonym: "gill arch skeleton" RELATED [] synonym: "pharyngeal arch" RELATED INCONSISTENT [VSAO:0000149] synonym: "pharyngeal arch skeleton" RELATED [ZFA:0001216] synonym: "pharyngeal endoskeleton" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "pharyngeal skeleton" RELATED [ZFA:0001216] synonym: "visceral cranium" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "visceral skeletal system" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "visceral skeleton" RELATED [UBERONREF:0000007] synonym: "viscerocranium" EXACT INCONSISTENT [http://en.wikipedia.org/wiki/Viscerocranium, VHOG:0000315, ZFA:0001216] xref: AAO:0010157 xref: Facial:skeleton xref: TAO:0001216 xref: VHOG:0000315 xref: VSAO:0000149 xref: XAO:0003176 xref: ZFA:0001216 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system disjoint_from: UBERON:0011156 ! facial skeleton relationship: develops_from UBERON:0002539 {source="https://github.com/obophenotype/uberon/issues/83"} ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003099 {notes="redundant", source="http://www.ncbi.nlm.nih.gov/pubmed/11237469", source="Grays"} ! cranial neural crest property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg property_value: external_definition "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001216", ontology="TAO", source="ZFIN:curator"} property_value: external_definition "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010157", ontology="AAO", source="AAO:EJS"} property_value: external_definition "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: external_ontology_notes "many sources define this as the part of the endoskeletal that is from pharyngeal arches - this would make it part-disjoint from dermatocranium. However, there are many bones in AOs that have part-paths to both" xsd:string property_value: external_ontology_notes "VSAO labels this term 'pharyngeal arch' (2012-06-01) - however, it clearly means pharyngeal arch skeleton." xsd:string {external_ontology="VSAO"} property_value: homology_notes "The skull of ancestral tetrapods has the three basic components that we have been considering: (1) chondrocranium, (2) splanchnocranium, and (3) dermatocranium (reference 1); Each part of the skull arises from a separate phylogenetic source. The most ancient part is the splanchnocranium (visceral cranium), which first arose to support pharyngeal slits in protochordates (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.242, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.235"} [Term] id: UBERON:0008947 name: respiratory primordium namespace: uberon xref: EHDAA2:0004069 xref: http://linkedlifedata.com/resource/umls/id/C1514898 xref: NCIT:C34283 xref: UMLS:C1514898 {source="ncithesaurus:Respiratory_Primordium"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: has_potential_to_develop_into UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0008998 name: vasculature of brain namespace: uberon alt_id: UBERON:0005284 def: "System pertaining to blood vessels in the brain." [BTO:0003840] subset: efo_slim synonym: "brain vasculature" EXACT [] synonym: "cerebrovascular system" EXACT [BTO:0003840] synonym: "intracerebral vasculature" EXACT [FMA:61935] xref: BTO:0003840 xref: EFO:0003491 xref: EMAPA:35186 xref: FMA:242007 xref: FMA:61935 xref: http://www.snomedbrowser.com/Codes/Details/362029003 xref: TAO:0000099 xref: ZFA:0000099 is_a: UBERON:0006876 ! vasculature of organ is_a: UBERON:0036303 ! vasculature of central nervous system relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0009030 name: left pulmonary vein namespace: uberon def: "Vein that drains left lung and returns blood to the heart." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:37165 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226670 xref: http://www.snomedbrowser.com/Codes/Details/304057004 xref: MA:0002207 xref: NCIT:C48946 xref: UMLS:C0226670 {source="ncithesaurus:Left_Pulmonary_Vein"} is_a: UBERON:0002016 ! pulmonary vein intersection_of: UBERON:0002016 ! pulmonary vein intersection_of: drains UBERON:0002168 ! left lung relationship: drains UBERON:0002168 ! left lung property_value: external_definition "A vein that returns oxygenated blood from the left lung to the left atrium of the heart[ncithesaurus:Left_Pulmonary_Vein]." xsd:string {source="ncithesaurus:Left_Pulmonary_Vein"} [Term] id: UBERON:0009032 name: right pulmonary vein namespace: uberon def: "Vein that drains right lung and returns blood to the heart." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:37379 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226669 xref: http://www.snomedbrowser.com/Codes/Details/304056008 xref: MA:0002208 xref: NCIT:C48947 xref: UMLS:C0226669 {source="ncithesaurus:Right_Pulmonary_Vein"} is_a: UBERON:0002016 ! pulmonary vein intersection_of: UBERON:0002016 ! pulmonary vein intersection_of: drains UBERON:0002167 ! right lung relationship: drains UBERON:0002167 ! right lung property_value: external_definition "A vein that returns oxygenated blood from the right lung to the left atrium of the heart[ncithesaurus:Right_Pulmonary_Vein]." xsd:string {source="ncithesaurus:Right_Pulmonary_Vein"} [Term] id: UBERON:0009141 name: craniocervical region vein namespace: uberon def: "A vein that is part of a craniocervical region." [OBOL:automatic] synonym: "craniocervical vein" EXACT [] synonym: "head and neck veins" EXACT [EHDAA2:0004542] synonym: "vein of head and neck" EXACT [] xref: EHDAA2:0004542 xref: http://www.snomedbrowser.com/Codes/Details/32945007 is_a: UBERON:0013140 ! systemic vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: UBERON:0009142 name: entire embryonic mesenchyme namespace: uberon alt_id: UBERON:0003313 def: "Sum total of mesenchyme in the embryo." [https://github.com/obophenotype/human-developmental-anatomy-ontology/issues/7] xref: EHDAA2:0001113 xref: EHDAA:177 xref: EMAPA:16097 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000477 ! anatomical cluster relationship: composed_primarily_of UBERON:0003104 ! mesenchyme relationship: has_developmental_contribution_from UBERON:0000926 {source="EHDAA2"} ! mesoderm relationship: part_of UBERON:0000922 ! embryo property_value: editor_note "consider adding new class (EMAPA:16097) for mesenchyme of embryo (some mesenchyme is extraembryonic - e.g. amnion mesoderm)" xsd:string [Term] id: UBERON:0009145 name: pharyngeal region of foregut namespace: uberon synonym: "pharyngeal region" EXACT [EMAPA:16549] xref: EMAPA:16549 xref: RETIRED_EHDAA2:0001454 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0001041 {source="EHDAA2"} ! foregut [Term] id: UBERON:0009479 name: ectoderm of buccopharyngeal membrane namespace: uberon def: "An ectoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA2:0000190 xref: EMAPA:16260 is_a: UBERON:0000924 ! ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane relationship: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009480 name: endoderm of buccopharyngeal membrane namespace: uberon def: "An endoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA2:0000191 xref: EMAPA:16261 is_a: UBERON:0000925 ! endoderm intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane relationship: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009494 name: pharyngeal arch mesenchymal region namespace: uberon def: "A portion of mesenchymal tissue associated with an individual pharyngeal arch." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "branchial arch mesenchyme" EXACT [MP:0011262] synonym: "pharyngeal arch mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:32755 xref: FMA:295694 is_a: UBERON:0005253 ! head mesenchyme is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002539 ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003099 {source="cjm"} ! cranial neural crest relationship: part_of UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme property_value: editor_note "this represents a part of the entire arch mesenchyme (UBERON:0010046), and is therefore a superclass of the individual arch mesenchyme classes. Alternate definition: primordial embryonic connective tissue associated with the branchial arches, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to facial and cranial nerve-associated structures." xsd:string {source="MP:0011262"} [Term] id: UBERON:0009569 name: subdivision of trunk namespace: uberon subset: non_informative synonym: "region of trunk" EXACT [FMA:25054] synonym: "trunk subdivision" EXACT [FMA:25054] xref: FMA:25054 xref: http://www.snomedbrowser.com/Codes/Details/22943007 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0009581 name: midbrain mantle layer namespace: uberon synonym: "mantle layer lateral wall mesencephalon" RELATED [VHOG:0000910] synonym: "mantle layer lateral wall midbrain" EXACT [VHOG:0000910] synonym: "midbrain lateral wall mantle layer" EXACT [] xref: EHDAA2:0001172 xref: EMAPA:16977 xref: VHOG:0000910 is_a: UBERON:0004061 ! neural tube mantle layer intersection_of: UBERON:0004061 ! neural tube mantle layer intersection_of: part_of UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: UBERON:0009583 name: spinal cord mantle layer namespace: uberon synonym: "mantle layer lateral wall spinal cord" EXACT [VHOG:0000911] synonym: "spinal cord lateral wall mantle layer" EXACT [] xref: EMAPA:17580 xref: VHOG:0000911 is_a: UBERON:0004061 ! neural tube mantle layer intersection_of: UBERON:0004061 ! neural tube mantle layer intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0009584 name: 1st arch mandibular mesenchyme namespace: uberon alt_id: UBERON:0010043 def: "Mesenchyme that is part of a 1st arch mandibular component." [OBOL:automatic] synonym: "mandibular component mesenchyme" RELATED [] synonym: "mandibular mesenchyme" RELATED [] synonym: "mesenchymal region of mandibular component of first pharyngeal arch" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "mesenchyme of mandibular component" EXACT [EMAPA:16385] xref: EHDAA2:0000034 xref: EMAPA:16385 is_a: UBERON:0010042 ! 1st arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0007237 ! 1st arch mandibular component relationship: part_of UBERON:0007237 {source="EMAPA"} ! 1st arch mandibular component [Term] id: UBERON:0009602 name: left lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing left lung." [OBOL:automatic] synonym: "left lung mesenchyme" EXACT [EMAPA:17654] xref: EHDAA2:0000944 xref: EMAPA:16730 xref: EMAPA:17654 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002168 ! left lung relationship: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0009603 name: right lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing right lung." [OBOL:automatic] synonym: "right lung mesenchyme" EXACT [EMAPA:17662] xref: EHDAA2:0001739 xref: EMAPA:17662 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002167 ! right lung relationship: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0009611 name: midbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive midbrain." [OBOL:automatic] xref: TAO:0007019 xref: ZFA:0007019 is_a: UBERON:0003075 ! neural plate intersection_of: UBERON:0003075 {source="ZFA"} ! neural plate intersection_of: develops_from UBERON:0009616 {source="ZFA"} ! presumptive midbrain relationship: develops_from UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0003056 {source="ZFA"} ! pre-chordal neural plate [Term] id: UBERON:0009614 name: hindbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive hindbrain." [OBOL:automatic] xref: TAO:0007022 xref: ZFA:0007022 is_a: UBERON:0003075 ! neural plate is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003075 {source="ZFA"} ! neural plate intersection_of: develops_from UBERON:0007277 {source="ZFA"} ! presumptive hindbrain relationship: develops_from UBERON:0007277 ! presumptive hindbrain relationship: part_of UBERON:0003057 {source="ZFA"} ! chordal neural plate [Term] id: UBERON:0009615 name: midbrain hindbrain boundary neural plate namespace: uberon synonym: "MHB neural plate" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "midbrain-hindbrain boundary neural plate" EXACT [ZFA:0007044] xref: TAO:0007044 xref: ZFA:0007044 is_a: UBERON:0006598 ! presumptive structure relationship: develops_from UBERON:0007281 ! presumptive midbrain hindbrain boundary relationship: immediate_transformation_of UBERON:0007281 {notes="https://github.com/obophenotype/uberon/issues/438", source="Bgee:AN"} ! presumptive midbrain hindbrain boundary relationship: part_of UBERON:0003075 {source="ZFA"} ! neural plate property_value: editor_note "TODO - developmental relationships for lines" xsd:string [Term] id: UBERON:0009616 name: presumptive midbrain namespace: uberon def: "A presumptive structure that has the potential to develop into a midbrain." [OBOL:automatic] subset: efo_slim synonym: "early midbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "future midbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "mesencephalon" RELATED [EHDAA2:0000615] synonym: "presumptive mesencephalon" EXACT [ZFA:0000148] xref: BAMS:MES xref: EFO:0003432 xref: EHDAA2:0000615 xref: EMAPA:16140 xref: http://en.wikipedia.org/wiki/Mesencephalon xref: TAO:0000148 xref: ZFA:0000148 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001891 ! midbrain relationship: develops_from UBERON:0003080 ! anterior neural tube relationship: develops_from UBERON:0010286 {source="ZFA"} ! midbrain neural tube relationship: has_potential_to_develop_into UBERON:0001891 ! midbrain relationship: part_of UBERON:0006238 {source="ZFA"} ! future brain property_value: editor_note "TODO - unify naming conventions" xsd:string [Term] id: UBERON:0009618 name: trunk paraxial mesoderm namespace: uberon synonym: "trunk and cervical paraxial mesenchyme" EXACT [EHDAA2:0002094] synonym: "trunk paraxial mesenchyme" RELATED [https://github.com/obophenotype/uberon/issues/30] xref: EHDAA2:0002094 is_a: UBERON:0005256 ! trunk mesenchyme relationship: part_of UBERON:0003077 ! paraxial mesoderm [Term] id: UBERON:0009657 name: artery of lip namespace: uberon synonym: "labial artery" EXACT [MA:0001987] xref: EMAPA:37092 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1708633 xref: MA:0001987 xref: NCIT:C52947 xref: UMLS:C1708633 {source="ncithesaurus:Labial_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001833 ! lip relationship: supplies UBERON:0001833 ! lip [Term] id: UBERON:0009715 name: stomodeal lumen namespace: uberon def: "An anatomical cavity that surrounded_by a stomodeum." [OBOL:automatic] synonym: "lumen of stomatodaeum" EXACT [] synonym: "lumen of stomodeum" EXACT [] synonym: "stomatodeal cavity" EXACT [] is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000930 ! stomodeum relationship: luminal_space_of UBERON:0000930 ! stomodeum relationship: part_of UBERON:0000930 ! stomodeum [Term] id: UBERON:0009722 name: entire pharyngeal arch endoderm namespace: uberon synonym: "pharyngeal arch endoderm" RELATED [EHDAA2:0004621] xref: EHDAA2:0004621 xref: EMAPA:32754 xref: FMA:293087 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0015833 ! foregut epithelium relationship: part_of UBERON:0008814 ! pharyngeal arch system [Term] id: UBERON:0009751 name: cardiac mesenchyme namespace: uberon def: "The embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing cardiac structures" [MP:0011264] subset: pheno_slim synonym: "heart mesenchyme" EXACT [EMAPA:36438] xref: EHDAA2:0004162 xref: EMAPA:36438 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: editor_note "decide whether to merge with cardiac mesoderm. In EHDAA2 this lasts CS12->unbounded, includes mesenchyme of individual components as parts" xsd:string [Term] id: UBERON:0009842 name: glandular acinus namespace: uberon def: "The many-lobed berry cluster of cells that is the terminous of a gland where the secretion is produced is acinar in form." [http://en.wikipedia.org/wiki/Acinus] synonym: "acini" RELATED PLURAL [http://en.wikipedia.org/wiki/Acinus] synonym: "acinus" BROAD [FMA:55588] xref: FMA:55588 xref: http://en.wikipedia.org/wiki/Acinus is_a: UBERON:0034922 ! cell cluster relationship: part_of UBERON:0002530 ! gland property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png property_value: has_relational_adjective "acinar" xsd:string [Term] id: UBERON:0009854 name: digestive tract diverticulum namespace: uberon def: "Branch or outpocketing of the digestive tract." [https://orcid.org/0000-0002-6601-2165] synonym: "diverticulum of gut" RELATED [FBbt:00100316] synonym: "intestinal pouch" RELATED [] xref: FBbt:00100316 is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0009856 ! sac intersection_of: UBERON:0009856 ! sac intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0009856 name: sac namespace: uberon synonym: "diverticulum" RELATED [] synonym: "pouch" EXACT [] xref: galen:Diverticulum is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0009881 name: anterior lateral plate mesoderm namespace: uberon subset: efo_slim synonym: "ALPM" EXACT [ZFA:0005041] xref: EFO:0003704 xref: TAO:0005041 xref: ZFA:0005041 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003081 {source="ZFA"} ! lateral plate mesoderm [Term] id: UBERON:0009891 name: facial mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing face." [OBOL:automatic] synonym: "face mesenchyme" EXACT [] synonym: "mesenchyme of face" EXACT [] xref: EMAPA:35337 xref: FMA:302884 is_a: UBERON:0005253 ! head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001456 ! face [Term] id: UBERON:0009920 name: optic neural crest namespace: uberon xref: EHDAA2:0001315 xref: EHDAA:1122 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0007530 {source="EHDAA2"} ! migrating mesenchyme population [Term] id: UBERON:0009953 name: post-embryonic organism namespace: uberon def: "A multicellular organism that existence_starts_with a post-embryonic stage." [OBOL:automatic] synonym: "post-hatching organism" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "post-natal organism" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "postnatal mouse" NARROW [MA:0002405] synonym: "postnatal organism" EXACT [] synonym: "TS28 mouse" NARROW [MA:0002405] xref: MA:0002405 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_with UBERON:0000092 ! post-embryonic stage relationship: existence_starts_with UBERON:0000092 ! post-embryonic stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/667 [Term] id: UBERON:0010000 name: multicellular anatomical structure namespace: uberon def: "An anatomical structure that has more than one cell as a part." [CARO:0010000] subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 xref: FBbt:00100313 is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0010031 name: 6th arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 6." [OBOL:automatic] synonym: "6th branchial arch mesenchyme" RELATED [] synonym: "6th pharyngeal arch mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme" RELATED [] xref: EHDAA2:0004076 xref: EMAPA:32765 xref: FMA:318209 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0003117 ! pharyngeal arch 6 [Term] id: UBERON:0010042 name: 1st arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 1." [OBOL:automatic] synonym: "mesenchyme of 1st arch" EXACT [EMAPA:16128] xref: EMAPA:16128 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0004362 ! pharyngeal arch 1 [Term] id: UBERON:0010046 name: entire pharyngeal arch associated mesenchyme namespace: uberon def: "The sum total of mesenchymal tissue in the pharyngeal arch region. Pharyngeal mesenchyme is undifferentiated, loose connective tissue derived mostly from mesoderm, and also contains ectodermally derived neural crest cells." [https://orcid.org/0000-0002-6601-2165, XAO:0004524] synonym: "associated mesenchyme of pharyngeal region" EXACT [EMAPA:16550] synonym: "entire branchial arch associated mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pharyngeal arch associated mesenchyme" EXACT [EHDAA2:0001459] xref: EHDAA2:0001459 xref: EMAPA:16550 xref: XAO:0004524 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003099 {source="cjm"} ! cranial neural crest relationship: part_of UBERON:0008814 {source="EHDAA2"} ! pharyngeal arch system [Term] id: UBERON:0010047 name: oral gland namespace: uberon alt_id: UBERON:0003293 def: "Gland of the epithelium lining the oral cavity. The most common are the salivary glands." [ISBN10:0073040584] synonym: "buccal gland" NARROW [] synonym: "gland of oral opening" RELATED [] synonym: "gland of oral region" RELATED [] synonym: "mouth gland" RELATED [] synonym: "oral cavity gland" RELATED [] synonym: "oral region gland" RELATED [] xref: EHDAA2:0001327 xref: EHDAA:2181 xref: EMAPA:16572 xref: EMAPA:16723 xref: VHOG:0000652 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003408 ! gland of digestive tract intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth property_value: external_ontology_notes "Note that Kardong classifies lacrimal glands here. EHDAA2 includes pituitary primordium, as this develops from oral mucosa" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0010077 name: cuboidal epithelium namespace: uberon def: "An epithelium consisting of cuboidal epithelial cells." [http://en.wikipedia.org/wiki/Cuboidal_epithelium] xref: Cuboidal:epithelium xref: http://linkedlifedata.com/resource/umls/id/C0682577 xref: NCIT:C32415 xref: UMLS:C0682577 {source="ncithesaurus:Cuboidal_Epithelium"} is_a: UBERON:0000483 ! epithelium property_value: editor_note "TODO - coordinate with CL, add cuboidal cell" xsd:string property_value: external_ontology_notes "in NCIT this is glandular" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0010083 name: future dermis namespace: uberon def: "Mesenchyme that has the potential to develop into a dermis." [OBOL:automatic] xref: EHDAA2:0000598 is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: has_potential_to_develop_into UBERON:0002067 ! dermis relationship: develops_from UBERON:0003089 {source="EHDAA2"} ! sclerotome relationship: develops_from UBERON:0004016 {source="XAO"} ! dermatome relationship: has_potential_to_develop_into UBERON:0002067 ! dermis relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: editor_note "check development" xsd:string [Term] id: UBERON:0010096 name: future myelencephalon namespace: uberon def: "A developing anatomical structure that has the potential to develop into a myelencephalon." [OBOL:automatic] xref: EHDAA2:0000640 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0005290 ! myelencephalon relationship: has_potential_to_develop_into UBERON:0005290 ! myelencephalon relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0010161 name: lumen of blood vessel namespace: uberon def: "An anatomical cavity that surrounded_by a blood vessel." [OBOL:automatic] synonym: "blood vessel lumen" EXACT [] xref: FMA:312610 xref: http://www.snomedbrowser.com/Codes/Details/91747007 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001981 ! blood vessel relationship: luminal_space_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0010188 name: protuberance namespace: uberon def: "A roughly circular bulge in a surface." [EHDAA2:0003250] xref: AEO:0000205 xref: EHDAA2:0003250 xref: FMA:82506 is_a: UBERON:0003102 {source="EHDAA2"} ! surface structure property_value: editor_note "requires review" xsd:string [Term] id: UBERON:0010199 name: bona-fide anatomical boundary namespace: uberon def: "An anatomical boundary that corresponds to some physical discontinuity." [CARO:0001004] comment: One might argue that all boundaries are actually fiat in the sense that there must be some fiat element at a fine enough scale of granularity. This ontology choses to ignore this issue as below the level of granularity relevant to anatomy. (DOS121102) subset: upper_level xref: CARO:0001004 is_a: UBERON:0000466 {source="CARO"} ! immaterial anatomical entity [Term] id: UBERON:0010230 name: eyeball of camera-type eye namespace: uberon def: "The core globe-shaped component of the camera-type eye." [UBERON:cjm] subset: pheno_slim synonym: "bulbus oculi" EXACT [] synonym: "eye" RELATED INCONSISTENT [] synonym: "eye globe" EXACT [VHOG:0001616] synonym: "eyeball" EXACT [FMA:12513] synonym: "globe" RELATED [HP:0100886, MIAA:0000283] xref: FMA:12513 xref: http://en.wikipedia.org/wiki/Globe_(human_eye) xref: http://www.snomedbrowser.com/Codes/Details/244486005 xref: MIAA:0000283 xref: VHOG:0001616 is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: fma_set_term FMA:264089 relationship: part_of UBERON:0000019 {source="FMA"} ! camera-type eye property_value: curator_notes "See notes for camera-type eye" xsd:string [Term] id: UBERON:0010252 name: 1st arch mandibular mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000037 is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010259 {source="inferred"} ! 1st arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: develops_from UBERON:0007098 ! mandibular neural crest relationship: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme [Term] id: UBERON:0010257 name: 6th arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from neural crest" RELATED [] synonym: "neural crest derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0004077 is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme relationship: part_of UBERON:0010031 ! 6th arch mesenchyme [Term] id: UBERON:0010258 name: mesenchyme from rhombencephalic neural crest namespace: uberon def: "Mesenchyme that develops_from a rhombencephalon neural crest." [OBOL:automatic] xref: EHDAA2:0004423 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest [Term] id: UBERON:0010259 name: 1st arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 1 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 1st arch" EXACT [EMAPA:16129] synonym: "neural crest derived arch 1 mesenchyme" EXACT [] synonym: "pharyngeal arch 1 mesenchyme from neural crest" EXACT [] xref: EMAPA:16129 is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme relationship: part_of UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0010285 name: midbrain basal plate namespace: uberon def: "Portion of tissue that is dorsolateral to the floor plate and part of the midbrain." [ZFA:0000761] subset: efo_slim synonym: "basal plate midbrain" EXACT [TAO:0000761] synonym: "basal plate midbrain region" EXACT [ZFA:0000761] xref: DHBA:12322 xref: EFO:0003567 xref: EHDAA2:0004375 xref: TAO:0000761 xref: ZFA:0000761 is_a: UBERON:0002020 {source="EHDAA2"} ! gray matter relationship: part_of UBERON:0009581 {source="EHDAA2"} ! midbrain mantle layer relationship: part_of UBERON:0010286 {source="ZFA"} ! midbrain neural tube [Term] id: UBERON:0010286 name: midbrain neural tube namespace: uberon def: "Portion of neural tube that gives rise to the midbrain." [ZFA:0007039] xref: TAO:0007039 xref: ZFA:0007039 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003080 {source="ZFA"} ! anterior neural tube property_value: editor_note "we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed" xsd:string [Term] id: UBERON:0010291 name: layer of sclera namespace: uberon def: "." [http://en.wikipedia.org/wiki/Sclera#Histology] xref: Histology is_a: UBERON:0004923 ! organ component layer is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001773 {source="cjm"} ! sclera [Term] id: UBERON:0010294 name: scleral endothelium namespace: uberon def: "An endothelium that is part of a sclera." [OBOL:automatic] is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010291 {source="Wikipedia"} ! layer of sclera is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010299 name: scleral mesenchyme namespace: uberon def: "Mesenchyme surrounding the developing optic cup which develops into the sclera." [http://www.ncbi.nlm.nih.gov/pubmed/16496288, https://orcid.org/0000-0002-6601-2165] is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: has_potential_to_develop_into UBERON:0001773 ! sclera relationship: has_potential_to_develop_into UBERON:0001773 ! sclera relationship: surrounds UBERON:0003072 ! optic cup property_value: development_notes "The mesenchyme surrounding the developing optic cup differentiates into the sclera, the dense fibrous coat of the eye.. http://www.ncbi.nlm.nih.gov/pubmed/16496288" xsd:string [Term] id: UBERON:0010303 name: extraembryonic epithelium namespace: uberon def: "An epithelium that is part of a extraembryonic structure." [OBOL:automatic] synonym: "extra-embryonic epithelium" EXACT [] is_a: UBERON:0000483 ! epithelium is_a: UBERON:0005292 ! extraembryonic tissue intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: UBERON:0010312 name: immature eye namespace: uberon def: "Developing anatomical structure that develops into the eyeball and associated structures." [ZFA:0001678] synonym: "future eye" EXACT [] xref: TAO:0002201 xref: ZFA:0001678 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_developmental_contribution_from UBERON:0003071 ! eye primordium relationship: develops_from UBERON:0003071 {evidence="definitional"} ! eye primordium relationship: has_developmental_contribution_from UBERON:0003071 ! eye primordium property_value: external_definition "Multi-tissue structure that consists of the structures that develop into the retina and lens.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002201", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0010313 name: neural crest-derived structure namespace: uberon def: "An anatomical structure that develops from the neural crest." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0002342 ! neural crest relationship: develops_from UBERON:0002342 ! neural crest property_value: curator_notes "Grouping term for query purposes" xsd:string [Term] id: UBERON:0010314 name: structure with developmental contribution from neural crest namespace: uberon def: "An anatomical structure that has some part that develops from the neural crest." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest property_value: curator_notes "Grouping term for query purposes" xsd:string [Term] id: UBERON:0010316 name: germ layer / neural crest namespace: uberon is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0002532 ! epiblast (generic) [Term] id: UBERON:0010321 name: skeletal element of eye region namespace: uberon def: "A skeletal element that is part of a orbital region." [OBOL:automatic] synonym: "eye skeleton" RELATED [] synonym: "ocular skeleton" RELATED [] synonym: "skeletal element of orbital region" RELATED [] is_a: UBERON:0004765 ! skeletal element is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0004765 ! skeletal element intersection_of: part_of UBERON:0004088 ! orbital region relationship: part_of UBERON:0004088 ! orbital region relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0010323 name: cranial skeletal system namespace: uberon def: "Skeletal subdivision of the head including skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000049] synonym: "cranial skeleton" NARROW [] synonym: "cranium" RELATED INCONSISTENT [ZFA:0000737] synonym: "osteocranium" NARROW [] xref: AAO:0000109 xref: AAO:0000971 xref: AAO:0010185 xref: TAO:0000737 xref: VSAO:0000049 xref: XAO:0003075 xref: ZFA:0000737 is_a: UBERON:0000075 ! subdivision of skeletal system relationship: part_of UBERON:0011137 ! axial skeletal system property_value: curator_notes "that the cranial skeleton includes the pharyngeal arch skeleton. It is thus more inclusive that the cranium itself, and extends beyond the head in tetrapods. The AAO class called 'skull' belongs here, as it includes the whole splanchnocranium" xsd:string property_value: editor_note "we use 'cranial skeletal system', so that we can include the skull, which has joints/sutures as parts (recall, we follow FMA in distinguishing between the skeleton and skeletal system - only the latter includes joints)" xsd:string property_value: external_definition "Bony structure that encases the central nervous system and the primary sense organs of sight, olfaction, hearing, and equilibrium.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000109", ontology="AAO", source="AAO:LAP"} property_value: external_definition "Skeletal system which is part of the skull, including the splanchnocranium, chondrocranium, and dermatocranium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000737", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0010336 name: mandibular process mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004603 is_a: UBERON:0006905 ! mandibular process mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme relationship: develops_from UBERON:0010252 {source="EHDAA2"} ! 1st arch mandibular mesenchyme from neural crest relationship: part_of UBERON:0006905 ! mandibular process mesenchyme [Term] id: UBERON:0010337 name: mandibular process mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004604 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0006905 ! mandibular process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme relationship: develops_from UBERON:0010339 {source="EHDAA2"} ! 1st arch mandibular mesenchyme from head mesenchyme relationship: part_of UBERON:0006905 ! mandibular process mesenchyme [Term] id: UBERON:0010339 name: 1st arch mandibular mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000036 is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010341 ! 1st arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme [Term] id: UBERON:0010341 name: 1st arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 1st arch" EXACT [EMAPA:16130] xref: EMAPA:16130 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme relationship: part_of UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0010347 name: 6th arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0004078 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme relationship: part_of UBERON:0010031 ! 6th arch mesenchyme [Term] id: UBERON:0010359 name: pharyngeal arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme synonym: "arch mesenchyme from neural crest" EXACT [] synonym: "branchial arch mesenchyme from neural crest" EXACT [] synonym: "neural crest derived arch mesenchyme" EXACT [] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0014387 ! mesenchyme derived from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010360 name: pharyngeal arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme synonym: "arch mesenchyme from head mesenchyme" EXACT [] synonym: "branchial arch mesenchyme from head mesenchyme" EXACT [] synonym: "head mesenchyme derived arch mesenchyme" EXACT [] is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010371 name: ecto-epithelium namespace: uberon def: "Epithelium composed of cells that develops from the ectoderm[FMA,modified]." [FMA:69064] synonym: "ectoderm-derived epithelium" EXACT [] xref: FMA:69064 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000924 ! ectoderm [Term] id: UBERON:0010378 name: mesenchyme from splanchnopleure namespace: uberon def: "Mesenchyme that develops_from a splanchnopleure." [OBOL:automatic] xref: EHDAA2:0001122 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0004873 ! splanchnopleure intersection_of: part_of UBERON:0000922 ! embryo relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme [Term] id: UBERON:0010409 name: ocular surface region namespace: uberon def: "The integrated unit (of the eye) that consists of the conjunctiva, the corneal surface, and the ocular mucosal adnexa including the lid margins and the meibomian gland openings, the lacrimal glands and the lacrimal drainage system, all which are critical to maintain ocular surface integrity and provide protection from external antigens and pathogenic microorganisms." [MP:0013754] subset: pheno_slim synonym: "eye surface" EXACT [MA:0002486] synonym: "eye surface region" EXACT [] synonym: "ocular surface" EXACT [] xref: EMAPA:35336 xref: MA:0002486 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000019 ! camera-type eye relationship: superficial_to UBERON:0022288 ! surface of eyeball [Term] id: UBERON:0010427 name: ciliary processes namespace: uberon def: "The ciliary processes are formed by the inward folding of the various layers of the choroid, i.e. , the choroid proper and the lamina basalis, and are received between corresponding foldings of the suspensory ligament of the lens." [http://en.wikipedia.org/wiki/Ciliary_processes] synonym: "ciliary process" RELATED [http://en.wikipedia.org/wiki/Ciliary_processes] synonym: "ciliary processes" EXACT [FMA:76551] synonym: "ciliary processes set" EXACT [FMA:76551] synonym: "processus ciliares" EXACT LATIN [FMA:TA] synonym: "processus ciliares" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_processes] synonym: "set of ciliary processes" EXACT [FMA:76551] xref: Ciliary:processes xref: FMA:76551 xref: http://www.snomedbrowser.com/Codes/Details/280860001 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001775 ! ciliary body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b2/Gray875.png [Term] id: UBERON:0010498 name: pseudostratified columnar epithelium namespace: uberon def: "A simple columnar epithelium that looks stratified but is not, because its cells are arranged with their nuclei at different levels." [http://en.wikipedia.org/wiki/Pseudostratified_columnar_epithelium, http://medical-dictionary.thefreedictionary.com/pseudostratified+epithelium] xref: FMA:45572 xref: http://en.wikipedia.org/wiki/Pseudostratified_columnar_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836138 xref: http://linkedlifedata.com/resource/umls/id/C1514590 xref: NCIT:C33419 xref: NCIT:C49316 xref: UMLS:C0836138 {source="ncithesaurus:Pseudostratified_Columnar_Epithelium"} xref: UMLS:C1514590 {source="ncithesaurus:Pseudostratified_Epithelium"} is_a: UBERON:0000485 {source="FMA"} ! simple columnar epithelium property_value: external_ontology_notes "glandular in NCIT; we consider the two NCIT terms synonymous" xsd:string {external_ontology="NCIT"} property_value: function_notes "Pseudostratified epithelia function in secretion or absorption. If a specimen looks stratified but has cilia, then it is a pseudostratified ciliated epithelium, since stratified epithelia do not have cilia." xsd:string [Term] id: UBERON:0010499 name: pseudostratified ciliated columnar epithelium namespace: uberon def: "Epithelium composed of a single layer of cells, appearing as layered because the column-shaped cells vary in height so the nuclei are at different levels. The basal portions of all the cells are in contact with the basement membrane. It lines the respiratory system and the male reproductive tract. The cilia in the respiratory tract are motile, while the stereocilia in the male reproductive tract are immobile." [NCIT:NCIT] synonym: "epithelium pseudostratificatum columnare ciliatum (trachea et bronchi)" EXACT [FMA:13146] xref: FMA:13146 xref: http://linkedlifedata.com/resource/umls/id/C0506992 xref: NCIT:C13181 xref: UMLS:C0506992 {source="ncithesaurus:Pseudostratified_Columnar_Ciliated_Epithelium"} is_a: UBERON:0007592 ! ciliated columnar epithelium is_a: UBERON:0010498 ! pseudostratified columnar epithelium [Term] id: UBERON:0010523 name: microcirculatory vessel namespace: uberon def: "A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses." [http://orcid.org/0000-0002-6601-2165, MESH:A07.231.432, ZFA:0005251] synonym: "microcirculatory vessels" RELATED PLURAL [TAO:0005251] xref: MESH:A07.231.432 xref: TAO:0005251 xref: ZFA:0005251 is_a: UBERON:0000055 ! vessel relationship: part_of UBERON:0002049 {source="ZFA"} ! vasculature [Term] id: UBERON:0010912 name: subdivision of skeleton namespace: uberon def: "Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: non_informative synonym: "skeletal subdivision" EXACT [VSAO:0000042] synonym: "subdivision of skeleton (in vivo)" RELATED [FMA:23879] xref: FMA:23879 xref: http://www.snomedbrowser.com/Codes/Details/129140006 xref: VSAO:0000042 is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: part_of UBERON:0000075 {source="UBERONREF:0000003"} ! subdivision of skeletal system relationship: part_of UBERON:0004288 {source="VSAO"} ! skeleton property_value: external_definition "Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000042", notes="incorrect", ontology="VSAO", source="VSAO:curator"} [Term] id: UBERON:0011134 name: nonsynovial joint namespace: uberon def: "Joint in which the articulating bones or cartilages are connected by ligaments or fibrocartilage without an intervening synovial cavity. Examples: sagittal suture, inferior tibiofibular syndesmosis, costochondral joint, pubic symphysis." [FMA:7491] synonym: "solid joint" EXACT [FMA:7491] xref: FMA:7491 is_a: UBERON:0000982 {source="FMA"} ! skeletal joint [Term] id: UBERON:0011137 name: axial skeletal system namespace: uberon def: "Subdivision of the skeletal system which consists of the axial skeleton plus associated joints." [https://orcid.org/0000-0002-6601-2165] xref: FMA:7483 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: has_part UBERON:0000982 ! skeletal joint relationship: has_part UBERON:0005944 ! axial skeleton plus cranial skeleton property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0011138 name: postcranial axial skeletal system namespace: uberon def: "Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints." [https://github.com/obophenotype/uberon/issues/44, https://orcid.org/0000-0002-6601-2165] synonym: "axial skeletal system" BROAD [https://github.com/obophenotype/uberon/wiki/The-axial-skeleton] synonym: "post-cranial axial skeletal system" EXACT [] xref: FMA:302077 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: dc-contributor https://github.com/cmungall relationship: develops_from UBERON:0003089 {source="cjm"} ! sclerotome property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0011156 name: facial skeleton namespace: uberon def: "Subdivision of skull that consists of the facial bones." [http://en.wikipedia.org/wiki/Facial_skeleton, http://www.bartleby.com/107/37.html, https://orcid.org/0000-0002-6601-2165, MP:0005274] subset: pheno_slim synonym: "facial bone" RELATED [MA:0000318] synonym: "facial skeleton" EXACT [FMA:53673] synonym: "ossa facialia" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_skeleton] synonym: "ossa faciei" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_skeleton] synonym: "viscerocranium" RELATED INCONSISTENT [MA:0000318] xref: EHDAA2:0002206 xref: EHDAA:8361 xref: EMAPA:18022 xref: Facial:skeleton xref: FMA:53673 xref: MA:0000318 is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011158 {source="FMA"} ! primary subdivision of skull relationship: part_of UBERON:0001456 {source="FMA"} ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg [Term] id: UBERON:0011158 name: primary subdivision of skull namespace: uberon def: "The skull can be divided into two: the neurocranium and the facial skeleton" [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "skull subdivision" EXACT [FMA:54964] synonym: "subdivision of skull" EXACT [FMA:54964] xref: FMA:54964 is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: part_of UBERON:0003129 ! skull [Term] id: UBERON:0011159 name: primary subdivision of cranial skeletal system namespace: uberon subset: non_informative is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: part_of UBERON:0010323 ! cranial skeletal system [Term] id: UBERON:0011215 name: central nervous system cell part cluster namespace: uberon def: "A multi cell part structure that is part of a central nervous system." [OBOL:automatic] subset: upper_level synonym: "cell part cluster of neuraxis" EXACT [FMA:83143] synonym: "neuraxis layer" EXACT [FMA:83143] xref: FMA:83143 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure intersection_of: UBERON:0005162 ! multi cell part structure intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0011216 name: organ system subdivision namespace: uberon def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2165] subset: upper_level xref: FBbt:00007330 xref: FMA:67509 xref: http://www.snomedbrowser.com/Codes/Details/91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure relationship: part_of UBERON:0000467 ! anatomical system [Term] id: UBERON:0011222 name: intra-ocular muscle namespace: uberon synonym: "intrinsic muscle of eyeball" EXACT [] synonym: "intrinsic ocular muscle" EXACT [EMAPA:18808] xref: AAO:0010038 xref: EMAPA:18808 xref: FMA:49150 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004277 ! eye muscle relationship: part_of UBERON:0003386 {source="EMAPA"} ! smooth muscle of eye property_value: external_definition "Muscles within the eye (bulbus oculi).[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010038", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0011270 name: dorsal trunk namespace: uberon def: "The part of the trunk that is in the dorsum[cjm]." [http://en.wikipedia.org/wiki/Human_back, UBERONREF:0000006] synonym: "back of trunk" EXACT [FMA:25056] synonym: "dorsal part of trunk" EXACT [] synonym: "dorsum of trunk" EXACT [FMA:25056] synonym: "trunk back" EXACT [FMA:25056] xref: EMAPA:35162 xref: FMA:25056 xref: Human:back xref: MA:0000020 is_a: UBERON:0009569 {source="FMA"} ! subdivision of trunk relationship: part_of UBERON:0001137 {source="FMA"} ! dorsum property_value: taxon_notes "In humans, the subdivision of trunk which is demarcated from the trunk proper by the external surface of the posterolateral part of the rib cage, the anterior surface of the thoracic vertebral column and the posterior axillary lines, the external surface of the posterior abdominal wall; together with the trunk proper, it constitutes the trunk[FMA]" xsd:string [Term] id: UBERON:0011272 name: embryonic skin basal layer namespace: uberon synonym: "basal cell layer of skin" RELATED [] synonym: "outer epithelium of body" RELATED [Wikipathways:WP2062] xref: EHDAA2:0001845 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: editor_note "compare with 'stratum basale of epidermis'. This class is the source for many adult structures - see WP2062. See also: 'enveloping layer of ectoderm'" xsd:string [Term] id: UBERON:0011362 name: cranial blood vasculature namespace: uberon def: "A blood vasculature that is part of a head." [OBOL:automatic] synonym: "cranial blood vessel" EXACT [ZFA:0005297] synonym: "cranial blood vessels" RELATED PLURAL [TAO:0005297] synonym: "set of blood vessels of head" EXACT [] xref: TAO:0005297 xref: ZFA:0005297 is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0004537 ! blood vasculature intersection_of: UBERON:0004537 ! blood vasculature intersection_of: part_of UBERON:0000033 ! head property_value: external_definition "Blood vessel part of cranial vasculature.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005297", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0011585 name: cell condensation namespace: uberon def: "Anatomical structure that is an aggregation of similar cells from which cartilages and bones form, and from which chondrogenesis and osteogenesis are initiated during repair and/or regeneration. (Hall and Miyake 1995)." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000006] xref: VSAO:0000006 xref: XAO:0004021 is_a: UBERON:0000061 {source="VSAO"} ! anatomical structure property_value: editor_note "consider obsoleting, coordinate with VSAO" xsd:string [Term] id: UBERON:0011595 name: jaw region namespace: uberon def: "A subdivision of the head that corresponds to the jaw skeleton, containing both soft tissue, skeleton and teeth (when present). The jaw region is divided into upper and lower regions." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:32905 xref: NCIT:C114916 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000475 ! organism subdivision intersection_of: has_skeleton UBERON:0001708 ! jaw skeleton relationship: has_skeleton UBERON:0001708 ! jaw skeleton relationship: part_of UBERON:0000165 {source="EMAPA", source="FMA-abduced", source="ZFA-abduced"} ! mouth property_value: seeAlso http://eol.org/collections/11578 xsd:anyURI [Term] id: UBERON:0011596 name: future lower lip namespace: uberon synonym: "lower jaw future lip" EXACT [EHDAA2:0001020] xref: EHDAA2:0001020 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0003236 ! epithelium of lower jaw relationship: develops_from UBERON:0005867 {source="Mandibular:prominence"} ! mandibular prominence [Term] id: UBERON:0011642 name: oral epithelium from ectoderm namespace: uberon def: "An epithelium that develops_from a ectoderm and is part of a oral epithelium." [OBOL:automatic] xref: EHDAA2:0004137 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0002424 ! oral epithelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0002424 ! oral epithelium relationship: develops_from UBERON:0009479 {source="EHDAA2"} ! ectoderm of buccopharyngeal membrane relationship: part_of UBERON:0002424 ! oral epithelium [Term] id: UBERON:0011676 name: subdivision of organism along main body axis namespace: uberon def: "A major subdivision of an organism that divides an organism along its main body axis (typically anterio-posterior axis). In vertebrates, this is based on the vertebral column." [https://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "axial subdivision of organism" EXACT [] synonym: "body segment" RELATED [] synonym: "main body segment" RELATED [] is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0013701 ! main body axis property_value: editor_note "Ideally this would be disjoint with analagous class for appendicular axes, but currently 'appendages' like antennae, horns cause a problem" xsd:string [Term] id: UBERON:0011695 name: embryonic cardiovascular system namespace: uberon def: "A cardiovascular system that is part of a conceptus." [OBOL:automatic] synonym: "conceptus cardiovascular system" EXACT [] synonym: "embryonic circulatory system" RELATED [] synonym: "fetal circulatory system" RELATED [] xref: EHDAA2:0000216 xref: FMA:305965 xref: NCIT:C34148 is_a: UBERON:0004535 ! cardiovascular system intersection_of: UBERON:0004535 ! cardiovascular system intersection_of: part_of UBERON:0004716 ! conceptus relationship: part_of UBERON:0004716 ! conceptus [Term] id: UBERON:0011814 name: non-neurogenic ectodermal placode namespace: uberon def: "Ectodermal placode that does not develop into a component of the nervous system." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/11523831] is_a: UBERON:0005085 {source="cjm"} ! ectodermal placode [Term] id: UBERON:0011821 name: irregular connective tissue namespace: uberon def: "Connective tissue, which consists of a population of connective tissue cells, the intercellular matrix of which contains an irregular network of collagen and elastic fiber bundles. Examples: areolar tissue, mucoid tissue, connective tissue of peritoneum, connective tissue of fibrous pericardium." [FMA:20107] xref: FMA:20107 is_a: UBERON:0002384 {source="FMA"} ! connective tissue [Term] id: UBERON:0011822 name: dense irregular connective tissue namespace: uberon def: "Irregular connective tissue is an irregular connective tissue, the intercellular matrix of which contains a dense irregular network of collagen and elastic fiber bundles. Examples: connective tissue of peritoneum, connective tissue of fibrous pericardium." [FMA:20109, http://en.wikipedia.org/wiki/Dense_irregular_connective_tissue] synonym: "irregular dense connective tissue" EXACT [] synonym: "typus irregularis (textus connectivus collagenosus compactus)" EXACT [FMA:20109] xref: FMA:20109 xref: http://en.wikipedia.org/wiki/Dense_irregular_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C0738366 xref: NCIT:C32882 xref: UMLS:C0738366 {source="ncithesaurus:Irregular_Dense_Connective_Tissue"} is_a: UBERON:0011821 {source="FMA"} ! irregular connective tissue is_a: UBERON:0011823 ! dense connective tissue property_value: external_definition "Tissue characterized by a thick, random arrangement of collagen and elastin fibers with very few cells. The majority of the cells are fibroblasts, but mast cells and macrophages may also be seen. It is found in the dermis, periosteum, perichondrium, capsules of organs and sheaths of nerves and muscles[NCIT]" xsd:string {date_retrieved="2012-08-29", external_class="ncithesaurus:Irregular_Dense_Connective_Tissue", ontology="NCIT"} [Term] id: UBERON:0011823 name: dense connective tissue namespace: uberon def: "Dense connective tissue is mainly composed of collagen type I. Crowded between the collagen fibers are rows of fibroblasts, fiber-forming cells, that manufacture the fibers. Dense connective tissue forms strong, rope-like structures such as tendons and ligaments. Tendons attach skeletal muscles to bones; ligaments connect bones to bones at joints. Ligaments are more stretchy and contain more elastic fibers than tendons. Dense connective tissue also make up the lower layers of the skin (dermis), where it is arranged in sheets" [http://en.wikipedia.org/wiki/Dense_connective_tissue] xref: AAO:0000121 xref: http://en.wikipedia.org/wiki/Dense_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C1511770 xref: NCIT:C32450 xref: UMLS:C1511770 {source="ncithesaurus:Dense_Connective_Tissue"} is_a: BFO:0000040 ! material entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils disjoint_from: UBERON:0011825 ! loose connective tissue relationship: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils property_value: editor_note "our OWL definition states that this is differentiated from other connective tissue types by virtue of the fact that the collage fiber component predominates, as opposed to cells and fluid." xsd:string property_value: external_definition "Connective tissue in which the fibrous component predominates. The cells, ground substance, and tissue fluid represent a minor component[NCIT]" xsd:string {date_retrieved="2012-08-29", external_class="ncithesaurus:Dense_Connective_Tissue", ontology="NCIT"} [Term] id: UBERON:0011824 name: fibrous connective tissue namespace: uberon xref: FMA:75634 xref: http://www.snomedbrowser.com/Codes/Details/363130003 is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue [Term] id: UBERON:0011825 name: loose connective tissue namespace: uberon def: "Irregular connective tissue, the intercellular matrix of which contains a sparse irregular network of collagen and elastic fiber bundles. Examples: areolar tissue, neuroglial tissue, mucoid tissue." [FMA:19783] synonym: "textus connectivus collagenosus laxus" EXACT LATIN [FMA:19783, FMA:TA] synonym: "textus connectivus laxus" EXACT LATIN [FMA:19783, FMA:TA] xref: FMA:19783 xref: http://en.wikipedia.org/wiki/Loose_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C1253917 xref: NCIT:C33007 xref: UMLS:C1253917 {source="ncithesaurus:Loose_Connective_Tissue"} is_a: UBERON:0011821 {source="FMA"} ! irregular connective tissue [Term] id: UBERON:0011858 name: acinus of exocrine gland namespace: uberon def: "An acinus that is part of a exocrine gland." [OBOL:automatic] synonym: "exocrine gland acinus" EXACT [] is_a: UBERON:0009842 ! glandular acinus intersection_of: UBERON:0009842 ! glandular acinus intersection_of: part_of UBERON:0002365 ! exocrine gland relationship: part_of UBERON:0002365 ! exocrine gland [Term] id: UBERON:0011860 name: collection of collagen fibrils namespace: uberon xref: FMA:63212 xref: MESH:D024022 xref: NCIT:C32339 xref: NIF_Subcellular:sao7547390221 is_a: UBERON:0000476 {source="ZFA"} ! acellular anatomical structure property_value: external_ontology_notes "the FMA class specifically refers to ureter" xsd:string {external_ontology="FMA"} property_value: seeAlso UBERON:0007377 [Term] id: UBERON:0011862 name: pulmonary collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of pulmonary tissue that are composed of collagen, and play a role in tissue strength and elasticity" [MP:0011641] subset: pheno_slim is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0011892 name: anterior uvea namespace: uberon def: "Front (ventral) portion of the vascular, pigmentary, or middle coat of the eye, including the ciliary body and the iris." [MP:0005194] subset: pheno_slim synonym: "anterior part of uveal tract" EXACT [] synonym: "anterior uveal tract" EXACT [] synonym: "anterior vascular layer of the eyeball" EXACT [] synonym: "anterior vascular tunic of the eye" EXACT [] synonym: "ciliary body and iris" RELATED [] synonym: "Haller tunica vascula" EXACT [MP:0005194] synonym: "tunica vasculosa bulbosa" EXACT [MP:0005194] synonym: "vasculosa oculi" RELATED [MP:0005194] synonym: "ventral uveal tract" EXACT [] xref: EMAPA:37417 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/280656002 is_a: UBERON:0000481 {source="ZFA"} ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0001768 ! uvea relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: has_part UBERON:0001769 ! iris relationship: has_part UBERON:0001775 ! ciliary body relationship: part_of UBERON:0001768 {source="MP"} ! uvea [Term] id: UBERON:0011997 name: coelom namespace: uberon def: "The aggregate of the coelemic cavity lumen plus the membranes that line the lumen." [http://en.wikipedia.org/wiki/Body_cavity, http://en.wikipedia.org/wiki/Coelom, UBERON:cjm] synonym: "coelem" RELATED [] synonym: "coelomic cavity" RELATED [EHDAA2:0004731] synonym: "enterocoelom" NARROW [NCBITaxon:33511] synonym: "haemocoelom" NARROW [] synonym: "schizocoelom" NARROW [] xref: EHDAA2:0004731 xref: http://en.wikipedia.org/wiki/Coelom is_a: UBERON:0000481 {source="EHDAA2"} ! multi-tissue structure property_value: editor_note "EHDAA2 distingsuishes between the lumen, the lining, and the 'coelomic cavity', which despire it's name, is not a space - it is the aggregate of space plus lining." xsd:string property_value: has_relational_adjective "coelomic" xsd:string [Term] id: UBERON:0012125 name: dermatological-muscosal system namespace: uberon def: "Anatomical system that consists of the integumental system plus all mucosae and submucosae." [https://github.com/obophenotype/uberon/issues/53] synonym: "dermatological system" RELATED [OBI:MC] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/mcourtot relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0000009 ! submucosa relationship: has_part UBERON:0000344 ! mucosa relationship: has_part UBERON:0002072 ! hypodermis relationship: has_part UBERON:0002097 ! skin of body [Term] id: UBERON:0012180 name: head or neck skin namespace: uberon def: "A zone of skin that is part of a craniocervical region." [OBOL:automatic] xref: EMAPA:37276 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1522650 xref: MA:0000574 xref: NCIT:C12294 xref: UMLS:C1522650 {source="ncithesaurus:Skin_of_the_Scalp_and_Neck"} is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: UBERON:0012274 name: columnar epithelium namespace: uberon def: "An epithelium that consists of columnar epithelial cells. Columnar epithelia are epithelial cells whose heights are at least four times their width. Columnar epithelia are divided into simple (or unilayered), and the rarer stratified (or multi-layered).[WP, modified]" [http://en.wikipedia.org/wiki/Columnar_epithelium] xref: Columnar:epithelium is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0012275 name: meso-epithelium namespace: uberon def: "Epithelium that derives from the mesoderm. [Automatically generated definition]." [OBOL:automatic] synonym: "mesoderm-derived epithelium" EXACT [] synonym: "mesoepithelium" EXACT [] xref: FMA:86452 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000926 ! mesoderm [Term] id: UBERON:0012314 name: embryonic facial prominence namespace: uberon def: "One of five swellings formed during the development of the face" [http://www.indiana.edu/~anat550/hnanim/face/face.html] synonym: "embryonic facial process" RELATED [] synonym: "facial primordium" RELATED [] synonym: "primordium of face" RELATED [] xref: FMA:293103 xref: http://www.snomedbrowser.com/Codes/Details/89066004 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0012320 name: cervical artery namespace: uberon def: "An artery of the neck" [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:37075 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1707349 xref: NCIT:C52850 xref: UMLS:C1707349 {source="ncithesaurus:Cervical_Artery"} is_a: UBERON:0001637 ! artery is_a: UBERON:0003502 ! neck blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0012321 name: deep cervical artery namespace: uberon def: "The deep cervical artery (Profunda cervicalis) is an artery of the neck." [http://en.wikipedia.org/wiki/Deep_cervical_artery] synonym: "profunda cervicalis" RELATED [http://en.wikipedia.org/wiki/Deep_cervical_artery] xref: FMA:10659 xref: http://en.wikipedia.org/wiki/Deep_cervical_artery xref: http://www.snomedbrowser.com/Codes/Details/244223002 is_a: BFO:0000040 ! material entity is_a: UBERON:0012320 ! cervical artery intersection_of: UBERON:0012320 ! cervical artery intersection_of: part_of UBERON:0035551 ! deep vasculature relationship: branching_part_of UBERON:0004688 {source="FMA"} ! costo-cervical trunk relationship: part_of UBERON:0004688 ! costo-cervical trunk relationship: part_of UBERON:0035551 ! deep vasculature [Term] id: UBERON:0012416 name: respiratory system arterial smooth muscle namespace: uberon xref: EMAPA:37567 {source="MA:th"} xref: MA:0001802 is_a: UBERON:0004297 ! respiratory system blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003643 ! respiratory system arterial blood vessel relationship: part_of UBERON:0003643 ! respiratory system arterial blood vessel [Term] id: UBERON:0012418 name: respiratory system venous smooth muscle namespace: uberon def: "A smooth muscle tissue that is part of a respiratory system venous blood vessel." [OBOL:automatic] xref: EMAPA:37586 {source="MA:th"} xref: MA:0001812 is_a: UBERON:0004696 ! venous system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003476 ! respiratory system venous blood vessel relationship: part_of UBERON:0003476 ! respiratory system venous blood vessel [Term] id: UBERON:0012430 name: tunica fibrosa of eyeball namespace: uberon def: "The sclera and cornea form the fibrous tunic of the bulb of the eye; the sclera is opaque, and constitutes the posterior five-sixths of the tunic; the cornea is transparent, and forms the anterior sixth." [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] synonym: "corneosclera" RELATED [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] synonym: "fibrous layer of eyeball" EXACT [FMA:58102] synonym: "fibrous tunic" RELATED [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] synonym: "tunica fibrosa" BROAD [] xref: FMA:58102 xref: http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball xref: http://www.snomedbrowser.com/Codes/Details/361318005 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0000964 ! cornea relationship: has_part UBERON:0001773 ! sclera relationship: part_of UBERON:0010230 ! eyeball of camera-type eye relationship: present_in_taxon NCBITaxon:7955 {source="https://doi.org/10.1177/0192623311409597"} ! Danio rerio [Term] id: UBERON:0012466 name: extraembryonic cavity namespace: uberon synonym: "extraembryonic cavities" RELATED PLURAL [EHDAA2:0000472] xref: EHDAA2:0000472 xref: EMAPA:16054 xref: VHOG:0000767 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0012467 name: enclosed anatomical space namespace: uberon def: "An anatomical space with no opening to another space or to the exterior." [AEO:0000222] synonym: "closed anatomical space" EXACT [] xref: AEO:0000222 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0013136 name: vein of lip namespace: uberon def: "A vein that drains a lip." [OBOL:automatic] synonym: "labial vein" RELATED [] synonym: "labial vein of face" EXACT [] synonym: "lip vein" EXACT [OBOL:automatic] synonym: "vena labialis" EXACT LATIN [] xref: http://www.snomedbrowser.com/Codes/Details/367664002 is_a: BFO:0000040 ! material entity is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001833 ! lip relationship: drains UBERON:0001833 ! lip relationship: part_of UBERON:0001653 ! facial vein relationship: tributary_of UBERON:0001653 {source="FMA"} ! facial vein [Term] id: UBERON:0013140 name: systemic vein namespace: uberon def: "Any vein within the general circulation that transports blood back to the right atrium of the heart." [ncithesaurus:Systemic_Vein] synonym: "systemic venous tree organ part" EXACT [FMA:66644] xref: FMA:66644 xref: http://linkedlifedata.com/resource/umls/id/C0447117 xref: http://www.snomedbrowser.com/Codes/Details/244389004 xref: NCIT:C33719 xref: UMLS:C0447117 {source="ncithesaurus:Systemic_Vein"} is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0004581 ! systemic venous system relationship: part_of UBERON:0004581 ! systemic venous system [Term] id: UBERON:0013232 name: serous acinus namespace: uberon def: "The secretory unit of a serous gland. The acinar portion is composed of serous secreting cells." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm] synonym: "acinus of serous gland" EXACT [] xref: FMA:86279 is_a: UBERON:0011858 ! acinus of exocrine gland intersection_of: UBERON:0009842 ! glandular acinus intersection_of: part_of UBERON:0000409 ! serous gland relationship: part_of UBERON:0000409 ! serous gland [Term] id: UBERON:0013411 name: cranial cavity namespace: uberon def: "Anatomical cavity that is the lumen of the skull and contains the brain." [UBERON:cjm] synonym: "cavitas cranii" EXACT LATIN [FMA:9644, FMA:TA] synonym: "intracranial cavity" RELATED [http://en.wikipedia.org/wiki/Cranial_cavity] synonym: "intracranial space" RELATED [http://en.wikipedia.org/wiki/Cranial_cavity] xref: Cranial:cavity xref: EMAPA:37497 {source="MA:th"} xref: FMA:9644 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2806 xref: http://linkedlifedata.com/resource/umls/id/C0230041 xref: http://www.snomedbrowser.com/Codes/Details/264452006 xref: MA:0003061 xref: NCIT:C77638 xref: UMLS:C0230041 {source="ncithesaurus:Cranial_Cavity"} is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0003129 ! skull relationship: luminal_space_of UBERON:0003129 ! skull relationship: part_of UBERON:0003129 {source="Wikipedia"} ! skull property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg [Term] id: UBERON:0013479 name: lung endothelium namespace: uberon def: "A blood vessel endothelium that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "respiratory endothelium" RELATED [BTO:0004128] xref: BTO:0004128 xref: CALOHA:TS-0573 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0004638 ! blood vessel endothelium intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0013514 name: space surrounding organism namespace: uberon def: "The space that surrounds an organism." [https://orcid.org/0000-0002-6601-2165] synonym: "external to organism" EXACT [] synonym: "outside of body" EXACT [] is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: surrounds UBERON:0000468 ! multicellular organism relationship: surrounds UBERON:0000468 ! multicellular organism [Term] id: UBERON:0013522 name: subdivision of tube namespace: uberon is_a: UBERON:0000064 ! organ part relationship: has_part UBERON:0000060 ! anatomical wall relationship: has_part UBERON:0000464 ! anatomical space relationship: part_of UBERON:0000025 ! tube relationship: subdivision_of UBERON:0000025 ! tube [Term] id: UBERON:0013686 name: anatomical conduit space namespace: uberon def: "An anatomical space which is the lumen of some anatomical conduit and connects two or more spaces together[FMA,modified]." [FMA:9338, http://orcid.org/0000-0002-6601-2165] synonym: "foramen space" NARROW [] xref: FMA:9338 is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0000464 {source="FMA"} ! anatomical space relationship: connects UBERON:0000464 {minCardinality="2", maxCardinality="2"} ! anatomical space relationship: luminal_space_of UBERON:0004111 ! anatomical conduit relationship: part_of UBERON:0004111 ! anatomical conduit [Term] id: UBERON:0013694 name: brain endothelium namespace: uberon def: "Vascular endothelium found in blood vessels of the blood-brain-barrier." [CALOHA:TS-0092] synonym: "cerebromicrovascular endothelium" RELATED [CALOHA:TS-0092] xref: BTO:0001852 xref: BTO:0003248 xref: CALOHA:TS-0092 is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0013700 name: axial musculature namespace: uberon def: "Musculature of the head and neck, spine, and ribs." [HP:0003327] xref: EHDAA2:0000159 xref: EMAPA:18166 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: attaches_to UBERON:0005944 ! axial skeleton plus cranial skeleton intersection_of: part_of UBERON:0013701 ! main body axis relationship: attaches_to UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of UBERON:0013701 ! main body axis [Term] id: UBERON:0013701 name: main body axis namespace: uberon def: "A principle subdivision of an organism that includes all structures along the primary axis, typically the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages." [https://orcid.org/0000-0002-6601-2165] subset: non_informative is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0013702 name: body proper namespace: uberon def: "The region of the organism associated with the visceral organs." [AEO:0000103] subset: non_informative synonym: "body" RELATED [AEO:0000103] synonym: "whole body" RELATED [BTO:0001489] xref: AEO:0000103 xref: BTO:0001489 xref: EMAPA:36031 xref: FMA:231424 is_a: UBERON:0000475 {source="AEO"} ! organism subdivision relationship: part_of UBERON:0013701 ! main body axis property_value: external_definition "Cardinal body part, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the vertebral column and ribcage. Examples: There is only one body proper[FMA:231424]." xsd:string {source="FMA:231424"} [Term] id: UBERON:0013704 name: notochordal canal namespace: uberon def: "A tubular passage that extends from the primitive pit into the head process during the early stages of embryonic development in mammals. It perforates the splanchnopleure layer so that the yolk sac and the amnion are connected temporarily." [http://medical-dictionary.thefreedictionary.com/notochordal+canal] synonym: "chordal canal" RELATED [] xref: FMA:293127 xref: http://linkedlifedata.com/resource/umls/id/C1518428 xref: NCIT:C34230 xref: UMLS:C1518428 {source="ncithesaurus:Notochordal_Canal"} is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: part_of UBERON:0006268 ! notochordal process relationship: part_of UBERON:0006268 ! notochordal process [Term] id: UBERON:0013727 name: notochordal fluid namespace: uberon def: "Fluid contained within the notochordal canal" [http://animaldiversity.org/accounts/Latimeria_chalumnae/, http://orcid.org/0000-0002-6601-2165] comment: Distinct feature of coelocanths synonym: "notochord fluid" EXACT [] synonym: "portion of notochordal fluid" EXACT [] is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: located_in UBERON:0013704 ! notochordal canal intersection_of: part_of UBERON:0036242 ! post-embryonic notochord relationship: located_in UBERON:0013704 ! notochordal canal relationship: part_of UBERON:0036242 ! post-embryonic notochord [Term] id: UBERON:0013754 name: integumentary system layer namespace: uberon def: "A organ component layer that is part of a integumental system." [OBOL:automatic] subset: non_informative synonym: "layer of skin" NARROW [] synonym: "skin layer" NARROW [] xref: http://www.snomedbrowser.com/Codes/Details/314820002 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0002416 ! integumental system relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0013755 name: arterial blood namespace: uberon def: "A blood that is part of a artery." [OBOL:automatic] subset: pheno_slim synonym: "arterial blood" EXACT [FMA:83066] synonym: "blood in artery" EXACT [FMA:83066] synonym: "portion of arterial blood" EXACT [FMA:83066] xref: FMA:83066 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0013756 name: venous blood namespace: uberon def: "A blood that is part of a vein." [OBOL:automatic] synonym: "blood in vein" EXACT [FMA:83067] synonym: "portion of venous blood" EXACT [FMA:83067] synonym: "venous blood" EXACT [FMA:83067] xref: FMA:83067 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0013757 name: capillary blood namespace: uberon def: "A blood that is part of a capillary." [OBOL:automatic] synonym: "blood in capillary" EXACT [] synonym: "portion of blood in capillary" EXACT [FMA:263901] synonym: "portion of capillary blood" EXACT [] xref: FMA:263901 xref: NCIT:C32212 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001982 ! capillary relationship: part_of UBERON:0001982 ! capillary [Term] id: UBERON:0013765 name: digestive system element namespace: uberon def: "Any of the organs or elements that are part of the digestive system. Examples: tongue, esophagus, spleen, crop, lunge feeding organ, tooth elements." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: pheno_slim synonym: "digestive organ" EXACT [] synonym: "digestive system organ" EXACT [] xref: EMAPA:37843 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/272627002 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0013768 name: great vessel of heart namespace: uberon def: "Great vessels is a term used to refer collectively to the large vessels that bring blood to and from the heart." [http://en.wikipedia.org/wiki/Great_vessels] comment: Groupings may vary - typically pulmonary vessels and aorta and vena cavae subset: grouping_class synonym: "great vessel" BROAD [] synonym: "great vessel of thorax" EXACT [] xref: EMAPA:36460 xref: Great:vessels xref: http://www.snomedbrowser.com/Codes/Details/304066000 is_a: UBERON:0001981 ! blood vessel [Term] id: UBERON:0014387 name: mesenchyme derived from neural crest namespace: uberon def: "Mesenchyme that develops_from the neural crest[Automatically generated definition]." [https://github.com/obophenotype/uberon/issues/248, OBOL:automatic] synonym: "mesenchyme from neural crest" EXACT [] synonym: "neural crest derived mesenchyme" EXACT [] synonym: "neural crest mesenchyme" EXACT [] xref: EMAPA:32735 xref: FMA:293883 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest [Term] id: UBERON:0014477 name: thoracic skeleton namespace: uberon def: "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum." [http://en.wikipedia.org/wiki/Rib_cage, https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "skeleton of thorax" EXACT [] synonym: "thoracic part of axial skeleton" EXACT [] synonym: "thoracic skeleton" EXACT [EHDAA2:0002013] xref: EHDAA2:0002013 xref: FMA:77169 xref: Thoracic:skeleton is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002090 ! postcranial axial skeleton [Term] id: UBERON:0014776 name: midbrain neuromere namespace: uberon def: "A neuromere that is part of the presumptive midbrain" [http://orcid.org/0000-0002-6601-2165] synonym: "future mesencephalon" RELATED [] synonym: "mesomere" BROAD [] synonym: "mesomere group" RELATED [EHDAA2:0004352] synonym: "mesomere of nervous system" EXACT [] synonym: "midbrain segment" BROAD [] synonym: "neuromere of mesomere group" EXACT [] synonym: "segment of midbrain" BROAD [] xref: EHDAA2:0004352 xref: FMA:61997 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: UBERON:0014777 name: spinal neuromere namespace: uberon def: "A neuromere that is part of the presumptive spinal cord" [http://orcid.org/0000-0002-6601-2165] synonym: "spinal cord metameric segment" EXACT [] synonym: "spinal cord segment" RELATED [TAO:0001332] synonym: "spinal neuromeres" EXACT PLURAL [TAO:0001332] xref: TAO:0001332 xref: ZFA:0001332 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0014903 name: primordial vasculature namespace: uberon def: "A portion of tissue that will develop into vasculature." [ZFA:0005076, ZFA:curator] xref: EFO:0003708 xref: TAO:0005076 xref: ZFA:0005076 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 ! primordium intersection_of: UBERON:0001048 ! primordium intersection_of: has_potential_to_develop_into UBERON:0002049 ! vasculature relationship: has_potential_to_develop_into UBERON:0002049 ! vasculature relationship: part_of UBERON:0011695 ! embryonic cardiovascular system [Term] id: UBERON:0015152 name: gland of ocular region namespace: uberon def: "A gland that is typically found in or near the orbital region, in or around either the medial or lateral canthi, and is typically associated with secretions onto the eyeball or associated ducts. Includes the Harderian, nictitans and lacrimal glands." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/614] synonym: "ocular gland" EXACT [] synonym: "orbital gland" RELATED [] is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0004088 ! orbital region relationship: dc-contributor https://github.com/cmungall relationship: part_of UBERON:0035639 {source="inferred"} ! ocular adnexa property_value: taxon_notes "the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104]" xsd:string property_value: taxon_notes "the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648]" xsd:string [Term] id: UBERON:0015165 name: multi-unit eye namespace: uberon def: "An eye consisting of multiple light-sensing organs" [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/21062451] is_a: UBERON:0000970 ! eye intersection_of: UBERON:0000970 ! eye intersection_of: composed_primarily_of UBERON:0000020 ! sense organ relationship: composed_primarily_of UBERON:0000020 ! sense organ relationship: present_in_taxon NCBITaxon:6340 {notes="present on tentacular crown", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} ! Annelida relationship: present_in_taxon NCBITaxon:6544 {notes="present on mantle edge in arcacean Bivalvia", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} ! Bivalvia relationship: present_in_taxon NCBITaxon:7588 {notes="The eyes (optic cushions) on the oral surface of Asteroida (Echinodermata), close to the base of the terminal tentacles, are also composed of a number of simple ocelli - as many as 80-200 in certain species", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} ! Asteroidea [Term] id: UBERON:0015178 name: somite border namespace: uberon def: "A region of somite adjacent to presomitic mesoderm." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "inter-somited border" RELATED [] synonym: "intersomitic boundary" RELATED [] synonym: "intersomitic fissure" RELATED [] synonym: "intersomitic junction" RELATED [XAO:0004074] synonym: "segmental border" RELATED [] synonym: "somite boundary" RELATED [ZFA:0001462] xref: TAO:0001462 xref: XAO:0004074 xref: ZFA:0001462 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: adjacent_to UBERON:0003059 ! presomitic mesoderm intersection_of: part_of UBERON:0002329 ! somite relationship: adjacent_to UBERON:0003059 ! presomitic mesoderm relationship: part_of UBERON:0002329 ! somite [Term] id: UBERON:0015179 name: somite boundary epithelium namespace: uberon def: "Epithelium located in the intersomitic region." [XAO:0004077, XAO:EJS] synonym: "intersomitic epithelium" EXACT [XAO:0004077] synonym: "intersomitic membrane" EXACT [XAO:0004077] xref: XAO:0004077 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0015178 ! somite border relationship: part_of UBERON:0015178 ! somite border [Term] id: UBERON:0015212 name: lateral structure namespace: uberon def: "Any structure that is placed on one side of the left-right axis of a bilaterian." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: non_informative is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: in_lateral_side_of UBERON:0000465 ! material anatomical entity relationship: in_lateral_side_of UBERON:0000465 ! material anatomical entity property_value: curator_notes "This class is primarily to implement taxon constraints. It may be removed in the future." xsd:string [Term] id: UBERON:0015228 name: circulatory organ namespace: uberon def: "A hollow, muscular organ, which, by contracting rhythmically, contributes to the circulation of lymph, blood or analogs. Examples: a chambered vertebrate heart; the tubular peristaltic heart of ascidians; the dorsal vessel of an insect; the lymoh heart of a reptile." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "cardiac pump" EXACT [] synonym: "cardiac structure" RELATED [] synonym: "circulatory vessel" NARROW [] synonym: "heart" BROAD [] synonym: "heart or heart like organ" EXACT [] xref: SPD:0000130 is_a: UBERON:0003103 ! compound organ relationship: part_of UBERON:0001009 ! circulatory system [Term] id: UBERON:0015329 name: respiratory system basement membrane namespace: uberon def: "A basement membrane of epithelium that is part of a respiratory system." [OBOL:automatic] xref: EMAPA:37570 {source="MA:th"} xref: MA:0001815 is_a: UBERON:0005769 ! basement membrane of epithelium intersection_of: UBERON:0005769 ! basement membrane of epithelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003570 {source="MA"} ! respiratory system connective tissue [Term] id: UBERON:0015410 name: heart plus pericardium namespace: uberon synonym: "heart/pericardium" EXACT [MA:0002449] xref: EMAPA:37597 {source="MA:th"} xref: MA:0002449 is_a: UBERON:0005178 {source="MA"} ! thoracic cavity element relationship: part_of UBERON:0004535 ! cardiovascular system [Term] id: UBERON:0015783 name: smooth muscle layer in fatty layer of subcutaneous tissue namespace: uberon def: "A smooth muscle tissue that is part of a hypodermis." [OBOL:automatic] synonym: "muscle layer in fatty layer of subcutaneous tissue" EXACT [FMA:77862] synonym: "stratum musculosum panniculi adiposi telae subcutaneae" EXACT LATIN [FMA:77862, FMA:TA] xref: FMA:77862 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0002072 ! hypodermis relationship: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0015808 name: eye epithelium namespace: uberon def: "A epithelium that is part of a camera-type eye." [OBOL:automatic] xref: EMAPA:35957 xref: MA:0003162 is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0015833 name: foregut epithelium namespace: uberon def: "A epithelium that is part of a foregut." [OBOL:automatic] xref: EMAPA:32922 xref: MA:0003204 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0016405 name: pulmonary capillary namespace: uberon def: "A capillary that is part of a lung." [OBOL:automatic] subset: pheno_slim synonym: "capillary of lung" EXACT [FMA:14121] xref: FMA:14121 is_a: UBERON:0003512 ! lung blood vessel is_a: UBERON:0003526 ! respiratory system capillary intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0016545 name: pharyngeal ectoderm namespace: uberon alt_id: UBERON:2001379 def: "The external part of the developing pharynx that is made of ectoderm. During vertebrate development, pockets form in pharyngeal ectoderm between the pharyngeal arches." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/23020903] xref: TAO:0001379 xref: ZFA:0001379 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003351 ! pharyngeal epithelium is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: part_of UBERON:0000076 ! external ectoderm intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0000076 ! external ectoderm [Term] id: UBERON:0016548 name: central nervous system gray matter layer namespace: uberon def: "A layer of of the central nervous system that is part of gray matter." [http://orcid.org/0000-0002-6601-2165] synonym: "CNS gray matter layer" EXACT [] synonym: "CNS grey matter layer" EXACT [] synonym: "gray matter layer of neuraxis" EXACT [FMA:83142] synonym: "grey matter layer" BROAD [] synonym: "grey matter layer of neuraxis" EXACT [] xref: FMA:83142 is_a: BFO:0000040 ! material entity is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: composed_primarily_of UBERON:0002020 ! gray matter relationship: composed_primarily_of UBERON:0002020 ! gray matter [Term] id: UBERON:0016570 name: lamina of gray matter of spinal cord namespace: uberon synonym: "rexed lamina" EXACT [FMA:68861] xref: FMA:68861 xref: http://neurolex.org/wiki/Category\:Rexed_spinal_cord_parcellation_scheme_region xref: Rexed:laminae is_a: UBERON:0011215 ! central nervous system cell part cluster is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: part_of UBERON:0002315 ! gray matter of spinal cord relationship: part_of UBERON:0002315 ! gray matter of spinal cord [Term] id: UBERON:0016879 name: future central nervous system namespace: uberon alt_id: UBERON:3000469 def: "Primordium that develops into the central nervous system" [http://orcid.org/0000-0002-6601-2165] synonym: "future CNS" EXACT [] synonym: "presumptive central nervous system" EXACT [] is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001017 ! central nervous system relationship: develops_from UBERON:0000924 ! ectoderm relationship: has_potential_to_develop_into UBERON:0001017 ! central nervous system relationship: part_of UBERON:0016880 ! future nervous system [Term] id: UBERON:0016880 name: future nervous system namespace: uberon alt_id: UBERON:3000477 def: "Primordium that develops into the nervous system" [http://orcid.org/0000-0002-6601-2165] synonym: "presumptive nervous system" EXACT [AAO:0000477] xref: AAO:0000477 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001016 ! nervous system relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_potential_to_develop_into UBERON:0001016 ! nervous system [Term] id: UBERON:0016887 name: entire extraembryonic component namespace: uberon def: "The part of the conceptus that may be lost before birth or will be discarded at birth, or when the embryo becomes an independent organism." [AEO:0000195, AEO:JB] synonym: "extra-embryonic component" EXACT [] synonym: "extraembryonic component" EXACT [AEO:0000195] xref: AEO:0000195 xref: EHDAA2:0000003 xref: EMAPA:16042 is_a: BFO:0000004 ! independent continuant is_a: UBERON:0000481 {source="AEO"} ! multi-tissue structure relationship: adjacent_to UBERON:0002050 ! embryonic structure relationship: existence_starts_and_ends_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0004716 {source="AEO"} ! conceptus [Term] id: UBERON:0016888 name: transitional anatomical structure namespace: uberon def: "An embryonic anatomical entity that will turn into one or more other anatomical entities, perhaps with other anatomical entities, later in development." [AEO:0000132, AEO:JB] xref: AEO:0000132 is_a: UBERON:0005423 {source="AEO"} ! developing anatomical structure [Term] id: UBERON:0017650 name: developing mesenchymal structure namespace: uberon def: "A mesenchyme-derived anatomical entity undergoing a transtion to become another structure." [AEO:0001016, AEO:JB] xref: AEO:0001016 is_a: BFO:0000040 ! material entity is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: composed_primarily_of UBERON:0003104 ! mesenchyme relationship: composed_primarily_of UBERON:0003104 ! mesenchyme [Term] id: UBERON:0018150 name: skin of lower lip namespace: uberon def: "A zone of skin that is part of a lower lip." [OBOL:automatic] synonym: "lower lip skin" EXACT [FMA:24767] xref: FMA:24767 xref: http://www.snomedbrowser.com/Codes/Details/281630002 is_a: UBERON:0001458 ! skin of lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001835 ! lower lip relationship: part_of UBERON:0001835 ! lower lip [Term] id: UBERON:0018239 name: rhombomere boundary namespace: uberon def: "A boundary delimiting a rhombomere." [GO:0021654] synonym: "rhombomere junction" EXACT [] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0001892 ! rhombomere relationship: connects UBERON:0001892 ! rhombomere relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: UBERON:0018257 name: submucosa of digestive tract namespace: uberon def: "Any portion of submucosa that lines the digestive tract." [http://orcid.org/0000-0002-6601-2165] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000009 ! submucosa intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0018260 name: layer of muscle tissue namespace: uberon def: "Any organ component layer that consists of muscle tissue." [http://orcid.org/0000-0002-6601-2165] xref: FMA:45634 xref: http://linkedlifedata.com/resource/umls/id/C0225358 xref: NCIT:C75444 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: composed_primarily_of UBERON:0002385 ! muscle tissue property_value: external_ontology_notes "NCITA class may refer to smooth muscle only" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0018674 name: heart vasculature namespace: uberon def: "An interconnected tubular multi-tissue structure that contains fluid that is actively transported around the heart." [ZFA:0005811, ZFA:CVS] synonym: "cardiac vasculature" EXACT [FMA:73747] xref: FMA:73747 xref: ZFA:0005811 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002201 ! vasculature of trunk is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0019189 name: carotid artery endothelium namespace: uberon synonym: "carotid endothelium" RELATED [BTO:0004626] synonym: "carotid epithelium" RELATED [] xref: BTO:0004626 is_a: UBERON:0001917 ! endothelium of artery intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0005396 ! carotid artery segment relationship: part_of UBERON:0005396 ! carotid artery segment [Term] id: UBERON:0019204 name: skin epithelium namespace: uberon def: "Any region of epithelium that is part of a skin region." [http://orcid.org/0000-0002-6601-2165] xref: BTO:0004382 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000014 ! zone of skin relationship: part_of UBERON:0000014 ! zone of skin [Term] id: UBERON:0019207 name: chorioretinal region namespace: uberon def: "The part of the eye that consists of both the retina and the optic choroid" [http://orcid.org/0000-0002-6601-2165, UBERON:drseb] subset: pheno_slim synonym: "chorioretina" EXACT [] synonym: "choroid and retina" EXACT [] synonym: "retinachoroid" EXACT [] synonym: "retinachoroidal region" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/110701000 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0000966 ! retina relationship: has_part UBERON:0001776 ! optic choroid relationship: part_of UBERON:0010230 ! eyeball of camera-type eye [Term] id: UBERON:0019263 name: gray matter of hindbrain namespace: uberon synonym: "gray matter of the hindbrain" EXACT [DHBA:HGM] xref: DHBA:10654 xref: FMA:268630 is_a: UBERON:0003528 ! brain gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0019267 name: gray matter of midbrain namespace: uberon xref: DHBA:10649 xref: FMA:83913 is_a: UBERON:0003528 ! brain gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0019304 name: sensory organ epithelium namespace: uberon xref: EMAPA:35952 xref: MA:0003174 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000020 ! sense organ relationship: part_of UBERON:0000020 ! sense organ [Term] id: UBERON:0019319 name: exocrine gland of integumental system namespace: uberon def: "An exocrine gland that is part of a integumental system." [GOC:dos, http://orcid.org/0000-0002-6601-2165] synonym: "integumental exocrine gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumental system exocrine gland" EXACT [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003297 ! gland of integumental system intersection_of: UBERON:0002365 ! exocrine gland intersection_of: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0022288 name: surface of eyeball namespace: uberon synonym: "surface of region of wall of eyeball" RELATED [FMA:58315] xref: FMA:58315 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: bounding_layer_of UBERON:0010230 ! eyeball of camera-type eye relationship: bounding_layer_of UBERON:0010230 ! eyeball of camera-type eye relationship: part_of UBERON:0010230 ! eyeball of camera-type eye [Term] id: UBERON:0022303 name: nervous system cell part layer namespace: uberon def: "Single layer of a laminar structure, identified by different density, arrangement or size of cells and processes arranged in flattened layers or lamina[CUMBO]." [NIFSTD:nlx_149357] subset: cumbo synonym: "lamina" BROAD [CUMBO:CUMBO] synonym: "layer" BROAD [CUMBO:CUMBO] xref: nlx:149357 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "this is currently used to group some cellular layers that may not strictly conform to the CARO definition of cell-part layer. Consider genericisizing and introducing subtypes for cellular layer, fibrous layer and cell soma layer" xsd:string [Term] id: UBERON:0022350 name: visceral serous membrane namespace: uberon def: "Serous membrane layer that is adjacent to and lines an organ." [http://orcid.org/0000-0002-6601-2165] synonym: "visceral wall of serous membrane" EXACT [FMA:15860] xref: FMA:15860 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0000062 ! organ intersection_of: part_of UBERON:0000042 ! serous membrane relationship: adjacent_to UBERON:0000062 ! organ relationship: part_of UBERON:0000042 ! serous membrane [Term] id: UBERON:0022351 name: parietal serous membrane namespace: uberon def: "Serous membrane layer that lines to a body cavity." [http://orcid.org/0000-0002-6601-2165] synonym: "cavity lining" BROAD [MA:0002448] synonym: "parietal wall of serous membrane" EXACT [FMA:15859] xref: FMA:15859 xref: MA:0002448 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0002553 ! anatomical cavity intersection_of: part_of UBERON:0000042 ! serous membrane relationship: adjacent_to UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0000042 ! serous membrane [Term] id: UBERON:0022361 name: lung field namespace: uberon def: "A specific region of the foregut into the area in which the lung will develop." [GOC:dph, GOC:mtg_lung] synonym: "lung field" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/34922002 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007688 ! anlage intersection_of: UBERON:0007688 ! anlage intersection_of: has_potential_to_develop_into UBERON:0002048 ! lung relationship: has_potential_to_develop_into UBERON:0002048 ! lung relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0034705 name: developing neuroepithelium namespace: uberon def: "An embryonic or larval epithelium that is committed to form part of the nervous system." [AEO:0001008, AEO:JB] synonym: "embryonic neuroepithelium" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "neurepithelium" BROAD [BTO:0000314] synonym: "neuroepithelium" EXACT [AEO:0001008] xref: AEO:0001008 xref: BTO:0000314 xref: EHDAA2_RETIRED:0004654 xref: FMA:64807 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0034706 name: proliferating neuroepithelium namespace: uberon def: "An epithelium that is undergoing proliferation to provide large numbers of neuronal cells." [AEO:0001009] xref: AEO:0001009 is_a: UBERON:0034705 {source="AEO"} ! developing neuroepithelium [Term] id: UBERON:0034707 name: differentiating neuroepithelium namespace: uberon def: "A neuroepithelium some of whose cells are undergoing terminal differentiation to become neuronal cells." [AEO:0001010] xref: AEO:0001010 is_a: UBERON:0034705 {source="AEO"} ! developing neuroepithelium [Term] id: UBERON:0034709 name: hindbrain marginal layer namespace: uberon synonym: "marginal zone of hindbrain" EXACT [DHBA:12694] synonym: "MZH" RELATED ABBREVIATION [DHBA:12694] xref: DHBA:12694 xref: EMAPA:32916 is_a: UBERON:0004062 ! neural tube marginal layer is_a: UBERON:0011215 ! central nervous system cell part cluster intersection_of: UBERON:0004062 ! neural tube marginal layer intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0034710 name: spinal cord ventricular layer namespace: uberon synonym: "spinal cord lateral wall ventricular layer" EXACT [EHDAA2:0001267] xref: EHDAA2:0001267 xref: EMAPA:17585 is_a: UBERON:0004060 ! neural tube ventricular layer intersection_of: UBERON:0004060 ! neural tube ventricular layer intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0005496 {source="EHDAA2"} ! neural tube lateral wall relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0034873 name: bodily gas namespace: uberon def: "Any substance in the body or expelled from the body that is in a gaseous state." [http://orcid.org/0000-0002-6601-2165] synonym: "gas in anatomical space" EXACT [] synonym: "portion of gas in anatomical space" EXACT [FMA:84580] xref: FMA:84580 is_a: UBERON:0000463 ! organism substance [Term] id: UBERON:0034874 name: air in respiratory system namespace: uberon def: "Any portion of gas located in a part of the respiratory system that is composed primarily of air." [http://orcid.org/0000-0002-6601-2165] synonym: "respiratory air" EXACT [FMA:84581] synonym: "respiratory system air" EXACT [] xref: FMA:84581 is_a: UBERON:0034947 ! gas in respiratory system [Term] id: UBERON:0034878 name: prechordal mesoderm namespace: uberon def: "the area of axial mesoderm that develops into the prechordal plate" [MGI:anna] synonym: "prechordal mesenchyme" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0003063 ! prechordal plate intersection_of: part_of UBERON:0003068 ! axial mesoderm relationship: has_potential_to_develop_into UBERON:0003063 ! prechordal plate relationship: part_of UBERON:0003068 ! axial mesoderm [Term] id: UBERON:0034905 name: gland lumen namespace: uberon synonym: "lumen of gland" EXACT [] is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0002530 ! gland relationship: luminal_space_of UBERON:0002530 ! gland relationship: part_of UBERON:0002530 ! gland [Term] id: UBERON:0034921 name: multi organ part structure namespace: uberon def: "An multicellular anatomical structure that has subparts of multiple organs as a part." [CARO:0020001] synonym: "anatomical cluster" RELATED [CARO:0020001] xref: CARO:0020001 is_a: BFO:0000040 ! material entity is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: composed_primarily_of UBERON:0000064 ! organ part [Term] id: UBERON:0034922 name: cell cluster namespace: uberon def: "A cluster of cells, largely surrounded by a morphological boundary." [CARO:0020002] xref: CARO:0020002 xref: FMA:62807 is_a: BFO:0000004 ! independent continuant is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: surrounded_by UBERON:0000015 ! non-material anatomical boundary [Term] id: UBERON:0034925 name: anatomical collection namespace: uberon def: "A collection of anatomical structures that are alike in terms of their morphology or developmental origin." [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0000465 ! material anatomical entity relationship: has_member UBERON:0000061 ! anatomical structure property_value: editor_note "resolve if this should be a subclass of disconnected anatomical group. Some collections (e.g. the skeleton or skull) are arguably connected" xsd:string [Term] id: UBERON:0034933 name: layer of smooth muscle tissue namespace: uberon def: "Any organ component layer that consists of smooth muscle tissue." [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0018260 ! layer of muscle tissue intersection_of: UBERON:0004923 ! organ component layer intersection_of: composed_primarily_of UBERON:0001135 ! smooth muscle tissue relationship: composed_primarily_of UBERON:0001135 ! smooth muscle tissue [Term] id: UBERON:0034944 name: zone of organ namespace: uberon synonym: "organ region with floating fiat boundary" RELATED [FMA:55268] synonym: "organ sector" EXACT [FMA:55268] synonym: "organ zonal region" EXACT [] synonym: "organ zone" EXACT [FMA:55268] xref: FMA:55268 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0034947 name: gas in respiratory system namespace: uberon def: "Any portion of gas located in a part of the respiratory system." [http://orcid.org/0000-0002-6601-2165] synonym: "respiratory gas" EXACT [] synonym: "respiratory system gas" EXACT [] is_a: BFO:0000040 ! material entity is_a: UBERON:0034873 ! bodily gas intersection_of: UBERON:0034873 ! bodily gas intersection_of: located_in UBERON:0001004 ! respiratory system relationship: located_in UBERON:0001004 ! respiratory system [Term] id: UBERON:0034969 name: epithelial layer of duct namespace: uberon synonym: "duct epithelium" RELATED [] synonym: "ductal epithelium" RELATED [] xref: http://linkedlifedata.com/resource/umls/id/C1512086 xref: NCIT:C25787 is_a: UBERON:0003914 ! epithelial tube intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000058 ! duct relationship: part_of UBERON:0000058 ! duct [Term] id: UBERON:0034995 name: jaw mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing jaw [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:32907 xref: EMAPA:35454 is_a: UBERON:0005253 ! head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0011595 ! jaw region [Term] id: UBERON:0035037 name: jaw epithelium namespace: uberon xref: EMAPA:32904 xref: MA:0003220 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0011595 ! jaw region [Term] id: UBERON:0035118 name: material entity in digestive tract namespace: uberon def: "Any material entity that is located in the digestive tract. This includes undigested food and liquid as well as unexcreted waste products. It also includes other entities such as ingested stones used to aid digestion. Any microbial cells or cell populations are also included." [https://github.com/EnvironmentOntology/envo/issues/110] synonym: "digestive tract contents" EXACT PLURAL [] synonym: "ingested material entity" RELATED [] is_a: BFO:0000040 ! material entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: located_in UBERON:0006909 ! lumen of digestive tract relationship: located_in UBERON:0006909 ! lumen of digestive tract property_value: editor_note "Note that we treat any material entity that is ingested as an anatomical structure by defintion, although this may be expanding the CARO usage somewhat" xsd:string [Term] id: UBERON:0035159 name: entire surface of organism namespace: uberon def: "Anatomical surface, which is the external surface of the whole body. Examples: There is only one body surface." [FMA:61695] synonym: "surface of body" EXACT [FMA:61695] xref: FMA:61695 xref: http://linkedlifedata.com/resource/umls/id/C0489451 xref: http://www.snomedbrowser.com/Codes/Details/261060002 xref: NCIT:C29667 is_a: BFO:0000004 ! independent continuant is_a: UBERON:0006984 ! anatomical surface intersection_of: UBERON:0006984 ! anatomical surface intersection_of: surrounds UBERON:0000468 ! multicellular organism relationship: surrounds UBERON:0000468 ! multicellular organism [Term] id: UBERON:0035398 name: branch of external carotid artery namespace: uberon synonym: "external carotid arterial subdivision" EXACT [FMA:70505] synonym: "subdivision of external carotid artery" EXACT [FMA:70505] xref: FMA:70505 xref: http://linkedlifedata.com/resource/umls/id/C0447038 xref: http://www.snomedbrowser.com/Codes/Details/244216003 xref: NCIT:C32552 is_a: BFO:0000040 ! material entity is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: branching_part_of UBERON:0001070 ! external carotid artery relationship: branching_part_of UBERON:0001070 ! external carotid artery relationship: part_of UBERON:0001070 ! external carotid artery [Term] id: UBERON:0035546 name: uveal vein namespace: uberon synonym: "ciliary vein" EXACT [FMA:51797] xref: FMA:51797 xref: http://www.snomedbrowser.com/Codes/Details/149683007 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001768 ! uvea relationship: drains UBERON:0001768 ! uvea [Term] id: UBERON:0035549 name: vasculature of integument namespace: uberon def: "The part of the circulatory system that lies within the subcutaneous tissue layers close to the surface of the skin." [http://orcid.org/0000-0002-6601-2165] synonym: "dermis vasculature" NARROW [] synonym: "hypodermis vasculature" NARROW [] synonym: "skin vasculature" RELATED [] synonym: "subcutaneous vasculature" RELATED [] synonym: "superficial part of circulatory system" EXACT [] synonym: "superficial vasculature" EXACT [] synonym: "vasculature of skin" RELATED [FMA:225275] xref: FMA:225275 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: located_in UBERON:0002199 ! integument relationship: located_in UBERON:0002199 ! integument [Term] id: UBERON:0035550 name: superficial vein namespace: uberon def: "Any of the veins carrying deoxygenated blood from the subcutaneous tissue layers." [ncithesaurus:Superficial_Vein] synonym: "superfical vein" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] synonym: "superficial veins" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] synonym: "superficial vessels" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] xref: FMA:76719 xref: http://linkedlifedata.com/resource/umls/id/C0226513 xref: http://www.snomedbrowser.com/Codes/Details/341382008 xref: NCIT:C33666 xref: Superficial:vein is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0035549 ! vasculature of integument relationship: part_of UBERON:0035549 ! vasculature of integument [Term] id: UBERON:0035551 name: deep vasculature namespace: uberon def: "The part of the circulatory system that lies deep beneath the subcutaneous tissue layers away from the surface of the skin." [http://orcid.org/0000-0002-6601-2165] synonym: "deep part of circulatory system" EXACT [] is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: deep_to UBERON:0002199 ! integument relationship: deep_to UBERON:0002199 ! integument [Term] id: UBERON:0035552 name: deep vein namespace: uberon def: "A blood vessel carrying deoxygenated blood far beneath the skin usually accompanying an artery." [ncithesaurus:Deep_Vein] synonym: "deep veins" RELATED [http://en.wikipedia.org/wiki/Deep_vein] synonym: "deep vessels" RELATED [http://en.wikipedia.org/wiki/Deep_vein] xref: Deep:vein xref: FMA:76718 xref: http://linkedlifedata.com/resource/umls/id/C0226514 xref: http://www.snomedbrowser.com/Codes/Details/341484008 xref: NCIT:C32444 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0035551 ! deep vasculature relationship: part_of UBERON:0035551 ! deep vasculature [Term] id: UBERON:0035553 name: left cardiac chamber namespace: uberon def: "Any chamber of the left side of the heart" [http://orcid.org/0000-0002-6601-2165] xref: FMA:7166 xref: http://www.snomedbrowser.com/Codes/Details/362008007 is_a: UBERON:0004151 ! cardiac chamber is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0004151 ! cardiac chamber intersection_of: in_left_side_of UBERON:0000948 ! heart relationship: in_left_side_of UBERON:0000948 ! heart [Term] id: UBERON:0035554 name: right cardiac chamber namespace: uberon def: "Any chamber of the right side of the heart" [http://orcid.org/0000-0002-6601-2165] xref: FMA:7165 xref: http://www.snomedbrowser.com/Codes/Details/362007002 is_a: UBERON:0004151 ! cardiac chamber is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0004151 ! cardiac chamber intersection_of: in_right_side_of UBERON:0000948 ! heart relationship: in_right_side_of UBERON:0000948 ! heart [Term] id: UBERON:0035639 name: ocular adnexa namespace: uberon def: "The parts of the orbital region that are outside of the the eyeball, including the lacrimal apparatus, the extraocular muscles and the eyelids, eyelashes, eyebrows and the conjunctiva" [HPO:pr, http://medical-dictionary.thefreedictionary.com/ocular+adnexa, https://github.com/obophenotype/uberon/issues/1132, UBERON:cjm] synonym: "accessory parts of orbital region" RELATED [] synonym: "accessory visual structures" RELATED [http://en.wikipedia.org/wiki/Accessory_visual_structures] synonym: "accessory visual structures" RELATED [FMA:76554] synonym: "accessory visual structures set" RELATED [FMA:76554] synonym: "adnexa oculi" EXACT LATIN [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "adnexal parts of orbital region" RELATED [] synonym: "appendage of eye" RELATED [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "appendages of the eye" RELATED PLURAL [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "eye adnexa" RELATED [] synonym: "set of accessory visual structures" RELATED [FMA:76554] synonym: "structurae oculi accessoriae" RELATED LATIN [http://en.wikipedia.org/wiki/Accessory_visual_structures] xref: FMA:76554 xref: http://en.wikipedia.org/wiki/Accessory_visual_structures xref: http://linkedlifedata.com/resource/umls/id/C0229243 xref: http://www.snomedbrowser.com/Codes/Details/120612006 xref: NCIT:C32574 is_a: BFO:0000002 ! continuant is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0004088 ! orbital region [Term] id: UBERON:0035763 name: cavity of cardiac chamber namespace: uberon synonym: "cardiac chamber cavity" EXACT [FMA:9464] synonym: "heart cavity" EXACT [FMA:9464] synonym: "heart lumen" EXACT [EHDAA2:0004181] xref: EHDAA2:0004181 xref: FMA:9464 is_a: BFO:0000141 ! immaterial entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0004151 ! cardiac chamber relationship: luminal_space_of UBERON:0004151 ! cardiac chamber relationship: part_of UBERON:0004151 ! cardiac chamber relationship: surrounded_by UBERON:0002165 {source="FMA"} ! endocardium [Term] id: UBERON:0035804 name: future mouth namespace: uberon def: "The primordial mouth region of the developing head." [MP:0003119] synonym: "primitive mouth" EXACT [FMA:293105] synonym: "primordial mouth" EXACT [] xref: FMA:293105 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube relationship: has_part UBERON:0000925 ! endoderm relationship: has_part UBERON:0000930 ! stomodeum relationship: part_of UBERON:0007026 ! presumptive gut [Term] id: UBERON:0035809 name: serous cavity namespace: uberon xref: FMA:12241 xref: http://www.snomedbrowser.com/Codes/Details/304404008 is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0005906 ! serous sac relationship: luminal_space_of UBERON:0005906 ! serous sac relationship: part_of UBERON:0005906 ! serous sac [Term] id: UBERON:0035814 name: pericardial fat namespace: uberon def: "The sum of epicardial and paracardial fat deposits." [https://doi.org/10.5935/abc.20130138] xref: http://www.snomedbrowser.com/Codes/Details/42267001 xref: ZFA:0005765 is_a: UBERON:0035818 ! visceral fat intersection_of: UBERON:0001013 ! adipose tissue intersection_of: surrounds UBERON:0000948 ! heart relationship: surrounds UBERON:0000948 ! heart [Term] id: UBERON:0035818 name: visceral fat namespace: uberon def: "Any fat deposit surrounding a visceral organ." [UBERON:cjm] is_a: UBERON:0001013 ! adipose tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: surrounds UBERON:0000062 ! organ relationship: surrounds UBERON:0000062 ! organ [Term] id: UBERON:0035965 name: wall of blood vessel namespace: uberon synonym: "blood vessel wall" EXACT [FMA:67473] synonym: "vascular wall" RELATED [BTO:0004378] xref: BTO:0004378 xref: EMAPA:37987 {source="MA:th"} xref: FMA:67473 is_a: BFO:0000040 ! material entity is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001981 ! blood vessel relationship: composed_primarily_of UBERON:0004797 ! blood vessel layer relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0036072 name: respiratory primordium epithelium namespace: uberon xref: EHDAA2:0004070 is_a: UBERON:0004185 ! endodermal part of digestive tract is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac is_a: UBERON:0009854 ! digestive tract diverticulum is_a: UBERON:0015833 ! foregut epithelium intersection_of: UBERON:0007499 ! epithelial sac intersection_of: part_of UBERON:0008947 ! respiratory primordium relationship: develops_from UBERON:0007690 {source="EHDAA2"} ! early pharyngeal endoderm relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0036073 name: respiratory primordium mesenchyme namespace: uberon synonym: "respiratory primordium associated mesenchyme" EXACT [EHDAA2:0004071] xref: EHDAA2:0004071 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0008947 ! respiratory primordium relationship: develops_from UBERON:0004873 {source="EHDAA2"} ! splanchnopleure relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0036146 name: cardiopharyngeal field namespace: uberon def: "An region of the mesoderm that includes anterior lateral mesoderm of the first heart field plus contiguous pharyngeal mesoderm that gives rise to second-heart-field-derived regions of the heart and branchiomeric muscles." [BGEE:ann, http://www.nature.com/nature/journal/v520/n7548/full/nature14435.html#bx1] is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage [Term] id: UBERON:0036215 name: anatomical surface region namespace: uberon def: "Material anatomical entity that forms the outermost boundary of an anatomical structure." [https://github.com/obophenotype/uberon/issues/1324] xref: AAO:0010270 xref: AEO:0000154 xref: ZFA:0005594 is_a: BFO:0000040 ! material entity is_a: UBERON:0000465 ! material anatomical entity relationship: bounding_layer_of UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000061 ! anatomical structure [Term] id: UBERON:0036217 name: coelomic fluid namespace: uberon def: "A bodily fluid that is located in the coelom." [http://www.ncbi.nlm.nih.gov/pubmed/10874572, https://github.com/obophenotype/uberon/issues/1326] xref: BTO:0001708 is_a: BFO:0000004 ! independent continuant is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: located_in UBERON:0011997 ! coelom relationship: located_in UBERON:0011997 ! coelom property_value: function_notes "he coelomic fluid serves several functions; it acts as a hydroskeleton, it allows free movement and growth of internal organs, it serves for transport of gases, nutrients and waste products between different parts of the body, it allows storage of sperm and eggs during maturation and it acts as a reservoir for waste[https://en.wikipedia.org/wiki/Coelom#Coelomic_fluid]" xsd:string [Term] id: UBERON:0036225 name: respiratory system gland namespace: uberon def: "Any gland that is part os the respiratory system." [UBERON:cjm] is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0036242 name: post-embryonic notochord namespace: uberon def: "A notochord that has persisted beyond the embryonic stage." [UBERON:cjm] is_a: UBERON:0002328 ! notochord intersection_of: UBERON:0002328 ! notochord intersection_of: part_of UBERON:0009953 ! post-embryonic organism relationship: part_of UBERON:0009953 ! post-embryonic organism relationship: present_in_taxon NCBITaxon:118072 ! Coelacanthimorpha relationship: present_in_taxon NCBITaxon:7737 ! Branchiostoma relationship: present_in_taxon NCBITaxon:7746 ! Petromyzontidae relationship: present_in_taxon NCBITaxon:7878 ! Dipnoi relationship: present_in_taxon NCBITaxon:8292 ! Amphibia [Term] id: UBERON:0036244 name: secretion of serous membrane namespace: uberon def: "A transudate found in the serous sac." [FMA:20932] synonym: "serous fluid" BROAD [FMA:20932] synonym: "serous sac fluid" EXACT [] xref: FMA:20932 is_a: BFO:0000040 ! material entity is_a: UBERON:0007779 ! transudate intersection_of: UBERON:0007779 ! transudate intersection_of: filtered_through UBERON:0000042 ! serous membrane relationship: filtered_through UBERON:0000042 ! serous membrane relationship: located_in UBERON:0005906 ! serous sac [Term] id: UBERON:0036253 name: orifice of skull namespace: uberon synonym: "cranial orifice" EXACT [FMA:53133] synonym: "skull orifice" EXACT [FMA:53133] xref: FMA:53133 is_a: UBERON:0000161 ! orifice intersection_of: UBERON:0000161 ! orifice intersection_of: part_of UBERON:0003129 ! skull relationship: part_of UBERON:0003129 ! skull [Term] id: UBERON:0036294 name: mucosa of lip namespace: uberon def: "A mucosa that is part of a lip region [Automatically generated definition]." [OBOL:automatic] synonym: "labial mucosa" EXACT [UBERON:cjm] xref: NCIT:C12226 is_a: UBERON:0003729 ! mouth mucosa is_a: UBERON:0013754 ! integumentary system layer intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip [Term] id: UBERON:0036302 name: vasculature of central nervous system plus retina namespace: uberon is_a: UBERON:0002049 ! vasculature union_of: UBERON:0004864 ! vasculature of retina union_of: UBERON:0036303 ! vasculature of central nervous system [Term] id: UBERON:0036303 name: vasculature of central nervous system namespace: uberon xref: FMA:259905 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0036302 ! vasculature of central nervous system plus retina intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:1000021 name: skin of face namespace: uberon def: "A zone of skin that is part of the face." [https://github.com/obophenotype/uberon/issues/34, UBERON:EJS] subset: pheno_slim subset: phenotype_rcn synonym: "face skin" EXACT [EMAPA:36657, FMA:24758] synonym: "facial skin" RELATED [] xref: EMAPA:36657 xref: FMA:24758 xref: http://linkedlifedata.com/resource/umls/id/C0222084 xref: http://www.snomedbrowser.com/Codes/Details/361703006 xref: NCIT:C33561 xref: UMLS:C0222084 {source="ncithesaurus:Skin_of_the_Face"} is_a: UBERON:0001084 ! skin of head intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001456 ! face relationship: dc-contributor https://github.com/cmungall relationship: dc-contributor https://github.com/seger relationship: part_of UBERON:0001456 ! face created_by: eriks creation_date: 2012-02-05T05:23:01Z [Term] id: UBERON:3000961 name: external integument structure namespace: uberon/phenoscape-anatomy def: "Structures of the dermis, epidermis, glands and pigment cells recognizable on the external surfaces of the integument." [AAO:EJS] comment: Not clear how this differs from parent class. See https://github.com/obophenotype/uberon/issues/1305 is_a: UBERON:0003102 ! surface structure intersection_of: UBERON:0003102 ! surface structure intersection_of: part_of UBERON:0002199 ! integument relationship: part_of UBERON:0002199 ! integument property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string created_by: amphibian_anatomy_curators [Term] id: UBERON:3000972 name: head external integument structure namespace: uberon/phenoscape-anatomy def: "Dermal, epidermal, glandular and pigment structures of the external head integument." [AAO:EJS] is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:3000961 ! external integument structure intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string created_by: amphibian_anatomy_curators [Term] id: UBERON:3000977 name: body external integument structure namespace: uberon/phenoscape-anatomy def: "Dermal, epidermal, glandular and pigment structures of the body integument." [AAO:EJS] is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:3000961 ! external integument structure intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string created_by: amphibian_anatomy_curators [Term] id: UBERON:3010200 name: vasculature of respiratory integument namespace: uberon/phenoscape-anatomy def: "Blood vessels in respiratory skin." [AAO:EJS] is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system intersection_of: part_of UBERON:0002199 ! integument relationship: part_of UBERON:0002199 ! integument property_value: editor_note "Modified from the original AAO source" xsd:string created_by: amphibian_anatomy_curators [Term] id: WBPhenotype:0000000 name: chromosome instability def: "Variations in the frequencies of translocations, inversions, deletions, or gene amplifications and variations in chromosome fusion events and or chromosomal loss compared to control." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0000001 name: body posture variant def: "Animals exhibit variations in body posture compared to control animals. For example, in C. elegans characteristic sinusoidal body posture is altered." [WB:cab, WB:WBPerson557] subset: phenotype_slim_wb synonym: "body posture abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000002 name: kinker def: "The animal moves or rests with uncharacteristic muscle spasms causing loss of smooth sinusoidal motion or body posture. Movement is often characterized by severe bending motions, more sharply angled and/or much deeper than stereotypical sinusoidal body bends of the control animals." [WB:WBPerson2021, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0000003 name: obsolete flattened locomotion path def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0001309 [Term] id: WBPhenotype:0000004 name: constitutive egg laying def: "Eggs are laid under conditions where egg laying is normally inhibited." [WB:cab] comment: Liquid M9. synonym: "Egl c" BROAD [] is_a: WBPhenotype:0000005 ! hyperactive egg laying [Term] id: WBPhenotype:0000005 name: hyperactive egg laying def: "Eggs are laid at an earlier stage of development, eggs are laid in the presence of inhibitors of egg laying, or the inactive phase of the egg-laying cycle is significantly shorter when compared to control." [WB:cab] is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0000006 name: egg laying defective def: "Eggs are not laid, laid at a slower rate or eggs are laid at a later stage of development compared to control." [WB:cab, WB:WBPaper00004402, WB:WBPaper00004651, WB:WBPaper00005654, WB:WBPaper00006395, WB:WBPaper00024497, WB:WBPaper00025054] synonym: "Egl d" BROAD [] is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0000007 name: bag of worms def: "A worm carcass is formed with retained eggs that hatch inside." [WB:cab] synonym: "Bag" BROAD [] is_a: WBPhenotype:0000862 ! bloated [Term] id: WBPhenotype:0000008 name: anesthetic hypersensitive def: "Animals respond to anesthetic at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] synonym: "anaesthetic hypersensitive" EXACT [] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0000627 ! anesthetic response variant [Term] id: WBPhenotype:0000009 name: anesthetic resistant def: "Animals fail to respond to the concentration of anesthetic that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] synonym: "anaesthetic resistant" EXACT [] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0000627 ! anesthetic response variant [Term] id: WBPhenotype:0000010 name: drug hypersensitive def: "Animals respond to a specific drug at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000011 name: drug resistant def: "Animals fail to respond to the concentration of a drug that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. Animals are not affected by exposure to the drug." [WB:WBPerson557] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000012 name: dauer constitutive def: "Formation of dauer larvae under conditions that do not favor dauer formation." [WB:kmva] synonym: "Daf c" BROAD [] is_a: WBPhenotype:0000637 ! dauer formation variant [Term] id: WBPhenotype:0000013 name: dauer defective def: "Failure to form dauer larvae under dauer-inducing conditions." [WB:kmva] synonym: "Daf d" BROAD [] is_a: WBPhenotype:0000637 ! dauer formation variant [Term] id: WBPhenotype:0000014 name: cord commissures variant def: "Variations in the structure, organization or path of axon tracts that grow circumferentially around the animal in a single, directed trajectory to bridge the ventral and dorsal cords, compared to control animals." [WB:WBPaper00001499, WB:WBPaper00029065, WB:WBPerson712] synonym: "cord commissures abnormal" NARROW [] is_a: WBPhenotype:0001226 ! commissure variant [Term] id: WBPhenotype:0000015 name: positive chemotaxis defective def: "Variations in the movement towards typically attractive chemicals." [WB:cab] is_a: WBPhenotype:0000635 ! positive chemotaxis variant [Term] id: WBPhenotype:0000016 name: aldicarb hypersensitive def: "Animals respond to aldicarb at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] synonym: "Hic" BROAD [] is_a: WBPhenotype:0000500 ! acetylcholinesterase inhibitor hypersensitive is_a: WBPhenotype:0000680 ! aldicarb response variant [Term] id: WBPhenotype:0000017 name: aldicarb resistant def: "Animals fail to respond to the concentration of aldicarb that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] synonym: "Ald R" BROAD [] synonym: "Ric" BROAD [] is_a: WBPhenotype:0000680 ! aldicarb response variant is_a: WBPhenotype:0001289 ! acetylcholinesterase inhibitor resistant [Term] id: WBPhenotype:0000018 name: pharyngeal pumping increased def: "The contraction and relaxation movements of the pharynx occur at a greater frequency compared to that observed for control animals." [WB:WBPerson712] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0000019 name: pharyngeal pumping reduced def: "Pharyngeal pumping motion occurs at a slower rate than control animals." [WB:WBPaper00001709] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0000020 name: pharyngeal pumping irregular def: "Pharyngeal pumping motion occurs at intervals that vary from control animals." [WB:WBPaper00001709] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0000021 name: squat def: "Squat animals are dumpy as homozygotes, but roll as heterozygotes." [WB:WBPaper00000906] synonym: "Sqt" BROAD [] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0000022 name: long def: "Animals are longer than control animals at the same developmental stage." [WB:cab, WB:cgc31] synonym: "Lon" BROAD [] is_a: WBPhenotype:0000319 ! large is_a: WBPhenotype:0001726 ! body length variant [Term] id: WBPhenotype:0000023 name: serotonin hypersensitive def: "Animals respond to serotonin at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000024 name: serotonin resistant def: "Animals fail to respond to the concentration of serotonin that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000025 name: blistered def: "Fluid-filled blisters appear on the cuticle." [WB:cab, WB:cgc31, WB:WBPaper00004402, WB:WBPaper00005654, WB:WBPaper00006395, WB:WBPaper00024497] synonym: "Bli" BROAD [] is_a: WBPhenotype:0000948 ! cuticle morphology variant [Term] id: WBPhenotype:0000026 name: lipid depleted def: "Animals are unable to take up or store lipids. In C. elegans, this defect results in pale, skinny and arrested larva." [GO:0006629, WB:WBPaper00005707, WB:WBPerson712] synonym: "fat depleted" RELATED [] synonym: "Lpd" BROAD [] is_a: WBPhenotype:0001183 ! fat content reduced [Term] id: WBPhenotype:0000027 name: organism metabolism processing variant def: "Variations in the chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances compared to control." [GO:0008152, WB:WBPerson2021, WB:WBPerson557] synonym: "organism metabolism processing abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000028 name: RNA processing variant def: "Variations in the processes involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules compared to control." [GO:0006396, WB:WBPerson2021] synonym: "RNA processing abnormal" NARROW [] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0000029 name: systemic RNAi variant def: "Animals are defective for RNAi introduced by environmental means such as in the cases of RNAi triggered by soaking or feeding." [WB:WBPaper00029209, WB:WBPaper00030758, WB:WBPerson712] synonym: "Environmental RNAi defective" RELATED [] synonym: "systemic RNAi abnormal" NARROW [] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0000030 name: growth variant def: "Variations in the processes that regulate the change (increase) in size or mass of an integrated living unit (a cell, tissue, organ or organism) compared to control animals." [GO:0040007, WB:WBPerson2021] synonym: "growth abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000031 name: slow growth def: "Any variation that causes a reduction in growth rate compared to control." [WB:cab, WB:WBPaper00004402, WB:WBPaper00004403, WB:WBPaper00004651, WB:WBPaper00004769, WB:WBPaper00005654, WB:WBPaper00006395, WB:WBPaper00024497, WB:WBPerson557] synonym: "Gro" BROAD [] is_a: WBPhenotype:0000030 ! growth variant is_a: WBPhenotype:0000043 ! general pace of development variant is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0000032 name: sick def: "Animals exhibit some combination of abnormal features relating to size, movement, body integrity, pigmentation, viability, fertility etc." [WB:WBPaper00000179, WB:WBPaper00000565, WB:WBPerson712] synonym: "Sck" BROAD [] is_a: WBPhenotype:0000030 ! growth variant [Term] id: WBPhenotype:0000033 name: developmental timing variant alt_id: WBPhenotype:0000437 def: "The timing of specific developmental events in some tissues is altered relative to the timing of events in other tissues." [pmid:6494891, WB:cab] comment: Possible XP GO:0040034. subset: phenotype_slim_wb synonym: "developmental timing abnormal" NARROW [] synonym: "heterochronic defect" EXACT [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000034 name: embryonic polarity variant def: "Contents or structures of an embryonic cell are not restricted/localized to the same positions (or poles) compared with control animals." [WB:WBPaper00005079, WB:WBPerson2021, WB:WBPerson712] synonym: "embryonic polarity abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000035 name: larval body morphology variant def: "Any variation in the overall structure or appearance of the animal as it progresses from hatching to adult compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "larval body morphology abnormal" NARROW [] synonym: "larval morphology abnormal" RELATED [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000036 name: adult body morphology variant def: "Any variation in the overall structure or appearance of the animal after it has completed progression through the larval stages compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "adult body morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000037 name: egg morphology variant def: "Any variation in the overall structure or appearance of fertilized oocytes that are laid compared to those laid by control animals." [WB:WBPaper00001075, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "egg morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000038 name: exploded through vulva def: "The animal is ruptured at the vulva and displays an extrusion of internal organs at the site of rupture." [WB:WBPaper00027633, WB:WBPaper00031094, WB:WBPerson712] synonym: "burst vulva" RELATED [] synonym: "gonad eversion" RELATED [] synonym: "gonad exploded through vulva" RELATED [] synonym: "Rup" BROAD [] synonym: "rupture through vulva" RELATED [] is_a: WBPhenotype:0000619 ! epithelial system development variant [Term] id: WBPhenotype:0000039 name: life span variant def: "Adult life span is either longer or shorter than typical of control animals." [GO:0008340, WB:cab, WB:WBPaper00005863, WB:WBPaper00026717, WB:WBPerson557] subset: phenotype_slim_wb synonym: "Age" BROAD [] synonym: "life span abnormal" NARROW [] synonym: "longevity abnormal" RELATED [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0000040 name: one cell arrest early emb def: "Embryos fail to divide and arrest as one-cell embryos." [WB:cab, WB:cgc5599] synonym: "catastrophic one cell arrest" RELATED [WB:cgc5599] synonym: "Emb" BROAD [] synonym: "Ocs" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0000041 name: osmotic integrity variant def: "Any variation in the process involved in the maintenance of an internal equilibrium of water within an organism, compared to control." [GO:0030104, WB:WBPerson2021] synonym: "osmoregulation variant" RELATED [] synonym: "osmotic integrity abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000042 name: slow embryonic development def: "The progression through stages between fertilization to hatching are temporally retarded." [WB:WBPerson712] synonym: "Sle" BROAD [] is_a: WBPhenotype:0000126 ! general pace of development defective early emb is_a: WBPhenotype:0000674 ! slow development [Term] id: WBPhenotype:0000043 name: general pace of development variant def: "Variations in the progression time of an animal from pronuclei meeting to adulthood compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "general pace of development abnormal" NARROW [] is_a: WBPhenotype:0000033 ! developmental timing variant [Term] id: WBPhenotype:0000044 name: egg size defective early emb def: "Egg is smaller or larger compared to eggs of control animals." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002089 ! cell component morphology variant is_a: WBPhenotype:0002407 ! egg size variant [Term] id: WBPhenotype:0000045 name: developmental delay postembryonic def: "The developmental progression of an animal after the embryonic stage, over time, from its formation to its mature structure is delayed compared to control." [WB:cab, WB:WBPaper00025054] is_a: WBPhenotype:0000049 ! postembryonic development variant is_a: WBPhenotype:0000848 ! developmental delay [Term] id: WBPhenotype:0000046 name: pace of P lineage defective early emb def: "More than five minutes between AB and P1 divisions." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "pace of P lineage abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000047 name: gastrulation variant def: "Variations in the process by which the germ layers become positioned in an embryo compared to control animals. Gastrulation involves the proper ingression of small groups of cells at various times into the blastocoel space." [WB:WBPaper00027251, WB:WBPerson2021] synonym: "gastrulation abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000048 name: hatching variant def: "Variations in the ability of an animal to emerge from the protective egg shell compared to control animals." [GO:0035188, WB:WBPerson2021] synonym: "hatching abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000049 name: postembryonic development variant def: "Any variation in the progression of an animal over time, from hatching to adulthood, compared to control." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "postembryonic development abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000050 name: embryonic lethal def: "Animals die during embryonic development. In C. elegans, often assayed as refractile eggs that fail to hatch; when applied to large-scale RNAi screens in C. elegans, more than 10% of embryos die." [WB:cab, WB:WBPaper00000179, WB:WBPaper00004403, WB:WBPaper00004540, WB:WBPaper00004651, WB:WBPaper00004769, WB:WBPaper00005654, WB:WBPaper00024497, WB:WBPaper00024925, WB:WBPaper00025054] subset: phenotype_slim_wb synonym: "egg lethal" RELATED [] synonym: "Emb" BROAD [] synonym: "embryonic death" RELATED [] synonym: "inviable zygote" RELATED [] is_a: WBPhenotype:0000062 ! lethal is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000051 name: embryonic terminal arrest variable emb def: "The developmental program does not continue past embryogenesis; stage of arrest is not consistent from animal to animal." [GO:0009790, WB:WBPaper00004811, WB:WBPaper00024944, WB:WBPerson712] synonym: "Emb" BROAD [] synonym: "Etv" BROAD [] is_a: WBPhenotype:0000063 ! terminal arrest variable is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000052 name: maternal effect lethal emb def: "Lethality caused by the perturbation of maternal gene products that are contributed to oogenesis and are required during embryogenesis." [WB:WBPaper00001109, WB:WBPerson2021] synonym: "Emb" BROAD [] synonym: "Mel" BROAD [] is_a: WBPhenotype:0000050 ! embryonic lethal [Term] id: WBPhenotype:0000053 name: paralyzed arrested elongation two fold def: "Movement and elongation ceases at the two-fold stage. The myofilament lattice in body wall muscle cells is variant. However, development in embryos continues. Embryos hatch as inviable larvae." [WB:cab, WB:cgc1894] synonym: "active elongation arrest" RELATED [] synonym: "Pat" BROAD [] synonym: "two fold arrest" RELATED [] is_a: WBPhenotype:0000050 ! embryonic lethal is_a: WBPhenotype:0000494 ! two fold arrest [Term] id: WBPhenotype:0000054 name: larval lethal def: "The animal dies at any time between hatching and onset to adulthood." [GO:0002119, WB:WBPerson712] subset: phenotype_slim_wb synonym: "larval death" RELATED [] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000062 ! lethal [Term] id: WBPhenotype:0000055 name: early larval arrest def: "Larvae arrest during early larval development. In C. elegans, this occurs during the L1 or L2 stages of larval development." [WB:cab] is_a: WBPhenotype:0000059 ! larval arrest [Term] id: WBPhenotype:0000056 name: late larval arrest def: "Larvae arrest during late larval development. In C. elegans, larval arrest occurs during the L3 or L4 stages of larval development." [WB:cab] is_a: WBPhenotype:0000059 ! larval arrest [Term] id: WBPhenotype:0000057 name: early larval lethal def: "Animals die during early larval development. In C.elegans, this occurs during the L1- L2 larval stages of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000054 ! larval lethal [Term] id: WBPhenotype:0000058 name: late larval lethal def: "Animals die during late larval development. In C. elegans, this occurs during the L3- L4 larval stages of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000054 ! larval lethal [Term] id: WBPhenotype:0000059 name: larval arrest def: "The developmental program of the animals halts at any larval stage and thus fails to reach adulthood. In C.elegans, this occurs anytime during L1-L4 stage." [WB:WBPaper00002958, WB:WBPerson2021] synonym: "Lva" BROAD [] is_a: WBPhenotype:0000750 ! larval development variant is_a: WBPhenotype:0001016 ! larval growth variant [Term] id: WBPhenotype:0000060 name: adult lethal def: "Premature lethality during the adult stage. When applied to large-scale RNAi screens in C. elegans, this phenotype is present in at least 10% of analyzed worms, or at least 30% in the case of rrf-3 perturbed background." [WB:cab, WB:WBPaper00004402, WB:WBPaper00005654, WB:WBPaper00006395] subset: phenotype_slim_wb synonym: "Adl" BROAD [WB:WBPaper00004402, WB:WBPaper00005654] synonym: "Let" BROAD [] is_a: WBPhenotype:0000062 ! lethal [Term] id: WBPhenotype:0000061 name: extended life span def: "The duration of viability in the adult phase of the life-cycle surpasses that of control animals." [GO:0008340, WB:WBPerson712] synonym: "Age" BROAD [] synonym: "life span increased" RELATED [] synonym: "longevity increased" RELATED [] is_a: WBPhenotype:0000039 ! life span variant [Term] id: WBPhenotype:0000062 name: lethal def: "Animals die prematurely at any stage of the life cycle." [WB:WBPaper00001109, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "Let" BROAD [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000063 name: terminal arrest variable def: "Variations that cause developmental progression to cease at different stages of the lifecycle." [WB:WBPerson2021, WB:WBPerson557] synonym: "Var" BROAD [] is_a: WBPhenotype:0000062 ! lethal [Term] id: WBPhenotype:0000064 name: sexually dimorphic lethality def: "Animals die prematurely at any stage of the life cycle in a sex dependent manner." [WB:WBPerson2021, WB:WBPerson557] synonym: "Let" RELATED [] is_a: WBPhenotype:0000062 ! lethal [Term] id: WBPhenotype:0000065 name: X0 lethal def: "XO-bearing individuals die preferentially over other animals in the population. In C.elegans, X0 animals die preferentially over XX animals." [WB:WBPerson363, WB:WBPerson712] subset: phenotype_slim_wb synonym: "Let" BROAD [] synonym: "male specific lethality" RELATED [] is_a: WBPhenotype:0000064 ! sexually dimorphic lethality [Term] id: WBPhenotype:0000066 name: XX lethal def: "XX-bearing individuals die preferentially over other animals in the population. In C.elegans, XX animals die preferentially over X0 animals." [WB:WBPerson363, WB:WBPerson712] subset: phenotype_slim_wb synonym: "hermaphrodite specific lethality" RELATED [] is_a: WBPhenotype:0000064 ! sexually dimorphic lethality [Term] id: WBPhenotype:0000067 name: organism stress response variant def: "Animals exhibit variations in response to stress stimuli compared to control animals." [GO:0006950, WB:WBPerson712] synonym: "organism stress response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000068 name: oxidative stress response variant def: "Any variation in the state or activity of a cell (in terms of secretion, enzyme production, gene expression, etc.) in response to high levels of reactive oxygen species, compared to control." [GO:0006979, WB:WBPerson2021, WB:WBPerson557] synonym: "oxidative stress response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0000069 name: progeny variant def: "Any variation in the progression of the progeny of an animal at any time from its fertilization to adulthood compared to control." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "progeny abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000070 name: male tail morphology variant def: "Animals exhibit variations in the structure or organization of the somatic reproductive components of the posterior segment of the male from that observed in control males. In C. elegans, this region of the male includes the terminal canals of the reproductive tract, the digestive tract, and spicule channels along with the male specific sensilla (ray, post-cloacal, hook and spicule) and extends to the tip of the acellular fan." [WB:WBPaper00027278, WB:WBPerson712] synonym: "Mab" BROAD [] synonym: "male tail morphology abnormal" NARROW [] is_a: WBPhenotype:0000073 ! tail morphology variant is_a: WBPhenotype:0001024 ! male morphology variant [Term] id: WBPhenotype:0000071 name: head morphology variant def: "Animals exhibit variations in the form, structure or composition of any portion of their anterior end (which typically includes the anterior sensilla, pharynx and all muscles that are innervated by the nerve ring) compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "head morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000072 name: body morphology variant def: "Animals exhibit variations in the form, structure or composition of any portion of their anatomy between the head and the tail compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "body morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000073 name: tail morphology variant def: "Animals exhibit variations in the form, structure or composition of any portion of the most posterior region of the body compared to control. The anterior bound of the tail is not well defined though it might range from the position of the post-deirids to the opening of the anus (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "tail morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000074 name: genetic pathway variant def: "Any variation in the set of interactions occurring between a group of genes who depend on each other's individual functions in order to make the aggregate function of the network available to the cell, compared to control." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "genetic pathway abnormal" NARROW [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0000075 name: cuticle attachment variant def: "Any variation in the attachment of the rigid external coating (which is secreted by the hypodermis, seam and some interfacial epithelial cells) to the outer body of an animal compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "cuticle attachment abnormal" NARROW [] is_a: WBPhenotype:0000201 ! cuticle development variant [Term] id: WBPhenotype:0000076 name: epithelial attachment variant def: "Variations in the adhesion of the layer of cells that cover the external surface of an organism which serves to protect the animal from external environment compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "epithelial attachment abnormal" NARROW [] synonym: "hypodermal attachment abnormal" RELATED [] is_a: WBPhenotype:0000608 ! epithelial system physiology variant [Term] id: WBPhenotype:0000077 name: cuticle shedding defect def: "Animals exhibit defects in the process of shedding, part or all of its cuticle, during cuticle replacement." [GO:0018996] synonym: "cuticle shedding abnormal" NARROW [] is_a: WBPhenotype:0000638 ! molt defect [Term] id: WBPhenotype:0000078 name: seam cells stacked def: "The hypodermal cells, which lie along the lateral body wall to form longitudinal stripes of epithelial cells underlying the alae, are misplaced such that they are stacked along the dorsal-ventral axis rather than forming a continuous row of adjacent cells ." [WB:WBPaper00003081] is_a: WBPhenotype:0000703 ! epithelial morphology variant [Term] id: WBPhenotype:0000079 name: branched adult alae def: "The small linear ridges running along the lateral lines of the cuticle of adults are branched as opposed to having an unbiforcated arrangement, lengthwise along the body (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001412 ! alae morphology variant [Term] id: WBPhenotype:0000080 name: no anterior pharynx def: "Animals lack the anterior portion of the pharynx." [WB:WBPerson2021, WB:WBPerson557] synonym: "Aph" BROAD [] is_a: WBPhenotype:0000115 ! anterior pharynx variant is_a: WBPhenotype:0001646 ! no pharynx [Term] id: WBPhenotype:0000081 name: L1 arrest def: "The developmental program of the animals does not continue past the first larval stage (L1)." [WB:WBPaper00003179, WB:WBPerson2021] is_a: WBPhenotype:0000055 ! early larval arrest is_a: WBPhenotype:0000751 ! L1 larval development variant [Term] id: WBPhenotype:0000082 name: L2 arrest def: "The developmental program of the animals does not continue past the second larval stage (L2)." [WB:WBPaper00003179, WB:WBPerson2021] is_a: WBPhenotype:0000055 ! early larval arrest is_a: WBPhenotype:0000752 ! L2 larval development variant is_a: WBPhenotype:0001019 ! mid larval arrest [Term] id: WBPhenotype:0000083 name: L3 arrest def: "The developmental program of the animals does not continue past the third larval stage (L3)." [WB:WBPaper00004813, WB:WBPerson2021] is_a: WBPhenotype:0000056 ! late larval arrest is_a: WBPhenotype:0000753 ! L3 larval development variant is_a: WBPhenotype:0001019 ! mid larval arrest [Term] id: WBPhenotype:0000084 name: L4 arrest def: "The developmental program of the animals does not continue past the fourth larval stage (L4)." [WB:WBPaper00003179, WB:WBPerson2021] is_a: WBPhenotype:0000056 ! late larval arrest is_a: WBPhenotype:0000754 ! L4 larval development variant [Term] id: WBPhenotype:0000085 name: swollen intestine def: "The intestinal lumen is expanded and can often be shown to be filled with bacteria." [WB:WBPaper00026641, WB:WBPerson712] is_a: WBPhenotype:0000710 ! intestinal morphology variant [Term] id: WBPhenotype:0000086 name: shrunken intestine def: "Intestine is shrunken and may appear constricted." [WB:WBPaper00005941] is_a: WBPhenotype:0000710 ! intestinal morphology variant [Term] id: WBPhenotype:0000087 name: body wall cell development variant def: "Any variation in the progression of a body wall muscle cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "body wall cell development abnormal" NARROW [] synonym: "body wall muscle cell development abnormal" RELATED [] is_a: WBPhenotype:0000815 ! muscle cell development variant [Term] id: WBPhenotype:0000088 name: body muscle displaced def: "The arrangement of the principal muscle cell type whose contractile activity generates body motion in the nematode differs from that observed in control animals. In C. elegans they consist of 95 unfused cells in the adult organized into four muscle quadrants. Their sarcomeres are obliquely striated and lie lengthwise along the body wall (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "body wall muscle displaced" RELATED [] is_a: WBPhenotype:0000861 ! body wall muscle development variant [Term] id: WBPhenotype:0000089 name: alpha amanitin resistant def: "Animals fail to respond to the concentration of alpha amanitin that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000090 name: epidermis cuticle detached def: "Animals are deficient in the adhesion of the cuticle to the epidermal surface of the animal." [WB:WBPerson2021, WB:WBPerson557] synonym: "hypodermis detached from cuticle" RELATED [] is_a: WBPhenotype:0000075 ! cuticle attachment variant is_a: WBPhenotype:0000076 ! epithelial attachment variant [Term] id: WBPhenotype:0000091 name: epidermis muscle detached def: "The cell(s) whose principal function is to provide contractile forces, is separated from the adjacent epidermis." [WB:WBPerson2021, WB:WBPerson557] synonym: "hypodermis detached from muscle" RELATED [] is_a: WBPhenotype:0000076 ! epithelial attachment variant is_a: WBPhenotype:0000475 ! muscle detached [Term] id: WBPhenotype:0000092 name: intestinal cell proliferation variant def: "Any variation in the processes that govern the expansion of intestinal cell populations compared to control." [WB:WBPerson2021] synonym: "intestinal cell proliferation abnormal" NARROW [] is_a: WBPhenotype:0000705 ! intestinal cell development variant [Term] id: WBPhenotype:0000093 name: lineage variant def: "The descendants of a particular precursor cell exhibit variations in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "Lin" BROAD [] synonym: "lineage abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000094 name: anus development variant def: "Any variation in the progression of the caudal opening of the rectum in the tail over time compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "anus development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000095 name: M lineage variant def: "The descendants of the M precursor cell exhibit variations in developmental programs compared to their counterparts in control animals. In C. elegans the M lineage is a postembryonic mesodermal lineage." [WB:WBPerson2021] synonym: "M lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000096 name: cloacal development variant def: "Variations in the progression of the epithelial chamber that links the genital and alimentary tracts to the exterior via the anus (cloacal opening) over time compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "cloacal development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000097 name: AB lineage variant def: "The descendants of the AB blastomere exhibit variations in developmental programs compared to their counterparts in control animals." [WB:WBPaper00001584, WB:WBPerson2021] synonym: "AB lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000098 name: pharyngeal intestinal valve development variant def: "Any variation in the progression of the cells that form a narrow passage connecting the posterior bulb of the pharynx to the anterior intestine over time compared to control. In C. elegans this valve is composed of 3 pairs of cells each forming a flattened disc-like ring and is lined by a layer of cuticle (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "pharyngeal intestinal valve development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000099 name: P lineages variant def: "The descendants of any of the P precursor cells exhibit variations in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "P lineages abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000100 name: cell UV response variant def: "Cells exhibit variations in their response to ultraviolet radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "cell UV response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0000101 name: UV induced apoptosis increased def: "Animals exhibit an increase in the extent of activation of programmed cell death by exposure to the nucleic acid damaging agent, UV irradiation, compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000100 ! cell UV response variant is_a: WBPhenotype:0000183 ! apoptosis increased [Term] id: WBPhenotype:0000102 name: presynaptic vesicle cluster variant def: "Animals display variations in the organization, accumulation or distribution of transmitter-containing membrane-bound organelles (synaptic vesicles) compared to that observed in control animals." [WB:WBPaper00027305] synonym: "presynaptic vesicle cluster abnormal" NARROW [] synonym: "synaptic vesicle cluster abnormal" RELATED [] is_a: WBPhenotype:0001321 ! presynaptic region morphology variant [Term] id: WBPhenotype:0000103 name: gut granule development variant def: "Any variation in the progression of the different inclusions within the intestinal cytoplasm, including birefringent crystalline objects and other dark-staining endosomes over time compared to control. In C. elegans these contents might include glycogen granules (polysaccharide storage), rhabditin (carbohydrate storage), yolk granules (lipid and protein), and concentrated waste products (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "gut granule development abnormal" NARROW [] is_a: WBPhenotype:0000705 ! intestinal cell development variant [Term] id: WBPhenotype:0000104 name: cell polarity variant def: "Contents or structures of a cell are no longer restricted/localized to their typical positions within the cell." [WB:WBPaper00031356, WB:WBPerson2021, WB:WBPerson712] subset: phenotype_slim_wb synonym: "cell polarity abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000105 name: oocyte meiotic maturation variant def: "Variations in the progression of a developing oocyte, from diakinesis to metaphase (meiosis I), in response to a signal compared to control animals. Meiotic maturation is accompanied by nuclear envelope breakdown (germinal vesicle breakdown), cytoskeletal rearrangement and meiotic spindle assembly." [GO:0001556, WB:WBPaper00026997, WB:WBPerson2021] synonym: "Oma" BROAD [] synonym: "oocyte meiotic maturation abnormal" NARROW [] is_a: WBPhenotype:0000313 ! meiotic progression during oogenesis variant [Term] id: WBPhenotype:0000106 name: inhibition of oocyte maturation variant def: "Variations in the processes that negatively regulate the meiotic progression of oocytes (exit from diakinesis) in the absence of a signal compared to control animals." [WB:WBPaper00003371, WB:WBPaper00026997, WB:WBPerson2021] synonym: "inhibition of oocyte maturation abnormal" NARROW [] is_a: WBPhenotype:0000105 ! oocyte meiotic maturation variant [Term] id: WBPhenotype:0000107 name: inhibition of ovulation variant def: "Any variation that alters the control mechanisms that inhibit oocyte maturation and release of a mature oocyte into the spermatheca (for subsequent fertilization), compared to control." [GO:0060280, WB:WBPerson2021, WB:WBPerson557] synonym: "inhibition of ovulation abnormal" NARROW [] is_a: WBPhenotype:0000666 ! ovulation variant [Term] id: WBPhenotype:0000108 name: obsolete severe dumpy def: "OBSOLETE." [] is_obsolete: true consider: WBPhenotype:0000583 [Term] id: WBPhenotype:0000109 name: obsolete moderate dumpy def: "OBSOLETE." [] is_obsolete: true consider: WBPhenotype:0000583 [Term] id: WBPhenotype:0000110 name: obsolete slightly dumpy def: "OBSOLETE." [] is_obsolete: true consider: WBPhenotype:0000583 [Term] id: WBPhenotype:0000111 name: pattern of gene expression variant def: "Any variation in the cellular or subcellular distribution of a gene product compared to that observed in control animals." [WB:WBPerson2021] synonym: "pattern of gene expression abnormal" NARROW [] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000112 name: protein expression variant def: "Variations in the biogenesis and stability of protein molecules compared to control." [WB:WBPerson2021] synonym: "protein expression abnormal" NARROW [] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000113 name: RNA expression variant def: "Variations in the biogenesis and stability of any class of RNA molecules (rRNAs, miRNAs, tRNAs etc) compared to control." [WB:WBPerson2021] synonym: "RNA expression abnormal" NARROW [] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000114 name: mRNA expression variant def: "Variations in the biogenesis and stability of messenger RNA molecules compared to control." [GO:0050684, WB:WBPerson2021] synonym: "mRNA expression abnormal" NARROW [] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0000115 name: anterior pharynx variant def: "Any variation in the progression of the anterior portion of the pharynx over time compared to control. In C. elegans the anterior region includes the corpus (procorpus and metacorpus - first bulb)." [WB:WBPerson2021, WB:WBPerson557] synonym: "anterior pharynx abnormal" NARROW [] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0000116 name: mid larval lethal def: "Animals die in between the early and late larval stages. In C. elegans, this occurs during the L2- L3 larval stages of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000054 ! larval lethal [Term] id: WBPhenotype:0000117 name: L1 lethal def: "Animals die at the L1 stage of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000057 ! early larval lethal [Term] id: WBPhenotype:0000118 name: L2 lethal def: "L2 lethal: Animals die at the L2 stage of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000057 ! early larval lethal is_a: WBPhenotype:0000116 ! mid larval lethal [Term] id: WBPhenotype:0000119 name: protein expression increased def: "Any change that results in higher than normal levels of protein expression compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001400 ! level of protein expression variant [Term] id: WBPhenotype:0000120 name: protein expression reduced def: "Any change that results in lower than normal levels of protein expression compared to control animals." [WB:kmva] is_a: WBPhenotype:0001400 ! level of protein expression variant [Term] id: WBPhenotype:0000121 name: translation variant def: "Variations in the chemical reactions and pathways resulting in the formation of a protein, compared to control." [GO:0006412, WB:WBPerson2021] synonym: "protein synthesis abnormal" RELATED [] synonym: "translation abnormal" NARROW [] is_a: WBPhenotype:0000112 ! protein expression variant is_a: WBPhenotype:0001644 ! protein metabolism variant is_a: WBPhenotype:0001696 ! biosynthesis variant [Term] id: WBPhenotype:0000122 name: post translational processing variant def: "Any variation in the posttranslational modification of a protein (which may include cleavage of peptide bonds) leading to the attainment of the full functional capacity of the protein compared to control." [GO:0016485, WB:WBPerson2021, WB:WBPerson557] synonym: "post translational processing abnormal" NARROW [] synonym: "protein processing variant" RELATED [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000123 name: enzyme expression level reduced def: "Variations that cause a decrease in the expression level of a biological catalyst, compared to control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000120 ! protein expression reduced [Term] id: WBPhenotype:0000124 name: enzyme activity reduced def: "Any variation that results in a decrease in the catalytic activity of an enzyme compared to control. Catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein (can include an RNA component)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000727 ! enzyme activity variant [Term] id: WBPhenotype:0000125 name: enzyme activity increased def: "Any variation that results in an increase in the catalytic activity of an enzyme compared to control. Catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein (can include an RNA component)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000727 ! enzyme activity variant [Term] id: WBPhenotype:0000126 name: general pace of development defective early emb def: "Variations in the time from pronuclei meeting to furrow initiation during the first cell division compared to control animals." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "general pace of development abnormal" NARROW [] is_a: WBPhenotype:0000043 ! general pace of development variant is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000127 name: dauer recovery variant def: "Characteristic exit from the dauer stage is altered compared to control animals." [WB:cab] synonym: "dauer recovery abnormal" NARROW [] is_a: WBPhenotype:0000159 ! dauer arrest variant [Term] id: WBPhenotype:0000128 name: temperature induced dauer formation increased def: "Animals are more likely to form dauers at temperatures that do not induce dauer entry in control animals." [WB:cgc424] synonym: "Hid" BROAD [] is_a: WBPhenotype:0000639 ! temperature induced dauer formation variant [Term] id: WBPhenotype:0000129 name: temperature induced dauer formation defective def: "Animals do not enter dauer at a temperature that induces dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000013 ! dauer defective is_a: WBPhenotype:0000639 ! temperature induced dauer formation variant [Term] id: WBPhenotype:0000130 name: pheromone induced dauer formation enhanced def: "Animals enter the dauer stage when exposed to lower concentrations or shorter exposure times of chemicals that induce dauer formation compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000132 ! pheromone induced dauer formation variant [Term] id: WBPhenotype:0000131 name: pheromone induced dauer formation defective def: "Animals do not enter dauer when exposed to chemicals that induce dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "Phd" BROAD [] is_a: WBPhenotype:0000013 ! dauer defective is_a: WBPhenotype:0000132 ! pheromone induced dauer formation variant [Term] id: WBPhenotype:0000132 name: pheromone induced dauer formation variant def: "Animals exhibit variations in the entry into the dauer stage when exposed to concentrations of chemicals that induce dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "pheromone induced dauer formation abnormal" NARROW [] is_a: WBPhenotype:0001539 ! dauer induction variant [Term] id: WBPhenotype:0000133 name: expression lipogenic enzyme reduced def: "The levels of an enzyme involved in the manufacture of lipids are decreased compared to control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000123 ! enzyme expression level reduced [Term] id: WBPhenotype:0000134 name: gene expression level reduced def: "Animals exhibit a decrease in the intensity of expression of a gene product compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000135 name: gene expression level high def: "Animals exhibit an increase in the intensity of expression of a gene product compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000136 name: mRNA levels increased def: "Animals exhibit elevated levels of messenger RNA compared to control." [WB:WBPaper00033456, WB:WBPerson2021] is_a: WBPhenotype:0000114 ! mRNA expression variant [Term] id: WBPhenotype:0000137 name: mRNA levels reduced def: "Animals exhibit decreased levels of messenger RNA compared to control." [WB:WBPaper00033456, WB:WBPerson2021] is_a: WBPhenotype:0000114 ! mRNA expression variant [Term] id: WBPhenotype:0000138 name: lipid composition variant def: "The constituent parts or ratio of elements that make up lipids are altered when compared to that of control animals." [WB:WBPerson712] synonym: "fat composition abnormal" RELATED [] synonym: "fatty acid composition abnormal" RELATED [] synonym: "lipid composition abnormal" NARROW [] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0000139 name: stress induced lethality variant def: "Animals exhibit variations in survival when exposed to stress stimuli that induce lethality in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "stress induced lethality abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000140 name: stress induced arrest variant def: "Animals exhibit variations in cessation of development when exposed to stress stimuli that induce developmental arrest in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "stress induced arrest abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000141 name: stress induced lethality increased def: "Animal populations exhibit a further decrease in survival when exposed to stress stimuli compared to the lethality rate observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000139 ! stress induced lethality variant [Term] id: WBPhenotype:0000142 name: cell stress response variant def: "Variations in the activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress, compared to control. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GO:0033554, WB:WBPerson2021] synonym: "cell stress response abnormal" NARROW [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0000143 name: organism UV response variant def: "Animals exhibit variations in their response to ultraviolet radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "organism UV response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000144 name: pathogen induced cell death increased def: "Animals exhibit an increase in the extent of activation of programmed cell death by exposure to a pathogen or pathogenic cue, compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000142 ! cell stress response variant is_a: WBPhenotype:0001269 ! pathogen induced cell death variant [Term] id: WBPhenotype:0000145 name: fertility variant def: "Animals exhibit variations in the time of onset or duration of the fertile period, or production of new individuals that contain some portion of their genetic material inherited from that organism compared to control." [GO:0000003, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "fertility abnormal" NARROW [] is_a: WBPhenotype:0000613 ! reproductive system physiology variant [Term] id: WBPhenotype:0000146 name: organism temperature response variant def: "Animals do not respond to changes in temperature or thermal stress in the same manner as control animals. In C.elegans this is often measured by changes in the expression of stress proteins or changes in life span." [WB:WBPerson712] synonym: "organism temperature response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000147 name: organism starvation response variant def: "Any variation in the state or activity of an organism as a result of deprivation of nourishment, compared to control." [GO:0042594, WB:WBPerson2021] synonym: "organism starvation response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000148 name: starvation induced dauer formation variant def: "Animals exhibit variations in the entry into the dauer stage when exposed to nutrient poor conditions that induce dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "starvation induced dauer formation abnormal" NARROW [] is_a: WBPhenotype:0000147 ! organism starvation response variant is_a: WBPhenotype:0001539 ! dauer induction variant [Term] id: WBPhenotype:0000149 name: starvation induced dauer formation increased def: "Animals are more likely to form dauers under nutrient conditions that do not induce dauer entry in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000148 ! starvation induced dauer formation variant [Term] id: WBPhenotype:0000150 name: starvation induced dauer formation defective def: "Animals do not enter dauer under nutrient-poor conditions that induce dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000013 ! dauer defective is_a: WBPhenotype:0000148 ! starvation induced dauer formation variant [Term] id: WBPhenotype:0000151 name: anterior pharynx extra cells def: "Embryos generate an excess number of anterior derived pharyngeal cells. In C. elegans, embryos generate an excess number of AB blastomere-derived pharyngeal cells. This hyperinduction of anterior pharyngeal tissue is associated with defects in fate specification of the ABp blastomere." [WB:WBPaper00001930, WB:WBPerson2021] synonym: "Apx" BROAD [] is_a: WBPhenotype:0000115 ! anterior pharynx variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0000152 name: no cleavage furrow first division early emb def: "One-cell embryos do not form the shallow groove in the cell surface near the old metaphase plate at the onset of cytokinesis." [GO:0032154, WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0000153 name: body wall contraction variant def: "Initiation, strength, extent or cessation of body wall muscle activity that results in the shortening of the muscle, is aberrant compared to control animals." [WB:WBPaper00032190, WB:WBPerson712] synonym: "body wall contraction abnormal" NARROW [] synonym: "body wall muscle contraction abnormal" RELATED [] is_a: WBPhenotype:0000596 ! body behavior variant [Term] id: WBPhenotype:0000154 name: reduced brood size def: "The characteristic number of offspring produced is lower compared to that of control animals." [WB:WBPerson557] is_a: WBPhenotype:0000673 ! brood size variant [Term] id: WBPhenotype:0000155 name: cell polarity reversed def: "Contents or structures of the cell are oriented on the opposite side of the cell compared to control animals; In C. elegans, this can result in the fate pattern of descendants being flipped." [WB:WBPaper00031356, WB:WBPerson2021, WB:WBPerson712] is_a: WBPhenotype:0000104 ! cell polarity variant [Term] id: WBPhenotype:0000156 name: body wall contraction interval variant def: "Any variation in the time interval between successive contractions of the body wall muscles during the defecation motor program compared to cantrol." [WB:WBPerson2021, WB:WBPerson557] synonym: "body wall contraction interval abnormal" NARROW [] synonym: "body wall muscle contraction interval abnormal" RELATED [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0000157 name: posterior body wall contraction defecation cycle variant def: "Animals exhibit variations in the sustained posterior body muscle contractions that precede the remaining contractions of the defecation cycle compared to control animals." [WB:WBPaper00031426, WB:WBPerson712] synonym: "pBoc" BROAD [] synonym: "posterior body contraction abnormal" RELATED [] synonym: "posterior body wall contraction abnormal" NARROW [] synonym: "posterior body wall contraction defective" RELATED [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0000158 name: obsolete posterior body wall shortened interval def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000209 [Term] id: WBPhenotype:0000159 name: dauer arrest variant def: "Animals exhibit variations in the entry/exit into a state of arrested tissue development during the dauer larval stage in response to harsh environmental conditions, compared to control. In C. elegans, the dauer larva enters a state of arrest in which no developmental changes occur, until the animal finds more suitable growing conditions, or until it spontaneously shifts back into a normal developmental schedule. (WormAtlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer arrest abnormal" NARROW [] synonym: "diapause variant" RELATED [] is_a: WBPhenotype:0000518 ! development variant is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0000160 name: cleavage furrow not discrete early emb def: "Embryos do not form a defined shallow groove in the cell surface near the old metaphase plate at the onset of cytokinesis." [GO:0032154, WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0000161 name: nuclear rotation variant def: "Any variation in the rotation of centrosomes and associated pronuclei in one-cell embryo, occurring as a transition between pronuclear migration and pronuclear fusion compared to control." [GO:0035047, WB:WBPerson2021, WB:WBPerson557] synonym: "nuclear rotation abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000162 name: pale larva def: "Larva show deficiencies in chroma resulting in increased translucency." [WB:WBPerson2021, WB:WBPerson557] synonym: "translucent" RELATED [] is_a: WBPhenotype:0000890 ! larval pigmentation variant is_a: WBPhenotype:0001261 ! pale [Term] id: WBPhenotype:0000163 name: clear larva def: "Larva appear unusually transparent when compared to control." [WB:WBPerson557] synonym: "Clr" BROAD [] synonym: "transparent" RELATED [] is_a: WBPhenotype:0000890 ! larval pigmentation variant is_a: WBPhenotype:0001010 ! clear [Term] id: WBPhenotype:0000164 name: thin def: "Animals exhibit a reduced girth compared to a control animal of the same developmental stage." [WB:WBPerson712] synonym: "decreased girth" RELATED [] synonym: "slim" RELATED [] is_a: WBPhenotype:0001727 ! body width variant [Term] id: WBPhenotype:0000165 name: cell fusion variant def: "Variations in the ability of two or more individual cells to form a syncytium (a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane) via the fusion of the plasma membranes. Cell fusion is dependent on the merging of lipid bilayer membranes as well as cytoplasmic mixing." [GO:0000768, GO:0045026, WB:WBPaper00005122, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell fusion abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000166 name: seam cell fusion variant def: "Variations in the ability of seam cells to fuse to form a continuous syncytium along the body wall late larval development, (separate from the hyp 7 syncytium), compared to control (WormAtlas). Hypodermal seam cells lie along the lateral body wall to form longitudinal stripes of epithelial cells underlying the alae, and are required for alae formation." [WB:WBPerson2021, WB:WBPerson557] synonym: "seam cell fusion abnormal" NARROW [] is_a: WBPhenotype:0000165 ! cell fusion variant [Term] id: WBPhenotype:0000167 name: precocious seam cell fusion def: "Seam cells fuse to form a continuous syncytium along the body wall at an earlier stage of development compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000166 ! seam cell fusion variant is_a: WBPhenotype:0001433 ! precocious cell fusion [Term] id: WBPhenotype:0000168 name: alae secretion variant def: "Variations in the regulated release of proteins needed for alae formation by epidermal seam cells compared to control. Alae are small linear ridges running along the lateral lines of the cuticle, lengthwise along the body (WormAtlas)." [WB:WBPaper00004833, WB:WBPaper00025242, WB:WBPerson2021] synonym: "alae formation variant" RELATED [] synonym: "alae secretion abnormal" NARROW [] is_a: WBPhenotype:0000258 ! cell secretion variant is_a: WBPhenotype:0000608 ! epithelial system physiology variant is_a: WBPhenotype:0001210 ! pericellular component physiology variant [Term] id: WBPhenotype:0000169 name: early exit cell cycle def: "Cells leave the M phase (mitosis and cytokinesis) at an earlier time than sister or other control cells." [GO:0010458, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001995 ! cell cycle progression variant [Term] id: WBPhenotype:0000170 name: precocious alae def: "Formation of alae occurs earlier in development compared to control animals; In C. elegans, adult lateral alae are typically generated during the late L4 stage." [pmid:3428573, WB:cab] is_a: WBPhenotype:0000168 ! alae secretion variant is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0000171 name: cell proliferation variant def: "Any aberrancy in the processes that govern expansion of cell populations compared to control animals." [GO:0008283, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell proliferation abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000172 name: cell proliferation increased def: "The processes governing the expansion of cell populations are altered compared to control animals, such that cell populations are increased." [WB:WBPerson2021] is_a: WBPhenotype:0000171 ! cell proliferation variant [Term] id: WBPhenotype:0000173 name: cell proliferation reduced def: "The processes governing the expansion of cell populations are altered compared to control animals, such that cell populations are decreased." [WB:WBPerson2021] is_a: WBPhenotype:0000171 ! cell proliferation variant [Term] id: WBPhenotype:0000174 name: basal lamina development variant def: "Any variation in the progression of the layer of connective tissue over the surface of tissues that serves to separate it from neighboring tissues, from its formation to its mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "basal lamina development abnormal" NARROW [] is_a: WBPhenotype:0000619 ! epithelial system development variant [Term] id: WBPhenotype:0000175 name: hypercontracted def: "Excessive and often uncoordinated body wall muscle contraction leading to shortening of the body." [WB:WBPerson363] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0000176 name: satiety behavior variant def: "Any variation in the specific actions or reactions of an animal after completion of feeding, typically after a fast, compared to that observed in control animals. In C. elegans worms become behaviorally quiescent and cease feeding and moving when sated." [WB:WBPerson2021, WB:WBPerson557] synonym: "satiety behavior abnormal" NARROW [] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0000177 name: acetylcholinesterase reduced def: "Any variation that results in a decrease of acetylcholine esterase levels, compared to control." [WB:WBPaper00024452, WB:WBPerson2021] is_a: WBPhenotype:0000124 ! enzyme activity reduced [Term] id: WBPhenotype:0000178 name: cell degeneration def: "Cells are observed to undergo a dramatic decrease in cell volume, collapse of the vacuoles, and complete disintegration of the plasma membrane and most organelles." [WB:WBPerson712] is_a: WBPhenotype:0000729 ! cell death variant [Term] id: WBPhenotype:0000179 name: neuron degeneration def: "Cells specialized for receiving, conducting and transmitting impulses in the nervous system are observed to undergo a dramatic decrease in cell volume, collapse of the vacuoles and processes, and complete disintegration of the plasma membrane and most organelles." [WB:WBperson557, WB:WBPerson712] is_a: WBPhenotype:0000178 ! cell degeneration [Term] id: WBPhenotype:0000180 name: axon morphology variant def: "Animals display variations in the structure, organization of components, or spatial pattern of the projection that conducts signal away from the cell body, compared to that observed in control animals." [GO:0030424, WB:WBPaper00005236, WB:WBPerson712] synonym: "axon morphology abnormal" NARROW [] is_a: WBPhenotype:0001398 ! neurite morphology variant [Term] id: WBPhenotype:0000181 name: axon trajectory variant def: "Animals display variations in the directed path taken by the axon compared to the path the nerve fiber follows in the nervous system in control animals." [WB:WBPaper00001105, WB:WBPerson712] synonym: "axon trajectory abnormal" NARROW [] is_a: WBPhenotype:0000180 ! axon morphology variant [Term] id: WBPhenotype:0000182 name: apoptosis reduced def: "Any perturbation that causes a decrease in the frequency of cell death by apoptosis compared to control animals." [GO:0043065, WB:WBPerson2021] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0000183 name: apoptosis increased def: "Any perturbation that causes an elevation in the frequency of cell death by apoptosis compared to control animals." [GO:0043066, WB:WBPerson2021] is_a: WBPhenotype:0000730 ! apoptosis variant is_a: WBPhenotype:0001397 ! necrotic cell death increased [Term] id: WBPhenotype:0000184 name: apoptosis fails to occur def: "Cells do not undergo the form of programmed cell death characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), classically little or no ultrastructural modifications of cytoplasmic organelles, plasma membrane blebbing (but maintenance of its integrity until the final stages of the process) and engulfment by resident phagocytes." [WB:WBPerson712] is_a: WBPhenotype:0000182 ! apoptosis reduced [Term] id: WBPhenotype:0000185 name: apoptosis protracted def: "Animals exhibit a decreased pace of the programmed cell death pathway, compared to that observed for control cells." [WB:WBPerson712] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0000186 name: oogenesis variant alt_id: WBPhenotype:0000896 def: "Any aberrancy in the processes that influence the generation and maturation of oocytes compared to control animals." [GO:0048477, WB:WBPerson2021] synonym: "oocyte development abnormal" RELATED [] synonym: "oocyte germ cell differentiation abnormal" EXACT [] synonym: "oogenesis abnormal" NARROW [] is_a: WBPhenotype:0000812 ! germ cell development variant is_a: WBPhenotype:0000894 ! germ cell differentiation variant [Term] id: WBPhenotype:0000187 name: egg round def: "The overall structure or appearance of fertilized oocytes that are laid has every part of their surface equidistant from the center." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000373 ! egg shape variable [Term] id: WBPhenotype:0000188 name: gonad arm morphology variant def: "Any variation in the 'arm-like' form, structure or composition of the specialized tissue of the reproductive tract that produces gametes compared to control. In C. elegans the reproductive tract in the hermaphrodite has two equivalent gonad 'arms', while the male has a one-armed gonad." [WB:WBPerson2021, WB:WBPerson557] synonym: "gonad arm morphology abnormal" NARROW [] is_a: WBPhenotype:0000977 ! somatic gonad morphology variant [Term] id: WBPhenotype:0000189 name: hypodermis disorganized def: "Hypodermal cells fail to be organized in the same manner as observed in control animals. In C. elegans, hypodermal cells typically organize into distinct dorsal, lateral and ventral rows and cover the entire body." [WB:WBPaper00027006, WB:WBPerson2021] is_a: WBPhenotype:0000703 ! epithelial morphology variant [Term] id: WBPhenotype:0000190 name: no dauer recovery def: "Animals fail to exit from the facultative diapause of the dauer larval stage of nematode development." [GO:0043054, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000127 ! dauer recovery variant [Term] id: WBPhenotype:0000191 name: organism crowding response variant def: "Animals exhibit variations in their response to a situation when there is too high a density of nematodes to be supported by the available amount of food and space compared to that observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "organism crowding response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000192 name: constitutive enzyme activity def: "Any variation that results in the misregulation of enzymatic activity such that catalysis occurs at a constant rate regardless of physiological demand or the concentration of a substrate." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000125 ! enzyme activity increased [Term] id: WBPhenotype:0000193 name: dominant negative enzyme def: "Any variation within an enzyme that causes it to act antagonistically towards the wild-type enzymatic product. These mutations usually result in an altered molecular function (often inactive) and are characterized by a dominant or semi-dominant phenotype." [WB:WBPerson2021] is_a: WBPhenotype:0000727 ! enzyme activity variant [Term] id: WBPhenotype:0000194 name: first polar body position variant def: "Variations in the placement of the polar body formed in the first division of meiosis of a primary oocyte, compared to control. A polar body is the by-product of meiosis (destined to degenerate) in female or hermaphrodite animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "first polar body position abnormal" NARROW [] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0000195 name: distal tip cell migration variant def: "Variations in the migration pattern of distal tip cells compared to control animals. In C. elegans, DTCs located on the anterior and posterior ends of the gonad primordium typically migrate in a symmetrical U-shaped pattern." [GO:0040039, WB:WBPaper00003598, WB:WBPerson2021] synonym: "distal tip cell migration abnormal" NARROW [] synonym: "DTC migration abnormal" RELATED [] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0000196 name: distal tip cell morphology variant def: "The morphological appearance of distal tip cells is varied compared to control animals." [WB:cab] synonym: "distal tip cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000197 name: cell induction variant def: "Variations in a cell's ability to influence the fate of another cell (often of different developmental potential or ancestry via short range signaling)." [GO:0031128, WB:WBPerson2021] synonym: "cell induction abnormal" NARROW [] is_a: WBPhenotype:0000216 ! cell fate specification variant [Term] id: WBPhenotype:0000198 name: obsolete vulval cell induction abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0001272 [Term] id: WBPhenotype:0000199 name: male tail sensory ray development variant def: "Any variation in the progression of the finger-like sensory sensilla that project from the tail and embed in the male fan from its formation to the mature structure when compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "male tail sensory ray development abnormal" NARROW [] is_a: WBPhenotype:0001008 ! male nervous system development variant [Term] id: WBPhenotype:0000200 name: pericellular component development variant def: "Variations in the progression of structures/tissues surrounding a cell over time from its initial formation to its mature form compared to control." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "pericellular component development abnormal" NARROW [] is_a: WBPhenotype:0000518 ! development variant [Term] id: WBPhenotype:0000201 name: cuticle development variant def: "Any variation in the progression of the formation of the rigid external coating (which is secreted by the hypodermis, seam and some interfacial epithelial cells) over time compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "cuticle development abnormal" NARROW [] is_a: WBPhenotype:0000200 ! pericellular component development variant [Term] id: WBPhenotype:0000202 name: alae variant def: "Any variation in the small linear ridges running along the lateral lines of the cuticle, lengthwise along the body compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "alae abnormal" NARROW [] is_a: WBPhenotype:0000201 ! cuticle development variant [Term] id: WBPhenotype:0000203 name: odorant adaptation variant def: "Animals exhibit variations in the characteristic desensitization to a volatile organic chemo-attractive signal in a time-concentration dependent and reversible manner compared to control animals." [WB:WBPerson2021] synonym: "odorant adaptation abnormal" NARROW [] is_a: WBPhenotype:0001048 ! odorant chemosensory response variant [Term] id: WBPhenotype:0000204 name: anterior body contraction defecation cycle variant def: "Variations in the anterior body muscle contraction (aBoc) step of the defecation cycle compared to control animals. Under normal conditions, anterior body wall muscles contract and pressurize the intestinal contents during the aBoc step." [WB:WBPerson2021] synonym: "aBoc" BROAD [] synonym: "anterior body contraction abnormal" RELATED [] synonym: "anterior body contraction defective" RELATED [] is_a: WBPhenotype:0001476 ! anterior body contraction variant [Term] id: WBPhenotype:0000205 name: expulsion variant def: "Any variation in the expulsion of gut contents compared to control. In C. elegans, this refers to the final step of the defecation cycle in which the intestinal muscle and anal depressor contractions further pressurize intestinal contents and open the anus to permit expulsion." [WB:WBPerson2021, WB:WBPerson557] synonym: "Exp" RELATED [] synonym: "expulsion abnormal" NARROW [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0000206 name: autosomal nondisjunction meiosis def: "A non-sex chromosome fails to segregate away from its homologous chromosome, resulting in gametes with no or extra copies of the non-sex homolog." [GO:0045143, WB:WBPerson712] is_a: WBPhenotype:0001174 ! chromosome disjunction defective [Term] id: WBPhenotype:0000207 name: defecation cycle variant def: "Any variation in the stereotyped sequence of muscle contractions that result in defecation over a fixed time period compared to control ." [WB:WBPerson2021, WB:WBPerson557] synonym: "Dec" RELATED [] synonym: "defecation cycle abnormal" NARROW [] is_a: WBPhenotype:0000650 ! defecation variant [Term] id: WBPhenotype:0000208 name: long defecation cycle def: "The mean time between the onset of the defecation motor program is greater than that observed for control animals." [WB:WBPaper00002315, WB:WBPaper00031896, WB:WBPerson712] synonym: "Dec-l" RELATED [] synonym: "reduced rate of defecation" RELATED [] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0000209 name: short defecation cycle def: "The mean time between the onset of the defecation motor program is shorter than that observed for control animals." [WB:WBPaper00002315, WB:WBPaper00031896, WB:WBPerson712] synonym: "Dec-s" RELATED [] synonym: "fast Dec" RELATED [] synonym: "increased rate of defecation" RELATED [] synonym: "posterior body wall shortened interval" EXACT [] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0000210 name: defecation contraction variant def: "Any variation in the stereotyped muscle contractions that result in defecation compared to control . In C. elegans these contractions include posterior body contraction (pBoc), anterior body contraction (aBoc), expulsion of gut contents by enteric muscle contraction (Emc) and opening of anus (Exp)." [WB:WBPerson2021, WB:WBPerson557] synonym: "defecation contraction abnormal" NARROW [] is_a: WBPhenotype:0000650 ! defecation variant [Term] id: WBPhenotype:0000211 name: defecation contraction asynchronous def: "The rhythmic contractions of the muscles coordinating the elimination of gut contents are no longer synchronized compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "defecation contraction mistimed" RELATED [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0000212 name: body constriction def: "Animals contain body regions that are more narrow or drawn together than adjacent body regions." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000213 name: zygotic development variant def: "Variations in the progression of a zygote from formation (gamete fusion) to just prior to the first cell division compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "zygotic development abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000214 name: alpha amanitin hypersensitive def: "Animals respond to alpha amanitin at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000215 name: no germ line def: "Animals lack all germline progenitor cells, thereby resulting in the complete absence of a germline." [WB:WBPaper00001477, WB:WBPerson2021] synonym: "no germline" EXACT [] is_a: WBPhenotype:0000812 ! germ cell development variant [Term] id: WBPhenotype:0000216 name: cell fate specification variant def: "Any variation in the processes that govern acquisition of particular cell fates compared to control animals." [WB:kmva] subset: phenotype_slim_wb synonym: "cell fate specification abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000217 name: prolonged pharyngeal contraction def: "The time in which a muscle contraction event that controls feeding is increased compared to control. Contractions of the pharynx are necessary for bacterial uptake from the surrounding environment." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000980 ! pharyngeal contraction variant [Term] id: WBPhenotype:0000218 name: vulval cell induction increased def: "An excess number of vulval precursor cells receive an inductive signal leading to an increased number of VPCs adopting vulval fates compared to control animals." [WB:WBPerson2021] synonym: "Hin" BROAD [] synonym: "overinduced" NARROW [] is_a: WBPhenotype:0001272 ! vulval cell induction variant [Term] id: WBPhenotype:0000219 name: vulval cell induction reduced def: "Vulval precursor cells receive a decrease in inductive signal leading to fewer VPCs adopting vulval fates compared to control animals." [WB:WBPerson2021] synonym: "underinduced" NARROW [] is_a: WBPhenotype:0001272 ! vulval cell induction variant [Term] id: WBPhenotype:0000220 name: vulva cell fate specification variant def: "Any aberrancy in the processes that govern acquisition of vulval cell fates compared to control animals." [WB:WBPerson2021] synonym: "vulva cell fate specification abnormal" NARROW [] is_a: WBPhenotype:0000216 ! cell fate specification variant is_a: WBPhenotype:0000699 ! vulva development variant [Term] id: WBPhenotype:0000221 name: neurotransmitter metabolism variant def: "Animals exhibit variations in any chemical reaction or pathway involving neurotransmitters compared to control animals. Neurotransmitters are any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell." [GO:0042133, WB:WBPerson557, WB:WBPerson712] synonym: "neurotransmitter metabolism abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000222 name: serotonin metabolism variant def: "Animals exhibit variations in any chemical reaction or pathway involving serotonin (5-hydroxytryptamine), a monoamine neurotransmitter, compared to control." [GO:0042428, WB:WBPerson557, WB:WBPerson712] synonym: "serotonin metabolism abnormal" NARROW [] is_a: WBPhenotype:0000221 ! neurotransmitter metabolism variant [Term] id: WBPhenotype:0000223 name: acetylcholine metabolism variant def: "Animals exhibit variations in any chemical reaction or pathway involving acetylcholine, compared to control. Acetylcholine is the acetic acid ester of the organic base choline." [GO:0008291, WB:WBPerson557, WB:WBPerson712] synonym: "acetylcholine metabolism abnormal" NARROW [] is_a: WBPhenotype:0000221 ! neurotransmitter metabolism variant [Term] id: WBPhenotype:0000224 name: serotonin deficient def: "Animals do not contain or are unable to maintain a perceivable level of serotonin capable of initiating or maintaining serotonin-dependent cell activity." [WB:WBPerson712] is_a: WBPhenotype:0000222 ! serotonin metabolism variant [Term] id: WBPhenotype:0000225 name: serotonin synthesis defective def: "Animals are unable to carry out the chemical reactions and pathways resulting in the formation of serotonin." [GO:0042427, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000222 ! serotonin metabolism variant [Term] id: WBPhenotype:0000226 name: serotonin catabolism defective def: "Animals are unable to carry out any chemical reaction or pathway resulting in the breakdown of serotonin (5-hydroxytryptamine), a monoamine neurotransmitter." [GO:0042429, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000222 ! serotonin metabolism variant [Term] id: WBPhenotype:0000227 name: male turning defective def: "The inability of a male to properly turn during mating behavior. In C. elegans, males typically turn via a sharp ventral arch of the tail, as he approaches either the hermaphrodite head or tail." [GO:0034607, WB:WBPaper00000392, WB:WBPaper00002109] synonym: "male turning abnormal" NARROW [] is_a: WBPhenotype:0004006 ! post hermaphrodite contact variant [Term] id: WBPhenotype:0000228 name: spontaneous mutation rate increased def: "Animals accumulate a greater number of genetic lesions than control animals in the absence of an externally controlled mutagen. In C. elegans, this is often measured by observing the number of reversion events of a known mutant gene function over a couple generations." [WB:WBPaper00000565, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000229 name: small def: "Animals are shorter and thinner than control animals at the same developmental stage." [WB:cab, WB:cgc31] synonym: "body size reduced" EXACT [] synonym: "Sma" RELATED [] is_a: WBPhenotype:0001726 ! body length variant is_a: WBPhenotype:0001727 ! body width variant [Term] id: WBPhenotype:0000230 name: tail withered def: "The girth of the region posterior to the vulva is reduced compared to that anterior to the vulva (the Wit phenotype). In C. elegans this phenotype is associated with anteriorward misplacement of the CAN neurons." [WB:WBPaper00002795, WB:WBPerson2021, WB:WBPerson557] synonym: "Wit" RELATED [] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0000231 name: body size variant def: "Animals exhibit variations in the physical dimensions of its body compared to control animals of the same developmental stage." [WB:WBPerson712] comment: PATO:0000117. synonym: "body size abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000232 name: CAN cell migration variant def: "Variation in the migration pattern of CAN neurons. In C. elegans, CAN neurons move posteriorly from their birthplace in the head to positions near the middle of the embryo." [WB:WBPaper00002795, WB:WBPerson2021] synonym: "CAN cell migration abnormal" NARROW [] is_a: WBPhenotype:0001520 ! posterior neuron migration variant [Term] id: WBPhenotype:0000233 name: dopamine metabolism variant def: "Animals exhibit variations in any chemical reaction or pathway involving dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline, compared to control." [GO:0042417, WB:WBPerson557, WB:WBPerson712] synonym: "dopamine metabolism abnormal" NARROW [] is_a: WBPhenotype:0000221 ! neurotransmitter metabolism variant is_a: WBPhenotype:0001518 ! biogenic amine physiology variant [Term] id: WBPhenotype:0000234 name: dopamine deficient def: "Animals do not contain or are unable to maintain a the level of dopamine capable of initiating or maintaining dopamine-dependent cell activity compared to control animals." [WB:WBPerson712] synonym: "dopamine levels decreased" RELATED [] is_a: WBPhenotype:0000233 ! dopamine metabolism variant [Term] id: WBPhenotype:0000235 name: dopamine synthesis defective def: "Animals are unable to carry out the chemical reactions and pathways resulting in the formation of dopamine." [GO:0042416, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000233 ! dopamine metabolism variant [Term] id: WBPhenotype:0000236 name: dopamine catabolism defective def: "Animals are unable to carry outany chemical reaction or pathway resulting in the breakdown of dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GO:0042420, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000233 ! dopamine metabolism variant [Term] id: WBPhenotype:0000237 name: foraging hyperactive def: "Animals extend intensity of roaming and or dwelling activity compared to control animals. In C. elegans, hyperactivity may include an increase in nose-lifts per minute." [WB:WBPaper00031455, WB:WBPaper00031570, WB:WBPerson712] is_a: WBPhenotype:0000662 ! foraging behavior variant [Term] id: WBPhenotype:0000238 name: foraging reduced def: "Animals decrease intensity or rate of roaming and or dwelling activity compared to control animals." [WB:WBPaper00031455, WB:WBPerson712] is_a: WBPhenotype:0000662 ! foraging behavior variant [Term] id: WBPhenotype:0000239 name: vulval cell lineage variant def: "The descendants of a vulval precursor cell exhibit altered developmental programs compared to their counterparts in control animals. In C. elegans, the VPCs are P3.p-P8.p." [WB:WBPaper00005610, WB:WBPerson2021] synonym: "VPC lineage abnormal" RELATED [] synonym: "vulval cell lineage abnormal" NARROW [] is_a: WBPhenotype:0000099 ! P lineages variant [Term] id: WBPhenotype:0000240 name: blast cell proliferation reduced def: "The processes governing the expansion of blast cell populations vary, such that cell populations are decreased compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000173 ! cell proliferation reduced [Term] id: WBPhenotype:0000241 name: accumulated cell corpses def: "Animals exhibit an increase in the quantity of cells that have undergone programmed cell death but have not been engulfed." [WB:WBPerson712] is_a: WBPhenotype:0000590 ! cell corpse number variant [Term] id: WBPhenotype:0000242 name: body elongation defective def: "The epidermal cells of the embryo fail to elongate. In C. elegans, this elongation occurs along an anterior-posterior axis, which is required to transform the bean-shaped embryo into the elongated shape of the worm." [WB:WBPerson2021] is_a: WBPhenotype:0001478 ! body elongation variant [Term] id: WBPhenotype:0000243 name: engulfment failure by killer cell def: "Removal of cell corpses through a dedicated engulfment pathway is defective." [WB:WBPerson712] synonym: "corpse engulfment defective" RELATED [] synonym: "persistent cell corpses" RELATED [] is_a: WBPhenotype:0000885 ! engulfment variant [Term] id: WBPhenotype:0000244 name: apoptotic arrest def: "Cells fail to complete the form of programmed cell death characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), classically little or no ultrastructural modifications of cytoplasmic organelles, plasma membrane blebbing (but maintenance of its integrity until the final stages of the process) and engulfment by resident phagocytes." [WB:WBPerson712] synonym: "apoptosis block" RELATED [] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0000245 name: SM migration variant def: "Variations in the movement of sex myoblasts compared to control animals. In C. elegans, the larval SM migrate anteriorly to the precise center of the developing hermaphrodite gonad." [WB:WBPaper00003627, WB:WBPerson2021] synonym: "SM migration abnormal" NARROW [] is_a: WBPhenotype:0001230 ! anterior cell migration defective [Term] id: WBPhenotype:0000246 name: defecation cycle variable length def: "Animals exhibit variation in the time of onset of the defecation motor program significantly greater than that observed for control animals." [WB:WBPaper00031896, WB:WBPerson712] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0000247 name: sodium chemotaxis defective def: "Failure to execute the characteristic response to sodium as defined by control animals. In C. elegans, sodium is typically an attractant." [WB:cab, WB:cgc387] synonym: "Na chemotaxis defective" RELATED [] synonym: "sodium acetate chemotaxis defective" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0001440 ! cation positive chemotaxis defective [Term] id: WBPhenotype:0000248 name: obsolete sensory neuroanatomy variant def: "OBSOLETE." [WB:WBPerson557] synonym: "sensory neuroanatomy abnormal" NARROW [] is_obsolete: true replaced_by: WBPhenotype:0000652 [Term] id: WBPhenotype:0000249 name: osmotic avoidance defective def: "Failure to execute the characteristic avoidance response to solutions of high osmotic strength as defined by control animals." [WB:cab, WB:WBPerson2021] is_a: WBPhenotype:0000663 ! osmotic avoidance variant [Term] id: WBPhenotype:0000250 name: octopamine metabolism variant def: "Animals exhibit variations in any chemical reaction or pathway involving octopamine, 1-(p-hydroxyphenyl)-2-aminoethanol, compared to control." [GO:0046333, WB:WBPerson557, WB:WBPerson712] synonym: "octopamine metabolism abnormal" NARROW [] is_a: WBPhenotype:0000221 ! neurotransmitter metabolism variant is_a: WBPhenotype:0001518 ! biogenic amine physiology variant [Term] id: WBPhenotype:0000251 name: octopamine deficient def: "Animals do not contain or are unable to maintain a perceivable level of octopamine capable of initiating or maintaining dopamine-dependent cell activity." [WB:WBPerson712] is_a: WBPhenotype:0000250 ! octopamine metabolism variant [Term] id: WBPhenotype:0000252 name: caffeine resistant def: "Animals fail to respond to the concentration of caffeine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000253 name: movement erratic def: "Animals exhibit a lack of consistency, regularity, or uniformity while traveling from one location to another." [WB:WBPerson2021, WB:WBPerson557] synonym: "movement irregular" RELATED [] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0000254 name: chloride chemotaxis defective def: "Failure to execute the characteristic response to chloride. In C. elegans, chloride is typically an attractant." [WB:cab, WB:cgc387] synonym: "Cl chemotaxis defective" RELATED [] is_a: WBPhenotype:0001439 ! anion positive chemotaxis defective is_a: WBPhenotype:0001458 ! chloride chemotaxis variant [Term] id: WBPhenotype:0000255 name: amphid phasmid morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the neuronal cells of the amphid and phasmid sensilla from that observed in control animals. In C. elegans, these neurons are commonly assayed by dye-filling experiments using FITC, DiI or DiO." [WB:WBPaper00000938] comment: WBbt:0005394, WBbt:0006753. synonym: "amphid phasmid morphology abnormal" NARROW [] synonym: "dye filling defect" RELATED [] synonym: "Dyf" BROAD [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0000256 name: amphid morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the neuronal cells of the amphid sensillum, from that observed in control animals. In C. elegans, these neurons are commonly assayed by dye-filling experiments using FITC, DiI or DiO." [WB:WBPaper00000938] comment: WBbt:0005394. synonym: "amphid morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0000257 name: phasmid morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the neuronal cells of the phasmid sensillum, from that observed in control animals. In C. elegans, these neurons are commonly assayed by dye-filling experiments using FITC, DiI or DiO." [WB:WBPaper00000938] comment: WBbt:0006753. synonym: "phasmid morphology abnormal" NARROW [] is_a: WBPhenotype:0000255 ! amphid phasmid morphology variant is_a: WBPhenotype:0000256 ! amphid morphology variant is_a: WBPhenotype:0001527 ! amphid phasmid sensillum morphology variant [Term] id: WBPhenotype:0000258 name: cell secretion variant alt_id: WBPhenotype:0000723 def: "Variations in the regulated release of substances by a cell compared to control." [GO:0032940, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell secretion abnormal" NARROW [] synonym: "cellular secretion abnormal" EXACT [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000259 name: sheath cell secretion variant def: "Variations in the regulated release of substances by nonneuronal cells that enclose or ensheath the tips of the sensory dendrites compared to control." [WB:WBPaper00000822, WB:WBPerson2021] synonym: "sheath cell secretion abnormal" NARROW [] is_a: WBPhenotype:0000258 ! cell secretion variant [Term] id: WBPhenotype:0000260 name: sheath cell secretion failure def: "The regulated release of materials by sheath cells is disrupted." [WB:WBPaper00028924, WB:WBPerson2021] is_a: WBPhenotype:0000259 ! sheath cell secretion variant [Term] id: WBPhenotype:0000261 name: amphid sheath secretion failure def: "Amphid sheath cells lack the ability to secrete vesicles and their contents within the amphid pocket." [WB:WBPaper00028924, WB:WBPerson2021] is_a: WBPhenotype:0000260 ! sheath cell secretion failure [Term] id: WBPhenotype:0000262 name: axoneme morphology variant def: "Animals exhibit variations in the structure or composition of the microtubule-based fibrillar bundle (axoneme) that makes up the core of the middle part of the cilium (in a pattern of nine doublet microtubules attached to the membrane and a variable number of smaller singlet microtubules occupying the center). In C. elegans, the axoneme microtubules are arranged in a pattern of nine doublets attached to the membrane with seven smaller singlet microtubules occupying the center." [WB:WBPaper00000932, WB:WBPerson557, WB:WBPerson712] synonym: "axoneme morphology abnormal" NARROW [] is_a: WBPhenotype:0000615 ! cilia morphology variant [Term] id: WBPhenotype:0000263 name: axoneme short def: "The microbule-based fibrillar bundle in the core of the cilium is reduced in length compared to axonemes of similar cells in control animals." [WB:WBPaper00000932, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000262 ! axoneme morphology variant [Term] id: WBPhenotype:0000264 name: cAMP chemotaxis defective def: "Failure to execute the characteristic response to cAMP as defined by control animals. In C. elegans, cAMP is typically an attractant." [WB:cab, WB:cgc387, WB:WBPaper00001481, WB:WBPaper00002033] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective is_a: WBPhenotype:0001463 ! cAMP chemotaxis variant [Term] id: WBPhenotype:0000265 name: odorant positive chemotaxis variant def: "Movement towards typically attractive volatile organic chemicals is altered as defined by control animals. In C. elegans, these odorants are typically sensed by the AWA and AWC neurons." [WB:cab, WB:cgc1786, WB:WBPerson2021] synonym: "odorant positive chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000635 ! positive chemotaxis variant is_a: WBPhenotype:0001048 ! odorant chemosensory response variant [Term] id: WBPhenotype:0000266 name: cell cleavage variant def: "Variations that disrupt stereotypical cleavage patterns (such as cleavage rate, division axes or asymmetric division) compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "cell cleavage abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0000267 name: cell cleavage delayed def: "Any variation that causes a delay in the stereotypical cleavage event compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000266 ! cell cleavage variant is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0000268 name: P cell cleavage delayed def: "Any variation that causes a delay in the stereotypical cleavage pattern of the P cell compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000267 ! cell cleavage delayed [Term] id: WBPhenotype:0000269 name: obsolete unclassified def: "OBSOLETE. Animals display a phenotype that has not yet been assigned to a current classification." [WB:WBPerson2021, WB:WBPerson557] is_obsolete: true [Term] id: WBPhenotype:0000270 name: pleiotropic defects severe early emb def: "Seemingly unrelated variations that concurrently occur during early embryonic development compared to control animals. In C. elegans, this can include multiple pronuclei, aberrant cytoplasmic texture, decrease in overall pace of development and osmotic sensitivity." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001007 ! other abnormality early emb [Term] id: WBPhenotype:0000271 name: obsolete cell cycle slow def: "OBSOLETE." [] is_obsolete: true consider: WBPhenotype:0000318 consider: WBPhenotype:0001995 [Term] id: WBPhenotype:0000272 name: egg laying irregular def: "The rate of the intrinsic behavioral program that serves to move fertilized eggs down the uterus, through the vulva, and out of the worm onto the substrate does not conform to the pattern observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0000273 name: thrashing reduced def: "The number of body thrashes within an aqueous environment in a given period of time are reduced compared with control worms." [WB:cab, WB:cgc7388] is_a: WBPhenotype:0001700 ! swimming variant [Term] id: WBPhenotype:0000274 name: dead eggs laid def: "Animals lay eggs that are inviable." [WB:cab] is_a: WBPhenotype:0000640 ! egg laying variant is_a: WBPhenotype:0000806 ! hermaphrodite fertility variant [Term] id: WBPhenotype:0000275 name: organism UV hypersensitive def: "Organisms respond to UV at a lower dose or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000143 ! organism UV response variant [Term] id: WBPhenotype:0000276 name: organism X ray response variant def: "Animals exhibit variations in their response to X-ray radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "organism X ray response abnormal" NARROW [] is_a: WBPhenotype:0000686 ! organism ionizing radiation response variant [Term] id: WBPhenotype:0000277 name: rhythm slow def: "The timing of a biological cycle that recurs with regularity is delayed compared to control." [GO:0048511, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000278 name: body region pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency or translucency of a particular body region." [WB:WBPerson557] synonym: "body region pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000521 ! pigmentation variant [Term] id: WBPhenotype:0000279 name: spicule insertion defective def: "Males exhibit defects in the insertion of the male copulatory spicules into the mating partner. In C. elegan spicule insertion behavior initiates when the male cloaca contacts the vulva. During most mating encounters, the spicule tips will prod the vulva continuously until they partially penetrate, which then causes the protractors to contract completely so that the spicules extend through the vulva." [GO:0034609, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001414 ! male mating defective is_a: WBPhenotype:0004006 ! post hermaphrodite contact variant [Term] id: WBPhenotype:0000280 name: breaks in alae def: "The small linear ridges running along the lateral lines of the cuticle, lengthwise along the body, contain gaps as opposed to a continuous arrangement (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001412 ! alae morphology variant [Term] id: WBPhenotype:0000281 name: male sex muscle development variant def: "Variations in the progression of the muscles of the adult male reproductive system over time form their initial formation to their mature structure compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "male sex muscle development abnormal" NARROW [] is_a: WBPhenotype:0000669 ! sex muscle development variant [Term] id: WBPhenotype:0000282 name: hermaphrodite sex muscle development variant def: "Variations in the progression of the muscles of the adult hermaphrodite reproductive system over time form their initial formation to their mature structure compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "hermaphrodite sex muscle development abnormal" NARROW [] is_a: WBPhenotype:0000669 ! sex muscle development variant [Term] id: WBPhenotype:0000283 name: vulva uterus connection defective def: "Animals exhibit defects in the continuity of lumen between the vulva and uterus compared to control animals." [WB:WBPaper00003386, WB:WBPaper00006298, WB:WBPaper00027236, WB:WBPaper00027316, WB:WBPerson712] synonym: "AC block" NARROW [] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000284 name: sperm transfer defective def: "Any defect in the process whereby a male inseminates his partner by introducing sperm into the genital tract." [GO:0007320, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001414 ! male mating defective is_a: WBPhenotype:0004006 ! post hermaphrodite contact variant [Term] id: WBPhenotype:0000285 name: ray tips swollen def: "The extreme ends of any of the finger-like sensory sensilla that project from the tail and embed in the male fan appear bloated or distended." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000505 ! male ray morphology variant [Term] id: WBPhenotype:0000286 name: embryo disorganized def: "Embryos fail to be organized in the same manner as observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000287 name: obsolete vulval invagination L4 abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000510 [Term] id: WBPhenotype:0000288 name: distal germline variant def: "Variations in the progression of the lineages that gives rise to all germ cells, lying in the region adjacent to the proximal gonad (on the side furthest from the founder cells of the somatic gonad), over time compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "distal germ line abnormal" RELATED [] synonym: "distal germline abnormal" NARROW [] is_a: WBPhenotype:0000812 ! germ cell development variant [Term] id: WBPhenotype:0000289 name: uterus morphology variant def: "Any variation in the form, structure or composition of the portion of the somatic gonad which encloses the fertilized eggs after their passage through the spermatheca compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "uterus morphology abnormal" NARROW [] is_a: WBPhenotype:0001335 ! hermaphrodite reproductive system morphology variant [Term] id: WBPhenotype:0000290 name: sperm absent def: "Animals lack fully specialized male gametes that are competent for fertilization." [WB:WBPerson2021] synonym: "no sperm" RELATED [] is_a: WBPhenotype:0000215 ! no germ line is_a: WBPhenotype:0000395 ! no differentiated gametes [Term] id: WBPhenotype:0000291 name: no oocytes def: "Hermaphrodites lack fully specialized female gametes that are competent for fertilization." [WB:WBPerson2021] synonym: "oocytes absent" RELATED [] is_a: WBPhenotype:0000215 ! no germ line is_a: WBPhenotype:0000395 ! no differentiated gametes [Term] id: WBPhenotype:0000292 name: organ system pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of a organ system." [WB:WBPerson557] synonym: "organ system pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000521 ! pigmentation variant is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000293 name: alimentary system pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of the alimentary system." [WB:WBPerson557] synonym: "alimentary system pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000292 ! organ system pigmentation variant is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000294 name: intestine dark def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that decrease the transparency/translucency of the intestine." [WB:WBPerson557] synonym: "Din" BROAD [] is_a: WBPhenotype:0000293 ! alimentary system pigmentation variant [Term] id: WBPhenotype:0000295 name: thermotolerance increased def: "Animals are able to survive for longer periods at temperatures above standard culture temperatures than control animals." [WB:WBPaper00005836, WB:WBPerson712] synonym: "intrinsic thermotolerance increased" NARROW [] is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0000296 name: spicules crumpled def: "The elongated sclerotized structures covered by a hardened layer of cuticle in the male tail (which are actively everted during copulation to fasten the male copulatory fan to the vulva) are deformed. In C. elegans males there are two copulatory spicules." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000443 ! spicule morphology variant [Term] id: WBPhenotype:0000297 name: rays fused alt_id: WBPhenotype:0001241 def: "Any of the finger-like sensory sensilla that project from the tail and embed in the male fan are joined to one another." [WB:WBPerson2021, WB:WBPerson557] synonym: "ray fusion" EXACT [] is_a: WBPhenotype:0000165 ! cell fusion variant is_a: WBPhenotype:0000199 ! male tail sensory ray development variant is_a: WBPhenotype:0000505 ! male ray morphology variant [Term] id: WBPhenotype:0000298 name: rays displaced def: "Any of the finger-like sensory sensilla that project from the tail and embed in the male fan are shifted from their customary place." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000505 ! male ray morphology variant [Term] id: WBPhenotype:0000299 name: sensillum morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the sense organs comprised of ciliated sensory nerve endings enveloped by sheath and/or socket cells, from that observed in control animals." [WB:WBPaper00000214, WB:WBPaper00000938, WB:WBPerson712] synonym: "chemosensory cell morphology abnormal" RELATED [] synonym: "sensillum morphology abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant [Term] id: WBPhenotype:0000300 name: amphid sheath cell morphology variant def: "Animals exhibit variations in the structure or composition of the amphid sensillum cell that ensheathes the dendrite tips of channel neurons and wing cell dedritic processes, from that observed in control animals. Sheath cells in C.elegans have highly invaginated and vesiculated surfaces, which provide a specialized environment for the dendritic structures." [WB:WBPaper00000214, WB:WBPaper00000503, WB:WBPaper00000822, WB:WBPerson712] synonym: "amphid sheath cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000255 ! amphid phasmid morphology variant is_a: WBPhenotype:0000256 ! amphid morphology variant is_a: WBPhenotype:0000972 ! neuronal sheath cell morphology variant is_a: WBPhenotype:0001527 ! amphid phasmid sensillum morphology variant [Term] id: WBPhenotype:0000301 name: distal tip cell reflex failure def: "A migrating distal tip cell (DTC) fails to follow the stereotypical path. In C. elegans this path is U-shaped and results in the formation of reflexed gonadal arm." [WB:WBPaper00029151, WB:WBPerson2021] is_a: WBPhenotype:0000195 ! distal tip cell migration variant [Term] id: WBPhenotype:0000302 name: benzaldehyde chemotaxis defective def: "Failure to execute the characteristic response to benzaldehyde as defined by control animals. In C.elegans benzaldehyde is typically attractive." [WB:WBPaper00001786] is_a: WBPhenotype:0001060 ! AWC odorant chemotaxis defective is_a: WBPhenotype:0001468 ! benzaldehyde chemotaxis variant [Term] id: WBPhenotype:0000303 name: diacetyl chemotaxis defective def: "Failure to execute the characteristic response to diacetyl as defined by control animals. In C.elegans diacetyl is typically attractive." [WB:WBPaper00001786] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001470 ! diacetyl chemotaxis variant [Term] id: WBPhenotype:0000304 name: isoamyl alcohol chemotaxis defective def: "Failure to execute the characteristic response to isoamyl alcohol as defined by control animals. In C.elegans isoamyl alcohol is typically attractive." [WB:cab, WB:cgc1786] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001472 ! isoamyl alcohol chemotaxis variant [Term] id: WBPhenotype:0000305 name: pheromone sensation variant def: "Animals exhibit variations in any of a series of events in which a pheromone stimulus is received by a cell and converted into a molecular signal that influences behavior in control animals." [GO:0043695, WB:WBPerson2021, WB:WBPerson557] synonym: "pheromone sensation abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000306 name: transgene expression variant def: "Any variation in the characteristic expression of a gene product produced by exogenous DNA that has been introduced into the organism compared to control animals." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "transgene expression abnormal" NARROW [] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000307 name: dauer pheromone sensation defective def: "Animals fail to detect a pheromone stimulus that induces dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001479 ! dauer pheromone sensation variant [Term] id: WBPhenotype:0000308 name: dauer development variant def: "Any variation in the processes that govern development of the dauer larva, a developmentally arrested, larval stage that is specialized for survival under harsh, or otherwise unfavorable, environmental conditions. In C. elegans this is an alternative third larval stage." [WB:kmva] synonym: "dauer development abnormal" NARROW [] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0000309 name: SDS sensitive dauer def: "Any variation that decreases the ability of dauer larva to tolerate the exposure to sodium dodecyl sulfate (a detergent) compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0001546 ! dauer resistance to harsh conditions variant is_a: WBPhenotype:0001918 ! chemical hypersensitive [Term] id: WBPhenotype:0000310 name: cilia absent def: "Neurons lack the finger-like dendritic projections, which are observed extending from similar cells in control animals." [WB:WBPaper00000932, WB:WBPerson712] is_a: WBPhenotype:0000615 ! cilia morphology variant [Term] id: WBPhenotype:0000311 name: obsolete semi sterile def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000688 [Term] id: WBPhenotype:0000312 name: dauer pheromone production defective def: "Animals are incapable of synthesizing pheromones that induce dauer formation in control animals." [GO:0042446, WB:WBPerson2021] is_a: WBPhenotype:0000191 ! organism crowding response variant is_a: WBPhenotype:0001547 ! dauer metabolism variant [Term] id: WBPhenotype:0000313 name: meiotic progression during oogenesis variant def: "Developing oocytes show defects in their initial entry or progression through the meiotic pathway (such as failure to exit diakinesis)." [WB:WBPaper00026997, WB:WBPerson2021] synonym: "meiotic progression during oogenesis abnormal" NARROW [] is_a: WBPhenotype:0000186 ! oogenesis variant [Term] id: WBPhenotype:0000314 name: scrawny def: "Animals are slight or meager in body size compared to control animals at the same developmental stage." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0000315 name: mechanosensation variant alt_id: WBPhenotype:0000513 def: "Any variation with respect to perception or response to mechanical stimuli compared to control animals." [WB:cab] subset: phenotype_slim_wb synonym: "Mec" BROAD [] synonym: "mechanosensation abnormal" NARROW [] synonym: "touch response abnormal" EXACT [] is_a: WBPhenotype:0000525 ! organism behavior variant is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000316 name: touch resistant tail def: "Failure to execute a characteristic response when struck or stroked in the posterior region. In C. elegans, animals move forward movement when struck or stroked in the posterior region, usually with a hair or similar fiber. The posterior region lies between the vulva and the tail." [WB:WBPaper00000502, WB:WBPaper00001133, WB:WBPaper00001705, WB:WBPerson557] synonym: "touch insensitive tail" RELATED [] synonym: "touch resistant posterior body" BROAD [] is_a: WBPhenotype:0000456 ! touch resistant [Term] id: WBPhenotype:0000317 name: head withdrawal defective def: "Animals are deficient in the foraging response in which an animal quickly pulls its head away from a stimulus to the nose (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0000318 name: cell cycle delayed def: "Cells of the animals proceed through their replicative phase at a pace slower than observed for control cells." [WB:WBPerson712] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0001995 ! cell cycle progression variant [Term] id: WBPhenotype:0000319 name: large def: "Animals have increased girth and increased length compared to control animals at the same developmental stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "body size enlarged" EXACT [] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0000320 name: reduced viability after freezing def: "Animals show a decrease in survivorship after thawing compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000141 ! stress induced lethality increased [Term] id: WBPhenotype:0000321 name: nose morphology variant def: "Animals exhibit variations in the form, structure or composition of any portion of the extreme anterior part of their body compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "nose morphology abnormal" NARROW [] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0000322 name: nose rounded def: "The extreme anterior part of the body appears blunted in shape." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000321 ! nose morphology variant [Term] id: WBPhenotype:0000323 name: head swollen def: "The most anterior portion of the animal appears bloated or distended." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0000324 name: short def: "Animals exhibit a decreased body length compared to control animals of the same developmental stage." [WB:WBPerson712] is_a: WBPhenotype:0000229 ! small [Term] id: WBPhenotype:0000325 name: arecoline hypersensitive def: "Animals respond to arecoline at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001579 ! cholinergic agonist hypersensitive [Term] id: WBPhenotype:0000326 name: arecoline resistant def: "Animals fail to respond to the concentration of arecoline that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001578 ! cholinergic agonist resistant [Term] id: WBPhenotype:0000327 name: corpus contraction defect def: "Any defect in the muscle contractions of the extended anterior region of the pharynx lying just anterior to the isthmus and terminal bulb (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000747 ! pharyngeal contraction defective [Term] id: WBPhenotype:0000328 name: terminal bulb contraction variant def: "Variations in the rhythmic contractions of the posterior pharynx (terminal bulb), such as timing, strength etc. In C. elegans contraction of the terminal bulb inverts the grinder, allowing bacteria in front of the grinder to be broken up and transported to the intestine." [WB:WBPaper00001696] synonym: "terminal bulb contraction abnormal" NARROW [] is_a: WBPhenotype:0000980 ! pharyngeal contraction variant [Term] id: WBPhenotype:0000329 name: pumping asynchronous def: "The rhythmic contractions of pharyngeal compartments are no longer synchronized compared to control. In C. elegans the corpus and terminal bulb normally contract simultaneously." [WB:WBPaper00001696] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0000330 name: pharyngeal relaxation defective def: "Defects in rhythmic pharyngeal relaxations compared to control animals. In C. elegans pharyngeal relaxation follows a contraction event and facilitates bacterial trapping within the pharynx while expelling liquid." [WB:WBPaper00001709] is_a: WBPhenotype:0001004 ! pharyngeal relaxation variant [Term] id: WBPhenotype:0000331 name: inhibitors of na k atpase resistant def: "Animals fail to respond to the concentration of sodium potassium ATPase antagonists that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson2021] synonym: "ouabain resistant" NARROW [] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000332 name: inhibitors of sodium potassium ATPase hypersensitive def: "Animals respond to inhibitors of sodium potassium ATPase at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000333 name: pharyngeal pumps brief def: "The time interval of the stereotyped sequence of muscle contractions by individual pharyngeal muscles that act to draw food into the pharynx is shorter compared to that observed in control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0000334 name: isthmus corpus slippery def: "Failure of muscle contractions in the corpus and isthmus to trap and transport bacteria posteriorly in the pharynx." [WB:WBPaper00001696] is_a: WBPhenotype:0000335 ! pharynx slippery [Term] id: WBPhenotype:0000335 name: pharynx slippery def: "Failure of pharyngeal contractions to trap and transport bacteria posteriorly. In C. elegans this defect results in a distention of the pharyngeal lumen." [WB:WBPaper00001696] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0000336 name: terminal bulb relaxation variant def: "Variations in the rhythmic relaxations of the posterior pharynx (terminal bulb). In C. elegans the relaxation of the terminal bulb returns the grinder to its relaxed forward position." [WB:WBPaper00001696] synonym: "terminal bulb relaxation abnormal" NARROW [] is_a: WBPhenotype:0000330 ! pharyngeal relaxation defective [Term] id: WBPhenotype:0000337 name: grinder relaxation defective def: "Failure of the grinder to come to a full relaxed position between pumps compared to control." [WB:WBPaper00001709] is_a: WBPhenotype:0001480 ! grinder relaxation variant [Term] id: WBPhenotype:0000338 name: tail swelling def: "Swelling in the post anal region compared to control. In C. elegans this swelling can be associated with infection from the nematode-specific bacterial pathogen, Microbacterium nematophilum." [WB:cab, WB:WBPaper00026735] synonym: "Dar" BROAD [] synonym: "deformed anal region" RELATED [] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0000339 name: transient bloating def: "Worms sporatically appear turgid or swollen as a result of an excess number of eggs being retained in the uterus." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000862 ! bloated [Term] id: WBPhenotype:0000340 name: imipramine resistant def: "Animals fail to respond to the concentration of imipramine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0001598 ! inhibitor of serotonin uptake variant [Term] id: WBPhenotype:0000341 name: imipramine hypersensitive def: "Animals respond to imipramine at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000342 name: bursa morphology variant def: "Any variation in the form, structure or composition of the adult male tail including the lateral fan and rays compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "bursa morphology abnormal" NARROW [] is_a: WBPhenotype:0000070 ! male tail morphology variant [Term] id: WBPhenotype:0000343 name: obsolete cloaca morphology abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000908 [Term] id: WBPhenotype:0000344 name: cloacal structures protrude def: "Any of the contents that comprise the epithelial chamber that links the genital and alimentary tracts to the exterior via the anus extend into the external environment through the cloacal opening." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000908 ! cloacal morphology variant [Term] id: WBPhenotype:0000345 name: VPC cell division variant def: "Any variation that alters the physical partitioning and separation of a vulval precursor cell into daughter cells compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "VPC cell division abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0000346 name: adult pigmentation variant def: "Adult animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter its transparency/translucency compared to control animals." [WB:WBPerson557] synonym: "adult pigmentation abnormal" NARROW [] is_a: WBPhenotype:0001009 ! developmental pigmentation variant [Term] id: WBPhenotype:0000347 name: rectal development variant def: "Any variation in the progression of the cuticle-lined sinus opening on the posterior ventral surface of the animal over time from its formation to its mature structure compared to control (Wormatlas). The function of the rectum is to excrete waste products from the alimentary system." [WB:WBPerson2021, WB:WBPerson557] synonym: "rectal development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000348 name: obsolete muscle activation defective def: "OBSOLETE." [] is_obsolete: true consider: WBPhenotype:0001735 [Term] id: WBPhenotype:0000349 name: flaccid def: "A semi-paralysed body phenotype in which muscle tone is lost and the animal fails to actively control its body shape (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "floppy" RELATED [] synonym: "limp" RELATED [] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0000350 name: hermaphrodite tail spike variant def: "Any variation in the structure or appearance of the thin cuticle specialization found at the extreme posterior end of the hermaphrodite tail compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000968 ! tail spike variant [Term] id: WBPhenotype:0000351 name: failure to hatch def: "Animals fail to emerge from an egg shell." [GO:0035188, WB:WBPerson2021] is_a: WBPhenotype:0000048 ! hatching variant is_a: WBPhenotype:0000050 ! embryonic lethal [Term] id: WBPhenotype:0000352 name: backing uncoordinated def: "Backward movement is not coordinated as in control. This often causes jerky or spastic backward locomotion." [WB:WBPaper00001709] is_a: WBPhenotype:0001005 ! backward locomotion variant [Term] id: WBPhenotype:0000353 name: backing increased def: "Animals spend more time backing compared to control animals." [WB:cab] is_a: WBPhenotype:0001005 ! backward locomotion variant [Term] id: WBPhenotype:0000354 name: cell differentiation variant def: "Variations in the processes leading to the specialization of cell. Differentiation impacts diverse cellular properties such as size, shape, polarity, gene expression and responsiveness to signals/cues." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell differentiation abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000355 name: HSN differentiation precocious def: "Specialization of HSN precursor cells to mature HSN neurons occurs at an earlier stage of development compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000354 ! cell differentiation variant is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0000356 name: spermatogenesis delayed def: "The progression of immature germ cells to functional sperm is retarded compared to control." [WB:WBPaper00005566, WB:WBPerson2021] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0000357 name: unfertilized oocytes laid def: "Animals lay inactivated oocytes. In C elegans this may be due to perturbations that eliminate spermatogenesis or result in the production of defective sperm." [WB:WBPaper00001075, WB:WBPerson2021] is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0000358 name: extra cell division postembryonic def: "Animals execute supernumerary cell divisions post-hatching." [WB:WBPerson2021, WB:WBPerson557] synonym: "supernumerary cell divisions" RELATED [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000359 name: tunicamycin response variant def: "Animals exhibit variations in the response to the addition of tunicamycin compared to that observed in control animals. Tunicamycin induces the unfolded protein response." [WB:WBPaper00030877, WB:WBperson557] synonym: "tunicamycin response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000360 name: cytoplasmic streaming defective def: "The directed movement of substances (such as macromolecules, small molecules, ions) into, out of, or within the cytoplasm of a cell is impaired." [GO:0016482, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000361 name: lima bean arrest def: "Cessation of development at an intermediate stage in embryogenesis, immediately following the completion of gastrulation. In C. elegans this occurs around 350-390 minutes after first cleavage, cell number is at approximately 560 cells. At this time cell proliferation ceases and the embryo begins morphogenesis and elongation. The shape of the entire embryo within the eggshell resembles a lima bean (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "arrest during epiboly" RELATED [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000867 ! embryonic arrest [Term] id: WBPhenotype:0000362 name: blastocoel variant def: "Any variation in the progression of the fluid-filled compartment inside the developing embryo at the onset of gastrulation over time from its formation to its mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "blastocoel abnormal" NARROW [] is_a: WBPhenotype:0000047 ! gastrulation variant [Term] id: WBPhenotype:0000363 name: cell division slow def: "Any variation that delays the physical partitioning and separation of a cell into daughter cells compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0000364 name: gut granule birefringence misplaced def: "The birefringent inclusions typically found in the intestinal cytoplasm accumulate extracellularly in the intestinal lumen." [WB:WBPaper00025094] is_a: WBPhenotype:0002240 ! gut granule morphology variant [Term] id: WBPhenotype:0000365 name: embryo osmotic integrity defective early emb def: "Variations in the ability of an embryo to maintain osmotic balance. In C.elegans this can result in an embryo filling the egg shell and lysing." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "Eos" BROAD [] is_a: WBPhenotype:0001178 ! egg integrity defective early emb [Term] id: WBPhenotype:0000366 name: three fold arrest def: "Cessation of development that normally occurs in C. elegans 520-620min after the first cleavage at 20C, the stage between the 2-fold and fully elongated embryo." [WB:WBPerson101] synonym: "active elongation arrest" RELATED [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000779 ! late embryonic arrest [Term] id: WBPhenotype:0000367 name: comma arrest emb def: "Cessation of development during the middle stage in embryogenesis of the worm in which the embryo is slightly folded within the eggshell (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "end of epiboly arrest" RELATED [] is_a: WBPhenotype:0000864 ! early elongation arrest [Term] id: WBPhenotype:0000368 name: one point five fold arrest emb def: "Cessation of development that normally occurs in C. elegans 420-460 min after the first embryonic cleavage at 20C, the stage between the comma and 2-fold embryo." [WB:WBPerson101] synonym: "arrest beginning elongation" RELATED [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000864 ! early elongation arrest [Term] id: WBPhenotype:0000369 name: pretzel arrest def: "Cessation of development during the final two stages in embryogenesis, 'early pretzel' stage and 'late pretzel' stage, just prior to hatching. The animal now is folded into four lengths within the eggshell and resembles a pretzel. By early pretzel stage, the head begins to move independently from the body (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "end of elongation arrest" RELATED [] is_a: WBPhenotype:0000779 ! late embryonic arrest [Term] id: WBPhenotype:0000370 name: egg long def: "The fertilized oocytes have a greater than standard length measured end to end compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000373 ! egg shape variable [Term] id: WBPhenotype:0000371 name: cell division incomplete def: "The physical partitioning and separation of a cell into daughter cells is interupted." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0000372 name: no polar body formation def: "Animals lack the two small cells produced, each during one of the two meiotic cell divisions (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0000373 name: egg shape variable def: "The overall structure or appearance of fertilized oocytes that are laid exhibit nonconsistent and significant deviation from that of control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000037 ! egg morphology variant [Term] id: WBPhenotype:0000374 name: early divisions prolonged def: "The time interval in which early embryonic cell divisions occur is increased compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000375 name: later divisions prolonged def: "The time interval in which late embryonic cell divisions occur is increased compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000376 name: no uterine cavity def: "Animals lack the inner space of the uterus through which the fertilized egg passes on its way out of the nematode via the vulva (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000289 ! uterus morphology variant [Term] id: WBPhenotype:0000377 name: canal lumen morphology variant def: "Animals exhibit variations in the form, structure or composition of the internal space of the excretory canal compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "canal lumen morphology abnormal" NARROW [] is_a: WBPhenotype:0000704 ! excretory canal morphology variant [Term] id: WBPhenotype:0000378 name: pharyngeal pumping shallow def: "Pharyngeal muscle contractions show less displacement than that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0000379 name: head notched def: "The most anterior portion of the animal contains a V-shaped indentation." [WB:WBPaper00000031] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0000380 name: expulsion infrequent def: "The final step of the defecation motor program does not occur at each cycle, but is activated occasionally. During this step in C. eslegans specialized enteric muscles contract to expel the contents of the gut through the anus." [WB:WBPaper00002315, WB:WBPerson712] is_a: WBPhenotype:0000996 ! expulsion defective [Term] id: WBPhenotype:0000381 name: serotonin reuptake inhibitor resistant def: "Animals fail to respond to the concentration of serotonin reuptake inhibitors that elicit a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000382 name: serotonin reuptake inhibitor hypersensitive def: "Animals respond to serotonin reuptake inhibitors at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000383 name: lipid synthesis defective def: "The de novo synthesis of any lipid species is reduced compared to that observed in control animals." [WB:WBPerson712] synonym: "lipid synthesis decreased" RELATED [] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0000384 name: axon guidance variant def: "Variations in the cue-directed extension of an axon towards a specific target site compared to control. (Axon guidance often depends on a combination of attractive and repulsive cues)." [GO:0048846, WB:WBPerson2021] synonym: "axon guidance abnormal" NARROW [] synonym: "axon pathfinding abnormal" RELATED [] is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0000385 name: sperm excess def: "Animals produce an increased sperm population compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0000386 name: genotoxic induced apoptosis variant def: "Programmed cell death of germ cells caused by exposure to DNA-damaging chemical agents does not occur to the same extent as it does in control animals." [WB:WBPaper00032006, WB:WBPaper00032243, WB:WBPaper00032356, WB:WBPerson712] synonym: "DNA damage induced apoptosis abnormal" RELATED [] synonym: "genotoxic induced apoptosis abnormal" NARROW [] is_a: WBPhenotype:0002152 ! mutagen induced apoptosis variant [Term] id: WBPhenotype:0000387 name: sperm nonmotile def: "The mature male gametes lack self-propelled movement." [GO:0030317, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0000388 name: sperm morphology variant def: "Any variation in the form, structure or composition of the mature male gamete, which merges with an oocyte to create a fertilized embryo copared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "sperm morphology abnormal" NARROW [] is_a: WBPhenotype:0000900 ! germ cell morphology variant [Term] id: WBPhenotype:0000389 name: hermaphrodite sperm fertilization defective def: "Any perturbation that renders hermaphrodite derived sperm incompetent at fertilizing an oocyte." [WB:WBPaper00001075, WB:WBPerson2021] synonym: "Fer" BROAD [] synonym: "Spe" BROAD [] is_a: WBPhenotype:0000694 ! hermaphrodite sterile is_a: WBPhenotype:0002440 ! sperm fertility defective [Term] id: WBPhenotype:0000390 name: spermatid activation defective def: "Spermatids fail to mature into active sperm. In C. elegans round sessile spermatids mature into spermatozoa (polarized cells with a motile pseudopod), upon copulation or treatment with proteases." [WB:WBPaper00000884, WB:WBPaper00027300, WB:WBPerson2021] synonym: "spermiogenesis defective" RELATED [] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0000391 name: defecation missing motor steps def: "Animals lack one or more of the stereotyped muscle contractions that result in defecation compared to control. In C. elegans these contractions include posterior body contraction (pBoc), anterior body contraction (aBoc), expulsion of gut contents by enteric muscle contraction (Emc) and opening of anus (Exp)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000650 ! defecation variant [Term] id: WBPhenotype:0000392 name: intestinal fluorescence increased def: "Animals exhibit an increase in the accumulation or expression of biochromes or any other substances that fluoresce in the intestine." [WB:WBPerson557] is_a: WBPhenotype:0000293 ! alimentary system pigmentation variant [Term] id: WBPhenotype:0000393 name: cell migration failure def: "Characteristic movement of cells from one site to another is abolished compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0000394 name: electrophoretic variant protein def: "Any variation in the movement of a protein through a gel matrix when an electric field is applied compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000112 ! protein expression variant [Term] id: WBPhenotype:0000395 name: no differentiated gametes def: "Animals are agametic (lack mature germ cells)." [WB:WBPerson2021] is_a: WBPhenotype:0000894 ! germ cell differentiation variant [Term] id: WBPhenotype:0000396 name: non reflexed gonad arms def: "Gonadal arms do not bend or curve. In C. elegans gonad arms normally reflex to form a stereotypical U-shaped pattern." [WB:WBPaper00005086, WB:WBPaper00029151, WB:WBPerson2021] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0000397 name: harsh body touch resistant def: "Animals do not respond to prodding with a fine platinum wire or similar tool compared to controls." [WB:WBPaper00000502] synonym: "harsh body touch insensitive" RELATED [] is_a: WBPhenotype:0000456 ! touch resistant [Term] id: WBPhenotype:0000398 name: light body touch resistant def: "Animals do not respond to stroking to the head or tail with a hair or similar fiber, but does respond to stronger mechanical stimuli such as prodding with a fine platinum wire or similar tool compared to controls." [WB:WBPaper00000502] synonym: "light body touch insensitive" RELATED [] is_a: WBPhenotype:0000456 ! touch resistant [Term] id: WBPhenotype:0000399 name: somatic gonad development variant def: "Any variation in the progression of the components of the gonad that are separate from the germline proper over time from its formation to its mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "somatic gonad development abnormal" NARROW [] is_a: WBPhenotype:0000691 ! gonad development variant [Term] id: WBPhenotype:0000400 name: somatic gonad primordium development defective def: "The developmental progression of the set of precursor cells that later give rise to the somatic tissues of the gonadal tract is impaired (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0000401 name: no uterus def: "Animals lack the portion of the somatic gonad which encloses the fertilized eggs after their passage through the spermatheca (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000402 name: avoids bacterial lawn def: "Lawn avoidance refers to behavior in which animals initially enter the bacterial lawn but later exit and remain near the edge of the bacteria. Lawn avoidance is often a response to bacterial food, that is pathogenic or low quality to the animal." [WB:WBPaper00029071, WB:WBPerson2021] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0000403 name: sperm transfer initiation defective def: "Any defect in the movement of sperm out of the seminal vesicle and into the vas deferens following tonic insertion of spicules into the mating partner compared to control." [WB:WBPaper00028400] is_a: WBPhenotype:0000284 ! sperm transfer defective [Term] id: WBPhenotype:0000404 name: delayed hatching def: "The emergence of larvae from their protective egg shells is retarded compared to control animals." [GO:0035188, WB:WBPerson2021] is_a: WBPhenotype:0000048 ! hatching variant is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0000405 name: giant oocytes def: "The size of haploid female germ cells (oocytes) are significantly larger compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "oocytes large" RELATED [] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0000406 name: lumpy def: "Animals have protrusions or bumps on their exterior which are not characteristic of control animals." [WB:WBPerson557] synonym: "Lpy" BROAD [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000407 name: obsolete ray loss def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0001509 [Term] id: WBPhenotype:0000408 name: dauer recovery inhibited def: "The process through which a dauer larva reverts to normal developmental programs is blocked." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000127 ! dauer recovery variant [Term] id: WBPhenotype:0000409 name: organism morphology variable def: "Animals exhibit variations in the form, structure or composition of any of its parts at different stages of the lifecycle, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "Vab" BROAD [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000410 name: no defecation cycle def: "Animals lack the stereotyped sequence of muscle contractions that result in defecation over a fixed time period compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0000411 name: rod like larval lethal def: "Animals die as rigid, rod-like larva. In C. elegans this defect is often caused by the misspecification of the excretory duct cell." [WB:WBPaper00001366, WB:WBPaper00002764, WB:WBPerson2021] synonym: "Let" RELATED [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000035 ! larval body morphology variant is_a: WBPhenotype:0000054 ! larval lethal [Term] id: WBPhenotype:0000412 name: octanol chemotaxis defective def: "Failure to execute the characteristic response to 1-octanol as defined by control animals. In C.elegans 1-octanol is typically a repellant." [WB:WBPaper00002314] is_a: WBPhenotype:0001448 ! odorant negative chemotaxis defective is_a: WBPhenotype:0001452 ! octanol chemotaxis variant [Term] id: WBPhenotype:0000413 name: pharyngeal muscle paralyzed def: "Pharyngeal muscle is immobilized resulting in lack of pumping or lack of response to external stimulation." [WB:cab, WB:WBPerson557] is_a: WBPhenotype:0000980 ! pharyngeal contraction variant [Term] id: WBPhenotype:0000414 name: cell fate transformation def: "The cell takes on a different identity from which it was initially committed." [GO:0045165, WB:WBPaper00002924, WB:WBPerson712] is_a: WBPhenotype:0000216 ! cell fate specification variant [Term] id: WBPhenotype:0000415 name: necrotic cell death variant def: "Animals exhibit variations in the cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents, compared to control." [GO:0070265, WB:WBPerson712] synonym: "necrotic cell death abnormal" NARROW [] is_a: WBPhenotype:0001173 ! non apoptotic cell death variant [Term] id: WBPhenotype:0000416 name: yolk synthesis variant def: "Variations in the generation of the nutrient protein produced by intestinal cells and secreted by them into the pseudocoelom, from which it can be shared with other tissues in the body compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "vitellogenin synthesis abnormal" RELATED [] synonym: "yolk synthesis abnormal" NARROW [] is_a: WBPhenotype:0001093 ! intestinal physiology variant [Term] id: WBPhenotype:0000417 name: cell division failure def: "The process of physical partitioning and separation of a cell into daughter cells is abolished." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0000418 name: intestinal cell division failure def: "The physical partitioning and separation of an intestinal cell into daughter cells is abolished." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000417 ! cell division failure [Term] id: WBPhenotype:0000419 name: L3 lethal def: "Animals die at the L3 stage of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000058 ! late larval lethal is_a: WBPhenotype:0000116 ! mid larval lethal [Term] id: WBPhenotype:0000420 name: levamisole hypersensitive def: "Animals respond to levamisole at a lower concentration or a shorter exposure compared to control animals. Levamisole is a cholinergic agonist." [WB:WBPerson557] synonym: "tetramisole hypersensitive" RELATED [] is_a: WBPhenotype:0000845 ! levamisole response variant is_a: WBPhenotype:0001579 ! cholinergic agonist hypersensitive [Term] id: WBPhenotype:0000421 name: levamisole resistant def: "Animals fail to respond to the concentration of levamisole that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans resistance to levamisole is often assayed via body contraction response, ventral tail curling response etc." [WB:WBPaper00000484, WB:WBPerson2021] synonym: "Lev R" BROAD [] synonym: "tetramisole resistant" RELATED [] is_a: WBPhenotype:0000845 ! levamisole response variant is_a: WBPhenotype:0001578 ! cholinergic agonist resistant [Term] id: WBPhenotype:0000422 name: twitcher def: "Animals exhibit spasmodic muscle twitching superimposed on normal sinusoidal motion." [WB:WBPaper00000484] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0000423 name: head muscle contraction variant def: "Any variation in the contractions of the muscles in the most anterior body region of the animal compared to control." [WB:WBPerson557] synonym: "head muscle contraction abnormal" NARROW [] is_a: WBPhenotype:0000611 ! muscle system physiology variant [Term] id: WBPhenotype:0000424 name: antibody staining variant def: "Any variation in the characteristic expression of a gene product, as detected by antibody staining, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "antibody staining abnormal" NARROW [] is_a: WBPhenotype:0000112 ! protein expression variant [Term] id: WBPhenotype:0000425 name: antibody staining reduced def: "Any variation that results in a decrease in the characteristic expression of a gene product, as detected by antibody staining, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0000426 name: antibody staining increased def: "Any variation that results in an increase in the characteristic expression of a gene product, as detected by antibody staining, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0000427 name: no cuticle def: "Animals lack the rigid external coating which is secreted by the hypodermis, seam and some interfacial epithelial cells (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000201 ! cuticle development variant [Term] id: WBPhenotype:0000428 name: no adult cuticle def: "Adult animals lack the rigid external coating which is secreted by the hypodermis, seam and some interfacial epithelial cells (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000427 ! no cuticle [Term] id: WBPhenotype:0000429 name: copulatory structure development variant def: "Any variation in the progression of the specialized structures of the animal which allow the successful transfer of sperm from one organism to another, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "copulatory structure development abnormal" NARROW [] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000430 name: male copulatory structure development variant def: "Any variation in the progression of the specialized structures of the male tail which allow the animal to sense the presence of the hermaphrodite, search her body for the vulval opening, grasp onto the vulva, and to transfer sperm over time from its formation to its mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "male copulatory structure development abnormal" NARROW [] is_a: WBPhenotype:0000429 ! copulatory structure development variant [Term] id: WBPhenotype:0000431 name: hermaphrodite copulatory structure development variant def: "Any variation in the progression of the specialized structures of a hermaphrodite which allow the successful transfer of sperm from a male, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "hermaphrodite copulatory structure development abnormal" NARROW [] is_a: WBPhenotype:0000429 ! copulatory structure development variant [Term] id: WBPhenotype:0000432 name: male copulatory structure absent def: "Animals lack the specialized structures of the male tail which allow the animal to sense the presence of the hermaphrodite, search her body for the vulval opening, grasp onto the vulva, and to transfer sperm (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000430 ! male copulatory structure development variant [Term] id: WBPhenotype:0000433 name: DNA synthesis variant def: "Variations in the processes involving the production of new DNA strands compared to control." [GO:0006260, WB:WBPerson2021] synonym: "DNA synthesis abnormal" NARROW [] is_a: WBPhenotype:0000732 ! DNA metabolism variant is_a: WBPhenotype:0001696 ! biosynthesis variant [Term] id: WBPhenotype:0000434 name: sexual maturation defective def: "The developmental process by which a progressive change in the state of some part of an organism specifically contributing to its ability to form offspring is impaired." [GO:0003006, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000435 name: obsolete protein localization abnormal def: "OBSOLETE. Any change in the subcellular localization of a protein." [] is_obsolete: true replaced_by: WBPhenotype:0000436 [Term] id: WBPhenotype:0000436 name: protein subcellular localization variant alt_id: WBPhenotype:0000435 def: "Any variation in the placement of a protein within in a cell or cellular compartment compared to control." [WB:WBPerson557] synonym: "protein localization abnormal" EXACT [] synonym: "protein subcellular localization abnormal" NARROW [] is_a: WBPhenotype:0001408 ! pattern protein expression variant [Term] id: WBPhenotype:0000437 name: obsolete heterochronic defect def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000033 [Term] id: WBPhenotype:0000438 name: retarded heterochronic variations def: "Variations that result in the deceleration of the rate, frequency or extent of the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition, compared to control." [GO:0040034, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000033 ! developmental timing variant [Term] id: WBPhenotype:0000439 name: precocious heterochronic variations def: "Variations that result in the acceleration of the rate, frequency or extent of the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition, compared to control." [GO:0040034, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000033 ! developmental timing variant [Term] id: WBPhenotype:0000440 name: excretory canals long def: "The structure made by the processes of the excretory canal cell is increased in size compared to control. In C. elegans this is an H-shaped structure which extends almost the full length of the body on both sides of the animal, generally in contact with the lateral hypodermis and the pseudocoelom (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "long excretory canals" RELATED [] is_a: WBPhenotype:0000704 ! excretory canal morphology variant [Term] id: WBPhenotype:0000441 name: tail rounded def: "Tails change shape and undergo retraction thereby forming a 'peloderan' or 'rounded' adult tail." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0000442 name: larval development retarded def: "The developmental progression of a larva over time, from its formation to its mature structure is delayed compared to control. The larva is the early, immature form of an animal between hatching and adulthood." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000750 ! larval development variant is_a: WBPhenotype:0000848 ! developmental delay [Term] id: WBPhenotype:0000443 name: spicule morphology variant def: "Any variation in the appearance of the elongated sclerotized structures covered by a hardened layer of cuticle in the male tail (which are actively everted during copulation to fasten the male copulatory fan to the vulva) compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "spicule morphology abnormal" NARROW [] is_a: WBPhenotype:0001024 ! male morphology variant [Term] id: WBPhenotype:0000444 name: bursa elongated def: "The length of the adult male tail, including the lateral fan and rays, is extended compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000342 ! bursa morphology variant [Term] id: WBPhenotype:0000445 name: yolk synthesis in males def: "Males generate yolk, the nutrient protein, normally produced and secreted by hermaphrodite or female intestinal cells." [WB:WBPerson2021, WB:WBPerson557] synonym: "vitellogenin synthesis in males" RELATED [] is_a: WBPhenotype:0000416 ! yolk synthesis variant [Term] id: WBPhenotype:0000446 name: supernumerary molt def: "Animals execute extra larval molts compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0002041 ! molt variant [Term] id: WBPhenotype:0000447 name: adult development variant def: "Variations in the progression of an animal over time from the end of larval stage to a mature adult compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "adult development abnormal" NARROW [] is_a: WBPhenotype:0000049 ! postembryonic development variant [Term] id: WBPhenotype:0000448 name: adult cuticle development variant def: "Any variation in the progression of the formation of the rigid external coating (which is secreted by the hypodermis, seam and some interfacial epithelial cells) over time in adults compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "adult cuticle development abnormal" NARROW [] is_a: WBPhenotype:0000447 ! adult development variant [Term] id: WBPhenotype:0000449 name: second adult cuticle def: "A duplication of the developmental program that forms the adult-type rigid external coating which is secreted by the hypodermis, seam and some interfacial epithelial cells." [WB:WBPaper00001439] is_a: WBPhenotype:0000448 ! adult cuticle development variant [Term] id: WBPhenotype:0000450 name: obsolete swollen male tail def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000506 [Term] id: WBPhenotype:0000451 name: head protrusion def: "Any irregular swelling in discrete regions of the head." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0000452 name: tail protrusions def: "Any irregular swelling in discrete regions of the tail, usually caused by a local defect in the normal smooth tapering of the hypodermis and/or cuticle (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0000453 name: body protrusions def: "Any irregular swelling in discrete regions of the body region between the head and the tail." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000454 name: head twisted def: "The anterior end (which typically includes the anterior sensilla, pharynx and all muscles that are innervated by the nerve ring)of the body appears distorted, usually due to uncharacteristic winding." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0000455 name: jerky movement def: "Animals exhibit abrupt transitions while traveling from one location to another." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0000456 name: touch resistant def: "Variations in characteristic response with respect to perception or transmission of a touch stimulus compared to responses in control animals." [WB:WBPerson557] synonym: "touch insensitive" RELATED [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0000457 name: organism starvation hypersensitive def: "Animals show enhanced suceptibility to deprivation of nourishment, compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000147 ! organism starvation response variant [Term] id: WBPhenotype:0000458 name: starvation resistant def: "Animals show enhanced tolerance to deprivation of nourishment, compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000147 ! organism starvation response variant [Term] id: WBPhenotype:0000459 name: pesticide response variant def: "Animals exhibit variations in their response to any chemical substance that is used for killing pests, compared to that observed in control animals." [WB:WBPerson557] synonym: "pesticide response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000460 name: paraquat response variant def: "Animals exhibit variations in their response to paraquat compared to that observed in control animals." [WB:WBPerson557] synonym: "methyl viologen response abnormal" RELATED [] synonym: "paraquat response abnormal" NARROW [] is_a: WBPhenotype:0000068 ! oxidative stress response variant is_a: WBPhenotype:0000459 ! pesticide response variant is_a: WBPhenotype:0001620 ! organism oxidative stress response variant [Term] id: WBPhenotype:0000461 name: paraquat resistant def: "Animals fail to respond to the concentration of paraquat that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000460 ! paraquat response variant [Term] id: WBPhenotype:0000462 name: paraquat hypersensitive def: "Animals respond to paraquat at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] synonym: "reactive oxygen species hypersensitive" BROAD [WB:WBPaper00031296] is_a: WBPhenotype:0000460 ! paraquat response variant [Term] id: WBPhenotype:0000463 name: metabolic pathway variant def: "Animals exhibit variations in processes that are responsible for chemical changes compared to control animals. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GO:0008152, WB:WBPerson712] synonym: "metabolic pathway abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000464 name: oxygen response variant def: "Animals exhibit variations in their response to oxygen compared to that observed in control animals." [WB:WBPerson557] synonym: "oxygen response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000465 name: high oxygen resistant def: "Animals fail to respond to the high concentrations of oxygen that elicit a response in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000464 ! oxygen response variant [Term] id: WBPhenotype:0000466 name: high oxygen hypersensitive def: "Animals respond to hyperoxic (high oxygen tension) conditions after a shorter exposure time compared to control." [GO:0055093, WB:WBPerson2021] is_a: WBPhenotype:0000464 ! oxygen response variant [Term] id: WBPhenotype:0000467 name: age associated fluorescence increased def: "Animals exhibit an increase in the intensity of fluorescence signals in intestinal cells with advancing age, compared to control." [WB:WBPaper00033040, WB:WBPerson2021] is_a: WBPhenotype:0001009 ! developmental pigmentation variant [Term] id: WBPhenotype:0000468 name: age associated fluorescence reduced def: "Animals exhibit a decrease in the intensity of fluorescence signals in intestinal cells with advancing age, compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0001009 ! developmental pigmentation variant [Term] id: WBPhenotype:0000469 name: Q neuroblast lineage migration variant def: "The daughters of the Q neuroblasts exhibit variation in their characteristic movements compared to control animals." [WB:WBPaper00001954, WB:WBPaper00031356, WB:WBPerson712] synonym: "Q neuroblast lineage migration abnormal" NARROW [] is_a: WBPhenotype:0001140 ! neuron migration variant [Term] id: WBPhenotype:0000470 name: HSN migration variant def: "Any variation in the normal anterior movement of the HSN motor neurons from their birthplace in the tail to positions near the middle of the embryo compared to control animals." [WB:WBPaper00001836, WB:WBPerson2021] synonym: "HSN migration abnormal" NARROW [] is_a: WBPhenotype:0001229 ! anterior neuron migration defective [Term] id: WBPhenotype:0000471 name: ALM migration variant def: "Any variation in the normal posterior movement of the ALM mechanosensory neurons from their birthplace (anterior to the V1 hypodermal cell) to positions in between the V2 and V3 cells in the embryo compared to control animals." [WB:WBPaper00001304, WB:WBPaper00003058, WB:WBPerson2021] synonym: "ALM migration abnormal" NARROW [] is_a: WBPhenotype:0001520 ! posterior neuron migration variant [Term] id: WBPhenotype:0000472 name: endoderm absent def: "Animals lack the early blast cells that give rise to the gut tissue (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000473 name: progressive paralysis def: "Animals become increasingly sluggish/immobilized as they age." [WB:WBPaper00001709] is_a: WBPhenotype:0000644 ! paralyzed [Term] id: WBPhenotype:0000474 name: muscle attachment variant def: "Any variation in the connection of the cell(s) whose principal function is to provide contractile forces with its neighboring cells or tissues compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "Mua" BROAD [] synonym: "muscle attachment abnormal" NARROW [] is_a: WBPhenotype:0000622 ! muscle system development variant [Term] id: WBPhenotype:0000475 name: muscle detached def: "Animals fail to establish or maintain the connection between cell(s) whose principal function is to provide contractile forces and its neighboring cells or tissues." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000474 ! muscle attachment variant [Term] id: WBPhenotype:0000476 name: progressive muscle detachment def: "The connection between cell(s) whose principal function is to provide contractile forces and its neighboring cells or tissues diminishes over time." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000475 ! muscle detached [Term] id: WBPhenotype:0000477 name: nucleolus refraction variant def: "Any variation in the change in direction of a wave of light after passage through the nucleolus compared to control. The nucleolus is a small dense body in the nucleus." [WB:WBPerson2021, WB:WBPerson557] synonym: "nucleolus refraction abnormal" NARROW [] is_a: WBPhenotype:0000722 ! nucleolus variant [Term] id: WBPhenotype:0000478 name: isothermal tracking behavior variant def: "Variations in the ability of an animal to remain within a defined temperature. In C. elegans, animals tend to track and stay within a temperature that is most closely related to their cultivation temperature." [WB:WBPaper00002214] subset: phenotype_slim_wb synonym: "isothermal tracking behavior abnormal" NARROW [] synonym: "thermotaxis abnormal" RELATED [] is_a: WBPhenotype:0002513 ! thermotaxis variant [Term] id: WBPhenotype:0000479 name: egg pale def: "Eggs show deficiencies in chroma resulting in increased translucency." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000970 ! embryonic pigmentation variant is_a: WBPhenotype:0001261 ! pale [Term] id: WBPhenotype:0000480 name: pyrazine chemotaxis defective def: "Failure to execute the characteristic response to pyrazine as defined by control animals. In C. elegans pyrazine is typically an attractant." [WB:WBPaper00001786] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001474 ! pyrazine chemotaxis variant [Term] id: WBPhenotype:0000481 name: negative chemotaxis variant def: "Any variation in the directed movement of an animal in response to chemical repellants as defined by control animals." [GO:0050919, WB:cab] synonym: "chemical avoidance abnormal" RELATED [] synonym: "chemoaversion abnormal" RELATED [] synonym: "negative chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001434 ! chemotaxis variant [Term] id: WBPhenotype:0000482 name: garlic chemotaxis defective def: "Failure to execute the characteristic response to garlic as defined by control animals. In C. elegans, garlic is typically a repellent." [WB:WBPaper00001374] is_a: WBPhenotype:0001449 ! aqueous negative chemotaxis defective is_a: WBPhenotype:0001451 ! garlic chemotaxis variant [Term] id: WBPhenotype:0000483 name: no gut granules def: "Animals lack the different inclusions within the intestinal cytoplasm, including birefringent crystalline objects and other dark-staining endosomes. In C. elegans these contents typically include glycogen granules (polysaccharide storage), rhabditin (carbohydrate storage), yolk granules (lipid and protein), and concentrated waste products (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000103 ! gut granule development variant [Term] id: WBPhenotype:0000484 name: embryo small def: "The organism's size during the embryonic developmental stage is decreased compared to that observed in control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001136 ! embryonic morphology variant [Term] id: WBPhenotype:0000485 name: dauer death increased def: "The survival of animals in the alternative larval stage which they enter when placed under conditions of environmental stress is reduced." [WB:WBPerson2021, WB:WBPerson557] synonym: "reduced dauer survival" RELATED [] is_a: WBPhenotype:0000159 ! dauer arrest variant [Term] id: WBPhenotype:0000486 name: colchicine hypersensitive def: "Animals respond to colchicine at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000487 name: colchicine resistant def: "Animals fail to respond to the concentration of colchicine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000488 name: chloroquinone hypersensitive def: "Animals respond to chloroquinone at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000489 name: chloroquinone resistant def: "Animals fail to respond to the concentration of chloroquinone that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0000490 name: pharynx disorganized def: "The components of the feeding organ fail to be arranged in the same manner as control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0000491 name: isthmus morphology defective def: "Any observed morphological defects of the isthmus." [WB:WBPerson2021] synonym: "isthmus malformed" RELATED [] synonym: "isthmus morphology abnormal" NARROW [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant [Term] id: WBPhenotype:0000492 name: corpus morphology defective def: "Any variation in the form, structure or composition of the extended anterior region of the pharynx lying just anterior to the isthmus and terminal bulb compared to control (Wormatlas)." [WB:WBPerson2021] synonym: "corpus malformed" RELATED [] synonym: "corpus morphology abnormal" NARROW [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant [Term] id: WBPhenotype:0000493 name: metacorpus morphology defective def: "Any variation in the form, structure or composition of the first pharyngeal bulb compared to control." [WB:WBPerson2021] synonym: "metacarpas malformed" RELATED [] synonym: "metacorpus morphology abnormal" NARROW [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant [Term] id: WBPhenotype:0000494 name: two fold arrest def: "Cessation of development that normally occurs in C. elegans 460-520 min after the first cleavage at 20C, the stage between the 1.5-fold and 3-fold embryo." [WB:WBPerson101] is_a: WBPhenotype:0000779 ! late embryonic arrest [Term] id: WBPhenotype:0000495 name: ray ectopic def: "Animals have finger-like sensory sensilla (rays) that are present in places they are normally not found, when compared to the location in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000199 ! male tail sensory ray development variant is_a: WBPhenotype:0002498 ! ectopic organ [Term] id: WBPhenotype:0000496 name: male postdeirid sensilla absent def: "Males lack the specialized sensory papillae that lie along the posterior half of the body." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001008 ! male nervous system development variant [Term] id: WBPhenotype:0000497 name: organism gamma ray response variant def: "Animals exhibit variations in their response to gamma ray radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "organism gamma ray response abnormal" NARROW [] is_a: WBPhenotype:0000686 ! organism ionizing radiation response variant [Term] id: WBPhenotype:0000498 name: methyl methanesulfonate response variant def: "Animals exhibit variations in their response to methyl methanesulfonate compared to that observed in control animals." [WB:WBPerson557] synonym: "methyl methanesulfonate response abnormal" NARROW [] synonym: "MMS response abnormal" RELATED [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000499 name: ethyl methanesulfonate response variant def: "Animals exhibit variations in their response to ethyl methanesulfonate (EMS) compared to that observed in control animals." [WB:WBPerson557] synonym: "EMS response abnormal" RELATED [] synonym: "ethyl methanesulfonate response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000500 name: acetylcholinesterase inhibitor hypersensitive def: "Animals respond to an acetylcholinesterase inhibitor at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0001290 ! acetylcholinesterase inhibitor response variant [Term] id: WBPhenotype:0000501 name: left handed roller def: "The body of the animal rotates around its long axis as the animal moves, causing the animal to move in a circular pattern in the left-handed direction. In liquid media, wave propogation is helical rather than planar." [WB:WBPerson2021, WB:WBPerson557] synonym: "Rol" RELATED [] is_a: WBPhenotype:0000645 ! roller [Term] id: WBPhenotype:0000502 name: right handed roller def: "The body of the animal rotates around its long axis as the animal moves, causing the animal to move in a circular pattern in the right-handed direction. In liquid media, wave propogation is helical rather than planar." [WB:WBPerson2021, WB:WBPerson557] synonym: "Rol" BROAD [] is_a: WBPhenotype:0000645 ! roller [Term] id: WBPhenotype:0000503 name: endoreduplication variant def: "Any variation in the multiple rounds of DNA replication that take place without chromosome condensation, segregation or cytokinesis compared to control. In C. elegans this process is normally seen in intestinal nuclei during each larval lethargus which results in adult intestinal nuclei with 32 copies (32C) of each chromosome(Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "endoreduplication abnormal" NARROW [] is_a: WBPhenotype:0000433 ! DNA synthesis variant [Term] id: WBPhenotype:0000504 name: nuclear division variant def: "Any variation in the process by which a cell nucleus is divided into two nuclei, with DNA and other nuclear contents distributed between the daughter nuclei, compared to control." [WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. subset: phenotype_slim_wb synonym: "karyokinesis abnormal" RELATED [] synonym: "nuclear division abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000505 name: male ray morphology variant def: "Animals exhibit variations in the structure or organization of any of the finger-like sensory sensilla that project from the tail and embed in the male fan compared to control animals. In C. elegans, nine bilateral rays project from the tail in a radial pattern with a smooth and slightly tapered appearance. Although one neuronal member of each ray sensillum is exposed to the outside, male rays rarely take up dye." [WB:WBPaper00000932, WB:WBPaper00001328, WB:WBPaper00002149, WB:WBPaper00029016, WB:WBPerson712] synonym: "male ray morphology abnormal" NARROW [] synonym: "Ram" BROAD [] is_a: WBPhenotype:0000299 ! sensillum morphology variant is_a: WBPhenotype:0001358 ! male nervous system morphology variant [Term] id: WBPhenotype:0000506 name: bursa swollen def: "The adult male tail, including the lateral fan and rays, appears bloated or distended." [WB:WBPerson2021, WB:WBPerson557] synonym: "swollen male tail" EXACT [] is_a: WBPhenotype:0000342 ! bursa morphology variant [Term] id: WBPhenotype:0000507 name: acetylcholine levels variant def: "Animals exhibit variations in the amount of acetylcholine compared to control animals at a defined stage. Acetylcholine is the acetic acid ester of the organic base choline." [WB:WBPerson2021, WB:WBPerson557] synonym: "acetylcholine levels abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000508 name: nonsense mRNA accumulation def: "Animals exhibit a decrease in the regulated breakdown of mRNA transcripts in which an amino-acid codon has changed to a premature stop codon and the 3 prime end is not protected by a poly(A) tail." [GO:0070478, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000509 name: sperm pseudopod variant def: "Variation in the morphological appearance or composition of the pseudopod, a cellular projection that facilitates motility of the spermatozoa." [WB:WBPaper00001075, WB:WBPerson2021] synonym: "sperm pseudopod abnormal" NARROW [] is_a: WBPhenotype:0000388 ! sperm morphology variant [Term] id: WBPhenotype:0000510 name: vulval invagination variant L4 alt_id: WBPhenotype:0000287 def: "The characteristic Christmas-tree shaped invagination formed by the terminal vulval cells at the mid-late L4 stage is altered." [WB:WBPaper00001738, WB:WBPerson2021] synonym: "vulval invagination abnormal" NARROW [] synonym: "vulval invagination L4 abnormal" NARROW [] synonym: "vulval invagination L4 variant" RELATED [] is_a: WBPhenotype:0000695 ! vulva morphology variant is_a: WBPhenotype:0000699 ! vulva development variant [Term] id: WBPhenotype:0000511 name: nuclear positioning variant def: "Variations in the directed movement of the nucleus to a specific location within a cell compared to control." [GO:0007097, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. subset: phenotype_slim_wb synonym: "nuclear migration variant" RELATED [] synonym: "nuclear positioning abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0000512 name: VNC nuclear positioning variant def: "Variations in spacing or location were observed between adjacent ventral cord nuclei or between ventral cord nuclei and another nucleus used as a reference point. In C. elegans, these nuclei are distributed equally and predictably, such that they can be unambiguously distinguished by their position." [WB:WBPaper00031891, WB:WBPerson712] synonym: "VNC nuclear migration variant" RELATED [] synonym: "VNC nuclear positioning abnormal" NARROW [] is_a: WBPhenotype:0000511 ! nuclear positioning variant [Term] id: WBPhenotype:0000513 name: obsolete touch response abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000315 [Term] id: WBPhenotype:0000514 name: rubber band def: "When prodded on the head, worm contracts and then relaxes along its entire body without moving backwards, compared to a control worm which contracts its anterior end and backs away in response to prodding." [WB:WBPaper00006135, WB:WBPerson2021] synonym: "Rbr" BROAD [] synonym: "rubberband" EXACT [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0000515 name: ventral nerve cord development variant def: "Variations in any process whose specific outcome is the development and/or maintenance of the ventral nerve cord." [WB:WBPerson557] synonym: "ventral nerve cord development abnormal" NARROW [] is_a: WBPhenotype:0000945 ! neuropil development variant [Term] id: WBPhenotype:0000516 name: ventral cord disorganized def: "The longitudinal nerve cord of the midbody region, connecting the nerve ring and tail ganglia, is not arranged in the same manner as control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000976 ! ventral cord patterning variant [Term] id: WBPhenotype:0000517 name: behavior variant def: "Variations in the specific actions or reactions in response to external or internal stimuli compared to that observed in control animals." [GO:0007610, WB:WBPerson557] synonym: "behavior abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0000518 name: development variant def: "Variations in the progression of an integrated living unit (a cell, tissue, organ or organism) over time from an initial condition to a later condition compared to control animals." [GO:0032502, WB:WBPerson2021] synonym: "development abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0000519 name: physiology variant def: "Animals exhibit variations in any physical or chemical process required for the cell, tissue, organ system or organism to carry out its normal functions and activities or be able to perceive and respond to stimuli compared to control animals." [WB:WBPerson712] synonym: "physiology abnormal" NARROW [] is_a: WBPhenotype:0000886 ! Variant [Term] id: WBPhenotype:0000520 name: morphology variant def: "Animals exhibit variations in the form, structure or composition of any of its parts compared to control animals." [WB:WBPerson712] synonym: "morphology abnormal" NARROW [] is_a: WBPhenotype:0000886 ! Variant [Term] id: WBPhenotype:0000521 name: pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency." [WB:WBPerson2021, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000522 name: organism region behavior variant def: "Variations in the specific actions or reactions of a certain defined body area of an animal in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "organism region behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000523 name: chemical response variant def: "Animals exhibit variations in their response to a specific chemical compared to that observed in control animals." [WB:WBPerson557] synonym: "chemical response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000524 name: bleach response variant def: "Animals exhibit variations in their response to bleach compared to that observed in control animals." [WB:WBPerson557] synonym: "bleach response abnormal" NARROW [] is_a: WBPhenotype:0001379 ! organism toxic chemical response variant [Term] id: WBPhenotype:0000525 name: organism behavior variant def: "Variations in the specific actions or reactions of an organism in response to external or internal stimuli compared to that observed in control organisms." [GO:0007610, WB:WBPerson557] subset: phenotype_slim_wb synonym: "organism behavior abnormal" NARROW [] is_a: WBPhenotype:0000517 ! behavior variant [Term] id: WBPhenotype:0000526 name: cell pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of a cell." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "cell pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0000521 ! pigmentation variant is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0000527 name: organism pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of the organism." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "Abnormal Coloration" RELATED [] synonym: "organism pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000521 ! pigmentation variant [Term] id: WBPhenotype:0000528 name: body region development variant def: "Variations in the progression of the overall structure or appearance of a discrete region of an animal's anatomy over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body region development abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000529 name: cell development variant def: "Any variation in the progression of a cell from when it is first formed to when it becomes a mature structure when compared to control animals." [GO:0048468, WB:cab] subset: phenotype_slim_wb synonym: "cell development abnormal" NARROW [] is_a: WBPhenotype:0000518 ! development variant [Term] id: WBPhenotype:0000530 name: organ system development variant def: "Any variation in the progression of an organismal system from its formation to the mature structure when compared to control animals." [GO:0048731, WB:cab] subset: phenotype_slim_wb synonym: "organ system development abnormal" NARROW [] is_a: WBPhenotype:0000518 ! development variant [Term] id: WBPhenotype:0000531 name: organism development variant def: "Any variation in the progression of a worm at any time from its fertilization to adulthood compared to control." [WB:cab] subset: phenotype_slim_wb synonym: "organism development abnormal" NARROW [] is_a: WBPhenotype:0000518 ! development variant [Term] id: WBPhenotype:0000532 name: body region morphology variant def: "Animals exhibit variations in the form, structure or composition of a discrete region of their anatomy compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body region morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000533 name: cell morphology variant def: "Any variation in the form or composition of the basic structural and functional unit of all organisms compared to control. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GO:0005623, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000534 name: organ system morphology variant def: "Animals exhibit variations in the structure or organization of any component that is part of the complement of organ tissues that comprise a specific organ system." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "organ system morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000535 name: organism morphology variant def: "Animals exhibit variations in the form, structure or composition of any part of their anatomy compared to control animals." [WB:cab, WB:WBPaper00004402, WB:WBPaper00004403, WB:WBPaper00004651, WB:WBPaper00005654, WB:WBPaper00006395] subset: phenotype_slim_wb synonym: "Bmd" BROAD [] synonym: "body morphology defects" RELATED [] synonym: "organism morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000536 name: cell physiology variant def: "Animals exhibit variations at the cellular level, but not necessarily restricted to a single cell, in any physical or chemical process required for the cell to carry out its normal functions or be able to perceive and respond to stimuli, compared to control animals." [GO:0009987] subset: phenotype_slim_wb synonym: "cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0000537 name: obsolete synaptic input abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000584 [Term] id: WBPhenotype:0000538 name: obsolete synaptic output abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000584 [Term] id: WBPhenotype:0000539 name: dorsal nerve cord development variant def: "Variations in the progression of the anatomical structures that consist of processes of ventral cord motor neurons that send commissures to the dorsal side, as well as processes of certain head and tail neurons, over time from initial formation to mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dorsal nerve cord development abnormal" NARROW [] is_a: WBPhenotype:0000945 ! neuropil development variant [Term] id: WBPhenotype:0000540 name: muscle arm development variant def: "Variations in the progression of the process extension from the muscle belly by which the muscle cells reach to the nerve cords to obtain innervation over time from initial formation to mature structure compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557, WB:WBPerson712] synonym: "muscle arm development abnormal" NARROW [] synonym: "muscle arm extension variant" RELATED [] is_a: WBPhenotype:0000087 ! body wall cell development variant [Term] id: WBPhenotype:0000541 name: cord commissures fail to reach target def: "Axon tracts fail to complete the connection between nerve cords. In C. elegans, these tracts grow circumferentially around the animal, completing the connection between the ventral and dorsal nerve cords." [WB:WBPaper00001499, WB:WBPaper00028984, WB:WBPerson712] is_a: WBPhenotype:0000014 ! cord commissures variant [Term] id: WBPhenotype:0000542 name: fat def: "Animals exhibit an increased girth compared to a control animal of the same developmental stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "increased girth" RELATED [] synonym: "thick" RELATED [] is_a: WBPhenotype:0001727 ! body width variant [Term] id: WBPhenotype:0000543 name: forward kinker def: "Forward movement is often characterized by severe bending motions, more sharply angled and/or much deeper than stereotypical sinusoidal body bends of the control. Animal moves forward with uncharacteristic muscle spasms causing loss of smooth sinusoidal motion or body posture (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000002 ! kinker [Term] id: WBPhenotype:0000544 name: backward kinker def: "Backward movement is often characterized by severe bending motions, more sharply angled and/or much deeper than stereotypical sinusoidal body bends of the control. Animal moves backward with uncharacteristic muscle spasms causing loss of smooth sinusoidal motion or body posture (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000002 ! kinker [Term] id: WBPhenotype:0000545 name: egg retention def: "Eggs are retained in the uterus at a later stage when compared with control animals." [WB:cab] synonym: "late eggs laid" RELATED [] synonym: "Ret" BROAD [] is_a: WBPhenotype:0000006 ! egg laying defective [Term] id: WBPhenotype:0000546 name: early eggs laid def: "Eggs are laid at an earlier stage of development when compared with control animals." [WB:cab] is_a: WBPhenotype:0000005 ! hyperactive egg laying is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0000547 name: starved def: "Animals exhibit morphological characteristics that are the outcome of nutrient deprivation. In C. elegans, starved worms have fewer refractile granules in intestinal cells, making them appear pale. Strongly starved mutants are small and thin, and tend to retain fewer eggs than control animals." [WB:WBPaper00001709, WB:WBPerson2021] synonym: "Eat" RELATED [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000548 name: muscle dystrophy def: "Progressive degeneration of muscle." [WB:cab] is_a: WBPhenotype:0000611 ! muscle system physiology variant [Term] id: WBPhenotype:0000549 name: head muscle dystrophy def: "Progressive degeneration of the head muscle." [WB:cab] is_a: WBPhenotype:0000548 ! muscle dystrophy is_a: WBPhenotype:0001002 ! head muscle behavior variant [Term] id: WBPhenotype:0000550 name: body muscle dystrophy def: "Progressive degeneration of muscle along the body wall." [WB:cab] synonym: "body wall muscle dystrophy" RELATED [] is_a: WBPhenotype:0000548 ! muscle dystrophy is_a: WBPhenotype:0000596 ! body behavior variant [Term] id: WBPhenotype:0000551 name: omega turns variant def: "Animals exhibit variations in the rate of sharp head to tail turns compared to control animals." [WB:WBPaper00000075, WB:WBPaper00006375, WB:WBPerson712] synonym: "omega turns abnormal" NARROW [] is_a: WBPhenotype:0002311 ! turning variant [Term] id: WBPhenotype:0000552 name: GABA levels variant def: "Animals exhibit variations in the amount of GABA compared to control animals at a defined stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "GABA levels abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000553 name: muscle birefringence variant alt_id: WBPhenotype:0000714 def: "Animals exhibit a weak and abnormal birefringency pattern in muscle fibers when examined using polarized optics." [WB:WBPerson557] comment: Disorganized muscle fibers display a weak and abnormal birefringency pattern when examined using polarized optics. synonym: "Dim" EXACT [] synonym: "disorganized muscle" EXACT [] synonym: "muscle birefringence abnormal" RELATED [] is_a: WBPhenotype:0000926 ! body wall muscle morphology variant [Term] id: WBPhenotype:0000554 name: hypoosmotic shock hypersensitive def: "Any variation in the ability to adjust to a decline in ambient solute concentrations, thereby causing the body to swell and explode." [WB:WBPaper00000484, WB:WBPerson2021] is_a: WBPhenotype:0000041 ! osmotic integrity variant [Term] id: WBPhenotype:0000555 name: drug adaptation variant def: "Animals show variations in their decreased responsiveness after prolonged or repeated exposure to a drug compared to that in control." [WB:WBPerson2021, WB:WBPerson557] synonym: "drug adaptation abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000556 name: dopamine adaptation variant def: "Animals show variations in their decreased responsiveness after prolonged or repeated exposure to dopamine compared to that in control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dopamine adaptation abnormal" NARROW [] is_a: WBPhenotype:0000555 ! drug adaptation variant [Term] id: WBPhenotype:0000557 name: dopamine adaptation defective def: "Animals do not exhibit decreased responsiveness after prolonged or repeated exposure to dopamine." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000556 ! dopamine adaptation variant [Term] id: WBPhenotype:0000558 name: calcium channel modulator response variant def: "Animals exhibit variations in their response to specific calcium channel modulators compared to that observed in control animals." [WB:WBPerson557] synonym: "calcium channel modulator response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant is_a: WBPhenotype:0001833 ! membrane trafficking variant is_a: WBPhenotype:0002170 ! calcium mediated signaling variant [Term] id: WBPhenotype:0000559 name: calcium channel modulator hypersensitive def: "Animals respond to a calcium channel modulator at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0000558 ! calcium channel modulator response variant [Term] id: WBPhenotype:0000560 name: calcium channel modulator resistant def: "Animals fail to respond to the concentration of calcium channel modulators that elicit a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0000558 ! calcium channel modulator response variant [Term] id: WBPhenotype:0000561 name: head levamisole resistant def: "The heads of animals fail to respond to the concentration of levamisole that elicits a response in control animals. In C. elegans, heads contract at >10uM for intact animals and >1uM for cut animals." [WB:WBPaper00000484] synonym: "head tetramisole resistant" RELATED [] is_a: WBPhenotype:0000421 ! levamisole resistant [Term] id: WBPhenotype:0000562 name: body levamisole resistant def: "The bodies of animals fail to respond to the concentration of levamisole that elicits a response in control animals." [WB:WBPaper00000484] synonym: "body tetramisole resistant" RELATED [] is_a: WBPhenotype:0000421 ! levamisole resistant [Term] id: WBPhenotype:0000563 name: shrinker def: "The whole body undergoes longitudinal shortening in response to head touch or tail touch (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0000564 name: echo defecation cycle def: "Muscle contractions that make up the defecation motor program are repeated before the onset of the next cycle unlike in control animals." [WB:WBPaper00002305, WB:WBPaper00003765, WB:WBPerson712] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0000565 name: coiler def: "The body of an animal assumes a coil-like shape when it attempts to move." [WB:WBPerson363] synonym: "curler" RELATED [] is_a: WBPhenotype:0002297 ! coiling variant is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0000566 name: ventral coiler def: "A coiling body that bends ventrally." [WB:WBPerson363] synonym: "ventral curler" RELATED [] is_a: WBPhenotype:0000565 ! coiler [Term] id: WBPhenotype:0000567 name: dorsal coiler def: "A coiling body that bends dorsally." [WB:WBperson363] synonym: "dorsal curler" RELATED [] is_a: WBPhenotype:0000565 ! coiler [Term] id: WBPhenotype:0000568 name: axon ultrastructure variant def: "Animals display variations in the structure or organization of the components of the axon, compared to that observed in control animals." [WB:WBPaper00001499, WB:WBPerson712] synonym: "axon ultrastructure abnormal" NARROW [] is_a: WBPhenotype:0000180 ! axon morphology variant [Term] id: WBPhenotype:0000569 name: axon varicosities def: "Animals display markedly swollen areas along their axons, which are larger than synaptic varicosities in control animals." [WB:WBPaper00001499, WB:WBPaper00024595, WB:WBPerson712] is_a: WBPhenotype:0000568 ! axon ultrastructure variant [Term] id: WBPhenotype:0000570 name: axon cisternae def: "Axons of animals contain flattened membrane-bound compartments. In C. elegans, these cisternae-like structures are typically absent." [WB:WBPaper00001499, WB:WBPaper00024595, WB:WBPerson712] is_a: WBPhenotype:0000568 ! axon ultrastructure variant [Term] id: WBPhenotype:0000571 name: axon vesicle variant def: "Axons of animals exhibit variations in the gross structure or organization of its spherical, membrane-bound, fluid-filled organelles, compared to that observed in control animals." [WB:WBPaper00001499, WB:WBPerson712] synonym: "abnormal axon vesicle" NARROW [] is_a: WBPhenotype:0000568 ! axon ultrastructure variant [Term] id: WBPhenotype:0000572 name: neuronal outgrowth variant def: "Any variation in the processes that govern the extension of neuronal projections." [WB:WBPerson2021] synonym: "neuronal outgrowth abnormal" NARROW [] is_a: WBPhenotype:0000816 ! neuron development variant [Term] id: WBPhenotype:0000573 name: obsolete neuronal branching variant def: "OBSOLETE." [WB:WBPerson557] synonym: "neuronal branching abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0000633 consider: WBPhenotype:0001398 [Term] id: WBPhenotype:0000574 name: excretory canal short def: "The structure made by the processes of the excretory canal cell is reduced in size compared to control. In C. elegans this is an H-shaped structure which extends almost the full length of the body on both sides of the animal, generally in contact with the lateral hypodermis and the pseudocoelom (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000704 ! excretory canal morphology variant [Term] id: WBPhenotype:0000575 name: organ system physiology variant def: "Animals exhibit variations in a physical or chemical process required for organs or tissues to carry out their normal functions or for their ability to perceive and respond to stimuli compared to control." [GO:0003008] subset: phenotype_slim_wb synonym: "organ system physiology abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0000576 name: organism physiology variant def: "Animals exhibit variations in any physical or chemical process required for the organism to carry out its normal function or be able to perceive and respond to stimuli." [WB:WBPerson712] subset: phenotype_slim_wb synonym: "organism physiology abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0000577 name: organism homeostasis metabolism variant def: "Variations in the chemical reactions and pathways involved in the maintenance of a steady-state at the level of the organism compared to control." [GO:0048871, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "organism homeostasis metabolism abnormal" NARROW [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0000578 name: body axis development variant def: "Variations in the progression of a discrete axis of an animal's anatomy over time, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body axis development abnormal" NARROW [] is_a: WBPhenotype:0000528 ! body region development variant [Term] id: WBPhenotype:0000579 name: organism segment development variant def: "Variations in the progression of the overall structure or appearance of any anterior/posterior section of an animal's anatomy over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "organism segment development abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000580 name: organism segment behavior variant def: "Variations in the specific actions or reactions of a certain body region of an animal in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "organism segment behavior abnormal" NARROW [] is_a: WBPhenotype:0000522 ! organism region behavior variant [Term] id: WBPhenotype:0000581 name: body axis morphology variant def: "Animals exhibit variations in the form, structure or composition of a discrete axis (dorsal/ventral/anterior/posterior/transverse) of their anatomy, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body axis morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000582 name: organism segment morphology variant def: "Animals exhibit variations in the form, structure or composition of any anterior/posterior section of their anatomy compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "organism segment morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000583 name: dumpy def: "Worms are shorter and stouter than control animals at the same developmental stage." [WB:cab, WB:cgc31, WB:WBPaper00004402, WB:WBPaper00004403, WB:WBPaper00004651, WB:WBPaper00005654, WB:WBPaper00006395, WB:WBPaper00024497] synonym: "Dpy" BROAD [] is_a: WBPhenotype:0001726 ! body length variant is_a: WBPhenotype:0001727 ! body width variant [Term] id: WBPhenotype:0000584 name: synaptic transmission variant alt_id: WBPhenotype:0000537 alt_id: WBPhenotype:0000538 def: "Any variation in the process of communication across a synapse between a neuron and a target cell (neuron, muscle, or secretory cell) compared to control animals." [GO:0007268, WB:cab] synonym: "synaptic input abnormal" NARROW [] synonym: "synaptic input variant" EXACT [] synonym: "synaptic output abnormal" NARROW [] synonym: "synaptic output variant" EXACT [] synonym: "synaptic transmission abnormal" NARROW [] is_a: WBPhenotype:0000816 ! neuron development variant is_a: WBPhenotype:0002020 ! transmission of nerve impulse variant [Term] id: WBPhenotype:0000585 name: cell homeostasis metabolism variant def: "Variations in the chemical reactions and pathways involved in the maintenance of a steady-state at the level of the cell compared to control." [GO:0019725, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell homeostasis metabolism abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000586 name: bleach hypersensitive def: "Animals respond to bleach at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000524 ! bleach response variant [Term] id: WBPhenotype:0000587 name: obsolete lectin staining variant def: "OBSOLETE." [WB:WBPerson557] synonym: "lectin staining abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0002072 [Term] id: WBPhenotype:0000588 name: obsolete no male variantity scored def: "OBSOLETE." [WB:WBPerson557] comment: This phenotype was intended to reflect a lack of any phenotypic abnormality in the individuals in question. The C. elegans phenotype ontology no longer has terms specifically used to assert negation of a phenotype. synonym: "no male abnormal" NARROW [] is_obsolete: true [Term] id: WBPhenotype:0000589 name: obsolete no hermaphrodite variantity scored def: "OBSOLETE." [WB:WBPerson557] comment: This phenotype was intended to reflect a lack of any phenotypic abnormality in the individuals in question. The C. elegans phenotype ontology no longer has terms specifically used to assert negation of a phenotype. synonym: "no hermaphrodite abnormal" NARROW [] is_obsolete: true [Term] id: WBPhenotype:0000590 name: cell corpse number variant def: "Animals exhibit differences in the number of cell corpses compared to controls at the same developmental life stage." [WB:WBPerson712] synonym: "cell corpse number abnormal" NARROW [] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0000591 name: metal response variant def: "Animals exhibit variations in their response to a specific metal compared to that observed in control animals." [WB:WBPerson557] synonym: "metal response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0000592 name: copper response variant def: "Animals exhibit variations in their response to copper compared to that observed in control animals." [WB:WBPerson557] synonym: "copper response abnormal" NARROW [] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0000593 name: copper hypersensitive def: "Animals respond to copper at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000592 ! copper response variant [Term] id: WBPhenotype:0000594 name: cell migration variant def: "Any variation in the orderly movement of a cell from one site to another." [GO:0016477, WB:cab] subset: phenotype_slim_wb synonym: "cell migration abnormal" NARROW [] synonym: "Mig" BROAD [] synonym: "migration of cells abnormal" RELATED [] is_a: WBPhenotype:0000529 ! cell development variant is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0000595 name: head behavior variant def: "Variations in the specific actions or reactions of the head in response to external or internal stimuli compared to that observed in control animals." [WB:cab, WB:WBPerson2021, WB:WBPerson557] synonym: "head behavior abnormal" NARROW [] is_a: WBPhenotype:0000580 ! organism segment behavior variant [Term] id: WBPhenotype:0000596 name: body behavior variant def: "Activity characteristic of the body is altered compared to control." [WB:cab] synonym: "body behavior abnormal" NARROW [] is_a: WBPhenotype:0000580 ! organism segment behavior variant [Term] id: WBPhenotype:0000597 name: tail behavior variant def: "Variations in the specific actions or reactions of the tail in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "tail behavior abnormal" NARROW [] is_a: WBPhenotype:0000580 ! organism segment behavior variant [Term] id: WBPhenotype:0000598 name: alimentary system morphology variant def: "Variations in the form, structure or composition of the series of related tissues lying within the body cavity and devoted to feeding and digestion compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "alimentary system morphology abnormal" NARROW [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000599 name: coelomic system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the coelomic system, compared to control. The coelom is the fluid compartment that is in contact with internal organ." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "coelomic system morphology abnormal" NARROW [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000600 name: epithelial system morphology variant def: "Variations in the form, composition or structure of the epithelial system that serves to protect the organism from the external environment compared to control." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "epithelial system morphology abnormal" NARROW [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000601 name: excretory secretory system morphology variant alt_id: WBPhenotype:0000602 def: "Variations in the form, structure or composition of related tissues that allow the animal to secrete saline fluid and maintain a proper salt balance compared to control. In C. elegans, four cell types (1 pore cell, 1 duct cell, 1 canal cell and a fused pair of gland cells) make up the excretory system (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "excretory secretory system morphology abnormal" NARROW [] synonym: "excretory system morphology abnormal" NARROW [] synonym: "excretory system morphology variant" EXACT [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000602 name: obsolete excretory system morphology abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000601 [Term] id: WBPhenotype:0000603 name: muscle system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the muscle system, compared to control. The muscle system consists of tissues made up of various elongated cells that are specialized to contract and produce movement and mechanical work." [GO:0007517, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "muscle system morphology abnormal" NARROW [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000604 name: nervous system morphology variant def: "Animals exhibit variations in the structure or organization of any component that is part of the complement of organ tissues that serve to detect, relay and coordinate information about an animal's internal and external environments and to initiate and integrate its effector responses and activities, compared to that in control animals." [WB:WBPerson712] comment: WB:WBbt:0005735. subset: phenotype_slim_wb synonym: "nervous system morphology abnormal" NARROW [] synonym: "neuroanatomical defective" RELATED [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000605 name: reproductive system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the reproductive system, compared to control. The reproductive system is involved in the generation of progeny which contain genetic material inherited from the parents." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "reproductive system morphology abnormal" NARROW [] is_a: WBPhenotype:0000534 ! organ system morphology variant [Term] id: WBPhenotype:0000606 name: alimentary system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the alimentary system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "alimentary system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000607 name: coelomic system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the coelomic system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "coelomic system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000608 name: epithelial system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the epithelial system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "epithelial system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000609 name: excretory secretory system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the excretory/secretory system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "excretory secretory system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000610 name: excretory system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the secretory system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "excretory system physiology abnormal" NARROW [] is_a: WBPhenotype:0000609 ! excretory secretory system physiology variant [Term] id: WBPhenotype:0000611 name: muscle system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the muscle system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "muscle system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000612 name: nervous system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the nervous system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "nervous system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000613 name: reproductive system physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the reproductive system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0003008, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "reproductive system physiology abnormal" NARROW [] is_a: WBPhenotype:0000575 ! organ system physiology variant [Term] id: WBPhenotype:0000614 name: GLR development variant def: "Any variation in the progression of the GLR accessory cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "GLR development abnormal" NARROW [] is_a: WBPhenotype:0000942 ! accessory cell development variant [Term] id: WBPhenotype:0000615 name: cilia morphology variant def: "Animals exhibit variations in the structure or organization of the microtubule-based dendritic projections extending from the cell body, compared to that observed in control animals. In C. elegans, cilia are classified as channel cilia or wing cilia depending on their placement within the sensillum. Channel cilia of control animals are cylindrical, extend into the sensillum pore and are exposed to the outside. Wing cilia of control animals vary in shape, are embedded in the sensillum sheath cell and are not typically refractory to dyes indicating exposure to the outside." [WB:WBPaper00000214, WB:WBPaper00000932, WB:WBPerson712] synonym: "cilia morphology abnormal" NARROW [] synonym: "defective dye filling of cilia" RELATED [] is_a: WBPhenotype:0001526 ! ciliated neuron morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0000616 name: synapse morphology variant def: "Animals display variations in the appearance of the subcellular junctional structure composed of a presynaptic terminal directly opposite the post-synaptic target and separated by a synaptic cleft." [GO:0045202, WB:WBPaper00027305, WB:WBPerson712] synonym: "synapse morphology abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0000617 name: alimentary system development variant def: "Any variation in the progression of the alimentary system over time, from its formation to its mature state compared to control. The alimentary system includes all the body structures involved in preparing food for absorption into the body and excretion of waste products." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "alimentary system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000618 name: coelomic system development variant def: "Any variation in the progression of the coelomic system over time, from its formation to its mature state compared to control." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "coelomic system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000619 name: epithelial system development variant def: "Any variation in the progression of the epithelial system over time, from its formation to its mature state compared to control." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "epithelial system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000620 name: excretory secretory system development variant def: "Any variation in the progression of the excretory secretory system over time, from its formation to its mature state compared to control. The excretory secretory system consists of the excretory system and its associated glands." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "excretory secretory system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000621 name: excretory system development variant def: "Variations in the progression of the excretory system over time, from its formation to the mature structure. The excretory system is required for the elimination of metabolic waste. In C. elegans, the excretory system is comprised of the excretory cell, excretory duct cell and excretory socket cell." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "excretory system development abnormal" NARROW [] is_a: WBPhenotype:0000620 ! excretory secretory system development variant [Term] id: WBPhenotype:0000622 name: muscle system development variant def: "Any variation in the progression of the muscle system over time, from its formation to its mature state compared to control." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "muscle system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000623 name: nervous system development variant def: "Any variation in the progression of nervous tissue over time, from its formation to its mature state compared to control." [GO:0007399, WB:cab] subset: phenotype_slim_wb synonym: "nervous system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000624 name: reproductive system development variant def: "Any variation in the progression of the reproductive system over time, from its formation to its mature state compared to control." [WB:WBPerson2021] subset: phenotype_slim_wb synonym: "reproductive defect" RELATED [] synonym: "reproductive system development abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0000625 name: synaptogenesis variant def: "Any variation in the biosynthesis of a synapse compared to control." [GO:0007416, WB:cab] synonym: "synapse development variant" EXACT [WB:WBPerson712] synonym: "synaptogenesis abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0000626 name: habituation variant def: "Any variation in the decrease in a behavioral response to a repeated stimulus compared to control." [GO:0046959, WB:cab] subset: phenotype_slim_wb synonym: "habituation abnormal" NARROW [] synonym: "non associative learning" RELATED [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000627 name: anesthetic response variant def: "Animals exhibit variations in their response to a specific anesthetic compared to that observed in control animals." [WB:WBPerson557] synonym: "anaesthetic response variant" EXACT [] synonym: "anesthetic response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000628 name: spindle assembly defective early emb def: "Early embryos exhibit defects in the aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart." [GO:0051225, WB:cab, WB:cgc7141, WB:WBPerson2021] comment: Possible XP. synonym: "Emb" BROAD [] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb is_a: WBPhenotype:0002415 ! spindle assembly defective [Term] id: WBPhenotype:0000629 name: excess neurite outgrowth def: "Any variation that causes an increase in the frequency of neurite (axon or dendrite) outgrowth. As a result, an excess number of neuronal projections are generated." [WB:WBPerson2021] is_a: WBPhenotype:0000572 ! neuronal outgrowth variant [Term] id: WBPhenotype:0000630 name: quinine chemotaxis defective def: "Failure to execute the characteristic response to the bitter tastant quinine, as defined by control animals. In C. elegans, quinine is typically repellent." [WB:WBPaper00006481, WB:WBPaper00035961, WB:WBPerson712] is_a: WBPhenotype:0001449 ! aqueous negative chemotaxis defective is_a: WBPhenotype:0001454 ! quinine chemotaxis variant [Term] id: WBPhenotype:0000631 name: drug response variant def: "Any variation in the characteristic response(s) to drug(s) as defined by control animals." [WB:cab] synonym: "drug response abnormal" NARROW [] synonym: "drug response abnormal" RELATED [] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0000632 name: axon fasciculation variant def: "The ability of axons to converge and form a bundle of nerve fibres (fascicle) is compromised." [GO:0007413, WB:WBPerson2021, WB:WBPerson557] synonym: "axon fasciculation abnormal" NARROW [] is_a: WBPhenotype:0000880 ! axon development variant [Term] id: WBPhenotype:0000633 name: axon branching variant def: "Animals display variations in the number or pattern of axonal tracts stemming from the neuron cell body, compared to that observed in control animals." [GO:0048755, WB:WBPaper00027335, WB:WBPaper00027711, WB:WBPerson712] synonym: "axon branching abnormal" NARROW [] is_a: WBPhenotype:0000180 ! axon morphology variant is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0000634 name: pharyngeal pumping variant def: "Any variation in the contraction and relaxation movements of the pharyngeal muscle that mediate feeding in nematodes compared to control." [GO:0043050, WB:cab] subset: phenotype_slim_wb synonym: "pharyngeal pumping abnormal" NARROW [] is_a: WBPhenotype:0002056 ! eating variant [Term] id: WBPhenotype:0000635 name: positive chemotaxis variant def: "Any variation in the directed movement of an animal in response to chemical attractants as defined by control animals." [GO:0050918, WB:cab, WB:cgc122, WB:cgc387] synonym: "positive chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001434 ! chemotaxis variant [Term] id: WBPhenotype:0000636 name: neuron degeneration variant def: "Any variation in the ability of neurons to undergo a dramatic decrease in cell volume, collapse of the vacuoles and processes, and complete disintegration of the plasma membrane and most organelles under conditions that ellicit this response in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuron degeneration abnormal" NARROW [] is_a: WBPhenotype:0000612 ! nervous system physiology variant [Term] id: WBPhenotype:0000637 name: dauer formation variant def: "Characteristic entry into the dauer stage is altered compared to control animals." [WB:cab] synonym: "Daf" BROAD [] synonym: "dauer formation abnormal" NARROW [] is_a: WBPhenotype:0000159 ! dauer arrest variant is_a: WBPhenotype:0000308 ! dauer development variant [Term] id: WBPhenotype:0000638 name: molt defect def: "Animals exhibit defects in the process of periodic shedding, of part or all of its cuticle, during cuticle replacement that punctuates each larval stage." [GO:0018996, WB:WBPerson712] synonym: "Mlt" BROAD [] synonym: "Mult" BROAD [] is_a: WBPhenotype:0002041 ! molt variant [Term] id: WBPhenotype:0000639 name: temperature induced dauer formation variant def: "Animals exhibit variations in the entry into the dauer stage when exposed to temperatures that induce dauer formation in control animals. In C. elegans, many Daf-c animals enter dauer at 25C, whereas Hid animals enter dauer at 27C." [WB:WBPaper00006103, WB:WBPerson2021, WB:WBPerson557, WB:WBPerson712] synonym: "Hid" RELATED [] synonym: "temperature induced dauer formation abnormal" NARROW [] is_a: WBPhenotype:0000146 ! organism temperature response variant is_a: WBPhenotype:0001539 ! dauer induction variant [Term] id: WBPhenotype:0000640 name: egg laying variant def: "Animals exhibit variations in the stage of eggs laid, egg laying cycle, number of eggs or egg laying in response to stimuli compared to control." [pmid:11813735, pmid:9697864, WB:cab] comment: Visual inspection. subset: phenotype_slim_wb synonym: "egg laying abnormal" NARROW [] synonym: "Egl" BROAD [] synonym: "oviposition abnormal" RELATED [GO:0018991] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000641 name: activity level variant def: "Any variation in the degree of movement compared to control animals." [WB:cab] synonym: "activity level abnormal" NARROW [] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0000642 name: hyperactive def: "Worms move forward or backward with an increased rate of body bends per minute compared to control animals." [WB:cab, WB:WBPaper00004402, WB:WBPaper00006395] synonym: "Hya" BROAD [] is_a: WBPhenotype:0000641 ! activity level variant [Term] id: WBPhenotype:0000643 name: locomotion variant def: "Animals exhibit deviations in self-propelled movement on a solid medium compared to control animals." [GO:0040011, WB:cab, WB:WBPaper00024949, WB:WBPerson712] subset: phenotype_slim_wb synonym: "locomotion abnormal" NARROW [] synonym: "movement defect" RELATED [] synonym: "Unc" BROAD [] synonym: "uncoordinated" RELATED [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000644 name: paralyzed def: "Animals do not move and are not responsive to external mechanical stimulation." [WB:cab] subset: phenotype_slim_wb synonym: "Prl" BROAD [] synonym: "Prz" RELATED [] is_a: WBPhenotype:0001213 ! locomotion reduced [Term] id: WBPhenotype:0000645 name: roller def: "The body of the animal rotates around its long axis as the animal moves, causing the animal to move in a circular pattern. In liquid media, wave propogation is helical rather than planar." [WB:cab, WB:cgc31] synonym: "Rol" BROAD [] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0000646 name: sluggish def: "Animals move more slowly compared with control animals." [WB:cab] synonym: "lethargic" RELATED [] synonym: "slow" RELATED [] synonym: "Slu" BROAD [] is_a: WBPhenotype:0001213 ! locomotion reduced [Term] id: WBPhenotype:0000647 name: copulation variant def: "Animals exhibit variations in any processes that lead to the successful transfer of sperm from one organism to another." [GO:0007620, WB:cab] subset: phenotype_slim_wb synonym: "copulation abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000648 name: male mating variant def: "Any variation in the specific actions or reactions of the male that are associated with reproduction compared to control." [GO:0060179, WB:cab] synonym: "Cod" BROAD [] synonym: "male mating abnormal" NARROW [] is_a: WBPhenotype:0000647 ! copulation variant is_a: WBPhenotype:0000888 ! male behavior variant [Term] id: WBPhenotype:0000649 name: vulva location variant def: "Any variation in the male's ability to locate his partner's vulva when backing along the ventral side of the partner during mating compared to control. In C. elegans the male stops at the vulva, coordinates his movements to the hermaphrodite's, and positions his tail precisely over the vulva so that he may insert his spicules and ejaculate." [GO:0034608, WB:WBPerson2021, WB:WBPerson557] synonym: "Lov" RELATED [] synonym: "vulva location abnormal" NARROW [] is_a: WBPhenotype:0004006 ! post hermaphrodite contact variant [Term] id: WBPhenotype:0000650 name: defecation variant def: "Animals exhibit variations in the processes involved in eliminating gut contents compared to control animals. In C. elegans the sequence of events during defecation includes posterior body contraction (pBoc), relaxation, anterior body contraction (aBoc), expulsion of gut contents by enteric muscle contraction (Emc) and opening of anus (Exp), and intercycle period (Wormatlas)." [GO:0030421, WB:cab, WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "defecation abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000651 name: constipated def: "Animals exhibit delayed or infrequent passage and/or expulsion of fecal matter." [WB:WBPerson2021] synonym: "Con" BROAD [] is_a: WBPhenotype:0000650 ! defecation variant [Term] id: WBPhenotype:0000652 name: sensory system variant alt_id: WBPhenotype:0000248 def: "Variations in the progression of a set of interacting or interdependent entities forming the sensory system over time from an initial condition to a later condition compared to control animals. The sensory system is involved in the perception of a stimuli, its conversion into a signal and the recognition and characterization of the resulting signal." [WB:WBPerson2021, WB:WBPerson557] synonym: "sensory system abnormal" NARROW [] is_a: WBPhenotype:0000612 ! nervous system physiology variant [Term] id: WBPhenotype:0000653 name: mechanosensory system variant def: "Variations in the progression of a set of interacting or interdependent entities forming the mechanosensory system over time from an initial condition to a later condition compared to control animals. The mechanosensory system is involved in the perception of a mechanical stimuli, its conversion into a signal and the recognition and characterization of the resulting signal." [WB:WBPerson2021, WB:WBPerson557] synonym: "mechanosensory system abnormal" NARROW [] is_a: WBPhenotype:0000652 ! sensory system variant [Term] id: WBPhenotype:0000654 name: synaptic vesicle exocytosis variant def: "Animals exhibit variations in the fusion of intracellular neurotransmitter-filled membrane-bound vesicles with the pre-synaptic membrane of the neuronal cell compared to control." [GO:0016079, WB:WBPerson712] synonym: "synaptic vesicle exocytosis abnormal" NARROW [] is_a: WBPhenotype:0000728 ! exocytosis variant is_a: WBPhenotype:0001684 ! synaptic vesicle homeostasis variant [Term] id: WBPhenotype:0000655 name: GABA synaptic transmission variant def: "Animals exhibit variations in the process of GABA neurotransmitter-based communication from a neuron to a target cell across a synapse compared to control." [GO:0007268, WB:WBPerson712] synonym: "GABA synaptic transmission abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0000656 name: acetylcholine synaptic transmission variant def: "Animals exhibit variations in the process of acetylcholine neurotransmitter-based communication from a neuron to a target cell across a synapse compared to control." [GO:0007268, WB:WBPerson712] synonym: "acetylcholine synaptic transmission abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0000657 name: neuronal synaptic transmission variant def: "Any variation in the process of information transfer between two neurons; usually in reference to chemical synapses, but can also be used to refer to electrical synapses compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuronal synaptic transmission abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0000658 name: neuromuscular synaptic transmission variant def: "Any variation in the process of communication across a synapse between a neuron and a target muscle cell compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuromuscular synaptic transmission abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0000659 name: feeding behavior variant def: "Behavior associated with the intake of food is altered compared to control." [GO:0007631, WB:WBPerson557] subset: phenotype_slim_wb synonym: "feeding behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000660 name: social feeding increased def: "Worms are found in clumps and/or crowded at the border of the bacterial lawn more frequently than control animals. This behavior is not due to mobility defects." [WB:WBPerson712] synonym: "bordering increased" RELATED [] synonym: "social behavior enhanced" RELATED [] is_a: WBPhenotype:0000659 ! feeding behavior variant is_a: WBPhenotype:0001291 ! social behavior variant [Term] id: WBPhenotype:0000661 name: solitary feeding increased def: "Animals disperse across a bacterial lawn and feed alone. When food is limiting, they can aggregate into swarms or clumps, but disperse once again when food is absent." [WB:WBPaper00003187, WB:WBPaper00032342, WB:WBPerson712] synonym: "solitary behavior enhanced" RELATED [] synonym: "solitary forager on food" RELATED [] is_a: WBPhenotype:0000659 ! feeding behavior variant is_a: WBPhenotype:0001291 ! social behavior variant [Term] id: WBPhenotype:0000662 name: foraging behavior variant def: "Variations in the behavior by which an organism locates food compared to control animals. In C. elegans roaming or dwelling activity on food are two examples of parameters used to assess this behavior. Roaming is defined as moving in a high-speed forward direction with brief backward movement, often traversing wide regions. Dwelling is defined as low-speed/high turning movement restricted to a confined region." [GO:0060756, WB:WBPaper00005621, WB:WBPaper00031455, WB:WBPerson712] subset: phenotype_slim_wb synonym: "Fab" BROAD [] synonym: "foraging behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000663 name: osmotic avoidance variant def: "Animals exhibit variations in the avoidance response to solutions of a particular osmotic strength compared to control. In C. elegans, animals typically avoid solutions of high osmotic strength." [WB:WBPerson2021] synonym: "Osm" RELATED [] synonym: "osmotic avoidance abnormal" NARROW [] is_a: WBPhenotype:0000481 ! negative chemotaxis variant [Term] id: WBPhenotype:0000664 name: exaggerated body bends alt_id: WBPhenotype:0004021 def: "The maximum ventral and dorsal flex of the animal is greater than that observed for control animals." [WB:WBPerson712] synonym: "exaggerated body bends" EXACT [] synonym: "loopy" RELATED [] is_a: WBPhenotype:0001703 ! body bend variant [Term] id: WBPhenotype:0000665 name: connection of gonad variant def: "Any variation that disrupts the connectivity between the somatic gonad and the adjoining tissues compared to control. In C. elegans this connnection is between the somatic gonad and the vulva in hermaphrodites and between the somatic gonad and proctodeum in males." [WB:WBPerson2021, WB:WBPerson557] synonym: "Cog" RELATED [] synonym: "connection of gonad abnormal" NARROW [] is_a: WBPhenotype:0000605 ! reproductive system morphology variant [Term] id: WBPhenotype:0000666 name: ovulation variant def: "Any variation that disrupts the release of a mature oocyte into the spermatheca (for subsequent fertilization), compared to control." [GO:0030728, WB:WBPaper00003017, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "ovulation abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000667 name: gonad displaced def: "The specialized tissue of the reproductive tract that produces gamete is shifted from its customary place as defined by control." [WB:WBPerson2021, WB:WBPerson557] synonym: "ectopic gonad" RELATED [] is_a: WBPhenotype:0000977 ! somatic gonad morphology variant [Term] id: WBPhenotype:0000668 name: endomitotic oocytes def: "Any variation that results in the presence of mature oocytes with distended polyploid nuclei. In C. elegans, such oocytes mature and exit diakinesis, but are often not properly ovulated or fertilized." [WB:kmva] synonym: "arrest in meiosis I" RELATED [] synonym: "Emo" BROAD [] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0000669 name: sex muscle development variant def: "Variations in the progression of the muscles of the adult reproductive system over time form their initial formation to their mature structure compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "sex muscle development abnormal" NARROW [] is_a: WBPhenotype:0000624 ! reproductive system development variant is_a: WBPhenotype:0000860 ! nonstriated muscle development variant [Term] id: WBPhenotype:0000670 name: spermatogenesis variant def: "Any variation in the processes that influence the generation and maturation of spermatozoa (motile sperm) compared to control." [GO:0007283, WB:WBPaper00027300, WB:WBPerson2021] synonym: "Spe" BROAD [] synonym: "spermatocyte germ cell differentiation abnormal" EXACT [] synonym: "spermatogenesis abnormal" NARROW [] is_a: WBPhenotype:0000894 ! germ cell differentiation variant [Term] id: WBPhenotype:0000671 name: resistant to copper def: "Animals fail to respond to the concentration of copper that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to copper to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000592 ! copper response variant [Term] id: WBPhenotype:0000672 name: presynaptic vesicle cluster localization variant def: "Animals display variations in the distribution of transmitter-filled vesicles in relation to the electron-dense membrane specialization of the neuron,compared to that observed in control animals." [WB:WBPaper00027305, WB:WBPaper00027711, WB:WBPerson712] synonym: "presynaptic vesicle cluster localization abnormal" NARROW [] synonym: "synaptic vesicle cluster localization abnormal" RELATED [] is_a: WBPhenotype:0000102 ! presynaptic vesicle cluster variant [Term] id: WBPhenotype:0000673 name: brood size variant def: "The number of offspring produced is altered compared to that of control animals." [WB:WBPerson557] synonym: "brood size abnormal" NARROW [] is_a: WBPhenotype:0000806 ! hermaphrodite fertility variant [Term] id: WBPhenotype:0000674 name: slow development def: "The developmental progression of an animal, from its formation to its mature structure occurs over a longer time period compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "retarded development" RELATED [] is_a: WBPhenotype:0000043 ! general pace of development variant is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0000675 name: zygotic lethal def: "Animals die after fusion of gametes without dividing." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" RELATED [] is_a: WBPhenotype:0000213 ! zygotic development variant [Term] id: WBPhenotype:0000676 name: growth rate variant def: "The increase in size or mass of an organism over time during the lifespan of the organism or over any developmental stage(s) is not similar to that observed for control animals." [GO:0040007, WB:WBPerson712] synonym: "growth rate abnormal" NARROW [] is_a: WBPhenotype:0000030 ! growth variant [Term] id: WBPhenotype:0000677 name: chemosensation defective def: "Animals fail to receive, process or recognize a sensory chemical stimulus in the same manner as control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001050 ! chemosensation variant [Term] id: WBPhenotype:0000678 name: obsolete no copper sensitivity def: "OBSOLETE." [WB:WBPerson557] comment: This phenotype was intended to reflect a lack of any phenotypic abnormality in the individuals in question. The C. elegans phenotype ontology no longer has terms specifically used to assert negation of a phenotype. is_obsolete: true [Term] id: WBPhenotype:0000679 name: transgene subcellular localization variant def: "Any variation in the subcellular localization of a gene product produced by DNA coded for by exogenous genetic material that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] synonym: "transgene subcellular localization abnormal" NARROW [] is_a: WBPhenotype:0000961 ! pattern of transgene expression variant [Term] id: WBPhenotype:0000680 name: aldicarb response variant def: "Animals exhibit variations in their response to aldicarb compared to that observed in control animals." [WB:WBPerson557] synonym: "aldicarb response abnormal" NARROW [] is_a: WBPhenotype:0001290 ! acetylcholinesterase inhibitor response variant [Term] id: WBPhenotype:0000681 name: DMPP response variant def: "Animals exhibit variations in their response to DMPP compared to that observed in control animals." [WB:WBPerson557] synonym: "DMPP response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000682 name: feminization of germline def: "Hermaphrodites are transformed into fertile females; In C. elegans, XO fog animals are somatically male but produce oocytes instead of, or in addition to, sperm." [pmid:3396865, WB:cab] synonym: "feminization of germ line" EXACT [] synonym: "Fog" BROAD [] is_a: WBPhenotype:0000687 ! feminization of XX and XO animals is_a: WBPhenotype:0000812 ! germ cell development variant [Term] id: WBPhenotype:0000683 name: masculinization of germline def: "The germ line is sexually transformed from hermaphrodite to male. In C. elegans, XX mog animals are somatically hermaphrodite, but germ cells that normally would become oocytes are transformed into sperm." [WB:WBPaper00001710, WB:WBPerson2021] synonym: "masculinization of germ line" EXACT [] synonym: "Mog" BROAD [] is_a: WBPhenotype:0000812 ! germ cell development variant is_a: WBPhenotype:0001572 ! masculinized [Term] id: WBPhenotype:0000684 name: fewer germ cells def: "Germ cell populations are reduced compared to control animals." [WB:cab, WB:WBPerson2021] synonym: "Fgc" BROAD [] synonym: "germline underproliferation" RELATED [] is_a: WBPhenotype:0000823 ! germline proliferation variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0000685 name: larval growth slow def: "Any variation that causes a reduction in growth rate during larval stages compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0001016 ! larval growth variant [Term] id: WBPhenotype:0000686 name: organism ionizing radiation response variant def: "Animals exhibit variations in their response ionizing radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "organism ionizing radiation response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000687 name: feminization of XX and XO animals def: "Both hermaphrodites and males develop into fertile females." [WB:cab] synonym: "Fem" BROAD [] is_a: WBPhenotype:0000049 ! postembryonic development variant is_a: WBPhenotype:0000624 ! reproductive system development variant is_a: WBPhenotype:0000822 ! sex determination variant [Term] id: WBPhenotype:0000688 name: sterile def: "Animals generate defective gametes, are otherwise unable to reproduce or they generate progeny that are unable to reproduce." [GO:0000003, WB:WBPerson712] subset: phenotype_slim_wb synonym: "semi sterile" EXACT [] synonym: "Ste" BROAD [] is_a: WBPhenotype:0001384 ! fertility reduced [Term] id: WBPhenotype:0000689 name: maternal sterile def: "Animals produce no or very few embryos as a result of experimental treatment. This is in contrast to sterility due to genetic perturbations (maternal effect sterility)." [WB:cab, WB:cgc5599, WB:cgc7141, WB:WBPerson557] synonym: "Reduced fecundity of injected worm" EXACT [WB:cgc5599] synonym: "Ste" BROAD [] synonym: "sterile F0 fertility problems" RELATED [] is_a: WBPhenotype:0000694 ! hermaphrodite sterile [Term] id: WBPhenotype:0000690 name: gonad migration variant def: "Variations in the gross movement of the whole structure of the gonad along the body wall, behind the gonadal leader cell and away from the developing vulva compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Gom" BROAD [] synonym: "gonad migration abnormal" NARROW [] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000691 name: gonad development variant def: "Variations in the progression of the organ that produces gametes over time, from its formation to the mature structure compared to control." [GO:0008406, WB:WBPerson2021] synonym: "Gon" RELATED [] synonym: "gonad development abnormal" NARROW [] synonym: "gonadogenesis abnormal" RELATED [] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000692 name: male sterile def: "X0 animals fail to generate viable cross-progeny." [WB:WBPerson2021] is_a: WBPhenotype:0000688 ! sterile is_a: WBPhenotype:0000863 ! male fertility reduced [Term] id: WBPhenotype:0000693 name: male sperm fertilization defect def: "Any perturbation that renders male derived sperm ineffective at fertilizing an oocyte." [WB:WBPaper00001075, WB:WBPerson2021] synonym: "Fer" BROAD [] is_a: WBPhenotype:0000692 ! male sterile [Term] id: WBPhenotype:0000694 name: hermaphrodite sterile def: "Hermaphrodites fail to generate viable self-progeny and/or cross-progeny." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000688 ! sterile is_a: WBPhenotype:0001259 ! hermaphrodite fertility reduced [Term] id: WBPhenotype:0000695 name: vulva morphology variant def: "Animals exhibit variations in the gross structure or organization of the reproductive organ required for depositing eggs and for influencing male mating behavior compared to control." [WB:WBPerson712] synonym: "vulva morphology abnormal" NARROW [] is_a: WBPhenotype:0001335 ! hermaphrodite reproductive system morphology variant [Term] id: WBPhenotype:0000696 name: everted vulva def: "The eversion process, in which the vulval invagination is turned inside out during the final molt, is disrupted. In C.elegans, such variations in vulval eversion are primarily due to developmental defects in the somatic gonad (and sometimes vulva)." [WB:cab, WB:WBPaper00001738, WB:WBPerson2021, WB:WBPerson261] synonym: "Evl" BROAD [] is_a: WBPhenotype:0000695 ! vulva morphology variant [Term] id: WBPhenotype:0000697 name: protruding vulva def: "Animals undergo incomplete vulval morphogenesis, resulting in the formation of a single protrusion at the site of the vulva." [WB:WBPaper00004408, WB:WBPerson2021] synonym: "Pvl" BROAD [] synonym: "Pvu" BROAD [] is_a: WBPhenotype:0000695 ! vulva morphology variant [Term] id: WBPhenotype:0000698 name: vulvaless def: "No vulval tissue is produced. In C. elegans, this is usually a result of all six vulval precursor cells adopting a tertiary fate." [WB:WBPaper00001182, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "underinduced" EXACT [] synonym: "Vul" BROAD [] is_a: WBPhenotype:0000219 ! vulval cell induction reduced [Term] id: WBPhenotype:0000699 name: vulva development variant def: "Variations in the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure compared to control. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [GO:0040025, WB:IA, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "vulva development abnormal" NARROW [] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0000700 name: multivulva def: "Multiple vulva-like protrusions are present along the ventral side of the animal. In C. elegans, this is usually a result of all six vulval precursor cells adopting primary or secondary vulval fates." [WB:WBPaper00001182, WB:WBPerson2021] synonym: "Muv" BROAD [] synonym: "overinduced" EXACT [] is_a: WBPhenotype:0000218 ! vulval cell induction increased [Term] id: WBPhenotype:0000701 name: epithelial development variant def: "Any variation in the progression of the epithelia over time, from its formation to its mature state compared to control. This process involves autonomously generated changes in epidermal cell shape and position, and interactions with internal tissues, including the developing nervous system and body wall muscles to affect epidermal enclosure, cell intercalation, and epidermal elongation." [WB:WBPerson2021, WB:WBPerson557] synonym: "epidermal morphogenesis variant" RELATED [] synonym: "epithelial development abnormal" NARROW [] synonym: "hypodermal development abnormal" RELATED [] is_a: WBPhenotype:0000619 ! epithelial system development variant [Term] id: WBPhenotype:0000702 name: epithelial cell fusion failure def: "Any perturbation that renders epithelial cells incompetent at undergoing membrane fusion during development." [WB:WBPaper00005122, WB:WBPerson2021] xref: PMID:15341747 is_a: WBPhenotype:0000165 ! cell fusion variant is_a: WBPhenotype:0000701 ! epithelial development variant [Term] id: WBPhenotype:0000703 name: epithelial morphology variant def: "Variations in the form, composition or structure of the layer of cells that cover the external surface of an organism and form the inner lining between the tissues and organs of that organism and the external environment compared to control. In C. elegans epithelial cells include epithelium of the alimentary tract, intestinal cells, hypodermis, interfacial cells and somatic gonad cells (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "epithelial morphology abnormal" NARROW [] synonym: "hypodermal morphology abnormal" RELATED [] is_a: WBPhenotype:0000600 ! epithelial system morphology variant [Term] id: WBPhenotype:0000704 name: excretory canal morphology variant def: "Variations in the form or composition of structures made by the processes of the excretory canal cell compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "excretory canal morphology abnormal" NARROW [] is_a: WBPhenotype:0000916 ! excretory cell morphology variant [Term] id: WBPhenotype:0000705 name: intestinal cell development variant def: "Any variation in the progression of an intestinal cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "intestinal cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant is_a: WBPhenotype:0000708 ! intestinal development variant [Term] id: WBPhenotype:0000706 name: gut granule biogenesis reduced def: "Animals lack birefringent containing compartments in embryonic intestinal cells; however, these compartments appear in adult stages." [WB:WBPaper00032168, WB:WBPerson712] synonym: "Glo" BROAD [] synonym: "gut granule loss" RELATED [] xref: PMID:15843430 is_a: WBPhenotype:0000103 ! gut granule development variant is_a: WBPhenotype:0001430 ! lysosome organization biogenesis variant [Term] id: WBPhenotype:0000707 name: pharyngeal development variant def: "Variations in the progression of the pharynx (feeding organ) over time, from its formation to the mature structure compared to control. In C. elegans the pharynx is divided into the anterior and posterior regions. The anterior region includes the corpus (procorpus and metacorpus - first bulb) and the posterior region includes the isthmus and terminal bulb (second bulb)." [GO:0043282, WB:WBPerson2021] synonym: "pharyngeal development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000708 name: intestinal development variant def: "Variations in the progression of the intestine over time from its initial formation to its mature structure compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "endoderm development abnormal" RELATED [] synonym: "gut development abnormal" RELATED [] synonym: "intestinal development abnormal" NARROW [] is_a: WBPhenotype:0000617 ! alimentary system development variant [Term] id: WBPhenotype:0000709 name: pharyngeal morphology variant def: "Variations in the form or composition of the mouthparts at the anterior end of the digestive tract which contain a series of radial muscles, related neurons and epithelial cells, and several gland cells which may aid in digestion compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "pharyngeal morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000710 name: intestinal morphology variant def: "Animals exhibit variations in the form, structure or composition of the chain of cuboidal cells which form a central lumen lined by microvilli that allow the passage of food, compared to control. Food passes from the posterior pharynx to the intestine where it is digested and then on to the rectum which processes the waste products for excretion (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "intestinal morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000711 name: organism hypersensitive ionizing radiation def: "Animals exhibit increased sensitivity to the effects of ion producing radiation compared to control animals." [WB:WBPaper00000565, WB:WBPerson712] is_a: WBPhenotype:0000686 ! organism ionizing radiation response variant [Term] id: WBPhenotype:0000712 name: germ cell ionizing radiation response variant def: "Germ cells exhibit variations in their response to ionizing radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "germ cell ionizing radiation response abnormal" NARROW [] is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0000713 name: obsolete spermatocyte division abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000981 [Term] id: WBPhenotype:0000714 name: obsolete disorganized muscle def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000553 [Term] id: WBPhenotype:0000715 name: muscle excess def: "Animals exhibit a greater number of embryonic muscle cells compared to control." [WB:kmva, WB:WBPaper00001584] synonym: "Mex" BROAD [WB:WBPaper00001584] is_a: WBPhenotype:0000622 ! muscle system development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0000716 name: muscle cell attachment variant def: "Any variation in the connection of a cell whose principal function is to provide contractile forces with its neighboring cells or tissues compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "muscle cell attachment abnormal" NARROW [] is_a: WBPhenotype:0000990 ! muscle cell physiology variant [Term] id: WBPhenotype:0000717 name: gene expression variant def: "Variations in the processes that convert a gene's coding sequence into a mature gene product or products (proteins or RNA), compared to control." [GO:0010467, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "gene expression abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000718 name: dosage compensation variant def: "Variations in the process of normalizing the expression level of X-linked genes between XX and XO animals compared to control." [GO:0007549, WB:WBPerson363] comment: Possible XP GO:0007549. synonym: "dosage compensation abnormal" NARROW [] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0000719 name: obsolete reporter gene expression variant def: "OBSOLETE." [WB:WBPerson557] synonym: "reporter gene expression abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0000306 consider: WBPhenotype:0000717 [Term] id: WBPhenotype:0000720 name: obsolete pattern of reporter gene expression variant def: "OBSOLETE." [WB:WBPerson557] synonym: "pattern of reporter gene expression abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0000111 consider: WBPhenotype:0000961 [Term] id: WBPhenotype:0000721 name: obsolete level of reporter gene expression variant def: "OBSOLETE." [WB:WBPerson557] synonym: "level of reporter gene expression abnormal" EXACT [] is_obsolete: true consider: WBPhenotype:0000962 [Term] id: WBPhenotype:0000722 name: nucleolus variant def: "Animals exhibit variations in the appearance of nucleoli compared to control animals." [WB:cab] subset: phenotype_slim_wb synonym: "nucleolus abnormal" NARROW [] is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0000723 name: obsolete cellular secretion abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000258 [Term] id: WBPhenotype:0000724 name: protein secretion variant def: "Variations in the regulated release of proteins from a cell or group of cells compared to control." [GO:0009306, WB:WBPerson2021] synonym: "protein secretion abnormal" NARROW [] is_a: WBPhenotype:0000258 ! cell secretion variant [Term] id: WBPhenotype:0000725 name: lipid metabolism variant def: "Animals exhibit variations in any process that involves the maintenance, biosynthesis or accumulation of an internal store of lipid within the organism or cell compared to control." [GO:0055088, WB:WBPaper00032000, WB:WBPaper00032082, WB:WBPerson712] synonym: "lipid metabolism abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000726 name: ligand binding variant def: "Any variation of the specific binding of a molecule to its partner, which typically results in a change in cell activity, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "ligand binding abnormal" NARROW [] is_a: WBPhenotype:0000727 ! enzyme activity variant [Term] id: WBPhenotype:0000727 name: enzyme activity variant def: "Any variation in the function of naturally occurring macromolecular substances known as enzymes compared to control. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein (can include an RNA component)." [GO:0003824, WB:WBPerson2021, WB:WBPerson557] synonym: "enzyme activity abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0000728 name: exocytosis variant def: "Variations in the process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell, compared to control." [GO:0006887, WB:WBPerson2021] synonym: "exocytosis abnormal" NARROW [] is_a: WBPhenotype:0000258 ! cell secretion variant is_a: WBPhenotype:0001752 ! vesicle trafficking variant [Term] id: WBPhenotype:0000729 name: cell death variant def: "Animals exhibit variations in any of the processes that lead to the termination of vital functions of a cell." [GO:0008219, WB:cab] subset: phenotype_slim_wb synonym: "Ced" BROAD [] synonym: "cell death abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000730 name: apoptosis variant def: "Animals exhibit variations in any processes that influence the programmed cell death pathway. Induction of the apoptotic pathway triggers the activity of proteolytic caspases, which in turn lead to the destruction of the cell." [GO:0006915, WB:WBPerson2021] synonym: "apoptosis abnormal" NARROW [] synonym: "Ced" BROAD [] is_a: WBPhenotype:0001172 ! programmed cell death variant [Term] id: WBPhenotype:0000731 name: germ cell hypersensitive ionizing radiation def: "Germ cells exhibit increased sensitivity to the effects of ion producing radiation compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000712 ! germ cell ionizing radiation response variant is_a: WBPhenotype:0001324 ! cell ionizing radiation response variant [Term] id: WBPhenotype:0000732 name: DNA metabolism variant def: "Variations in any process that involves the maintenance, biosynthesis or accumulation of DNA in the organism compared to control." [WB:WBPerson2021] synonym: "DNA metabolism abnormal" NARROW [] is_a: WBPhenotype:0000463 ! metabolic pathway variant is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0000733 name: catalysis variant def: "Any variation in the catalysis of a biochemical reaction compared to control. Catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein (can include an RNA component)." [GO:0003824, WB:WBPerson2021, WB:WBPerson557] synonym: "catalysis abnormal" NARROW [] is_a: WBPhenotype:0000727 ! enzyme activity variant [Term] id: WBPhenotype:0000734 name: hypodermal cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the hypodermal system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "hypodermal cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000986 ! epithelial cell physiology variant [Term] id: WBPhenotype:0000735 name: endoreduplication of hypodermal nuclei variant def: "Any variation in the regulated re-replication of DNA in the hypodermal cells during a single cell cycle, compared to control." [GO:0042023, WB:WBPerson2021, WB:WBPerson557] synonym: "endoreduplication of hypodermal nuclei abnormal" NARROW [] is_a: WBPhenotype:0000734 ! hypodermal cell physiology variant [Term] id: WBPhenotype:0000736 name: autophagy variant def: "Animals exhibit variations in the process by which their cells digest parts of their own cytoplasm, compared to control." [GO:0006914, WB:WBPerson712] synonym: "autophagy abnormal" RELATED [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0000737 name: germ cell resistant ionizing radiation def: "Germ cells fail to respond to the dosage of ion producing radiation that elicits a response in control animals. Alternatively, germ cells require a higher dosage or a longer exposure to ion producing radiation to elicit the same response as control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000712 ! germ cell ionizing radiation response variant is_a: WBPhenotype:0001324 ! cell ionizing radiation response variant [Term] id: WBPhenotype:0000738 name: organism environmental stimulus response variant def: "The response to a change in the environment is altered compared to control." [WB:cab] subset: phenotype_slim_wb synonym: "organism environmental stimulus response abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000739 name: DNA damage response variant def: "Variations in the activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism, compared to control." [GO:0006974, WB:WBPerson2021] synonym: "DNA damage response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0000740 name: cell cycle variant def: "Cells of the animals exhibit variations in the initiation, progression or exit from the biochemical and morphological processes that occur during successive replication or nuclear replication events from that observed for control animals." [GO:0007049, WB:WBPerson557, WB:WBPerson712] subset: phenotype_slim_wb synonym: "cell cycle abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000741 name: DNA damage checkpoint variant def: "Mitotic cells exhibit variations in the execution of cell-cycle arrest in response to DNA damage." [WB:WBPaper00029085, WB:WBPerson2021] synonym: "DNA damage checkpoint abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant is_a: WBPhenotype:0000740 ! cell cycle variant [Term] id: WBPhenotype:0000742 name: DNA recombination variant def: "Variations in the process by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents, compared to control." [GO:0006310, WB:WBPerson2021] synonym: "DNA recombination abnormal" NARROW [] is_a: WBPhenotype:0000732 ! DNA metabolism variant [Term] id: WBPhenotype:0000743 name: RNAi response variant def: "Animals exhibit variations in their response to gene silencing triggered by double stranded RNA (RNAi), compared to control." [GO:0016246, WB:WBPerson2021] synonym: "Rde" BROAD [] synonym: "RNAi response abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0000744 name: transgene induced cosuppression variant def: "Animals exhibit variations in the silencing of endogenous genes after introduction of repetitive exogenous cognate DNA compared to control." [WB:WBPaper00025139, WB:WBPerson2021, WB:WBPerson557] synonym: "transgene induced cosuppression abnormal" NARROW [] is_a: WBPhenotype:0002063 ! maintenance of gene silencing variant [Term] id: WBPhenotype:0000745 name: transposon silencing variant def: "Animals exhibit variations in the activity of endogenous transposons compared to control. In C. elegans transposon activity is often measured by the rate of reversion of mutations induced by transposon insertions." [GO:0000335, WB:WBPaper00031962, WB:WBPerson712] synonym: "transposon silencing abnormal" NARROW [] is_a: WBPhenotype:0002063 ! maintenance of gene silencing variant [Term] id: WBPhenotype:0000746 name: cell division variant def: "Any variation that alters the physical partitioning and separation of a cell into daughter cells compared to control." [GO:0051301, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "cell division abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000747 name: pharyngeal contraction defective def: "Any defects in the muscle contractions that control feeding. Contractions are necessary for bacterial uptake from the surrounding environment." [WB:WBPaper00001696] is_a: WBPhenotype:0000980 ! pharyngeal contraction variant [Term] id: WBPhenotype:0000748 name: asymmetric cell division defective early emb def: "Symmetric (PAR-like) divisions or excessive posterior displacement (zyg-8 like phenotypes)." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001585 ! asymmetric cell division variant [Term] id: WBPhenotype:0000749 name: embryonic development variant def: "Variations in the progression of an embryo over time, from zygote formation to hatching compared to control." [GO:0009790, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "developmental defects detected in embryos" RELATED [] synonym: "embryonic development abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000750 name: larval development variant def: "Variations in the progression of a larva over time, from its formation to the mature structure compared to control. The larva is the early, immature form of an animal between hatching and adulthood." [GO:0002164, WB:WBPerson2021] synonym: "larval development abnormal" NARROW [] is_a: WBPhenotype:0000049 ! postembryonic development variant [Term] id: WBPhenotype:0000751 name: L1 larval development variant def: "Variations in the progression of a newly hatched animal through the first larval molt compared to control." [WB:WBPerson2021] synonym: "L1 larval development abnormal" NARROW [] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0000752 name: L2 larval development variant def: "Variations in the progression of the second larval stage compared to control." [WB:WBPerson557] synonym: "L2 larval development abnormal" NARROW [] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0000753 name: L3 larval development variant def: "Variations in the progression of the third larval stage compared to control." [WB:WBPerson557] synonym: "L3 larval development abnormal" NARROW [] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0000754 name: L4 larval development variant def: "Variations in the progression of the fourth larval stage compared to control." [WB:WBPerson557] synonym: "L4 larval development abnormal" NARROW [] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0000755 name: L1 L2 molt defect def: "Animals exhibit defects in the process of shedding, part or all of its cuticle, during cuticle replacement that punctuates L1 to L2 transition." [GO:0018996] synonym: "L1 L2 molt abnormal" NARROW [] synonym: "L1 molt" RELATED [] is_a: WBPhenotype:0000638 ! molt defect [Term] id: WBPhenotype:0000756 name: L2 L3 molt defect def: "Animals exhibit defects in the process of shedding, part or all of its cuticle, during cuticle replacement that punctuates L2 to L3 transition." [GO:0018996] synonym: "L2 L3 molt abnormal" NARROW [] synonym: "L2 molt" RELATED [] is_a: WBPhenotype:0000638 ! molt defect [Term] id: WBPhenotype:0000757 name: L3 L4 molt defect def: "Animals exhibit defects in the process of shedding, part or all of its cuticle, during cuticle replacement that punctuates L3 to L4 transition." [GO:0018996] synonym: "L3 L4 molt abnormal" NARROW [] synonym: "L3 molt" RELATED [] is_a: WBPhenotype:0000638 ! molt defect [Term] id: WBPhenotype:0000758 name: L4 adult molt defect def: "Animals exhibit defects in the process of shedding, part or all of its cuticle, during cuticle replacement that punctuates L4 to adult transition." [GO:0018996] synonym: "L4 adult molt abnormal" NARROW [] synonym: "L4 molt" RELATED [] is_a: WBPhenotype:0000638 ! molt defect [Term] id: WBPhenotype:0000759 name: spindle defective early emb def: "Early embryos exhibit defects in the assembly, disassembly, arrangement, elongation or stabilization of the microtubules and associated molecules that form between opposite poles of a eukaryotic cell during a cell cycle." [GO:0007051, WB:WBPerson2021] comment: Possible XP. synonym: "Emb" BROAD [] synonym: "Spd" BROAD [] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0000760 name: spindle orientation defective early emb def: "The alignment of the spindle relative to other cellular structures in the cells of an embryo varies from that observed in control animals." [WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Spn" BROAD [] is_a: WBPhenotype:0000761 ! spindle position orientation defective early emb is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0000761 name: spindle position orientation defective early emb def: "Early embryos exhibit defects in the placement or the alignment of the array of microtubules and associated molecules that form between opposite poles of a eukaryotic cell during mitosis or meiosis." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Spi" RELATED [] synonym: "Spo" BROAD [] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb [Term] id: WBPhenotype:0000762 name: spindle position defective early emb def: "Early embryos exhibit defects in the placement of the array of microtubules and associated molecules that form between opposite poles of a eukaryotic cell during mitosis or meiosis." [GO:0051653, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "Abs" BROAD [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000761 ! spindle position orientation defective early emb is_a: WBPhenotype:0002416 ! spindle position variant [Term] id: WBPhenotype:0000763 name: embryonic cell physiology variant def: "Animals exhibit deviations at the cellular level, but not necessarily restricted to a single cell, in any physical or chemical process required for an embryonic cell to carry out its normal function and activities or be able to perceive and respond to stimuli." [GO:0009987, WB:WBPerson557] subset: phenotype_slim_wb synonym: "embryonic cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000764 name: embryonic cell organization biogenesis variant def: "Variations in the processes that are carried out at in the embryo which results in its formation or the arrangement of constituent parts, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "embryonic cell organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant is_a: WBPhenotype:0000763 ! embryonic cell physiology variant is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0000765 name: spindle elongation integrity defective early emb def: "The embryos exhibit defects in the cell cycle process whereby the distance is lengthened between poles of the spindle." [GO:0051231, WB:cab, WB:cgc7141, WB:WBPerson2021] comment: Possible XP. synonym: "Emb" BROAD [] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb [Term] id: WBPhenotype:0000766 name: centrosome pair and associated pronuclear rotation variant def: "Any variation in the rotation of the centrosome-pronuclear complex after its migration toward the center of the embryo, compared to control." [WB:WBPaper00004895, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "centrosome pair and associated pronuclear rotation abnormal" NARROW [] synonym: "Rot" BROAD [] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant [Term] id: WBPhenotype:0000767 name: integrity of membranous organelles defective early emb def: "Sparse or enlarged yolk granules." [WB:cab, WB:WBPaper00025054] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0000768 name: cytoplasmic structure defective early emb def: "Areas devoid of yolk granules throughout the embryo." [WB:cab, WB:cgc7141] synonym: "Aberrant Cytoplasmic Structure" RELATED [] synonym: "cellular structure disorganized" RELATED [] synonym: "cytoplasmic structure abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000769 ! cytoplasmic appearance defective early emb is_a: WBPhenotype:0001081 ! cytoplasmic morphology defective early emb [Term] id: WBPhenotype:0000769 name: cytoplasmic appearance defective early emb def: "Embryos exhibit defects in the form, structure or composition of any cellular contents (excluding plasma membrane and nucleus), compared to control embryos." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001427 ! cytoplasmic appearance variant [Term] id: WBPhenotype:0000770 name: embryonic cell morphology variant def: "Animals exhibit variations in the appearance of embryonic cells compared to control." [WB:cab] subset: phenotype_slim_wb synonym: "embryonic cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000771 name: centrosome attachment defective early emb def: "Centrosomes detach from the male pronucleus." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001903 ! centrosome biogenesis variant [Term] id: WBPhenotype:0000772 name: sister chromatid segregation defective early emb def: "Daughter nuclei are deformed and stay close to central cortex, cytokinesis defects." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000773 ! chromosome segregation variant is_a: WBPhenotype:0001078 ! cytokinesis defective early emb [Term] id: WBPhenotype:0000773 name: chromosome segregation variant def: "Any variation in the processes that regulate the apportionment of chromosomes to each of two daughter cells compared to control." [GO:0007059, WB:kmva, WB:WBPerson2021, WB:WBPerson557] synonym: "chromosome segregation abnormal" NARROW [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0000774 name: gametogenesis variant def: "Any variation in the processes that govern the generation and maintenance of gametes compared to control." [GO:0007276, WB:WBPerson2021] synonym: "gametogenesis abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000775 name: meiosis variant def: "Variations in the specialized nuclear and cytoplasmic divisions of a single diploid cell, whose specific outcome is the formation of four haploid daughter cells compared to control. Meiosis occurs during the formation of gametes." [GO:0051321, WB:WBPerson2021] synonym: "germ cell meiosis abnormal" RELATED [] synonym: "germ cell meiosis variant" RELATED [] synonym: "Mei" RELATED [] synonym: "meiosis abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant is_a: WBPhenotype:0000812 ! germ cell development variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0000776 name: passage through meiosis defective early emb def: "Male and female PNs not visible; embryo often fills egg shell completely." [WB:cab, WB:cgc71441] synonym: "Emb" BROAD [] synonym: "passage through meiosis abnormal" NARROW [] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0000777 name: polar body extrusion defective early emb def: "Unextruded or resorbed polar body(ies) leading to an extra PNs in P0 and/or extra karyomeres in AB/P1." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "polar body extrusion abnormal" NARROW [] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb is_a: WBPhenotype:0001147 ! polar body defective early emb [Term] id: WBPhenotype:0000778 name: feeding inefficient def: "Animals are unable to ingest nutrients at a rate similar to control animals." [WB:WBPaper00032342, WB:WBPerson712] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0000779 name: late embryonic arrest def: "Cessation of development during the final stages of embryogenesis. In C. elegans, this stage normally occurs 620-800 min after the first cleavage at 20C and is the stage after elongation." [WB:WBPerson101] is_a: WBPhenotype:0000867 ! embryonic arrest [Term] id: WBPhenotype:0000780 name: shaker def: "Animals rotate back and forth around their longitudinal axes." [WB:cab, WB:cgc914] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0000781 name: body wall muscle thin filament variant def: "Any variation in the extremely thin elongated cytoplasmic filament, usually composed principally of actin protein to form a myofilament lattice, as in muscle cells compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "thin filament abnormal" NARROW [] synonym: "thin filament variant" RELATED [] is_a: WBPhenotype:0001889 ! body wall muscle sarcomere morphology variant [Term] id: WBPhenotype:0000782 name: body wall muscle thick filament variant def: "Animals exhibit variations in the form, structure or composition of a robust elongated cytoplasmic filament composed principally of myosin protein compared to control animals. In C. elegans, thick filaments also contain paramyosin and twitchin (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "thick filament abnormal" NARROW [] synonym: "thick filament variant" RELATED [] is_a: WBPhenotype:0001889 ! body wall muscle sarcomere morphology variant [Term] id: WBPhenotype:0000783 name: M line absent def: "Animals lack the planar structure within the muscle sarcomere which lies midway within the thick filament (A) band, attaching to the plasma membrane at its base and running up towards the inward surface of the myofilament lattice, compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001891 ! M line variant [Term] id: WBPhenotype:0000784 name: male fertility variant def: "Males exhibit variations in the time of onset or duration of the fertile period owing to differences in sperm competence and/or function compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "male fertility abnormal" NARROW [] is_a: WBPhenotype:0000145 ! fertility variant [Term] id: WBPhenotype:0000785 name: body part pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of a particular body part compared to control animals." [WB:WBPerson557] synonym: "body part pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000278 ! body region pigmentation variant [Term] id: WBPhenotype:0000786 name: body axis pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency along a particular body axis compared to control." [WB:WBPerson557] synonym: "body axis pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000278 ! body region pigmentation variant [Term] id: WBPhenotype:0000787 name: posterior pale def: "Animals have decreased accumulation or expression of biochromes or any other substances that causes increased translucency of the posterior body axis compared to control." [WB:WBPerson557] is_a: WBPhenotype:0000984 ! posterior pigmentation variant is_a: WBPhenotype:0001261 ! pale [Term] id: WBPhenotype:0000788 name: anterior pale def: "Animals have decreased accumulation or expression of biochromes or any other substances that causes increased translucency of the anterior body axis compared to control." [WB:WBPerson557] is_a: WBPhenotype:0000971 ! anterior pigmentation variant is_a: WBPhenotype:0001261 ! pale [Term] id: WBPhenotype:0000789 name: fluoxetine hypersensitive def: "Animals respond to fluoxetine at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0000790 name: fluoxetine resistant def: "Animals fail to respond to the concentration of fluoxetine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000381 ! serotonin reuptake inhibitor resistant [Term] id: WBPhenotype:0000791 name: nose resistant to fluoxetine def: "The nose of an animal fails to respond to the concentration of fluoxetine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000790 ! fluoxetine resistant [Term] id: WBPhenotype:0000792 name: anterior body morphology variant def: "Animals exhibit variations in the form, structure or composition of the anatomy contained in the anterior region, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "anterior body morphology abnormal" NARROW [] synonym: "anterior region morphology abnormal" NARROW [] synonym: "anterior region morphology variant" EXACT [] is_a: WBPhenotype:0000581 ! body axis morphology variant [Term] id: WBPhenotype:0000793 name: posterior body morphology variant alt_id: WBPhenotype:0001490 def: "Animals exhibit variations in the form, structure or composition of the anatomy contained in the posterior region, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "posterior body morphology abnormal" NARROW [] synonym: "posterior region morphology abnormal" NARROW [] synonym: "posterior region morphology variant" EXACT [] is_a: WBPhenotype:0000581 ! body axis morphology variant [Term] id: WBPhenotype:0000794 name: posterior body thin def: "The posterior part of the worm exhibits a reduced girth compared to a control animal of the same developmental stage." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000793 ! posterior body morphology variant [Term] id: WBPhenotype:0000795 name: body axis behavior variant def: "Variations in the specific actions or reactions of one of the longitudinal axes of the extended body of the worm in response to external or internal stimuli compared to that observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "body axis behavior abnormal" NARROW [] is_a: WBPhenotype:0000522 ! organism region behavior variant [Term] id: WBPhenotype:0000796 name: posterior body uncoordinated def: "The movement of the posterior part of the worm is not coordinated with the rest of the body." [WB:cab] is_a: WBPhenotype:0000797 ! posterior body behavior variant [Term] id: WBPhenotype:0000797 name: posterior body behavior variant def: "Variations in the specific actions or reactions of the longitudinal axis that spans from the midpoint to the tip of the tail of an animal in response to external or internal stimuli compared to that observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "posterior body behavior abnormal" NARROW [] is_a: WBPhenotype:0000795 ! body axis behavior variant [Term] id: WBPhenotype:0000798 name: anterior body behavior variant def: "Variations in the specific actions or reactions of the longitudinal axis that spans from the midpoint to the tip of the head of an animal in response to external or internal stimuli compared to that observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "anterior body behavior abnormal" NARROW [] is_a: WBPhenotype:0000795 ! body axis behavior variant [Term] id: WBPhenotype:0000799 name: anterior region development variant def: "Variations in the progression of an animal's anatomy contained in the anterior region over time, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "anterior region development abnormal" NARROW [] is_a: WBPhenotype:0000578 ! body axis development variant [Term] id: WBPhenotype:0000800 name: posterior region development variant def: "Variations in the progression of an animal's anatomy contained in the posterior region over time, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "posterior region development abnormal" NARROW [] is_a: WBPhenotype:0000578 ! body axis development variant [Term] id: WBPhenotype:0000801 name: ventral region development variant def: "Variations in the progression of an animal's anatomy contained in the ventral region over time, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "ventral region development abnormal" NARROW [] is_a: WBPhenotype:0000578 ! body axis development variant [Term] id: WBPhenotype:0000802 name: dorsal region development variant def: "Variations in the progression of an animal's anatomy contained in the dorsal region over time, compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dorsal region development abnormal" NARROW [] is_a: WBPhenotype:0000578 ! body axis development variant [Term] id: WBPhenotype:0000803 name: head development variant def: "Variations in the progression of the anterior end of the animal over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "head development abnormal" NARROW [] is_a: WBPhenotype:0000579 ! organism segment development variant [Term] id: WBPhenotype:0000804 name: body development variant def: "Variations in the progression of the overall structure or appearance of the animal over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body development abnormal" NARROW [] is_a: WBPhenotype:0000579 ! organism segment development variant [Term] id: WBPhenotype:0000805 name: tail development variant def: "Any variation in the process whose specific outcome is the progression of the tail over time, from its formation to the mature structure, compared to control. The tail includes the posterior region that spans from the rectum to the end." [WB:WBPerson2021] synonym: "tail development abnormal" NARROW [] is_a: WBPhenotype:0000579 ! organism segment development variant [Term] id: WBPhenotype:0000806 name: hermaphrodite fertility variant def: "Hermaphrodites exhibit variations in the time of onset or duration of the fertile period, or variations in the production of viable offspring, including number and state of fertilized eggs laid, compared to controls." [WB:WBPerson712] synonym: "hermaphrodite fertility abnormal" NARROW [] is_a: WBPhenotype:0000145 ! fertility variant [Term] id: WBPhenotype:0000807 name: G lineages variant def: "The descendants of the G1 or G2 exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "G lineages abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000808 name: K lineage variant def: "The descendants of the K precursor cell exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "K lineage abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000809 name: male specific lineage variant def: "The descendants of a male specific precursor cell exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male specific lineage abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000810 name: blast cell development variant def: "Any variation in the progression of a blast cell (precursor cell) over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "blast cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000811 name: epithelial cell development variant def: "Any variation in the progression of an epithelial cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "epithelial cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000812 name: germ cell development variant def: "Variations in the progression of the immature germ cell over time, from its formation from precursors to the mature structure (gamete) compared to control." [GO:0007281, WB:WBPerson2021] synonym: "germ cell development abnormal" NARROW [] synonym: "germline development abnormal" RELATED [] is_a: WBPhenotype:0000774 ! gametogenesis variant [Term] id: WBPhenotype:0000813 name: gland cell development variant def: "Any variation in the progression of a gland cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "gland cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000814 name: marginal cell development variant def: "Any variation in the progression of a marginal cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control. A marginal cell is a pharyngeal cell that connects the basement membrane to the apices of the triangle-shaped pharyngeal lumen." [WB:WBPerson2021] synonym: "marginal cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000815 name: muscle cell development variant def: "Any variation in the progression of a muscle cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "muscle cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000816 name: neuron development variant def: "Variations in the progression of a neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [GO:0048666, WB:WBPerson2021] synonym: "neuron development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000817 name: uterine vulval cell development variant def: "Variations in the progression of the epithelial cells that form the interface between the uterus and the vulva (likely via a multilayered set of flaps) over time from an initial condition to a later condition compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "uterine vulval cell development abnormal" NARROW [] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0000818 name: adult behavior variant def: "Activity characteristic of an adult worm is altered compared to control." [WB:cab] synonym: "adult behavior abnormal" NARROW [] is_a: WBPhenotype:0000819 ! postembryonic behavior variant [Term] id: WBPhenotype:0000819 name: postembryonic behavior variant def: "Behavior characteristic of postembryonic stage(s) is altered compared to control." [WB:cab] synonym: "postembryonic behavior abnormal" NARROW [] is_a: WBPhenotype:0001000 ! developmental behavior variant [Term] id: WBPhenotype:0000820 name: embryonic behavior variant def: "Activity characteristic of an embryo is altered compared to control." [WB:cab] synonym: "embryonic behavior abnormal" NARROW [] is_a: WBPhenotype:0001000 ! developmental behavior variant [Term] id: WBPhenotype:0000821 name: sexually dimorphic behavior variant def: "Animals exhibit variations in sex-specific behaviors compared to control." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "sexually dimorphic behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0000822 name: sex determination variant def: "Any variation in the processes that govern the sexually dimorphic development of germline or somatic tissue compared to control." [WB:kmva] synonym: "sex determination abnormal" NARROW [] synonym: "sex specific development abnormal" RELATED [] is_a: WBPhenotype:0000930 ! sexually dimorphic development variant [Term] id: WBPhenotype:0000823 name: germline proliferation variant def: "Nuclear divisions in the germ line are either expanded are reduced compared to control." [WB:cab] synonym: "germ cell proliferation abnormal" RELATED [] synonym: "germ line proliferation abnormal" EXACT [] synonym: "germline proliferation abnormal" NARROW [] synonym: "Glp" BROAD [] is_a: WBPhenotype:0000812 ! germ cell development variant [Term] id: WBPhenotype:0000824 name: embryonic cell lineage variant def: "The descendants of an embryonic precursor cell exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "embryonic cell lineage abnormal" NARROW [] is_a: WBPhenotype:0000093 ! lineage variant [Term] id: WBPhenotype:0000825 name: postembryonic cell lineage variant def: "The descendants of a postembryonic precursor cell exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "postembryonic cell lineage abnormal" NARROW [] is_a: WBPhenotype:0000093 ! lineage variant [Term] id: WBPhenotype:0000826 name: H lineages variant def: "The descendants of H1 or H2 cells exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "H lineages abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000827 name: V lineages variant def: "The descendants of any of the V precursor cells (V1-V6) exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "V lineages abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000828 name: T lineages variant def: "The descendants of TL or TR cells exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "T lineages abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000829 name: Q lineage variant def: "The descendants of Q L or QR cells exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Q lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000830 name: B lineage variant def: "The descendants of the B cell (which divides only in the males) exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "B lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000831 name: Y lineage variant def: "The descendants of the Y cell (which divides only in the males) exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Y lineage abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000832 name: C lineage variant def: "The descendants of the C blastomere exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPaper00001584, WB:WBPerson2021] synonym: "C lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000833 name: U lineage variant def: "The descendants of the U cell (which divides only in the males) exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "U lineage abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000834 name: E lineage variant def: "The descendants of the E blastomere exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPaper00002870, WB:WBPerson2021] synonym: "E lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000835 name: F lineage variant def: "The descendants of the F cell (which divides only in the males) exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "F lineage abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000836 name: gonadal lineage variant def: "The descendants of a gonadal precursor cell exhibit altered developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "gonadal lineage abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000837 name: hermaphrodite gonadal lineage variant def: "The descendants of a gonadal precursor cell exhibit altered developmental programs in the hermaphrodite compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "hermaphrodite gonadal lineage abnormal" NARROW [] is_a: WBPhenotype:0000836 ! gonadal lineage variant [Term] id: WBPhenotype:0000838 name: male gonadal lineage variant def: "The descendants of a gonadal precursor cell exhibit altered developmental programs in the male compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male gonadal lineage abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant is_a: WBPhenotype:0000836 ! gonadal lineage variant [Term] id: WBPhenotype:0000839 name: Z1 hermaphrodite lineage variant def: "Z1 descendants exhibit altered developmental programs in the hermaphrodite compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Z1 hermaphrodite lineage abnormal" NARROW [] is_a: WBPhenotype:0000837 ! hermaphrodite gonadal lineage variant [Term] id: WBPhenotype:0000840 name: Z4 hermaphrodite lineage variant def: "Z4 descendants exhibit altered developmental programs in the hermaphrodite compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Z4 hermaphrodite lineage abnormal" NARROW [] is_a: WBPhenotype:0000837 ! hermaphrodite gonadal lineage variant [Term] id: WBPhenotype:0000841 name: Z1 male lineage variant def: "Z1 descendents exhibit altered developmental programs in the male compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Z1 male lineage abnormal" NARROW [] is_a: WBPhenotype:0000838 ! male gonadal lineage variant [Term] id: WBPhenotype:0000842 name: Z4 male lineage variant def: "Z4 descendants exhibit altered developmental programs in the male compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "Z4 male lineage abnormal" NARROW [] is_a: WBPhenotype:0000838 ! male gonadal lineage variant [Term] id: WBPhenotype:0000843 name: male mating efficiency reduced def: "The number of cross progeny sired by males is reduced compared to control." [WB:WBPaper00000179, WB:WBPaper00000608, WB:WBPerson557] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0000844 name: serotonin induced pumping variant def: "Pharyngeal pumping is not influenced by serotonin treatment in the same manner as control animals." [WB:WBPerson2021] synonym: "serotonin induced pumping abnormal" NARROW [] is_a: WBPhenotype:0000024 ! serotonin resistant is_a: WBPhenotype:0001232 ! serotonin response variant is_a: WBPhenotype:0001285 ! induced pharyngeal pumping variant [Term] id: WBPhenotype:0000845 name: levamisole response variant def: "Animals exhibit variations in the response to the addition of levamisole compared to that observed in control animals. Levamisole is a cholinergic agonist." [WB:WBPerson557] synonym: "levamisole response abnormal" NARROW [] synonym: "tetramisole response abnormal" RELATED [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0000846 name: presynaptic region physiology variant def: "Animals exhibit variations in any physical or chemical process in the region of the vesicle-filled varicosities of the synapse compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "presynaptic region physiology abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0000847 name: presynaptic component localization variant def: "Animals display variations in the distribution of the constituents that make up the synaptic machinery such as those required for priming, docking or fusion of vesicles at the active zone, compared to that observed in control animals." [WB:WBPaper00027305, WB:WBPerson712] synonym: "presynaptic component localization abnormal" NARROW [] synonym: "synaptic component localization abnormal" RELATED [] synonym: "synaptic machinery localization abnormal" RELATED [] is_a: WBPhenotype:0001321 ! presynaptic region morphology variant [Term] id: WBPhenotype:0000848 name: developmental delay def: "The developmental progression of an animal over time, from its formation to its mature structure is delayed compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0000849 name: amphid physiology variant def: "Animals exhibit variations in any physical or chemical process required for an amphid to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson557] synonym: "amphid physiology abnormal" NARROW [] is_a: WBPhenotype:0000652 ! sensory system variant [Term] id: WBPhenotype:0000850 name: touch resistant anterior body def: "Animal does not respond to stroking in the anterior body region with a hair or similar fiber compared to control. In C. elegans, the anterior region is defined as the body region that lies between the posterior bulb of the pharynx and the vulva." [WB:WBPaper00000502, WB:WBPaper00001705, WB:WBPerson557] synonym: "touch insensitive anterior body" RELATED [] is_a: WBPhenotype:0000456 ! touch resistant [Term] id: WBPhenotype:0000851 name: ciliated neuron physiology variant def: "Animals exhibit variations in any physical or chemical process required for the ciliated neuron to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "ciliated neuron physiology abnormal" NARROW [] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0000852 name: coelomocyte development variant def: "Variations in the progression of a free-floating spherical cell lying in the pseudocoelomic cavity of animals that can endocytose many compounds, possibly for immune surveillance, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "coelomocyte development abnormal" NARROW [] is_a: WBPhenotype:0000618 ! coelomic system development variant [Term] id: WBPhenotype:0000853 name: intraflagellar transport variant def: "Variations in the bidirectional movement of large protein complexes (mediated by motor proteins) along microtubules within a cilium or flagellum, compared to control." [GO:0042073, WB:WBPerson2021] synonym: "IFT abnormal" RELATED [] synonym: "intraflagellar transport abnormal" NARROW [] is_a: WBPhenotype:0000851 ! ciliated neuron physiology variant [Term] id: WBPhenotype:0000854 name: intraflagellar transport defective def: "Bidirectional movement of large protein complexes (mediated by motor proteins) along microtubules within a cilium or flagellum is disrupted." [WB:WBPerson2021] synonym: "ift defective" RELATED [] is_a: WBPhenotype:0000853 ! intraflagellar transport variant [Term] id: WBPhenotype:0000855 name: pseudocoelom development variant def: "Variations in the progression of the fluid-filled space which separates the body wall from internal organs over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "pseudocoelom development abnormal" NARROW [] is_a: WBPhenotype:0000200 ! pericellular component development variant [Term] id: WBPhenotype:0000856 name: excretory gland cell development variant def: "Any variation in the progression of a gland cell of the secretory-excretory system over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "excretory gland cell development abnormal" NARROW [] is_a: WBPhenotype:0000620 ! excretory secretory system development variant is_a: WBPhenotype:0000813 ! gland cell development variant [Term] id: WBPhenotype:0000857 name: excretory cell development variant def: "Variations in the progression of a protokidney cell with an internal lumen that is suggested to collect and secrete salt solutions outward via the excretory sinus, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "excretory canal cell development abnormal" RELATED [] synonym: "excretory cell development abnormal" NARROW [] is_a: WBPhenotype:0000621 ! excretory system development variant [Term] id: WBPhenotype:0000858 name: excretory duct cell development variant def: "Variations in the progression of an interfacial epithelial cell which forms a lumen to receive the outflow of the excretory gland and excretory canal cells, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "excretory duct cell development abnormal" NARROW [] is_a: WBPhenotype:0000621 ! excretory system development variant [Term] id: WBPhenotype:0000859 name: excretory socket cell development variant def: "Variations in the progression of an interfacial epithelial cell which links excretory duct to hypodermis, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "excretory pore cell development abnormal" RELATED [] synonym: "excretory socket cell development abnormal" NARROW [] is_a: WBPhenotype:0000621 ! excretory system development variant [Term] id: WBPhenotype:0000860 name: nonstriated muscle development variant def: "Variations in the progression of muscle cells that lack transverse striations in its constituent fibers and are almost always involuntary, over time from an initial condition to a later condition compared to control animals." [GO:0051145, WB:WBPerson2021, WB:WBPerson557] synonym: "nonstriated muscle development abnormal" NARROW [] is_a: WBPhenotype:0000622 ! muscle system development variant [Term] id: WBPhenotype:0000861 name: body wall muscle development variant def: "Any variation in the progression of the principal muscle cell type whose contractile activity generates body motion in the nematode over time compared to control. In C. elegans they consist of 95 unfused cells in the adult organized into four muscle quadrants. Their sarcomeres are obliquely striated and lie lengthwise along the body wall (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "body wall muscle cell development abnormal" NARROW [] synonym: "body wall muscle cell development variant" NARROW [] synonym: "body wall muscle development abnormal" EXACT [] synonym: "muscle belly development abnormal" RELATED [] synonym: "somatic muscle development abnormal" RELATED [] synonym: "striated muscle development abnormal" RELATED [] is_a: WBPhenotype:0000921 ! striated muscle development variant is_a: WBPhenotype:0001292 ! body wall muscle physiology variant [Term] id: WBPhenotype:0000862 name: bloated def: "Worms appears turgid or swollen as a result of an excess number of eggs being retained in the uterus." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000545 ! egg retention [Term] id: WBPhenotype:0000863 name: male fertility reduced def: "Males exhibit a reduction in the production of new individuals owing to defects in sperm competence and/or function compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000784 ! male fertility variant is_a: WBPhenotype:0001384 ! fertility reduced [Term] id: WBPhenotype:0000864 name: early elongation arrest def: "Cessation of development during the initial period of elongation. In C. elegans, this period refers to the conversion of the bean-shaped embryo into the two-fold- shaped embryo." [WB:WBPaper00027244] is_a: WBPhenotype:0000867 ! embryonic arrest [Term] id: WBPhenotype:0000865 name: amphid sheath cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for a amphid sheath cell to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson557] synonym: "amphid sheath cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000849 ! amphid physiology variant is_a: WBPhenotype:0000975 ! neuronal sheath cell physiology variant [Term] id: WBPhenotype:0000866 name: germ cell arrest def: "Germ cells fail to undergo meiotic differentiation to form mature gametes." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000823 ! germline proliferation variant [Term] id: WBPhenotype:0000867 name: embryonic arrest def: "Cessation of development during any stage occurring after fertilization and until hatching compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0000868 name: paralyzed body def: "All parts of the animal are immobilized except for the head." [WB:cab] is_a: WBPhenotype:0000644 ! paralyzed [Term] id: WBPhenotype:0000869 name: obsolete mitochondria morphology variant muscle def: "OBSOLETE." [WB:WBPerson557] synonym: "mitochondria morphology abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0001401 [Term] id: WBPhenotype:0000870 name: obsolete mitochondria morphology variant epithelial def: "OBSOLETE." [WB:WBPerson557] synonym: "mitochondria morphology abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0001401 [Term] id: WBPhenotype:0000871 name: obsolete connected mitochondria epithelial def: "OBSOLETE." [WB:WBPerson557] is_obsolete: true consider: WBPhenotype:0001402 [Term] id: WBPhenotype:0000872 name: obsolete connected mitochodria muscle def: "OBSOLETE." [WB:WBPerson557] is_obsolete: true consider: WBPhenotype:0001402 [Term] id: WBPhenotype:0000873 name: G1 checkpoint variant def: "Mitotic cells exhibit variations during the passage through a cell cycle control point late in the G1 phase of the mitotic cell cycle just before entry into S phase, compared to control cells." [GO:0007089, WB:WBPerson557, WB:WBPerson712] synonym: "G1 checkpoint abnormal" NARROW [] is_a: WBPhenotype:0000741 ! DNA damage checkpoint variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0000874 name: G2 checkpoint variant def: "Mitotic cells exhibit variations during the passage through a cell cycle control point late in the G2 phase of the mitotic cell cycle just before entry into M phase, nuclear division, compared to control cells." [GO:0000075, WB:WBPerson557, WB:WBPerson712] synonym: "G2 checkpoint abnormal" NARROW [] is_a: WBPhenotype:0000741 ! DNA damage checkpoint variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0000875 name: S phase checkpoint variant def: "Mitotic cells exhibit variations during the passage through a cell cycle control point late in the S phase of the mitotic cell cycle, which ensures DNA replication is complete, compared to control cells." [GO:0033314, WB:WBPerson712] synonym: "S phase checkpoint abnormal" NARROW [] is_a: WBPhenotype:0000741 ! DNA damage checkpoint variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0000876 name: organism osmotic stress response variant def: "Animals exhibit variations in their response to osmotic stress compared to that observed in control animals." [WB:WBPerson557] synonym: "organism osmotic stress response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0000877 name: amphid sheath cell development variant def: "Any variation in the progression of a sheath cell of the amphid sensillum over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "amphid sheath cell development abnormal" NARROW [] is_a: WBPhenotype:0000950 ! neuronal sheath cell development variant [Term] id: WBPhenotype:0000878 name: chemosensory neuron development variant def: "Any variation in the progression of a chemosensory neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "chemosensory neuron development abnormal" NARROW [] is_a: WBPhenotype:0000816 ! neuron development variant [Term] id: WBPhenotype:0000879 name: telomere length regulation variant def: "Animals exhibit variations in the processes that are required to maintain the length of telomeric DNA from generation to generation compared to control." [GO:0032204, WB:WBPaper00031585, WB:WBPerson712] synonym: "telomere length regulation abnormal" NARROW [] is_a: WBPhenotype:0001673 ! telomere homeostasis variant [Term] id: WBPhenotype:0000880 name: axon development variant def: "Any variation in the processes that influence the generation of neuronal extensions, that carry efferent (outgoing) action potentials from the cell body towards target cells compared to control." [GO:0007409, WB:WBPerson2021, WB:WBPerson557] synonym: "axon development abnormal" NARROW [] synonym: "axonogenesis abnormal" RELATED [] is_a: WBPhenotype:0000944 ! neurite development variant [Term] id: WBPhenotype:0000881 name: cilia mislocalized def: "Animals exhibit variations in the placement of the microtuble-based dendritic projections in relation to the sensillum neuron, from that observed in control animals." [WB:WBPerson712] is_a: WBPhenotype:0001526 ! ciliated neuron morphology variant [Term] id: WBPhenotype:0000882 name: dendrite development variant def: "Any variation in the processes that influence the generation of neuronal extensions, that carry afferent (incoming) action potentials towards the cell body compared to control." [GO:0016358, WB:WBPerson2021] synonym: "dendrite development abnormal" NARROW [] is_a: WBPhenotype:0000944 ! neurite development variant [Term] id: WBPhenotype:0000883 name: nerve ring development variant def: "Variations in the progression of the major zone of overlapping axons in the head, which encircles the isthmus of the pharynx to form a tightly packed ring-like structure on the outside of the pharynx, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "nerve ring development abnormal" NARROW [] is_a: WBPhenotype:0000945 ! neuropil development variant [Term] id: WBPhenotype:0000884 name: AWB morphology variant def: "Animals exhibit variations in the structure or organization of either of a set of two ciliated wing neurons, AWBL or AWBR, of the amphid sensilla, compared to that observed in control animals." [WB:WBPaper00000938, WB:WBPerson712] comment: WBbt:0005671. synonym: "AWB morphology abnormal" NARROW [] is_a: WBPhenotype:0000255 ! amphid phasmid morphology variant is_a: WBPhenotype:0000256 ! amphid morphology variant is_a: WBPhenotype:0001526 ! ciliated neuron morphology variant is_a: WBPhenotype:0001527 ! amphid phasmid sensillum morphology variant [Term] id: WBPhenotype:0000885 name: engulfment variant def: "Any variation in the removal of a cell corpse, by a neighboring cell or a phagocyte compared to control." [GO:0043652, WB:WBPerson2021] synonym: "engulfment abnormal" NARROW [] synonym: "phagocytosis abnormal" RELATED [] is_a: WBPhenotype:0000730 ! apoptosis variant is_a: WBPhenotype:0001752 ! vesicle trafficking variant [Term] id: WBPhenotype:0000886 name: Variant def: "Animals exhibit variations compared to a given control." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "Abnormal" NARROW [] synonym: "not wildtype" RELATED [] synonym: "not WT" RELATED [] [Term] id: WBPhenotype:0000887 name: hermaphrodite behavior variant def: "Animals exhibit variations in hermaphrodite-specific behaviors compared to control." [WB:WBPerson557] synonym: "hermaphrodite behavior abnormal" NARROW [] is_a: WBPhenotype:0000821 ! sexually dimorphic behavior variant [Term] id: WBPhenotype:0000888 name: male behavior variant def: "Animals exhibit variations in male-specific behaviors compared to control." [WB:WBPerson557] synonym: "male behavior abnormal" NARROW [] is_a: WBPhenotype:0000821 ! sexually dimorphic behavior variant [Term] id: WBPhenotype:0000889 name: sexually dimorphic physiology variant def: "Animals exhibit variations in any physical or chemical process required to carry out sex-specific activities or to be able to perceive and respond to sex-specific stimuli compared to control." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "sexually dimorphic physiology abnormal" NARROW [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0000890 name: larval pigmentation variant def: "Larva exhibit variations in the accumulation or expression of biochromes or any other substances that alter its transparency/translucency compared to control animals." [WB:WBPerson557] synonym: "larval pigmentation abnormal" NARROW [] is_a: WBPhenotype:0001009 ! developmental pigmentation variant [Term] id: WBPhenotype:0000891 name: clear adult def: "Adult animals appear unusually transparent when compared to control." [WB:WBPerson557] synonym: "Clr" BROAD [] is_a: WBPhenotype:0000346 ! adult pigmentation variant is_a: WBPhenotype:0001010 ! clear [Term] id: WBPhenotype:0000892 name: hermaphrodite germline proliferation variant def: "Nuclear divisions in the germ line of hermaphrodites are either expanded are reduced compared to control." [WB:WBPerson2021] synonym: "hermaphrodite germ cell proliferation abnormal" RELATED [] synonym: "hermaphrodite germ line proliferation abnormal" RELATED [] synonym: "hermaphrodite germline proliferation abnormal" NARROW [] is_a: WBPhenotype:0000823 ! germline proliferation variant [Term] id: WBPhenotype:0000893 name: male germline proliferation variant def: "Nuclear divisions in the germ line of male animals are either expanded are reduced compared to control." [WB:WBPerson2021] synonym: "male germ cell proliferation abnormal" RELATED [] synonym: "male germ line proliferation abnormal" RELATED [] synonym: "male germline proliferation abnormal" NARROW [] is_a: WBPhenotype:0000823 ! germline proliferation variant [Term] id: WBPhenotype:0000894 name: germ cell differentiation variant def: "Variations in the ability of a relatively unspecialized cell to acquire the specialized features of a mature gamete compared to control." [WB:WBPerson2021] synonym: "germ cell differentiation abnormal" NARROW [] is_a: WBPhenotype:0000774 ! gametogenesis variant [Term] id: WBPhenotype:0000895 name: obsolete spermatocyte germ cell differentiation abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000670 [Term] id: WBPhenotype:0000896 name: obsolete oocyte germ cell differentiation abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000186 [Term] id: WBPhenotype:0000897 name: connective tissue development variant def: "Variations in the material made up of fibers forming a framework and support structure for body tissues and organs compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "connective tissue abnormal" NARROW [] is_a: WBPhenotype:0000200 ! pericellular component development variant [Term] id: WBPhenotype:0000898 name: blast cell morphology variant def: "Any variation in the morphological appearance of blast cells compared to control animals." [WB:cab] synonym: "blast cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000899 name: epithelial cell morphology variant def: "Any variation in the morphological appearance of epithelial cells compared to control animals." [WB:WBPerson557] synonym: "epithelial cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000900 name: germ cell morphology variant def: "Any variation in the morphological appearance of germ cells compared to control animals." [WB:cab] synonym: "germ cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000901 name: gland cell morphology variant def: "Any variation in the morphological appearance of gland cells compared to control animals." [WB:cab] synonym: "gland cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000902 name: intestinal cell morphology variant def: "Any variation in the morphological appearance of intestinal cells compared to control animals." [WB:cab] synonym: "intestinal cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000710 ! intestinal morphology variant is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000903 name: marginal cell morphology variant def: "Any variation in the morphological appearance of marginal cells compared to control animals." [WB:cab] synonym: "marginal cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000899 ! epithelial cell morphology variant [Term] id: WBPhenotype:0000904 name: muscle cell morphology variant def: "Any variation in the morphological appearance of muscle cells compared to control animals." [WB:cab] synonym: "muscle cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000905 name: neuron morphology variant def: "Animals display variations in the structure or organization of components of the neuronal cell internal to the cell itself or in relation to the cellular environment compared to control. A neuron is a major cell type of nervous tissue specialized for transmission of information in the form of patterns of impulses." [WB:cab, WB:WBPerson712] comment: WBbt:0003679. synonym: "neuron morphology abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000906 name: uterine vulval cell morphology variant def: "Animals exhibit variations in the form, structure or composition of the epithelial cells that form the interface between the uterus and the vulva (likely via a multilayered set of flaps) compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "uterine vulval cell morphology abnormal" NARROW [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0000907 name: anus morphology variant def: "Any variation in the structural appearance of the caudal opening of the rectum in the tail compared to control animals." [WB:WBPerson557] synonym: "anus morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000908 name: cloacal morphology variant alt_id: WBPhenotype:0000343 def: "Any variation in the structural appearance of the epithelial chamber that links the genital and alimentary tracts to the exterior via the anus (cloacal opening) compared to control animals." [WB:WBPerson557] synonym: "cloaca morphology abnormal" EXACT [] synonym: "cloacal morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant is_a: WBPhenotype:0000605 ! reproductive system morphology variant [Term] id: WBPhenotype:0000909 name: pharyngeal intestinal valve morphology variant def: "Any variation in the structure or appearance of the cells that form a narrow passage connecting the posterior bulb of the pharynx to the anterior intestine compared to control. In C. elegans this valve is composed of 3 pairs of cells each forming a flattened disc-like ring and is lined by a layer of cuticle (Wormatlas)." [WB:WBPerson557] synonym: "pharyngeal intestinal valve morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000910 name: rectal morphology variant def: "Any variation in the morphological appearance of the rectum compared to control animals." [WB:WBPerson557] synonym: "rectal morphology abnormal" NARROW [] is_a: WBPhenotype:0000598 ! alimentary system morphology variant [Term] id: WBPhenotype:0000911 name: coelomocyte morphology variant def: "Any variation in the morphological appearance of coelomocytes compared to control animals." [WB:WBPerson557] synonym: "coelomocyte morphology abnormal" NARROW [] is_a: WBPhenotype:0000533 ! cell morphology variant is_a: WBPhenotype:0000599 ! coelomic system morphology variant [Term] id: WBPhenotype:0000912 name: pericellular component morphology variant def: "Any variation in the morphological appearance of pericellular components compared to control animals." [WB:WBPerson557] subset: phenotype_slim_wb synonym: "pericellular component morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000913 name: basal lamina morphology variant def: "Any variation in the morphological appearance of the basal lamina compared to control animals." [WB:WBPerson557] synonym: "basal lamina morphology abnormal" NARROW [] is_a: WBPhenotype:0000600 ! epithelial system morphology variant is_a: WBPhenotype:0001523 ! extracellular matrix variant [Term] id: WBPhenotype:0000914 name: excretory gland cell morphology variant def: "Animals exhibit variations in the form, structure or composition of a pair of large cells in the head that fuse to form a single gland whose contents are released into the excretory duct through a specialized secretory membrane, compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "excretory gland cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000601 ! excretory secretory system morphology variant is_a: WBPhenotype:0000901 ! gland cell morphology variant [Term] id: WBPhenotype:0000915 name: pale adult def: "Adults show deficiencies in chroma resulting in increased translucency." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000346 ! adult pigmentation variant is_a: WBPhenotype:0001261 ! pale [Term] id: WBPhenotype:0000916 name: excretory cell morphology variant def: "Any variation in the morphological appearance of the excretory cell compared to control animals." [WB:WBPerson557] synonym: "excretory canal cell morphology abnormal" RELATED [] synonym: "excretory cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000533 ! cell morphology variant is_a: WBPhenotype:0000601 ! excretory secretory system morphology variant [Term] id: WBPhenotype:0000917 name: excretory duct cell morphology variant def: "Any variation in the morphological appearance of the excretory duct cell compared to control animals." [WB:WBPerson557] synonym: "excretory duct cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000601 ! excretory secretory system morphology variant is_a: WBPhenotype:0000899 ! epithelial cell morphology variant [Term] id: WBPhenotype:0000918 name: excretory socket cell morphology variant def: "Any variation in the morphological appearance of the excretory socket cell compared to control animals." [WB:WBPerson557] synonym: "excretory socket cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000601 ! excretory secretory system morphology variant is_a: WBPhenotype:0000899 ! epithelial cell morphology variant [Term] id: WBPhenotype:0000919 name: body wall muscle cell spindle development variant def: "Any variation in the progression of the region of a body wall muscle cell that contains the myofilament lattice (adjacent to the hypodermis) over time, from its initial state to the fully differentiated state compared to control." [WB:WBPaper00000461, WB:WBPerson2021, WB:WBPerson557] synonym: "filament lattice body wall muscle cell development abnormal" RELATED [] synonym: "spindle body wall muscle cell development abnormal" NARROW [] synonym: "spindle body wall muscle cell development variant" RELATED [] is_a: WBPhenotype:0000087 ! body wall cell development variant [Term] id: WBPhenotype:0000920 name: obsolete body wall muscle cell development variant def: "OBSOLETE." [WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0000861 [Term] id: WBPhenotype:0000921 name: striated muscle development variant def: "Variations in the progression of muscle cells that contain fibers that are divided by transverse bands into striations, over time from an initial condition to a later condition compared to control animals." [GO:0055002, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "striated muscle development abnormal" NARROW [] is_a: WBPhenotype:0000622 ! muscle system development variant is_a: WBPhenotype:0000990 ! muscle cell physiology variant [Term] id: WBPhenotype:0000922 name: male longitudinal muscle development variant def: "Any variation in the progression of somatic (striated) muscles that run longitudinally in males over time from its initial formation to its mature form compared to control. In C. elegans males have 3 additional sets of sex-specific longitudinal muscles (anterior and posterior outer, anterior and posterior inner, and caudal) that contribute to the body wall musculature (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "male longitudinal muscle development abnormal" NARROW [] is_a: WBPhenotype:0000921 ! striated muscle development variant [Term] id: WBPhenotype:0000923 name: nonstriated muscle morphology variant def: "Any variation in the morphological appearance of the nonstriated muscle compared to control animals." [WB:WBPerson557] synonym: "nonstriated muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0000603 ! muscle system morphology variant is_a: WBPhenotype:0000904 ! muscle cell morphology variant [Term] id: WBPhenotype:0000924 name: striated muscle morphology variant def: "Any variation in the morphological appearance of the striated muscle compared to control animals." [WB:WBPerson557] synonym: "striated muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0000603 ! muscle system morphology variant is_a: WBPhenotype:0000904 ! muscle cell morphology variant [Term] id: WBPhenotype:0000925 name: sex muscle morphology variant def: "Any variation in the morphological appearance of the sex muscles compared to control animals." [WB:WBPerson557] synonym: "sex muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0000923 ! nonstriated muscle morphology variant [Term] id: WBPhenotype:0000926 name: body wall muscle morphology variant def: "Any variation in the morphological appearance of the body wall muscle compared to control animals." [WB:WBPerson557] synonym: "body wall muscle morphology abnormal" NARROW [] synonym: "Dim" RELATED [] is_a: WBPhenotype:0000924 ! striated muscle morphology variant [Term] id: WBPhenotype:0000927 name: male longitudinal muscle morphology variant def: "Any variation in the morphological appearance of the male longitudinal muscle compared to control animals." [WB:WBPerson557] synonym: "male longitudinal muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0000923 ! nonstriated muscle morphology variant is_a: WBPhenotype:0000924 ! striated muscle morphology variant [Term] id: WBPhenotype:0000928 name: male physiology variant def: "Animals exhibit variations in any physical or chemical process required to carry out male-specific activities or to be able to perceive and respond to male-specific stimuli compared to control." [WB:WBPerson557] synonym: "male physiology abnormal" NARROW [] is_a: WBPhenotype:0000889 ! sexually dimorphic physiology variant [Term] id: WBPhenotype:0000929 name: hermaphrodite physiology variant def: "Animals exhibit variations in any physical or chemical process required to carry out hermaphrodite-specific activities or to be able to perceive and respond to hermaphrodite-specific stimuli compared to control." [WB:WBPerson557] synonym: "hermaphrodite physiology abnormal" NARROW [] is_a: WBPhenotype:0000889 ! sexually dimorphic physiology variant [Term] id: WBPhenotype:0000930 name: sexually dimorphic development variant def: "Variations in the progression of morphogenic processes required for formation or proper placement of sex-specific structures that distinguish the animal as one sex or the other in the population, over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "sexually dimorphic development abnormal" NARROW [] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0000931 name: bis phenol A response variant def: "Animals exhibit variations in their response to bis phenol A compared to that observed in control animals." [WB:WBPerson557] synonym: "bis phenol A response abnormal" NARROW [] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0000932 name: bis phenol A hypersensitive def: "Animals respond to bis phenol A at a lower concentration or a shorter exposure time compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000931 ! bis phenol A response variant [Term] id: WBPhenotype:0000933 name: MS lineage variant def: "The descendants of the MS blastomere exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPaper00002330, WB:WBPerson2021] synonym: "MS lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000934 name: developmental morphology variant def: "Animals exhibit variations in the form, structure or composition of any of its parts during a given developmental stage compared to control animals." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "developmental morphology abnormal" NARROW [] is_a: WBPhenotype:0000520 ! morphology variant [Term] id: WBPhenotype:0000935 name: D lineage variant def: "The descendants of the D blastomere exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPaper00002572, WB:WBPerson2021] synonym: "D lineage abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000936 name: P4 lineage variant def: "The descendants of the P4 blastomere exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "P4 lineage abnormal" NARROW [] is_a: WBPhenotype:0000824 ! embryonic cell lineage variant [Term] id: WBPhenotype:0000937 name: W lineage variant def: "The descendants of the W precursor cell exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "W lineage abnormal" NARROW [] is_a: WBPhenotype:0000825 ! postembryonic cell lineage variant [Term] id: WBPhenotype:0000938 name: male V lineages variant def: "The descendants of any of the V precursor cells (V1-V6) in male animals, exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male V lineages abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000939 name: male T lineages variant def: "The descendants of TL or TR cells in male animals exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male T lineages abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000940 name: male P lineages variant def: "The descendants of any of the P precursor cells (P1-P12) in male animals exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male P lineages abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000941 name: male M lineage variant def: "The descendants of the M precursor cell in male animals, exhibit any variation in developmental programs compared to their counterparts in control animals." [WB:WBPerson2021] synonym: "male M lineage abnormal" NARROW [] is_a: WBPhenotype:0000809 ! male specific lineage variant [Term] id: WBPhenotype:0000942 name: accessory cell development variant def: "Any variation in the progression of an accessory cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control. An accessory cell supports sensory neurons." [WB:WBPerson2021, WB:WBPerson557] synonym: "accessory cell development abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0000943 name: ganglion development variant def: "Any variation in the progression of a cluster of neuron cell bodies (somata) over time from its initial formation to its mature form compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0000944 name: neurite development variant def: "Variations in the progression of a neuronal extension (such as axons or dendrites) over time, from its formation to the mature structure compared to control." [GO:0031175, WB:WBPerson2021] synonym: "neurite development abnormal" NARROW [] is_a: WBPhenotype:0000816 ! neuron development variant [Term] id: WBPhenotype:0000945 name: neuropil development variant def: "Any variation in the progression of a dense feltwork of interwoven cytoplasmic processes of nerve cells (dendrites and axons) and support cells, over time from an initial condition to a later condition, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuropil development abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0000946 name: pharyngeal nervous system development variant def: "Variations in the progression of a set of interacting or interdependent entities forming the pharyngeal nervous system over time from an initial condition to a later condition compared to control animals. The nervous system is involved in the coordination and control of bodily activities and the interpretation of information from the senses." [GO:0007420, WB:WBPerson2021, WB:WBPerson557] synonym: "pharyngeal nervous system development abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0000947 name: connective tissue morphology variant def: "Variations in the form, structure or composition of the material made up of fibers forming a framework and support structure for body tissues and organs compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "connective tissue morphology abnormal" NARROW [] is_a: WBPhenotype:0000912 ! pericellular component morphology variant [Term] id: WBPhenotype:0000948 name: cuticle morphology variant def: "Any variation in the appearance or structure of the rigid external coating which is secreted by the hypodermis, seam and some interfacial epithelial cells compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "cuticle morphology abnormal" NARROW [] is_a: WBPhenotype:0000912 ! pericellular component morphology variant [Term] id: WBPhenotype:0000949 name: pseudocoelom morphology variant def: "Any variation in the appearance of the body cavity compared to control. In C. elegans , an aberrancy in the psedocoelom can involve an accumulation of fluids or fluorescent reporters." [WB:WBPerson712] synonym: "pseudocoelom morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000912 ! pericellular component morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0000950 name: neuronal sheath cell development variant def: "Any variation in the progression of a neuronal sheath cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control. A neuronal sheath cell is a structural cell that forms a specialized environment surrounding the sensory endings of a neuron." [WB:WBPerson2021] synonym: "neuronal sheath cell development abnormal" NARROW [] is_a: WBPhenotype:0000942 ! accessory cell development variant [Term] id: WBPhenotype:0000951 name: socket cell development variant def: "Any variation in the progression of a socket cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell compared to control." [WB:WBPerson2021] synonym: "socket cell development abnormal" NARROW [] is_a: WBPhenotype:0000942 ! accessory cell development variant [Term] id: WBPhenotype:0000952 name: anterior ganglion development variant def: "Any variation in the progression of a cluster of neuron somata located close to the nerve ring over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "anterior ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000953 name: dorsal ganglion development variant def: "Any variation in the progression of the ganglion that lies dorsally beside the nerve ring in the head over time from its initial formation to its mature form compared to control. In C. elegans, It contains neuron cell bodies that send their neuronal processes into the ring and longitudinal nerves, but form no local neuropil separate from the nerve ring. The dorsal ganglion is in close contact with the dorsal hypodermal cord (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dorsal ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000954 name: dorsorectal ganglia development variant def: "Any variation in the progression of the ganglion which lies above and behind the rectum in the tail, in close continuity with the anal hypodermal ridge over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dorsorectal ganglia development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000955 name: lateral ganglia development variant def: "Any variation in the progression of the left and right lateral ganglia which lie beside the nerve ring in the head over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "lateral ganglia development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000956 name: lumbar ganglia development variant def: "Any variation in the progression of the left and right lumbar ganglia which lie behind the pre-anal ganglion in the tail, in lateral positions over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "lumbar ganglia development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000957 name: posterior lateral ganglion development variant def: "Any variation in the progression of the neuron somata associated with the post-deirid over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "posterior lateral ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000958 name: preanal ganglion development variant def: "Any variation in the progression of the ganglion which lies at the posterior limit of the ventral nerve cord in the tail over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "preanal ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000959 name: retrovesicular ganglion development variant def: "Any variation in the progression of the ganglion which lies at the anterior limit of the ventral nerve cord, near the ventral ganglion and nerve ring in the head posterior to the excretory pore over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "retrovesicular ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000960 name: ventral ganglion development variant def: "Any variation in the progression of the ganglion which lies ventrally beside the nerve ring in the head, just anterior of the retrovesicular ganglion over time from its initial formation to its mature form compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "ventral ganglion development abnormal" NARROW [] is_a: WBPhenotype:0000943 ! ganglion development variant [Term] id: WBPhenotype:0000961 name: pattern of transgene expression variant def: "Any variation in the cellular or subcellular pattern of expression of a gene product produced by exogenous DNA that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] synonym: "pattern of transgene expression abnormal" NARROW [] is_a: WBPhenotype:0000306 ! transgene expression variant [Term] id: WBPhenotype:0000962 name: level of transgene expression variant def: "Any variation in the measured expression of a gene product produced by exogenous DNA that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] synonym: "level of transgene expression abnormal" NARROW [] is_a: WBPhenotype:0000306 ! transgene expression variant [Term] id: WBPhenotype:0000963 name: male pigmentation variant def: "Males exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of the organism compared to control animals." [WB:WBPerson557] synonym: "male pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000518 ! development variant is_a: WBPhenotype:0001009 ! developmental pigmentation variant is_a: WBPhenotype:0001024 ! male morphology variant [Term] id: WBPhenotype:0000964 name: DMPP resistant def: "Animals fail to respond to the concentration of DMPP that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000681 ! DMPP response variant [Term] id: WBPhenotype:0000965 name: somatic cell death variant def: "Animals exhibit variations in the programmed cell death pathway that is triggered in cells other than germ cells and that is not subject to upstream checkpoint regulation." [WB:WBPaper00032243, WB:WBPerson712] synonym: "somatic cell death abnormal" NARROW [] is_a: WBPhenotype:0001172 ! programmed cell death variant [Term] id: WBPhenotype:0000966 name: germline mortal def: "Progressive decrease in brood size culminating, over generations, in the loss of reproductive ability and thus becoming effectively sterile." [WB:WBPaper00003886, WB:WBPaper00027026, WB:WBPerson712] synonym: "Mrt" BROAD [] is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0000967 name: obsolete male tail spike def: "OBSOLETE." [] comment: In the WS193 and WS200 versions of WormBase WBPhenotype:0000967 has term name "male tail spike"; In some older records the term ID WBPhenotype:0000967 had the term name "male distal tip cell behavior abnormal", which may reflect an earlier (now deprecated) usage of the term ID. is_obsolete: true replaced_by: WBPhenotype:0001431 [Term] id: WBPhenotype:0000968 name: tail spike variant def: "Any variation in the structure or appearance of the thin cuticle specialization found at the extreme posterior end of the tail compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0000969 name: accessory cell morphology variant def: "Animals exhibit variations in the structure, organization or placement of the cells that support sensory neurons, compared to that observed in control animals. In C. elegans, this category collectively refers to socket cells, sheath cells, and structural cells, or their processes." [WB:WBPerson557, WB:WBPerson712] comment: WBbt:0005762. synonym: "accessory cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000533 ! cell morphology variant is_a: WBPhenotype:0000604 ! nervous system morphology variant [Term] id: WBPhenotype:0000970 name: embryonic pigmentation variant def: "Embryos exhibit variations in the accumulation or expression of biochromes or any other substances that alter its transparency/translucency compared to control animals ." [WB:WBPerson557] synonym: "embryonic pigmentation abnormal" NARROW [] is_a: WBPhenotype:0001009 ! developmental pigmentation variant [Term] id: WBPhenotype:0000971 name: anterior pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of the anterior body axis compared to control." [WB:WBPerson557] synonym: "anterior pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000786 ! body axis pigmentation variant [Term] id: WBPhenotype:0000972 name: neuronal sheath cell morphology variant def: "Animals exhibit variations in the structure or composition of the glia-like support cell of neuronal sensilla that ensheathes the dendrite tips and or processes of neurons, from that observed in control animals. In C. elegans, sheath cells have highly invaginated and vesiculated surfaces, which provide a specialized environment for dendritic structures." [WB:WBPaper00000822, WB:WBPaper00000938, WB:WBPerson712] synonym: "neuronal sheath cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000899 ! epithelial cell morphology variant is_a: WBPhenotype:0000969 ! accessory cell morphology variant [Term] id: WBPhenotype:0000973 name: homologous recombination increased def: "Animals exhibit an increased frequency of exchange of genetic material between non-sister chromatids of a pair of homologues." [GO:0007131, WB:WBPerson712] is_a: WBPhenotype:0000742 ! DNA recombination variant [Term] id: WBPhenotype:0000974 name: accessory cell physiology variant def: "Animals exhibit variations in any physical or chemical process required by a subset of interfacial cells to carry out its normal function or be able to perceive and respond to stimuli, compared to control. It can refer to socket cells, sheath cells and structural cells or their processes (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "accessory cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000612 ! nervous system physiology variant [Term] id: WBPhenotype:0000975 name: neuronal sheath cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for a neuronal sheath cell to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson557] synonym: "neuronal sheath cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000974 ! accessory cell physiology variant is_a: WBPhenotype:0000986 ! epithelial cell physiology variant [Term] id: WBPhenotype:0000976 name: ventral cord patterning variant def: "Any variation in the developmental process that results in the creation of defined areas or spaces within the ventral cord to which cells respond and eventually are instructed to differentiate compared to control." [GO:0007389, WB:WBPerson2021, WB:WBPerson557] synonym: "ventral cord patterning abnormal" NARROW [] is_a: WBPhenotype:0000515 ! ventral nerve cord development variant [Term] id: WBPhenotype:0000977 name: somatic gonad morphology variant def: "Animals exhibit variations in the form, structure or composition of the components of the gonad that are separate from the germline proper compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "somatic gonad morphology abnormal" NARROW [] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0000978 name: spermatheca physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the spermatheca to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "spermatheca physiology abnormal" NARROW [] is_a: WBPhenotype:0000929 ! hermaphrodite physiology variant is_a: WBPhenotype:0001197 ! somatic gonad physiology variant [Term] id: WBPhenotype:0000979 name: spermatheca dilation defective def: "Animals exhibit defects in any physical or chemical process involved in the dilation of the distal spermatheca which is required for the oocyte exit from the gonad arm." [WB:WBPaper00003371, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000978 ! spermatheca physiology variant [Term] id: WBPhenotype:0000980 name: pharyngeal contraction variant def: "Any variation in the muscle contractions that control feeding compared to control. Contractions are necessary for bacterial uptake from the surrounding environment." [WB:WBPerson2021, WB:WBPerson557] synonym: "pharyngeal contraction abnormal" NARROW [] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0000981 name: spermatocyte meiosis variant alt_id: WBPhenotype:0000713 def: "Animals exhibit variations in the meiotic divisions undergone by the primary and secondary spermatocytes to produce haploid spermatids (non-motile sperm) compared to control." [GO:0048137, WB:WBPaper00027300, WB:WBPerson2021] synonym: "spermatocyte division abnormal" NARROW [] synonym: "spermatocyte division variant" EXACT [] synonym: "spermatocyte meiosis abnormal" NARROW [] is_a: WBPhenotype:0000670 ! spermatogenesis variant is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0000982 name: spermatid maturation variant def: "Animals exhibit variations in the ability of a relatively unspecialized spermatocyte to acquire the properties of a spermatid cell compared to control." [WB:WBPaper00027300, WB:WBPerson2021] synonym: "spermatid maturation abnormal" NARROW [] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0000983 name: fertilization defective def: "Any perturbation that disrupts the fusion of male and female gametes (sperm and oocyte) during sexual reproduction." [GO:0009566, WB:WBPerson2021] is_a: WBPhenotype:0000613 ! reproductive system physiology variant [Term] id: WBPhenotype:0000984 name: posterior pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency of the posterior body axis compared to control." [WB:WBPerson557] synonym: "posterior pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000786 ! body axis pigmentation variant [Term] id: WBPhenotype:0000985 name: blast cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for the blast cell to carry out its normal functions or activities or be able to perceive and respond to cues, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "blast cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000986 name: epithelial cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for the epithelial cell to carry out its normal functions or activities, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "epithelial cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000608 ! epithelial system physiology variant [Term] id: WBPhenotype:0000987 name: germ cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for the germ cell to carry out its normal functions or activities or be able to perceive and respond to cues, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "germ cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000613 ! reproductive system physiology variant [Term] id: WBPhenotype:0000988 name: gland cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for the gland cell to carry out its normal functions or activities or be able to perceive and respond to signals, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "gland cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0000989 name: marginal cell physiology variant def: "Animals exhibit deviations at the cellular level, but not necessarily restricted to a single cell, in any physical or chemical process required for a marginal cell to carry out its normal function and activities or be able to perceive and respond to stimuli." [GO:0009987, WB:WBPerson557] synonym: "marginal cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000986 ! epithelial cell physiology variant is_a: WBPhenotype:0001190 ! pharyngeal physiology variant [Term] id: WBPhenotype:0000990 name: muscle cell physiology variant def: "Animals exhibit variations in any physical or chemical process required for the muscle cell to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "muscle cell physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000611 ! muscle system physiology variant [Term] id: WBPhenotype:0000991 name: neuron physiology variant def: "Activity of the neuron varies from that observed for control animals or neurons. In C. elegans neuron activity is often assayed by observing calcium spikes." [WB:WBPaper00032221, WB:WBPerson712] synonym: "neuron physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000612 ! nervous system physiology variant [Term] id: WBPhenotype:0000992 name: high sodium chloride concentration osmotic avoidance defective def: "Failure to execute the characteristic response to high concentrations of sodium chloride solution. C. elegans typically avoids high concentrations of sodium chloride solution." [WB:WBPerson2021] is_a: WBPhenotype:0001453 ! high sodium chloride concentration osmotic avoidance variant [Term] id: WBPhenotype:0000993 name: anal depressor contraction defect def: "Animals fail to contract the anal depressor muscle." [WB:WBPaper00001256] synonym: "Exp" BROAD [] is_a: WBPhenotype:0001092 ! larval defecation defect [Term] id: WBPhenotype:0000994 name: intestinal contractions variant def: "Any variations in the contraction of the enteric muscles that are involved in defecation motor program compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emc" RELATED [] synonym: "enteric muscle contraction variant" RELATED [] synonym: "intestinal contractions abnormal" NARROW [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0000995 def: "OBSOLETE." [] comment: WBPhenotype:0000995 an alt_id for "sodium chloride chemotaxis defective" (WBPhenotype:0001084) (WS193 OBO and WS200 site) AND has term name "pos body wall contraction defect" (dump_phenotype_ace.pl) is_obsolete: true [Term] id: WBPhenotype:0000996 name: expulsion defective def: "Animals exhibit defects in the expulsion of gut contents. In C. elegans, this refers to the final step of the defecation cycle in which the intestinal muscle and anal depressor contractions further pressurize intestinal contents and open the anus to permit expulsion." [WB:WBPaper00001256, WB:WBPaper00031246, WB:WBPerson712] synonym: "Emc" BROAD [] synonym: "Exp" BROAD [] is_a: WBPhenotype:0000205 ! expulsion variant [Term] id: WBPhenotype:0000997 name: cryophilic def: "Animals tend to track and stay within low temperature environments." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000478 ! isothermal tracking behavior variant [Term] id: WBPhenotype:0000998 name: thermophilic def: "Animals tend to track and stay within high temperature environments." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000478 ! isothermal tracking behavior variant [Term] id: WBPhenotype:0000999 name: athermotactic def: "The responses of an animal towards temperature are not influenced by its cultivation temperature." [WB:WBPerson363] is_a: WBPhenotype:0000478 ! isothermal tracking behavior variant [Term] id: WBPhenotype:0001000 name: developmental behavior variant def: "Any variation in the behavior characteristic during certain developmental stage(s) compared to control." [WB:cab] subset: phenotype_slim_wb synonym: "developmental behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001001 name: dauer behavior variant def: "Variations in the specific actions or reactions of dauer stage animals in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer behavior abnormal" NARROW [] is_a: WBPhenotype:0000819 ! postembryonic behavior variant [Term] id: WBPhenotype:0001002 name: head muscle behavior variant def: "Variations in the specific actions or reactions of the head muscles in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "head muscle behavior abnormal" NARROW [] is_a: WBPhenotype:0000595 ! head behavior variant [Term] id: WBPhenotype:0001003 name: L4 lethal def: "Animals die at the L4 stage of the life cycle." [WB:WBPerson2021] synonym: "Let" BROAD [] synonym: "Lvl" BROAD [] is_a: WBPhenotype:0000058 ! late larval lethal [Term] id: WBPhenotype:0001004 name: pharyngeal relaxation variant def: "Any variation in the relaxation of pharyngeal muscles after contraction events compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "pharyngeal relaxation abnormal" NARROW [] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0001005 name: backward locomotion variant def: "Variations in the spontaneous or induced backward crawling locomotion of an animal compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "backward locomotion abnormal" NARROW [] is_a: WBPhenotype:0002320 ! reversal variant [Term] id: WBPhenotype:0001006 name: pharyngeal pumping rate variant def: "The number of coordinated contraction-relaxation cycles (pumps) exhibited by the pharyngeal muscle deviates from that observed for control animals." [WB:WBPaper00001709, WB:WBPerson712] synonym: "feeding rate dynamics abnormal" RELATED [] synonym: "pharyngeal pumping rate abnormal" NARROW [] synonym: "pumping rate dynamics abnormal" RELATED [] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0001007 name: other abnormality early emb def: "Unclassified abnormality in the inviable one- to four-cell embryo." [WB:cab] synonym: "Emb" BROAD [] synonym: "Oth" BROAD [] synonym: "other abnormal" NARROW [] is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001008 name: male nervous system development variant def: "Variations in the progression of a set of interacting or interdependent entities forming the male nervous system over time from an initial condition to a later condition compared to control animals. The nervous system is involved in the coordination and control of bodily activities and the interpretation of information from the senses." [GO:0007420, WB:WBPerson2021, WB:WBPerson557] synonym: "male nervous system development abnormal" NARROW [] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0001009 name: developmental pigmentation variant def: "Animals exhibit variations in the accumulation or expression of biochromes or any other substances that alter transparency/translucency of a particular developmental stage of the amimal compared to control animals." [WB:WBPerson557] synonym: "developmental pigmentation abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0000527 ! organism pigmentation variant [Term] id: WBPhenotype:0001010 name: clear def: "Animals appear unusually transparent when compared to control." [WB:cab, WB:WBPaper00004402, WB:WBPaper00005654] synonym: "Clr" BROAD [] is_a: WBPhenotype:0000527 ! organism pigmentation variant [Term] id: WBPhenotype:0001011 name: complex phenotype early emb def: "Population of unhatched eggs exhibit a complex combination of defects that do not match other class definitions." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001007 ! other abnormality early emb [Term] id: WBPhenotype:0001012 name: organism pathogen response variant def: "Animals exhibit variations in their response to disease causing agents, compared to control. Pathogen response includes prevention, damage control and recovery from the infection caused by the attack." [GO:0006952, WB:WBPaper00032196, WB:WBPerson2021, WB:WBPerson712] synonym: "bacterial load variant" NARROW [] synonym: "organism pathogen response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0001013 name: pathogen susceptibility increased def: "Animals are more prone to infection compared to control." [WB:cab, WB:WBPaper00005370, WB:WBPaper00024299] synonym: "enhanced susceptibility to pathogens" RELATED [] synonym: "Esp" BROAD [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001014 name: pathogen resistance increased def: "Animals are less prone to infection compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "pathogen susceptibility decreased" RELATED [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001015 name: developmental growth variant def: "Variations in the processes that regulate the change (increase) in size or mass of an integrated living unit (a cell, tissue, organ or organism) during any development stages compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "developmental growth abnormal" NARROW [] is_a: WBPhenotype:0000030 ! growth variant is_a: WBPhenotype:0000518 ! development variant [Term] id: WBPhenotype:0001016 name: larval growth variant def: "Variations in the processes that regulate the change (increase) in size or mass of an integrated living unit (a cell, tissue, organ or organism) during the larval stages compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "larval growth abnormal" NARROW [] is_a: WBPhenotype:0001015 ! developmental growth variant [Term] id: WBPhenotype:0001017 name: adult growth variant def: "Variations in the processes that regulate the change (increase) in size or mass of an integrated living unit (a cell, tissue, organ or organism) during the adult stage compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "adult growth abnormal" NARROW [] is_a: WBPhenotype:0001015 ! developmental growth variant [Term] id: WBPhenotype:0001018 name: cytokinesis variant emb def: "Any variation that disrupts the cytoplasmic division of a cell during embryonic development compared to control." [GO:0000910, WB:WBPerson2021] synonym: "Cyk" BROAD [] is_a: WBPhenotype:0000050 ! embryonic lethal is_a: WBPhenotype:0002408 ! cytokinesis variant [Term] id: WBPhenotype:0001019 name: mid larval arrest def: "Animals arrest during the stage between early and late larval development. In C. elegans, mid larval arrest occurs during the L2 to L3 stages of development." [WB:cab] is_a: WBPhenotype:0000059 ! larval arrest [Term] id: WBPhenotype:0001020 name: embryonic lethal late emb def: "Animals die during the final stages of embryogenesis. In C. elegans, this lethality refers to death during the last (3-fold) stage of embryogenesis, which normally occurs 620-800 min after the first cleavage at 20C, the stage after elongation." [WB:WBPerson101] synonym: "Emb" BROAD [] synonym: "Led" BROAD [] is_a: WBPhenotype:0000050 ! embryonic lethal [Term] id: WBPhenotype:0001021 name: male sexual development variant def: "Genetically male animals exhibit deviations in the sexual program specific to males. In C. elegans, this often refers to XO animals being transformed into fertile hermaphrodites." [WB:WBPaper00000498, WB:WBPerson2021] synonym: "Her" BROAD [] synonym: "male sexual development abnormal" NARROW [] is_a: WBPhenotype:0000822 ! sex determination variant [Term] id: WBPhenotype:0001022 name: hermaphrodite sexual development variant def: "Genetically hermaphrodite animals exhibit deviations in the sexual program specific to hermaphrodites. In C. elegans, this refers to XX animals that develop as males or intersexuals instead of self-fertile hermaphrodites." [WB:WBPerson2021] synonym: "hermaphrodite sexual development abnormal" NARROW [] is_a: WBPhenotype:0000822 ! sex determination variant [Term] id: WBPhenotype:0001023 name: sexually dimorphic morphology variant def: "Animals exhibit variations in the outcome of morphogenic processes required for formation or proper placement of sex-specific structures that distinguish the animal as one sex or the other in the population, from that observed for control animals." [GO:0009886, WB:WBPerson712] subset: phenotype_slim_wb synonym: "sexually dimorphic morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0001024 name: male morphology variant def: "Animals exhibit variations in the outcome of morphogenic processes required for formation or proper placement of sex-specific structures that distinguish the animal as a male in the population, from that observed for control males." [GO:0009886, WB:WBPerson712] synonym: "male morphology abnormal" NARROW [] is_a: WBPhenotype:0001023 ! sexually dimorphic morphology variant [Term] id: WBPhenotype:0001025 name: hermaphrodite morphology variant def: "Animals exhibit variations in the outcome of morphogenic processes required for formation or proper placement of sex-specific structures that distinguish the animal as a hermaphrodite in the population, from that observed for control hermaphrodites." [GO:0009886, WB:WBPerson712] synonym: "hermaphrodite morphology abnormal" NARROW [] is_a: WBPhenotype:0001023 ! sexually dimorphic morphology variant [Term] id: WBPhenotype:0001026 name: nuclear morphology variation early emb def: "Animals exhibit variations in the form, structure or composition of the membrane enclosed organelle which contains most of the cell's genetic material during the early embryonic stage compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Nmo" BROAD [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001027 name: nuclear position defective early emb def: "Embryos show defects in the placement of the nucleus to a specific location within the cell." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Npo" BROAD [] synonym: "nuclear position abnormal" NARROW [] is_a: WBPhenotype:0000511 ! nuclear positioning variant is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001028 name: nuclear appearance variant def: "The morphological appearance of nuclei differs from control animals." [WB:cab] subset: phenotype_slim_wb synonym: "nuclear appearance abnormal" NARROW [] synonym: "nuclear morphology variant" RELATED [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001029 name: patchy coloration def: "Animals exhibit an uneven distribution of biochromes or any other substances that cause disparate transparency/translucency compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "Pch" BROAD [] is_a: WBPhenotype:0000527 ! organism pigmentation variant [Term] id: WBPhenotype:0001030 name: pronuclear envelope defective early emb def: "Any deficiency in the lipid bilayer, the equivalent of the nuclear envelope, that surrounds each pronucleus within gametes and within the early zygote after pronuclear reformation (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Pna" BROAD [] synonym: "pronuclear envelope abnormal" NARROW [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001031 name: pronuclear migration reduced early emb def: "Any variation in the movement/fusion of pronuclei in the fertilized oocyte compared to control. For example, lack of male pronuclear migration, female pronuclear migration variable, sometimes multiple female pronuclei, no or small spindle." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000511 ! nuclear positioning variant is_a: WBPhenotype:0001152 ! pronuclear migration defective early emb [Term] id: WBPhenotype:0001032 name: larval behavior variant def: "Variations in the specific actions or reactions of a larvae in response to external or internal stimuli compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "larval behavior abnormal" NARROW [] is_a: WBPhenotype:0000819 ! postembryonic behavior variant [Term] id: WBPhenotype:0001033 name: proximal germ cell proliferation variant def: "Any variation in the spatial pattern of proliferation and differentiation in the germ line compared to control. In C. elegans, this refers to an ectopic mass of proliferating germ cells that occupies the proximal adult germ line, a region normally occupied by gametes." [WB:WBPaper00006484, WB:WBPerson2021] synonym: "Pro" BROAD [] synonym: "proximal germ cell proliferation abnormal" NARROW [] is_a: WBPhenotype:0001215 ! germ cell mitosis variant [Term] id: WBPhenotype:0001034 name: pronuclear nuclear appearance defective early emb def: "The morphology of pronuclei and nuclei are defective in the early embryo. In C. elegans, this defect is often characterized by pronuclei and nuclei that are small or missing altogether and are often accompanied by spindle defects." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "pronuclear nuclear appearance abnormal" NARROW [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001035 name: nuclear appearance number defective early emb def: "The size, number and organization of the components of the nuclei in the early embryo deviate from control . In C. elegans, this is characterized by nuclei that are completely missing or are significantly smaller than normal; often accompanied by spindle and cytokinesis defects." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] synonym: "nuclear appearance number abnormal" NARROW [] synonym: "nucleus abnormal emb" RELATED [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001036 name: sterile F1 def: "Any variation that compromises the reproductive ability of an F1 generation animal." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001037 ! sterile progeny [Term] id: WBPhenotype:0001037 name: sterile progeny def: "Any variation that compromises the reproductive ability of the progeny of an animal." [WB:WBPerson2021, WB:WBPerson557] synonym: "Stp" BROAD [] is_a: WBPhenotype:0000069 ! progeny variant is_a: WBPhenotype:0000688 ! sterile [Term] id: WBPhenotype:0001038 name: tumorous germline def: "Germ cells do not exit the mitotic cycle, resulting in a expansion of the unspecialized germ cell population compared to control." [WB:WBPaper00002730, WB:WBPerson2021] synonym: "Tum" BROAD [] synonym: "tumorous germ line" EXACT [] is_a: WBPhenotype:0000823 ! germline proliferation variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001039 name: embryonic growth variant def: "Variations in the processes that regulate the change (increase) in size or mass of an integrated living unit (a cell, tissue, organ or organism) during the embryonic stage compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "embryonic growth abnormal" NARROW [] is_a: WBPhenotype:0001015 ! developmental growth variant [Term] id: WBPhenotype:0001040 name: chemosensory response variant def: "Variations in the state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus, compared to control." [GO:0042221, WB:cab, WB:cgc3824, WB:WBPerson2021] synonym: "chemosensory response abnormal" NARROW [] is_a: WBPhenotype:0000523 ! chemical response variant is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001041 name: meiosis defective early emb def: "Animals exhibit defects in the progression of meiosis which ultimately result in embryonic lethality." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "Mei" BROAD [] is_a: WBPhenotype:0000746 ! cell division variant is_a: WBPhenotype:0000812 ! germ cell development variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001042 name: neuron function reduced def: "Neurons show impaired ability in the detection, transmission, coordination or their response to information about an animal's internal and external environments." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0001043 name: interphase entry defective early emb def: "Embryos do not enter or take longer to enter first interphase compared to control." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000740 ! cell cycle variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001044 name: cortical dynamics defective early emb def: "Little/no cortical ruffling or pseudocleavage furrow, or excessive cortical activity. In C. elegans, this is often characterized at the two-cell stage." [WB:cab, WB:cgc7141] synonym: "cortical dynamics abnormal" NARROW [] synonym: "Cpa" BROAD [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001045 name: sporadic pumping def: "Pharyngeal pumping contractions are brief and occur arhythmically in response to stimulus compared to control." [WB:WBPaper00001709] is_a: WBPhenotype:0000019 ! pharyngeal pumping reduced [Term] id: WBPhenotype:0001046 name: pharyngeal muscle morphology variant def: "Any variations associated with the characteristic morphology of the pharyngeal muscle such as shape, birefringence etc compared to control." [WB:WBPaper00001709] synonym: "pharyngeal muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0000923 ! nonstriated muscle morphology variant [Term] id: WBPhenotype:0001047 name: aqueous positive chemotaxis variant def: "Animals exhibit variations in the movement towards typically attractive water-soluble chemicals compared to control." [WB:cab, WB:cgc3824] synonym: "aqueous positive chemotaxis abnormal" NARROW [] synonym: "water soluble chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000635 ! positive chemotaxis variant is_a: WBPhenotype:0001443 ! aqueous chemosensory response variant [Term] id: WBPhenotype:0001048 name: odorant chemosensory response variant def: "Animals exhibit variations in the chemosensory response to volatile organic compounds compared to control." [WB:WBPerson2021] synonym: "odorant chemosensory response abnormal" NARROW [] synonym: "Odr" BROAD [] synonym: "volatile chemosensory response abnormal" RELATED [] is_a: WBPhenotype:0001040 ! chemosensory response variant is_a: WBPhenotype:0001049 ! chemosensory behavior variant [Term] id: WBPhenotype:0001049 name: chemosensory behavior variant def: "Variations in behavior that is dependent upon the sensation of chemicals, compared to control." [GO:0007635, WB:WBPerson2021] subset: phenotype_slim_wb synonym: "chemosensory behavior abnormal" NARROW [] is_a: WBPhenotype:0000523 ! chemical response variant is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001050 name: chemosensation variant def: "Animals exhibit variations in any of a series of events in which an organism receives a sensory chemical stimulus, converts it to a molecular signal, and recognizes and characterizes the signal, compared to control." [GO:0007606, WB:WBPerson2021] synonym: "chemosensation abnormal" NARROW [] is_a: WBPhenotype:0001040 ! chemosensory response variant is_a: WBPhenotype:0001049 ! chemosensory behavior variant [Term] id: WBPhenotype:0001051 name: cation positive chemotaxis variant def: "Animals exhibit variations in the characteristic movement towards typically attractive cations compared to control." [WB:cab, WB:cgc387, WB:WBPaper00000387] synonym: "cation positive chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001052 name: anion positive chemotaxis variant def: "Animals exhibit variations in the characteristic movement towards typically attractive anions compared to control." [WB:cab, WB:cgc387, WB:WBPaper00000387] synonym: "anion positive chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001053 name: cyclic nucleotide positive chemotaxis variant def: "Animals exhibit variations in the characteristic movement towards cyclic nucleotides compared to control." [WB:cab, WB:cgc387] synonym: "cyclic nucleotide positive chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001054 name: cGMP chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to cGMP. In C. elegans, this is characterized by the failure to move towards cGMP." [WB:cab, WB:cgc387, WB:WBPerson2021] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective is_a: WBPhenotype:0001464 ! cGMP chemotaxis variant [Term] id: WBPhenotype:0001055 name: bromide chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to bromide. In C. elegans, this is characterized by the failure to move towards bromide." [WB:cab, WB:cgc387] is_a: WBPhenotype:0001439 ! anion positive chemotaxis defective is_a: WBPhenotype:0001457 ! bromide chemotaxis variant [Term] id: WBPhenotype:0001056 name: iodide chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to iodide. In C. elegans, this is characterized by the failure to move towards iodide." [WB:cab, WB:cgc387] is_a: WBPhenotype:0001439 ! anion positive chemotaxis defective is_a: WBPhenotype:0001459 ! iodide chemotaxis variant [Term] id: WBPhenotype:0001057 name: lithium chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to lithium. In C. elegans, this is characterized by the failure to move towards lithium." [WB:cab, WB:cgc387] is_a: WBPhenotype:0001440 ! cation positive chemotaxis defective [Term] id: WBPhenotype:0001058 name: potassium chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to potassium. In C. elegans, this is characterized by the failure of the animals to move towards potassium." [WB:cab, WB:cgc387] is_a: WBPhenotype:0001440 ! cation positive chemotaxis defective [Term] id: WBPhenotype:0001059 name: magnesium chemotaxis defective def: "Animals fail to exhibit the same taxis behavior as control animals in response to magnesium. In C. elegans, this is characterized by the failure to move towards magnesium." [WB:cab, WB:cgc387] is_a: WBPhenotype:0001440 ! cation positive chemotaxis defective [Term] id: WBPhenotype:0001060 name: AWC odorant chemotaxis defective def: "In C. elegans, this is characterized by the failure to move towards typically attractive volatile organic molecules sensed by the AWC compared to control." [WB:WBPerson2021] synonym: "AWC volatile chemotaxis defective" RELATED [] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective [Term] id: WBPhenotype:0001061 name: AWA odorant chemotaxis defective def: "In C. elegans, this is characterized by the failure to move towards typically attractive volatile organic molecules sensed by the AWA compared to control." [WB:WBPerson2021] synonym: "AWA volatile chemotaxis defective" RELATED [] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective [Term] id: WBPhenotype:0001062 name: late paralysis arrested elongation two fold def: "In C. elegans, movement and elongation stop nearly simultaneously soon after the twofold stage of elongation. However, mutant embryos twitch at the one-and-a-half-fold stage of elongation, like control animals, and move as well as control animals at the two- fold stage." [WB:cab, WB:cgc1894] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0001063 name: egg laying phases variant def: "Fluctuation pattern between inactive, active, and egg-laying states is atypical, based on the analysis of the distribution of the log intervals of egg-laying events compared to control." [pmid:10757762, pmid:9697864, WB:cab] synonym: "egg laying phases abnormal" NARROW [] is_a: WBPhenotype:0000272 ! egg laying irregular [Term] id: WBPhenotype:0001064 name: inactive phase long def: "Animals display uncharacteristically long periods during which they do not lay eggs compared to control, usually based on the analysis of the distribution of the log intervals of egg-laying events. In C. elegans, long inactive phases can be observed in HSN-ablated and serotonin-deficient animals." [pmid:10757762, pmid:9697864, WB:cab] is_a: WBPhenotype:0000006 ! egg laying defective is_a: WBPhenotype:0001066 ! inactive phase variant [Term] id: WBPhenotype:0001065 name: fewer egg laying events during active def: "Fewer egg-laying events occur within the active phase of egg laying, based on the analysis of the distribution of the log intervals of egg-laying events, compared to control." [pmid:9697864, WB:cab] is_a: WBPhenotype:0000006 ! egg laying defective is_a: WBPhenotype:0001067 ! active phase variant [Term] id: WBPhenotype:0001066 name: inactive phase variant def: "The period during which the animal is less likely to lay eggs is not typical compared with control animals, based on the analysis of the distribution of the log intervals of egg-laying events." [pmid:10757762, pmid:9697864, WB:cab] synonym: "inactive phase abnormal" NARROW [] is_a: WBPhenotype:0001063 ! egg laying phases variant [Term] id: WBPhenotype:0001067 name: active phase variant def: "The active phase of egg-laying, the period during which animals are more likely to display multiple egg-laying events, is atypical compared with control animals, based on the analysis of the distribution of the log intervals of egg-laying events." [pmid:9697864, WB:cab] synonym: "active phase abnormal" NARROW [] is_a: WBPhenotype:0001063 ! egg laying phases variant [Term] id: WBPhenotype:0001068 name: egg laying serotonin resistant def: "Animals are not induced to lay eggs in reponse to exogenous serotonin. Serotonin stimulates egg-laying in C. elegans." [WB:WBPaper00000635, WB:WBPaper00031293, WB:WBPerson712] is_a: WBPhenotype:0000024 ! serotonin resistant is_a: WBPhenotype:0001629 ! egg laying serotonin variant [Term] id: WBPhenotype:0001069 name: increased egg laying events during active def: "More eggs are laid during the active phase compared with control animals, based on the analysis of the distribution of the log intervals of egg-laying events." [pmid:9697864, WB:cab] is_a: WBPhenotype:0001067 ! active phase variant [Term] id: WBPhenotype:0001070 name: inactive phase short def: "The period during which a worm usually does not lay eggs is short compared with control animals, based on the analysis of the distribution of the log intervals of egg-laying events." [pmid:9697864, WB:cab] is_a: WBPhenotype:0001066 ! inactive phase variant [Term] id: WBPhenotype:0001071 name: active phase switch defective def: "Activation of the active phase of egg laying is defective, leading to an abnormally long inactive phase, based on the analysis of the distribution of the log intervals of egg-laying events." [pmid:10757762, pmid:9697864, WB:cab] is_a: WBPhenotype:0001064 ! inactive phase long [Term] id: WBPhenotype:0001072 name: response to food variant def: "Any variation in the state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) in response to a food stimulus, compared to control." [GO:0032094, WB:WBPerson2021] synonym: "response to food abnormal" NARROW [] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0001073 name: egg laying response to food variant def: "Animals exhibit variations in egg-laying behavior in response to food compared to control. In C. elegans, well-fed animals lay more eggs compared with starved animals." [pmid:10757762, WB:cab] synonym: "egg laying response to food abnormal" NARROW [] is_a: WBPhenotype:0000640 ! egg laying variant is_a: WBPhenotype:0001072 ! response to food variant [Term] id: WBPhenotype:0001074 name: vulval muscle unresponsive to serotonin def: "The vulval muscle does not respond to serotonin in the same manner as control animals. This phenotype is often assayed by imaging of calcium transients in response to serotonin." [pmid:14588249, WB:cab] is_a: WBPhenotype:0001068 ! egg laying serotonin resistant is_a: WBPhenotype:0001076 ! vulval muscle homeostasis metabolism variant [Term] id: WBPhenotype:0001075 name: vulval muscle physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the vulva muscle system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "vulval muscle physiology abnormal" NARROW [] is_a: WBPhenotype:0000613 ! reproductive system physiology variant is_a: WBPhenotype:0000929 ! hermaphrodite physiology variant is_a: WBPhenotype:0000990 ! muscle cell physiology variant [Term] id: WBPhenotype:0001076 name: vulval muscle homeostasis metabolism variant def: "Variations in the chemical reactions and pathways involved in the maintenance of an internal equilibrium within the vulval muscles compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "vulval muscle homeostasis metabolism abnormal" NARROW [] is_a: WBPhenotype:0001075 ! vulval muscle physiology variant [Term] id: WBPhenotype:0001077 name: chromosome segregation variant karyomeres early emb def: "Karyomeres in AB or P1 often accompanied by weak/thin wobbly spindle." [WB:cab, WB:cgc7141] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000773 ! chromosome segregation variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001078 name: cytokinesis defective early emb def: "Cytokinesis is abnormal in the first or second stages of cell division." [WB:cab, WB:cgc7141] synonym: "Cyk" BROAD [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001018 ! cytokinesis variant emb is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001079 name: cytoplasmic dynamics defective early emb def: "Cytoplasmic movements are atypical." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000360 ! cytoplasmic streaming defective is_a: WBPhenotype:0000769 ! cytoplasmic appearance defective early emb is_a: WBPhenotype:0001081 ! cytoplasmic morphology defective early emb [Term] id: WBPhenotype:0001080 name: excessive blebbing early emb def: "Excessive shaking and movements are seen in the cell membrane or cytoplasm of one-cell or two-cell embryos." [cgc:5599, WB:cab] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001079 ! cytoplasmic dynamics defective early emb [Term] id: WBPhenotype:0001081 name: cytoplasmic morphology defective early emb def: "Morphology of the cytoplasm differs from control animals." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001427 ! cytoplasmic appearance variant [Term] id: WBPhenotype:0001082 name: large cytoplasmic granules early emb def: "Abnormally large granules are observed in the cytoplasm of P0." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000769 ! cytoplasmic appearance defective early emb is_a: WBPhenotype:0001081 ! cytoplasmic morphology defective early emb [Term] id: WBPhenotype:0001083 name: multiple cytoplasmic cavities early emb def: "Multiple vesicles, vacuoles, or cavities are seen during early embryogenesis." [cgc:5599, WB:cab] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000769 ! cytoplasmic appearance defective early emb is_a: WBPhenotype:0001081 ! cytoplasmic morphology defective early emb [Term] id: WBPhenotype:0001084 name: sodium chloride chemotaxis defective def: "Failure to execute characteristic response to sodium chloride compared to control. In C. elegans, animals move towards attractive concentrations of sodium chloride." [WB:WBPaper00000119] synonym: "NaCl chemotaxis defective" EXACT [] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective is_a: WBPhenotype:0001462 ! sodium chloride chemotaxis variant [Term] id: WBPhenotype:0001085 name: butanone chemotaxis defective def: "Failure to execute characteristic response to butanone compared to control. In C. elegans, animals move towards typically attractive concentrations of butanone." [WB:WBPaper00001786] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001469 ! butanone chemotaxis variant [Term] id: WBPhenotype:0001086 name: trimethylthiazole chemotaxis defective def: "Failure to execute characteristic response to trimethylthiazole compared to control. In C. elegans, animals move towards typically attractive concentrations of trimethylthiazole." [WB:WBPaper00001786] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001475 ! trimethylthiazole chemotaxis variant [Term] id: WBPhenotype:0001087 name: acetone chemotaxis defective def: "Failure to execute characteristic response to acetone compared to control. In C. elegans, animals move towards typically attractive concentrations of acetone." [WB:WBPaper00024240] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001465 ! acetone chemotaxis variant [Term] id: WBPhenotype:0001088 name: pentanol chemotaxis defective def: "Failure to execute characteristic response to pentanol compared to control. In C. elegans, animals move towards typically attractive concentrations of pentanol." [WB:WBPerson2021] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001473 ! pentanol chemotaxis variant [Term] id: WBPhenotype:0001089 name: hexanol chemotaxis defective def: "Failure to execute characteristic response to hexanol compared to control. In C. elegans, animals move towards typically attractive concentrations of hexanol." [WB:WBPerson2021] is_a: WBPhenotype:0001438 ! odorant positive chemotaxis defective is_a: WBPhenotype:0001471 ! hexanol chemotaxis variant [Term] id: WBPhenotype:0001090 name: thermotolerance reduced def: "Animals are not able to survive at temperatures above standard cultivation temperatures to the same extent as control animals." [WB:WBPerson712] synonym: "intrinsic thermotolerance reduced" NARROW [] is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0001091 name: larval defecation variant def: "Animals exhibit variations in the elimination of fecal matter during the larval stage compared to control animals." [WB:WBPerson2021] synonym: "larval defecation abnormal" NARROW [] is_a: WBPhenotype:0000650 ! defecation variant [Term] id: WBPhenotype:0001092 name: larval defecation defect def: "Animals fail to expel fecal matter during the larval stage." [WB:WBPerson2021] is_a: WBPhenotype:0001091 ! larval defecation variant [Term] id: WBPhenotype:0001093 name: intestinal physiology variant def: "Animals exhibit variations in any physical or chemical process required for the intestine to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "intestinal physiology abnormal" NARROW [] is_a: WBPhenotype:0000606 ! alimentary system physiology variant [Term] id: WBPhenotype:0001094 name: obsolete NaCl response variant def: "OBSOLETE. Organismal response to NaCl differs from control animals." [WB:cab] synonym: "NaCl response abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0000523 [Term] id: WBPhenotype:0001095 name: organism high sodium chloride hypersensitive def: "Animals respond to sodium chloride at a lower concentration or a shorter exposure compared to control animals. In C. elegans, this is often assayed through generation time and progeny number." [pmid:16027367, WB:cab] is_a: WBPhenotype:0000876 ! organism osmotic stress response variant [Term] id: WBPhenotype:0001096 name: protrusion at vulval region def: "Large protrusion at the normal position of the vulva, as seen in C. elegans lin-12 null animals." [cgc:646, WB:cab] synonym: "ventral protrusion" NARROW [] is_a: WBPhenotype:0000695 ! vulva morphology variant [Term] id: WBPhenotype:0001097 name: premature spermatocyte germ cell differentiation def: "Unspecialized male germ cells (spermatocytes) prematurely acquire the specialized properties of functional sperm." [cgc:4207, WB:cab, WB:WBPerson2021] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0001098 name: no rectum def: "Animals lack the passage connecting the posterior intestine to the rectal valve." [WB:WBPaper00001423, WB:WBPerson2021] comment: WBbt:0005773. is_a: WBPhenotype:0000910 ! rectal morphology variant [Term] id: WBPhenotype:0001099 name: nose twisted def: "The extreme anterior part of the body appears distorted, usually due to uncharacteristic winding." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000321 ! nose morphology variant [Term] id: WBPhenotype:0001100 name: early embryonic lethal def: "Animal dies prior to the gastrulation stage of embryogenesis." [WB:WBPerson2021] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000050 ! embryonic lethal [Term] id: WBPhenotype:0001101 name: egg laying response to drug variant def: "Characteristic response to drugs with respect to egg-laying behavior varies compared to control." [WB:cab] synonym: "egg laying response to drug abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0001102 name: mitotic spindle defective early emb def: "Early embryos exhibit defects in the assembly, disassembly, arrangement, elongation or stabilization of the microtubule spindle during a mitotic cell cycle." [GO:0007052, WB:WBPerson2021] comment: Possible XP. synonym: "Emb" BROAD [] is_a: WBPhenotype:0000759 ! spindle defective early emb [Term] id: WBPhenotype:0001103 name: spindle absent early emb def: "Early embryos lack the array of microtubules and associated molecules that form between opposite poles of a eukaryotic cell during mitosis or meiosis." [GO:0005819, WB:WBPerson2021] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb is_a: WBPhenotype:0002418 ! spindle absent [Term] id: WBPhenotype:0001104 name: P0 spindle absent early emb def: "No mitotic spindle is seen in P0." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001103 ! spindle absent early emb [Term] id: WBPhenotype:0001105 name: P0 spindle position defective early emb def: "Altered P0 spindle placement causes either a symmetric first division, a division in which P1 is larger than AB, or a division in which the asymmetry is exaggerated such that AB is much larger than normal." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "P0 spindle position abnormal" NARROW [] is_a: WBPhenotype:0000762 ! spindle position defective early emb [Term] id: WBPhenotype:0001106 name: spindle orientation variant AB or P1 early emb def: "The orientation of the spindle is aberrant in either the AB or the P1 cell." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000761 ! spindle position orientation defective early emb is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001107 name: spindle rotation defective early emb def: "Rotation of the embryonic spindle is aberrant." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb is_a: WBPhenotype:0002417 ! spindle rotation variant [Term] id: WBPhenotype:0001108 name: P0 spindle rotation failure early emb def: "P0 spindle fails to rotate and extends perpendicular to the long axis of the embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001107 ! spindle rotation defective early emb [Term] id: WBPhenotype:0001109 name: P0 spindle rotation delayed early emb def: "P0 spindle rotates late in the inviable one- to four-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0001107 ! spindle rotation defective early emb [Term] id: WBPhenotype:0001110 name: aster defective early emb def: "Early embryos exhibit defects in the array of microtubules emanating from a spindle pole that do not connect to kinetochores." [GO:0005818, WB:WBPerson2021, WB:WBPerson557] synonym: "aster abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002419 ! spindle aster variant [Term] id: WBPhenotype:0001111 name: aster AB defective early emb def: "Early embryos exhibit defects in the array of microtubules emanating from a spindle pole that do not connect to kinetochores in the AB cell." [WB:WBPerson2021, WB:WBPerson557] synonym: "aster AB abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001110 ! aster defective early emb [Term] id: WBPhenotype:0001112 name: aster AB resembles P1 aster early emb def: "The morphology of the AB aster resembles that of the P1 aster in the inviable one- to four-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001111 ! aster AB defective early emb [Term] id: WBPhenotype:0001113 name: P1 aster defective early emb def: "Early embryos exhibit defects in the array of microtubules emanating from a spindle pole that do not connect to kinetochores in the P1 cell." [WB:cab, WB:cgc5599, WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] synonym: "P1 aster abnormal" NARROW [] is_a: WBPhenotype:0001110 ! aster defective early emb [Term] id: WBPhenotype:0001114 name: cell cycle defective early emb def: "The progression of biochemical and morphological processes that occur during successive replication or nuclear replication events is disrupted during the early embryonic stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000740 ! cell cycle variant is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001115 name: cell cycle timing defective early emb def: "Cell cycle timing is abnormal during the first four cell divisions." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001114 ! cell cycle defective early emb [Term] id: WBPhenotype:0001116 name: absolute cell cycle timing defective early emb def: "Absolute cell cycle timing during the first four cell divisions is aberrant." [WB:WBPerson557] synonym: "absolute cell cycle timing abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001115 ! cell cycle timing defective early emb [Term] id: WBPhenotype:0001117 name: cell cell contacts defective early emb def: "Cell-cell contacts are abnormal in the early embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002404 ! cell cell contacts defective [Term] id: WBPhenotype:0001118 name: cell position defective early emb def: "Cell position is abnormal in the early embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002402 ! cell position defective [Term] id: WBPhenotype:0001119 name: cell cycle slow early emb def: "Embryos take longer to divide during the first and second cell divisions." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0001116 ! absolute cell cycle timing defective early emb [Term] id: WBPhenotype:0001120 name: relative cell cycle timing defective early emb def: "Relative cell cycle timing during the first four cell divisions is aberrant." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "relative cell cycle timing abnormal" NARROW [] is_a: WBPhenotype:0001115 ! cell cycle timing defective early emb [Term] id: WBPhenotype:0001121 name: exaggerated asynchrony early emb def: "Asynchrony of the second division is exaggerated and P1 divides more slowly than normal." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001122 name: reversed asynchrony early emb def: "P1 divides before AB." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001123 name: synchronous second division early emb def: "AB and P1 divide synchronously." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001124 name: ABa ABp EMS synchronous division early emb def: "EMS divides at the same time that ABa and ABp divide." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001125 name: P2 EMS synchronous division early emb def: "P2 and EMS divide synchronously." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001126 name: cell cell contacts variant four emb def: "Aba, ABp, EMS, or P1 contacts fewer of its sister cells than in control embryos." [WB:cab, WB:cgc5599] synonym: "cell cell contacts abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001117 ! cell cell contacts defective early emb [Term] id: WBPhenotype:0001127 name: EMS anterior extension fails early emb def: "The EMS blastomere fails to extend anteriorly and make extensive contact (hug) with the ABa blastomere." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001118 ! cell position defective early emb [Term] id: WBPhenotype:0001128 name: EMS anterior extension extreme early emb def: "EMS extends too far anteriorly at the four cell stage." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001118 ! cell position defective early emb [Term] id: WBPhenotype:0001129 name: cleavage furrow defective early emb def: "Embryos exhibit defects in the formation, maintenance or termination of the groove in the cell surface near the old metaphase plate during cytokinesis." [GO:0032154, WB:WBPerson2021, WB:WBPerson2987, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001078 ! cytokinesis defective early emb is_a: WBPhenotype:0002410 ! cleavage furrow defective [Term] id: WBPhenotype:0001130 name: cytokinesis fails early emb def: "Cells of the embryo attempt to divide but fail to form two daughter cells." [WB:cab, WB:cgc5599] synonym: "Cyk" BROAD [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001078 ! cytokinesis defective early emb is_a: WBPhenotype:0002391 ! cytokinesis failure [Term] id: WBPhenotype:0001131 name: loose mitotic furrow early emb def: "Once formed, the mitotic furrow can \"slide\"laterally." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0001132 name: extra cleavage furrow early emb def: "One or more extra cleavage furrows are seen in one or more cells of a one-cell to four-cell embryo" [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0001133 name: division axis defective def: "The cell division axis is not normal." [WB:cab, WB:WBPerson1815] synonym: "division axis abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0001134 name: Aba ABp division axis defective early emb def: "ABa or ABp divide in the wrong orientation." [WB:cab, WB:cgc5599] synonym: "Aba ABp division axis abnormal" NARROW [] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001133 ! division axis defective [Term] id: WBPhenotype:0001135 name: embryonic morphology defective early emb def: "Animals exhibit defects in the form, structure or composition of any of its parts during the early embryonic stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001136 ! embryonic morphology variant [Term] id: WBPhenotype:0001136 name: embryonic morphology variant def: "Animals exhibit variations in the form, structure or composition of any of its parts during any developmental stage ranging from zygote formation to hatching compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "embryonic morphology abnormal" NARROW [] is_a: WBPhenotype:0000037 ! egg morphology variant [Term] id: WBPhenotype:0001137 name: embryos small early emb def: "Embryos are produced that are less than fifty percent of the size of control embryos." [WB:cab, WB:WBPaper00005599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000229 ! small is_a: WBPhenotype:0001135 ! embryonic morphology defective early emb [Term] id: WBPhenotype:0001138 name: nucleus defective early emb def: "Nucleus is abnormal in the inviable one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "nucleus abnormal" NARROW [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001139 name: nuclear envelope assembly variant early emb def: "Nuclear envelope does not reassemble properly." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "nuclear reassembly defective early emb" RELATED [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb is_a: WBPhenotype:0002037 ! nuclear envelope organization variant [Term] id: WBPhenotype:0001140 name: neuron migration variant def: "Any variation in the normal orderly movement of neurons from one site to another compared to control." [WB:WBPerson2021] synonym: "neuron migration abnormal" NARROW [] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0001141 name: nucleus reforms cell division remnant early emb def: "After division of either one-cell or two-cell embryos, the nuclei reappear next to the cell division remnant." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001027 ! nuclear position defective early emb [Term] id: WBPhenotype:0001142 name: nuclear number defective early emb def: "Nuclear number is abnormal in the inviable one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb is_a: WBPhenotype:0001894 ! nuclear number variant [Term] id: WBPhenotype:0001143 name: multiple nuclei early emb def: "Embryos contain more than one nucleus per cell in the inviable one- to four-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "karyomeres" RELATED [] synonym: "Mul" BROAD [] synonym: "multiple nuclei in early embryo emb" RELATED [] is_a: WBPhenotype:0000746 ! cell division variant is_a: WBPhenotype:0001142 ! nuclear number defective early emb is_a: WBPhenotype:0002413 ! multiple nuclei [Term] id: WBPhenotype:0001144 name: polar body number size early emb def: "Defects are either seen in the number or size of the polar bodies in the inviable one- to four-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001147 ! polar body defective early emb [Term] id: WBPhenotype:0001145 name: polar body number defective early emb def: "Polar body number is abnormal in the inviable one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "polar body number abnormal" NARROW [] is_a: WBPhenotype:0001144 ! polar body number size early emb [Term] id: WBPhenotype:0001146 name: polar body size defective early emb def: "Polar body size is abnormal in the inviable one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "polar body size abnormal" NARROW [] is_a: WBPhenotype:0001144 ! polar body number size early emb [Term] id: WBPhenotype:0001147 name: polar body defective early emb def: "Polar bodies are abnormal in the inviable one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "polar body abnormal" NARROW [] is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001148 name: polar body reabsorbed early emb def: "Polar body is reabsorbed in the one- to four-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000777 ! polar body extrusion defective early emb [Term] id: WBPhenotype:0001149 name: obsolete polar body reabsorbed first early emb def: "OBSOLETE." [WB:WBPerson557] synonym: "Emb" BROAD [] is_obsolete: true consider: WBPhenotype:0001148 [Term] id: WBPhenotype:0001150 name: polar body reabsorbed one two early emb def: "A polar body is reabsorbed in either the one cell- or the two-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001148 ! polar body reabsorbed early emb [Term] id: WBPhenotype:0001151 name: pronucleus centrosomes defective early emb def: "Pronucleus is abnormal in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pronucleus centrosomes abnormal" NARROW [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001152 name: pronuclear migration defective early emb def: "Pronucleus migration is abnormal in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pronuclear migration abnormal" NARROW [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001153 name: pronuclear migration failure early emb def: "Neither of the pronuclei migrate and they never meet." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001152 ! pronuclear migration defective early emb [Term] id: WBPhenotype:0001154 name: paternal pronucleus migrates early emb def: "Instead of the maternal pronucleus migrating to the posterior end of the one-cell embryo, the paternal pronucleus migrates to meet the maternal pronucleus in the anterior end." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001152 ! pronuclear migration defective early emb [Term] id: WBPhenotype:0001155 name: pronuclei meet centrally early emb def: "The maternal and paternal pronuclei meet more centrally instead of meeting in the posterior end of the embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001152 ! pronuclear migration defective early emb [Term] id: WBPhenotype:0001156 name: pronuclear size defective early emb def: "Maternal or paternal pronucleus is either too small or too large." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "pronuclear size abnormal" NARROW [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001157 name: pronuclear breakdown defective early emb def: "Pronuclear breakdown is atypical in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pronuclear breakdown abnormal" NARROW [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001158 name: pronuclear breakdown asynchronous early emb def: "Instead of breaking down synchronously, the two pronuclei break down asynchronously in the inviable one-cell embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001157 ! pronuclear breakdown defective early emb [Term] id: WBPhenotype:0001159 name: pronuclear morphology defective early emb def: "Pronucleus morphology is atypical in the inviable embryo." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "pronuclear morphology abnormal" NARROW [] is_a: WBPhenotype:0000770 ! embryonic cell morphology variant is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0001374 ! pronuclear nuclear appearance variant emb [Term] id: WBPhenotype:0001160 name: pronuclear envelope morphology defective early emb def: "Morphology of the pronuclear envelope is atypical in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pronuclear envelope morphology abnormal" NARROW [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001161 name: maternal pronucleus indistinct early emb def: "Maternal pronucleus has a blurry appearance. The nuclear envelope does not have a crisp circular shape." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001160 ! pronuclear envelope morphology defective early emb [Term] id: WBPhenotype:0001162 name: pronuclear number defective early emb def: "There are more than two pronuclei in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pronuclear number abnormal" NARROW [] is_a: WBPhenotype:0001142 ! nuclear number defective early emb [Term] id: WBPhenotype:0001163 name: pronucleus formation failure early emb def: "Either the maternal or paternal pronucleus is absent." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001162 ! pronuclear number defective early emb [Term] id: WBPhenotype:0001164 name: excess pronucleus early emb def: "There is either more than one maternal or paternal pronucleus in the inviable embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001162 ! pronuclear number defective early emb is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001165 name: excess maternal pronucleus early emb def: "One-cell embryos have two or more maternal pronuclei." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001164 ! excess pronucleus early emb [Term] id: WBPhenotype:0001166 name: excess paternal pronucleus variant centrosome early emb def: "More than one paternal pronucleus is present in the inviable one-cell embryo or there is a defect in centrosome structure." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "excess paternal pronucleus abnormal" NARROW [] is_a: WBPhenotype:0001164 ! excess pronucleus early emb [Term] id: WBPhenotype:0001167 name: pseudocleavage defective early emb def: "Pseudocleavage is atypical in the inviable one-cell embryo." [WB:cab, WB:WBPerson1815] synonym: "Emb" BROAD [] synonym: "pseudocleavage abnormal" NARROW [] is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001168 name: pseudocleavage absent early emb def: "No pseudocleavage is observed before or during pronuclear migration." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "no pseudocleavage" RELATED [] is_a: WBPhenotype:0001167 ! pseudocleavage defective early emb [Term] id: WBPhenotype:0001169 name: pseudocleavage exaggerated early emb def: "Embryos have more pronounced pseudocleavage than normal." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001167 ! pseudocleavage defective early emb [Term] id: WBPhenotype:0001170 name: sterile F0 48 hours post injection def: "Injected worm stops producing embryos 48 hours after RNAi injection and contains no live/developing embryos at this time." [WB:cab, WB:cgc5599] synonym: "P0 sterile" NARROW [] synonym: "Ste" BROAD [] is_a: WBPhenotype:0000689 ! maternal sterile [Term] id: WBPhenotype:0001171 name: shortened life span def: "The duration of viability in the adult phase of the life-cycle is less than that of control animals." [GO:0008340, WB:WBPerson712] synonym: "Age" BROAD [] synonym: "life span reduced" RELATED [] synonym: "longevity decreased" RELATED [] is_a: WBPhenotype:0000039 ! life span variant [Term] id: WBPhenotype:0001172 name: programmed cell death variant def: "Developmentally regulated termination of a cell or cell group does not occur as in control animals." [WB:WBPerson712] synonym: "programmed cell death abnormal" NARROW [] is_a: WBPhenotype:0000729 ! cell death variant [Term] id: WBPhenotype:0001173 name: non apoptotic cell death variant def: "Animals exhibit variations in the specific activation or halting of processes within a cell that occur through necrosis or programmed cell death pathways different from apoptosis, so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death, compared to control." [GO:0008219, WB:WBPerson712] synonym: "non apoptotic cell death abnormal" NARROW [] is_a: WBPhenotype:0001172 ! programmed cell death variant [Term] id: WBPhenotype:0001174 name: chromosome disjunction defective def: "Chromosomes fail to segregate away from their homolog, resulting in gametes with no or extra copies of the chromosome." [WB:WBPerson712] synonym: "chromosome disjunction abnormal" NARROW [] is_a: WBPhenotype:0001499 ! meiotic chromosome segregation variant is_a: WBPhenotype:0001882 ! aneuploidy is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001175 name: high incidence male progeny def: "Higher numbers of male progeny occur in the population compared to control populations. In C. elegans, the high incidence of males phenotype in a self-fertilizing hermaphrodite population is a result of an increase in X chromosome nondisjunction." [WB:cab, WB:WBPaper00004402, WB:WBPaper00005654, WB:WBPerson712] synonym: "high frequency X chromosome nondisjunction" RELATED [] synonym: "Him" BROAD [] is_a: WBPhenotype:0001664 ! X chromosome nondisjunction [Term] id: WBPhenotype:0001176 name: one cell shape defective early emb def: "One-cell embryos have an altered shape." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] synonym: "one cell shape abnormal" NARROW [] is_a: WBPhenotype:0001135 ! embryonic morphology defective early emb [Term] id: WBPhenotype:0001177 name: embryo osmotic pressure sensitive early emb def: "Embryos rupture when placed on a 2% agar pad and covered with a coverslip." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001178 ! egg integrity defective early emb [Term] id: WBPhenotype:0001178 name: egg integrity defective early emb def: "The structure of the egg is impaired, flawed or no longer intact." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001100 ! early embryonic lethal is_a: WBPhenotype:0002075 ! eggshell formation variant [Term] id: WBPhenotype:0001179 name: obsolete No variantity scored def: "OBSOLETE. Phenotypic examination of worms did not reveal an obvious abnormality compared with control animals." [WB:cab] comment: The phenotype ontology was restructured such that "Abnormal" is now the root term. The term "Abnormal" with a "Not" qualifier is a suggested replacement for this term. comment: This phenotype was intended to reflect a lack of any phenotypic abnormality in the individuals in question. The C. elegans phenotype ontology no longer has terms specifically used to assert negation of a phenotype. synonym: "No abnormal" NARROW [] synonym: "WT" RELATED [] is_obsolete: true [Term] id: WBPhenotype:0001180 name: accumulated germline cell corpses def: "Animals exhibit an increase in the quantity of germ line cells that have undergone programmed cell death but have not been engulfed." [WB:WBPerson712] is_a: WBPhenotype:0000241 ! accumulated cell corpses [Term] id: WBPhenotype:0001181 name: accumulated somatic cell corpses def: "Animals exhibit an increase in the quantity of non-germ line cells that have undergone programmed cell death but have not been engulfed." [WB:WBPerson712] is_a: WBPhenotype:0000241 ! accumulated cell corpses [Term] id: WBPhenotype:0001182 name: fat content variant def: "Animals exhibit variations in the amount of fat or lipids present in the organism compared to control animals." [GO:0019915, WB:WBPaper00032082, WB:WBPerson712] synonym: "fat content abnormal" NARROW [] synonym: "lipid content abnormal" RELATED [] synonym: "lipid content variant" RELATED [] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0001183 name: fat content reduced def: "Animals exhibit less fat or lipid than observed in control animals." [GO:0019915, WB:WBPaper00032082, WB:WBPerson712] synonym: "lipid content reduced" RELATED [] is_a: WBPhenotype:0001182 ! fat content variant [Term] id: WBPhenotype:0001184 name: fat content increased def: "Animals exhibit a greater amount of fat or lipids than observed in control animals." [GO:0019915, WB:WBPaper00032082, WB:WBPerson712] synonym: "lipid content increased" RELATED [] is_a: WBPhenotype:0001182 ! fat content variant [Term] id: WBPhenotype:0001185 name: embryonic developmental delay early emb def: "The developmental progression of an early embryo over time, from its formation to its mature structure is delayed compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0000848 ! developmental delay is_a: WBPhenotype:0001100 ! early embryonic lethal [Term] id: WBPhenotype:0001186 name: embryo delayed at pronuclear contact early emb def: "Embryos are either delayed or arrested at pronuclear contact." [WB:cab, WB:cgc5599] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001185 ! embryonic developmental delay early emb [Term] id: WBPhenotype:0001187 name: division EMS before P2 early emb def: "EMS divides before P2." [WB:WBPerson557] synonym: "Emb" BROAD [] is_a: WBPhenotype:0001120 ! relative cell cycle timing defective early emb [Term] id: WBPhenotype:0001188 name: radial filament structure variant pharynx def: "Animals exhibit variations in the form, structure or composition of radial arrangement of actin within the pharyngeal muscle compared to control animals." [WB:WBPaper00026850, WB:WBPerson2021, WB:WBPerson557] synonym: "radial filament structure abnormal" NARROW [] is_a: WBPhenotype:0001046 ! pharyngeal muscle morphology variant [Term] id: WBPhenotype:0001189 name: adherens junctions variant pharyngeal muscle def: "Any variation in the cell junctions of the pharyngeal muscle at which the cytoplasmic face of the plasma membrane is attached to actin filaments compared to control." [WB:WBPaper00026850, WB:WBPerson2021, WB:WBPerson557] synonym: "adherens junctions abnormal" NARROW [] is_a: WBPhenotype:0001046 ! pharyngeal muscle morphology variant is_a: WBPhenotype:0001745 ! adherens junction variant [Term] id: WBPhenotype:0001190 name: pharyngeal physiology variant def: "Animals exhibit variations in any physical or chemical process required for the pharynx to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "pharyngeal physiology abnormal" NARROW [] is_a: WBPhenotype:0000606 ! alimentary system physiology variant [Term] id: WBPhenotype:0001191 name: pharyngeal muscle physiology variant def: "Animals exhibit variations in any physical or chemical process required for muscles in the pharynx to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "pharyngeal muscle physiology abnormal" NARROW [] is_a: WBPhenotype:0000990 ! muscle cell physiology variant is_a: WBPhenotype:0001190 ! pharyngeal physiology variant [Term] id: WBPhenotype:0001192 name: calcium signaling pharynx variant def: "Any variation in the series of molecular signals in which a pharyngeal cell uses calcium ions to convert an extracellular signal into a response, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "calcium signaling pharynx abnormal" NARROW [] is_a: WBPhenotype:0001191 ! pharyngeal muscle physiology variant is_a: WBPhenotype:0002170 ! calcium mediated signaling variant [Term] id: WBPhenotype:0001193 name: disorganized pharyngeal EPG def: "Electropharyngeograms do not show a similar pattern as control animals. C. elegans animals show a repeating regular pattern in which each pump is associated with an excitatory depolarizing wave, often punctuated by brief negative spikes, followed by a plateau phase, and ending with an inhibitory hyperpolarizing wave." [WB:cab, WB:cgc7545] is_a: WBPhenotype:0000980 ! pharyngeal contraction variant [Term] id: WBPhenotype:0001194 name: extra and ectopic neuron def: "Animals have one or more extra neurons, which are present in places they are normally not found, when compared to the number and location of these neurons in control animals." [WB:WBPaper00027335, WB:WBPerson712] is_a: WBPhenotype:0001303 ! extra and ectopic cell [Term] id: WBPhenotype:0001195 name: generation calcium signal defective pharynx def: "Rhythmic calcium increases in the pharynx are observed less often than in control animals. In C. elegans, rhythmic increases in intracellular calcium are often observed using a transgenically expressed cameleon, a ratiometric calcium indicator." [WB:cab, WB:cgc4194, WB:cgc7545] is_a: WBPhenotype:0001192 ! calcium signaling pharynx variant [Term] id: WBPhenotype:0001196 name: synchronization calcium signal defective pharynx def: "Calcium spikes lack synchrony in the musculature of the corpus and the terminal bulb as seen in control." [WB:cab, WB:cgc7545] is_a: WBPhenotype:0001192 ! calcium signaling pharynx variant [Term] id: WBPhenotype:0001197 name: somatic gonad physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the somatic gonad to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "somatic gonad physiology abnormal" NARROW [] is_a: WBPhenotype:0000613 ! reproductive system physiology variant [Term] id: WBPhenotype:0001198 name: somatic sheath physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the somatic sheath system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "somatic sheath physiology abnormal" NARROW [] is_a: WBPhenotype:0000929 ! hermaphrodite physiology variant is_a: WBPhenotype:0000990 ! muscle cell physiology variant is_a: WBPhenotype:0001197 ! somatic gonad physiology variant [Term] id: WBPhenotype:0001199 name: gonad sheath contractions variant def: "Animals exhibit variations in any physical or chemical process required for the contraction of a thin continuous tube surrounding the proximal portions of the ovary and covering the maturing oocytes to the near portion of the distal gonad arm, compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "gonad sheath contractions abnormal" NARROW [] is_a: WBPhenotype:0001198 ! somatic sheath physiology variant [Term] id: WBPhenotype:0001200 name: gonad sheath contraction rate reduced def: "Basal contraction rate and or peak contraction rate of the gonadal sheath is reduced relative to control animals." [WB:cab, WB:cgc7545] is_a: WBPhenotype:0001199 ! gonad sheath contractions variant [Term] id: WBPhenotype:0001201 name: no expulsion defecation def: "Animals lack the stereotyped muscle contractions that result in the opening of anus." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000391 ! defecation missing motor steps [Term] id: WBPhenotype:0001202 name: nicotine hypersensitive def: "Animals respond to nicotine at lower concentrations or shorter exposure compared to control. Nicotine is a cholinergic agonist." [WB:cab, WB:cgc7388, WB:WBPerson557] is_a: WBPhenotype:0001573 ! nicotine response variant is_a: WBPhenotype:0001579 ! cholinergic agonist hypersensitive [Term] id: WBPhenotype:0001203 name: nicotine resistant def: "Animals fail to respond to the concentration of nicotine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:cab, WB:cgc7388, WB:WBPerson557] is_a: WBPhenotype:0001573 ! nicotine response variant is_a: WBPhenotype:0001578 ! cholinergic agonist resistant [Term] id: WBPhenotype:0001204 name: muscimol resistant def: "Animals fail to respond to the concentration of muscimol that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0002047 ! muscimol response variant [Term] id: WBPhenotype:0001205 name: muscimol hypersensitive def: "Animals respond to muscimol at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0002047 ! muscimol response variant [Term] id: WBPhenotype:0001206 name: movement variant def: "Variations in the process by which an organism travels from one location to another compared to control." [WB:WBPerson2021, WB:WBPerson557] subset: phenotype_slim_wb synonym: "movement abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001207 name: protein signaling variant def: "Any variation in a series of protein mediated signals that help relay information within the cell, and thereby affecting changes in the functioning of the cell, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "protein signaling abnormal" NARROW [] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0001208 name: RNAi resistant def: "Animals show reduced susceptibility to gene silencing triggered by double stranded RNA (RNAi), compared to control." [WB:WBPerson2021] synonym: "Rde" BROAD [] synonym: "RNAi deficient" EXACT [] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001209 name: skiddy def: "Apparently normal sinusoidal movement, but appear to have poor traction on the agar surface of a culture plate." [WB:cab, WB:WBPaper00026735] synonym: "Skd" BROAD [] is_a: WBPhenotype:0001701 ! spastic locomotion [Term] id: WBPhenotype:0001210 name: pericellular component physiology variant def: "Animals exhibit variations in any physical or chemical process taking place in extracellular spaces within or associated with the organism, from that observed for control animals." [WB:WBPerson712] subset: phenotype_slim_wb synonym: "pericellular component physiology abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0001211 name: cuticle integrity variant def: "The physical strength or function of the cuticle is varies from that observed for control animals." [WB:WBPerson712] synonym: "cuticle integrity abnormal" NARROW [] is_a: WBPhenotype:0001678 ! cuticle physiology variant [Term] id: WBPhenotype:0001212 name: cuticle fragile def: "The strength of the cuticle is less robust than that observed for control animals. In C. elegans the strength of the cuticle is often assayed by it's ability to protect the animal from exposure to bleach or other compounds." [WB:WBPerson712] is_a: WBPhenotype:0001211 ! cuticle integrity variant [Term] id: WBPhenotype:0001213 name: locomotion reduced alt_id: WBPhenotype:0001288 def: "Animals exhibit a decrease in any parameter used to measure locomotion compared to control animals." [WB:cab] synonym: "movement reduced" EXACT [] is_a: WBPhenotype:0000641 ! activity level variant [Term] id: WBPhenotype:0001214 name: obsolete metaphase to anaphase transition fails def: "OBSOLETE." [WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0001496 [Term] id: WBPhenotype:0001215 name: germ cell mitosis variant def: "Variations in the mitotic expansion of germ cell populations or in the appearance of nuclei during development in the premeiotic region of the germline compared to control." [WB:WBPaper00001007, WB:WBPaper00005486, WB:WBPerson2021] synonym: "germ cell mitosis abnormal" NARROW [] is_a: WBPhenotype:0000823 ! germline proliferation variant [Term] id: WBPhenotype:0001216 name: meiosis metaphase to anaphase transition block def: "Oocyte chromosomes arrest in metaphase of meiosis I without transitioning to anaphase or producing polar bodies." [pmid:11134076, WB:cab] synonym: "Mat" BROAD [] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb is_a: WBPhenotype:0001496 ! metaphase to anaphase transition defect [Term] id: WBPhenotype:0001217 name: germ cell mitosis metaphase to anaphase transition block def: "Germ line cells exhibit variations in the process whereby a cell progresses from metaphase to anaphase during mitosis, compared to control." [WB:WBPerson712] is_a: WBPhenotype:0001215 ! germ cell mitosis variant is_a: WBPhenotype:0001497 ! mitotic metaphase to anaphase transition defect [Term] id: WBPhenotype:0001218 name: cell death sexually dimorphic variant def: "Animals exhibit variations in the rate or extent of programmed cell death as it pertains to a sex-specific feature, compared to control populations." [WB:WBPerson712] synonym: "cell death sexually dimorphic abnormal" NARROW [] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0001219 name: cell survival sexually dimorphic increased def: "Animals exhibit a decrease in the rate or extent of programmed cell death and thus an increase in cell survival, as it pertains to a sex-specific feature, compared to control populations." [WB:WBPerson712] is_a: WBPhenotype:0001218 ! cell death sexually dimorphic variant [Term] id: WBPhenotype:0001220 name: cell death sexually dimorphic increased def: "Animals exhibit in increase in the rate or extent of programmed cell death as it pertains to a sex-specific feature, compared to control populations." [WB:WBPerson712] is_a: WBPhenotype:0001218 ! cell death sexually dimorphic variant [Term] id: WBPhenotype:0001221 name: nose touch defective def: "Animal fails to exhibit characteristic response after a nose-on collision with an object compared to control. In C. elegans, this is usually assayed with a hair or similar fiber. The nose is the anterior most tip of the animal." [WB:WBPaper00001705, WB:WBPerson557] synonym: "Not" BROAD [] is_a: WBPhenotype:0000456 ! touch resistant is_a: WBPhenotype:0004026 ! nose touch variant [Term] id: WBPhenotype:0001222 name: transposon mutator def: "Animals exhibit an increase in frequency of transposition events (DNA movement to different positions within the genome of a single cell) causing an accumulation of lesions within the genome, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "Mut" RELATED [] synonym: "mutator" RELATED [] is_a: WBPhenotype:0000228 ! spontaneous mutation rate increased [Term] id: WBPhenotype:0001223 name: germline RNAi resistant def: "Animals show reduced susceptibility to gene silencing in the germline triggered by double stranded RNA (RNAi), compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001208 ! RNAi resistant [Term] id: WBPhenotype:0001224 name: axon outgrowth variant def: "Any variation in the processes that govern the extension of axons compared to control." [GO:0048675, WB:WBPerson2021] synonym: "axon migration variant" RELATED [] synonym: "axon outgrowth abnormal" NARROW [] is_a: WBPhenotype:0000572 ! neuronal outgrowth variant [Term] id: WBPhenotype:0001225 name: phasmid socket absent def: "Animals are missing the interfacial hypodermal cell (socket cell) of the phasmid sensillum pore." [WB:WBPaper00000938, WB:WBPaper00004350, WB:WBPaper00026656, WB:WBPerson712] synonym: "Psa" RELATED [] is_a: WBPhenotype:0000257 ! phasmid morphology variant [Term] id: WBPhenotype:0001226 name: commissure variant def: "Animals display variations in the structure, organization or path of the part of the axon that forms a bridge between body regions, compared to that in control animals." [WB:WBPaper00000938, WB:WBPaper00001576, WB:WBPaper00029065, WB:WBPerson712] synonym: "commissure abnormal" NARROW [] is_a: WBPhenotype:0000181 ! axon trajectory variant [Term] id: WBPhenotype:0001227 name: commissure absent def: "Animals are missing any one of its commissures, an axon tract that connects one body part to another." [WB:WBPaper00027335, WB:WBPerson712] is_a: WBPhenotype:0001226 ! commissure variant [Term] id: WBPhenotype:0001228 name: alae absent def: "Animals lack the small linear ridges running along the lateral lines of the cuticle, lengthwise along the body (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000202 ! alae variant [Term] id: WBPhenotype:0001229 name: anterior neuron migration defective def: "The orderly movement of neurons along the anterior axis of the animal is abolished, misdirected or incomplete compared to control." [WB:WBPerson2021] synonym: "abnormal anterior neuron migration" NARROW [] is_a: WBPhenotype:0001140 ! neuron migration variant [Term] id: WBPhenotype:0001230 name: anterior cell migration defective def: "The orderly movement of cells along the anterior axis of the animal is abolished, misdirected or incomplete compared to control." [WB:WBPerson2021] synonym: "abnormal anterior cell migration" NARROW [] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0001231 name: intraflagellar transport accelerated def: "The rate, frequency or extent of bidirectional movement of large protein complexes (mediated by motor proteins) along microtubules within a cilium or flagellum is increased compared to control." [WB:WBPerson2021] synonym: "ift accelerated" RELATED [] is_a: WBPhenotype:0000853 ! intraflagellar transport variant [Term] id: WBPhenotype:0001232 name: serotonin response variant def: "Animals exhibit variations in the response to the addition of serotonin compared to that observed in control animals. Serotonin is a monoamine neurotransmitter." [WB:WBPerson557] synonym: "serotonin response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001233 name: DAPI staining variant def: "Animals exhibit variations in the pattern of a chemical nuclear stain which is commonly used in fixed specimens and produces a bright blue label, compared to control. DAPI (4'-6-Diamidino-2-phenylindole) forms fluorescent complexes with natural double-stranded DNA (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "DAPI staining abnormal" NARROW [] is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0001234 name: nonanone chemotaxis defective def: "Failure to execute the characteristic response to nonanone compared to control. In C. elegans, nonanone is a repellant." [WB:WBPaper00002917] is_a: WBPhenotype:0001448 ! odorant negative chemotaxis defective is_a: WBPhenotype:0001456 ! nonanone chemotaxis variant [Term] id: WBPhenotype:0001235 name: cell division polarity variant def: "Any variation in the orientation of the physical partitioning and separation of a cell into daughter cells compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "cell division polarity abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0001236 name: transgene expression increased def: "Any increase in the intensity of expression of a gene product produced by exogenous DNA that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] is_a: WBPhenotype:0000962 ! level of transgene expression variant [Term] id: WBPhenotype:0001237 name: excess axon outgrowth def: "Any perturbation that causes an increase in the frequency of axon outgrowth compared to control. As a result, an excess number of axonal projections are generated." [GO:0030517, WB:WBPerson2021] is_a: WBPhenotype:0000629 ! excess neurite outgrowth is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0001238 name: male mating latency variant def: "Any variation in the length of time required for a male to find a mate and initiate the search for the vulva. In C. elegans, the latency period includes the time males spend to find a hermaphrodite and pause to press its ventral side against the surface of the hermaphrodite and initiate a backing up search for the vulva." [pmid:16624900, WB:cab] synonym: "male mating latency abnormal" NARROW [] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0001239 name: mating latency increased def: "Any increase in the length of time required for a male to find a mate and initiate the search for the vulva. In C. elegans, the latency period includes the time males spend to find a hermaphrodite and pause to press its ventral side against the surface of the hermaphrodite and initiate a backing up search for the vulva." [pmid:16624900] is_a: WBPhenotype:0001238 ! male mating latency variant is_a: WBPhenotype:0001414 ! male mating defective [Term] id: WBPhenotype:0001240 name: male tail sensory ray differentiation variant def: "Variations in the processes leading to the specialization of the finger-like sensory sensilla that project from the tail and embed in the male fan compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "male tail sensory ray differentiation abnormal" NARROW [] is_a: WBPhenotype:0000199 ! male tail sensory ray development variant [Term] id: WBPhenotype:0001241 name: obsolete ray fusion def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000297 [Term] id: WBPhenotype:0001242 name: intraflagellar transport slow def: "The rate, frequency or extent of bidirectional movement of large protein complexes (mediated by motor proteins) along microtubules within a cilium or flagellum is lower compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0000854 ! intraflagellar transport defective [Term] id: WBPhenotype:0001243 name: intraflagellar transport distance short def: "The bidirectional transport of molecules (cargo) along axonemal microtubules is reduced compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001247 ! anterograde transport defective [Term] id: WBPhenotype:0001244 name: intraflagellar transport absent def: "Bidirectional movement of large protein complexes (mediated by motor proteins) along microtubules within a cilium or flagellum is completely abolished." [WB:WBPerson2021] is_a: WBPhenotype:0000854 ! intraflagellar transport defective [Term] id: WBPhenotype:0001245 name: no transport middle segment cilia def: "The bidirectional transport of molecules along the middle segment of axonemal microtubules of the cilia is absent." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001243 ! intraflagellar transport distance short [Term] id: WBPhenotype:0001246 name: no transport distal segment cilia def: "The bidirectional transport of molecules along the distal segment of axonemal microtubules of the cilia is absent." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001243 ! intraflagellar transport distance short [Term] id: WBPhenotype:0001247 name: anterograde transport defective def: "The directed movement of organelles or molecules along microtubules from the cell body toward the cell periphery in nerve cell axons is disrupted." [WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. is_a: WBPhenotype:0000854 ! intraflagellar transport defective is_a: WBPhenotype:0001477 ! anterograde transport variant [Term] id: WBPhenotype:0001248 name: wing cilia morphology variant def: "Animals exhibit variations in the structure or organization of the microtuble-based projections that in control animals invaginate individually into the sheath cell of the neuronal sensillum rather than projecting through the socket cell to the outside. In C. elegans, the cilia of each wing cell has its own unique shape and as they are not exposed to the outside, they do not typically take up dyes." [WB:WBPaper00000932, WB:WBPaper00029016, WB:WBPerson712] synonym: "AWC cilia morphology abnormal" RELATED [] synonym: "wing cilia morphology abnormal" NARROW [] is_a: WBPhenotype:0000615 ! cilia morphology variant [Term] id: WBPhenotype:0001249 name: amphid channel cilia morphology variant def: "Animals exhibit variations in the structure or composition of the dendritic projections of the amphid sensory neurons that traverse the sensillum pore to connect with the outside of the animal, compared to that observed in control animals. In C. elegans, amphid channel cilia morphology is frequently assayed by dye-filling experiments using FITC, DiI or DiO." [WB:WBPaper00000932, WB:WBPerson712] synonym: "amphid channel cilia morphology abnormal" NARROW [] is_a: WBPhenotype:0000615 ! cilia morphology variant [Term] id: WBPhenotype:0001250 name: amphid channel axoneme morphology variant def: "Animals exhibit variations in the structure or composition of the microtuble-based fibrillar core, axoneme, of the cilia of the neurons that project through the sensillum pore to the outside of the animal, compared to that observed in control animals." [WB:WBPaper00000932, WB:WBPerson557, WB:WBPerson712] synonym: "amphid channel axoneme morphology abnormal" NARROW [] is_a: WBPhenotype:0000262 ! axoneme morphology variant is_a: WBPhenotype:0001249 ! amphid channel cilia morphology variant [Term] id: WBPhenotype:0001251 name: amphid channel axoneme short def: "The microtuble-based fibrillar-bundles of the amphid sensory cilia are reduced in length compared to those in control animals." [WB:WBPaper00000932, WB:WBPaper00027116, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001250 ! amphid channel axoneme morphology variant [Term] id: WBPhenotype:0001252 name: wing cilia axoneme morphology variant def: "Animals exhibit variations in the structure or organization of the microtubule-based fibrillar section, axoneme, of the cilia of the flat sheet-like cells associated with sensory function, from that observed in control animals." [WB:WBPerson712] synonym: "wing cilia axoneme morphology abnormal" NARROW [] is_a: WBPhenotype:0001248 ! wing cilia morphology variant [Term] id: WBPhenotype:0001253 name: wing cilia axoneme short def: "The microtuble-based fibrillar-bundle, axoneme, of the wing cell cilia are reduced in length and do not extend into the sheath cell as far as they do in control animals." [WB:WBPerson712] is_a: WBPhenotype:0001252 ! wing cilia axoneme morphology variant [Term] id: WBPhenotype:0001254 name: amphid channel cilia bulbous def: "The dendritic processes that normally extend through the amphid sensillum pore to the outside are truncated and have swollen ends as opposed to the extended and finger-like tips of channel cilia in control animals." [WB:WBPaper00027116, WB:WBPerson712] is_a: WBPhenotype:0001249 ! amphid channel cilia morphology variant [Term] id: WBPhenotype:0001255 name: wing cilia bulbous def: "Animals exhibit wing cell sensory cilia that are truncated and swollen unlike that observed in control animals." [WB:WBPaper00027116, WB:WBPerson712] is_a: WBPhenotype:0001248 ! wing cilia morphology variant [Term] id: WBPhenotype:0001256 name: DNA damage induced focus formation variant def: "Variations in the aggregation of molecules at the site of DNA strand breakage or damage compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "DNA damage induced focus formation abnormal" NARROW [] synonym: "DNA repair induced focus formation" RELATED [] is_a: WBPhenotype:0000739 ! DNA damage response variant [Term] id: WBPhenotype:0001257 name: cross link induced focus formation variant def: "Variations in the generation of foci that mark sites of aberrant bonding of molecules to the DNA strand, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "cross link induced focus formation abnormal" NARROW [] is_a: WBPhenotype:0001256 ! DNA damage induced focus formation variant [Term] id: WBPhenotype:0001258 name: RNAi enhanced def: "Animals show increased susceptibility to gene silencing triggered by double stranded RNA (RNAi), compared to control." [WB:WBPerson2021] synonym: "Eri" RELATED [] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001259 name: hermaphrodite fertility reduced def: "Hermaphrodites exhibit a reduction in the production of new individuals owing to defects in gamete competence and/or function compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000806 ! hermaphrodite fertility variant [Term] id: WBPhenotype:0001260 name: oocyte morphology variant def: "Haploid female germ cells (oocytes) exhibit variations in their overall structure, appearance or contents compared to control." [WB:WBPaper00001883, WB:WBPerson2021] synonym: "oocyte morphology abnormal" NARROW [] is_a: WBPhenotype:0000900 ! germ cell morphology variant [Term] id: WBPhenotype:0001261 name: pale def: "Animals show deficiencies in chroma resulting in increased translucency." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000527 ! organism pigmentation variant [Term] id: WBPhenotype:0001262 name: vulval development incomplete def: "The developmental progression of the egg-laying organ of female and hermaphrodite nematodes is halted prior to the formation of the mature structure." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000699 ! vulva development variant [Term] id: WBPhenotype:0001263 name: peroxisome morphology variant def: "The morphological appearance of peroxisomes is variant compared to control animals." [WB:cab] synonym: "peroxisome morphology abnormal" NARROW [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001264 name: peroxisome physiology variant def: "Animals exhibit variations in any physical or chemical process required for the peroxisome to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "peroxisome physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001265 name: head movement variant def: "The anterior portion of the animal exhibits variations in its movement compared to control." [WB:WBPaper00000214] synonym: "Erratic head vibration" NARROW [] synonym: "head movement abnormal" NARROW [] is_a: WBPhenotype:0001699 ! localized movement variant [Term] id: WBPhenotype:0001266 name: genetic pathway activation variant def: "Any variation in triggering of the set of interactions occurring between a group of genes who depend on each other's individual functions in order to make the aggregate function of the network available to the cell, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "genetic pathway activation abnormal" NARROW [] is_a: WBPhenotype:0000074 ! genetic pathway variant [Term] id: WBPhenotype:0001267 name: induced contraction rate variant def: "Any variation in the frequency of gonad sheath contractions triggered by internal or external stimuli compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "induced contraction rate abnormal" NARROW [] is_a: WBPhenotype:0001199 ! gonad sheath contractions variant [Term] id: WBPhenotype:0001268 name: induced cell death variant def: "Animals exhibit variations in the extent of activation of programmed cell death, compared to control." [WB:WBPerson712] synonym: "induced cell death abnormal" NARROW [] is_a: WBPhenotype:0000729 ! cell death variant [Term] id: WBPhenotype:0001269 name: pathogen induced cell death variant def: "Animals exhibit variations in the extent of activation of programmed cell death by exposure to a pathogen or pathogenic cue, compared to control." [WB:WBPerson712] synonym: "pathogen induced cell death abnormal" NARROW [] is_a: WBPhenotype:0001268 ! induced cell death variant [Term] id: WBPhenotype:0001270 name: pathogen induced cell death reduced def: "Animals exhibit a decrease in the extent of activation of programmed cell death by exposure to a pathogen or pathogenic cue, compared to control." [WB:WBPerson712] is_a: WBPhenotype:0001269 ! pathogen induced cell death variant [Term] id: WBPhenotype:0001271 name: pathogen induced death increased def: "Animals are more prone to lethality as a result of infection compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001013 ! pathogen susceptibility increased [Term] id: WBPhenotype:0001272 name: vulval cell induction variant def: "Vulval precursor cells inappropriately adopt fates that are normally restricted to other vulval precursor cells compared to control." [WB:WBPerson2021] synonym: "vulval cell induction abnormal" NARROW [] synonym: "vulval precursor cell induction abnormal" EXACT [] is_a: WBPhenotype:0000220 ! vulva cell fate specification variant [Term] id: WBPhenotype:0001273 name: organism heat response variant def: "Any variation in the state or activity of an organism (in terms of movement, gene expression, etc.) in response to heat (high temperatures above the optimal temperature for that organism), compared to control." [GO:0009408, WB:WBPerson2021] synonym: "organism heat response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001274 name: organism heat hypersensitive def: "Animals respond to heat at a lower temperature or a shorter exposure time compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001273 ! organism heat response variant [Term] id: WBPhenotype:0001275 name: increased genetic pathway signal def: "Any variation that increases the magnitude of a signal generated by a set of gene interactions in a given pathway, compared to control." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000074 ! genetic pathway variant [Term] id: WBPhenotype:0001276 name: ectopic expression transgene def: "Any variation in the cellular expression of a gene product produced by exogenous DNA that has been introduced into the organism such that it now expresses in cells/tissues not seen when compared to the expression of that gene product in control animals." [WB:WBPerson557] is_a: WBPhenotype:0000961 ! pattern of transgene expression variant [Term] id: WBPhenotype:0001277 name: transformer def: "XX animals are transformed into males or pseudomales ." [WB:cab, WB:WBPerson712] synonym: "Tra" RELATED [] is_a: WBPhenotype:0001572 ! masculinized [Term] id: WBPhenotype:0001278 name: transgene expression reduced def: "Any decrease in the intensity of expression of a gene product produced by exogenous DNA that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] is_a: WBPhenotype:0000962 ! level of transgene expression variant [Term] id: WBPhenotype:0001279 name: transgene expression reduced male def: "Any decrease in the intensity of expression of a gene product produced by exogenous DNA, exclusively in the male, that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] is_a: WBPhenotype:0001278 ! transgene expression reduced [Term] id: WBPhenotype:0001280 name: transgene expression reduced hermaphrodite def: "Any decrease in the intensity of expression of a gene product produced by exogenous DNA, exclusively in the hermaphrodite, that has been introduced into the organism compared to its expression in control animals." [WB:WBPerson557] is_a: WBPhenotype:0001278 ! transgene expression reduced [Term] id: WBPhenotype:0001281 name: stuffed pharynx def: "Pharynx becomes clogged with food. In C. elegans, this is often a result of pharyngeal pumping defects." [WB:cab] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant is_a: WBPhenotype:0000778 ! feeding inefficient [Term] id: WBPhenotype:0001282 name: mitochondrial metabolism variant def: "Variations in the chemical reactions and pathways of the mitochondria compared to control." [WB:WBPerson2021] synonym: "mitochondrial metabolism abnormal" NARROW [] is_a: WBPhenotype:0001283 ! organelle metabolism variant [Term] id: WBPhenotype:0001283 name: organelle metabolism variant def: "Variations in the chemical reactions and pathways of an organelle compared to control." [WB:WBPerson2021] synonym: "organelle metabolism abnormal" NARROW [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0001284 name: coenzyme Q depleted def: "Animals contain a lower level of coenzyme Q, an oil-soluble vitamin-like substance present in most eukaryotic cells, primarily in the mitochondria, compared to control. It is a component of the electron transport chain and participates in aerobic cellular respiration." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000026 ! lipid depleted is_a: WBPhenotype:0001282 ! mitochondrial metabolism variant [Term] id: WBPhenotype:0001285 name: induced pharyngeal pumping variant def: "Pharyngeal pumping is not influenced by treatment with specific compounds (eg: serotonin) in the same manner as control animals." [WB:WBPerson2021] synonym: "induced pharyngeal pumping abnormal" NARROW [] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0001286 name: food suppressed pumping variant def: "Exposure to food does not reduce pharyngeal pumping to the same extent as observed in control animals." [WB:WBPerson2021] synonym: "food suppressed pumping abnormal" NARROW [] is_a: WBPhenotype:0001072 ! response to food variant is_a: WBPhenotype:0001287 ! suppressed pharyngeal pumping defective [Term] id: WBPhenotype:0001287 name: suppressed pharyngeal pumping defective def: "Animals do not exhibit a decrease in pumping rate when treated with specific compounds (such as pheromones) as is observed for control animals." [WB:WBPaper00032082, WB:WBPerson712] synonym: "suppressed pharyngeal pumping abnormal" NARROW [] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0001288 def: "OBSOLETE." [] comment: is alternative id for "locomotion reduced" (WBPhenotype:0001213); may have originally had term name "movement reduced" is_obsolete: true replaced_by: WBPhenotype:0001213 [Term] id: WBPhenotype:0001289 name: acetylcholinesterase inhibitor resistant def: "Animals fail to respond to the concentration of acetylcholinesterase inhibitor that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0001290 ! acetylcholinesterase inhibitor response variant [Term] id: WBPhenotype:0001290 name: acetylcholinesterase inhibitor response variant def: "Animals exhibit variations in their response to a specific acetylcholinesterase inhibitor compared to that observed in control animals." [WB:WBPerson557] synonym: "acetylcholinesterase inhibitor response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001291 name: social behavior variant def: "Animals exhibit variations in actions and responses that occurs predominantly, or only, in individuals that are part of a group, from that observed for animals in a control group." [GO:0035176, WB:WBPerson712] synonym: "social behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001292 name: body wall muscle physiology variant def: "Animals exhibit variations in any physical or chemical process required for cells as a collective unit of the body wall muscle system to carry out their normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "body wall muscle physiology abnormal" NARROW [] is_a: WBPhenotype:0000990 ! muscle cell physiology variant [Term] id: WBPhenotype:0001293 name: larval physiology variant def: "Animals exhibit variations in any physical or chemical process required for the larva to carry out its normal metabolic functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson712] synonym: "larval physiology abnormal" NARROW [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0001294 name: head bent def: "The most anterior portion of the animal is not aligned with the axis of the body." [WB:WBPaper00000031] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0001295 name: body twisted def: "Any portion of the animal, between the head and the tail, appears distorted, usually due to uncharacteristic winding." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0001296 name: lannate resistant def: "Animals fail to respond to the concentration of lannate that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001289 ! acetylcholinesterase inhibitor resistant [Term] id: WBPhenotype:0001297 name: male tail development variant def: "Any variation in the process whose specific outcome is the progression of the male tail over time, from its formation to the mature structure, compared to control." [WB:WBPerson2021] synonym: "male tail development abnormal" NARROW [] is_a: WBPhenotype:0000805 ! tail development variant [Term] id: WBPhenotype:0001298 name: hindgut morphology variant def: "Animals exhibit variations in the form, structure or composition of the more posterior portion of the intestine, just anterior to the sphincter valve, which is subject to squeezing by the somatal-intestinal muscles compared to control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "hindgut morphology abnormal" NARROW [] is_a: WBPhenotype:0000710 ! intestinal morphology variant [Term] id: WBPhenotype:0001299 name: cell division variant male def: "Any variation that alters the physical partitioning and separation of a cell into daughter cells in male animals compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "cell division abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0001300 name: germ cell cytoplasmic morphology variant def: "Any variation in the composition or structure of the contents within a germ cell, excluding the plasma membrane and nucleus, compared to control. Germ cells include sperm, oocytes, and their precursors." [GO:0005737, WB:WBPerson2021, WB:WBPerson557] synonym: "germ cell cytoplasmic morphology abnormal" NARROW [] is_a: WBPhenotype:0000900 ! germ cell morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001301 name: P granule defective def: "Localization or structural appearance of P-granules is altered compared to control. P-granules are cytoplasmic structures associated with germ nuclei in the C. elegans gonad, and are localized exclusively to germ cells, or germ cell precursors, throughout the life cycle." [pmid:11262230, WB:cab] synonym: "P granule abnormal" NARROW [] is_a: WBPhenotype:0001300 ! germ cell cytoplasmic morphology variant [Term] id: WBPhenotype:0001302 name: P granule localization defective def: "The restricted localization of P granules to germ cells or germ cell precursors is altered compared to control." [WB:WBPaper00001477, WB:WBPerson2021] synonym: "germ granule localization defective" RELATED [] synonym: "P granule localization abnormal" NARROW [] is_a: WBPhenotype:0001301 ! P granule defective [Term] id: WBPhenotype:0001303 name: extra and ectopic cell def: "Animals have one or more extra cells of a particular type, which are present in places they are normally not found, when compared to the number and location of these cells in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0002175 ! cell number increased is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0001304 name: hindgut damaged def: "The terminal portion of the intestine exhibits structural defects such as scarring or blockage." [WB:cab, WB:WBPaper00003719] synonym: "Scar" BROAD [] is_a: WBPhenotype:0001298 ! hindgut morphology variant [Term] id: WBPhenotype:0001305 name: hook morphology variant def: "Any variation in the form or composition of the structure that lies on the ventral surface just anterior and central to the base of the spicule openings (small lump on the gubernaculum of the male tail) and contains a sensory structure called the hook sensillum, compared to control. In C. elegans the hook is necessary for proper male mating." [WB:WBPerson2021, WB:WBPerson557] synonym: "hook morphology abnormal" NARROW [] is_a: WBPhenotype:0001489 ! gubernaculum morphology variant [Term] id: WBPhenotype:0001306 name: male reproductive system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the male reproductive system compared to control. The reproductive system is involved in the generation of progeny which contain genetic material inherited from the parents." [WB:WBPerson2021, WB:WBPerson557] synonym: "male reproductive system morphology abnormal" NARROW [] is_a: WBPhenotype:0000605 ! reproductive system morphology variant [Term] id: WBPhenotype:0001307 name: reduced body bend def: "The maximum ventral and dorsal flex of the animal is reduced compared to that observed for control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001703 ! body bend variant [Term] id: WBPhenotype:0001308 name: weak pumping def: "The contraction and relaxation movements of the pharyngeal muscle that mediate feeding is not as robust as compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0001309 name: amplitude of sinusoidal movement decreased alt_id: WBPhenotype:0000003 def: "Animals exhibit a decrease in the extent of a vibratory movement (as a worm bend) measured from the mean position to an extreme position compared to control." [WB:WBPaper00043908, WB:WBPerson2021, WB:WBPerson2987, WB:WBPerson557] synonym: "amplitude of body bends decreased" EXACT [] synonym: "flat locomotion path" EXACT [] synonym: "flattened locomotion path" EXACT [] is_a: WBPhenotype:0004022 ! amplitude of sinusoidal movement variant [Term] id: WBPhenotype:0001310 name: neuron positioning variant def: "The placement of neuronal cells, as a whole or of a specific class of neuron in the animal, deviates from that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuron positioning abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant [Term] id: WBPhenotype:0001311 name: protein expression reduced hermaphrodite def: "Variations that result in a decrease in protein expression in hermaphrodites compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000120 ! protein expression reduced [Term] id: WBPhenotype:0001312 name: neuron number variant def: "The quantity of neuronal cells, as a whole or of a specific class of neuron in the animal deviates from that observed in control animals." [WB:WBPaper00027711, WB:WBPerson712] synonym: "neuron number abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant [Term] id: WBPhenotype:0001313 name: uterine muscle variant def: "Any variation in the progression of the sex-specific muscles of the hermaphrodite, over time, whose contractions squeeze on the uterus to help move eggs towards the vulval opening compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "uterine muscle abnormal" NARROW [] is_a: WBPhenotype:0000282 ! hermaphrodite sex muscle development variant [Term] id: WBPhenotype:0001314 name: vulval muscle variant def: "Any variation in the progression of the sex-specific muscles in the hermaphrodite, over time, that are specialized for egg-laying compared to control. In C. elegans the contractions of the vulval muscles open the lips of the vulva to help in expelling an egg from the uterus (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "vulval muscle abnormal" NARROW [] is_a: WBPhenotype:0000282 ! hermaphrodite sex muscle development variant [Term] id: WBPhenotype:0001315 name: electrophysiology variant def: "Animals exhibit variations in the electrical properties of any of its cells or tissues compared to control." [WB:WBPerson2021] synonym: "electrophysiology abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0001316 name: evoked postsynaptic current variant def: "Variations in the synaptic currents that are elicited by firing an action potential in a population of axons, compared to control." [pmid:14735116, WB:WBPerson2021] synonym: "evoked postsynaptic current abnormal" NARROW [] is_a: WBPhenotype:0001315 ! electrophysiology variant [Term] id: WBPhenotype:0001317 name: evoked postsynaptic amplitude reduced def: "The amplitudes of synaptic currents that are elicited by firing an action potential in a population of axons are decreased, compared to those observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001316 ! evoked postsynaptic current variant [Term] id: WBPhenotype:0001318 name: endogenous synaptic events variant def: "Any variation in the currents observed in the absence of presynaptic action potentials and that are elicited by fusion of a single endogenous vesicle of transmitter compared to control." [pmid:14735116, WB:WBPerson2021] synonym: "endogenous synaptic events abnormal" NARROW [] is_a: WBPhenotype:0001315 ! electrophysiology variant [Term] id: WBPhenotype:0001319 name: endogenous synaptic event frequency reduced def: "The rate (frequency) of currents elicited by fusion of a single endogenous vesicle of transmitter in the absence of presynaptic action potentials is decreased compared to control. Changes in frequency are indicative of presynaptic modifications." [pmid:14735116, WB:WBPaper00026938, WB:WBPerson2021] is_a: WBPhenotype:0001318 ! endogenous synaptic events variant [Term] id: WBPhenotype:0001320 name: endogenous synaptic amplitude variant def: "The amplitude (magnitude) of currents elicited by fusion of a single endogenous vesicle of transmitter in the absence of presynaptic action potentials is altered compared to control. Changes in amplitude are often interpreted as alterations of postsynaptic responsiveness to the transmitter." [pmid:14735116, WB:WBPerson2021] synonym: "endogenous synaptic amplitude abnormal" NARROW [] is_a: WBPhenotype:0001318 ! endogenous synaptic events variant [Term] id: WBPhenotype:0001321 name: presynaptic region morphology variant def: "Animals display variations in the structure, configuration, distribution or ratio of the components of the vesicle-filled varicosities of the synapse compared to control." [GO:0042734, WB:WBPaper00000938, WB:WBPaper00027305, WB:WBPaper00028886, WB:WBPerson712] synonym: "presynaptic region morphology abnormal" NARROW [] is_a: WBPhenotype:0000616 ! synapse morphology variant [Term] id: WBPhenotype:0001322 name: obsolete vesicle number reduced def: "OBSOLETE. Total presynaptic vesicle number is reduced, possibly refecting a defect in the replenishment of synaptic vesicles compared to control." [pmid:16803962, WB:cab] comment: Electron microscopic analysis. is_obsolete: true replaced_by: WBPhenotype:0001670 [Term] id: WBPhenotype:0001323 name: vesicle morphology variant def: "Animals display variations in the shape or size of their vesicles, which are spherical, membrane-bound fluid-filled organelles, compared to vesicles observed in control animals." [GO:0031982, pmid:16803962, WB:cab, WB:WBPaper00027612, WB:WBPaper00027711, WB:WBPerson712] comment: Electron microscopic analysis. synonym: "vesicle morphology abnormal" NARROW [] is_a: WBPhenotype:0001671 ! vesicle organization variant [Term] id: WBPhenotype:0001324 name: cell ionizing radiation response variant def: "Cells exhibit variations in their response to ionizing radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "cell ionizing radiation response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0001325 name: backing not sustained def: "Animals initiate but do not continue backward movement, similar to control animals." [WB:cab, WB:cgc914] is_a: WBPhenotype:0001005 ! backward locomotion variant [Term] id: WBPhenotype:0001326 name: cell gamma ray response variant def: "Cells exhibit variations in their response to gamma ray radiation compared to that observed in control animals." [WB:WBPerson557] synonym: "cell gamma ray response abnormal" NARROW [] is_a: WBPhenotype:0001324 ! cell ionizing radiation response variant [Term] id: WBPhenotype:0001327 name: cell gamma ray hypersensitive def: "Cells respond to a lower dosage of gamma rays or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001326 ! cell gamma ray response variant [Term] id: WBPhenotype:0001328 name: posterior body dumpy def: "The posterior part of the worm is shorter and stouter compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000793 ! posterior body morphology variant [Term] id: WBPhenotype:0001329 name: curly def: "Animals exhibit a greater number of bends in their body compared to control. C. elegans posture assumes more than a single sine wave." [WB:cab, WB:cgc914] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0001330 name: egg laying event infrequent def: "The rate of the intrinsic behavioral program that serves to move fertilized eggs down the uterus, through the vulva, and out of the worm onto the substrate is reduced compared to that observed in control animals (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "egg laying event rare" RELATED [] is_a: WBPhenotype:0000006 ! egg laying defective is_a: WBPhenotype:0000272 ! egg laying irregular [Term] id: WBPhenotype:0001331 name: motor neuron morphology variant def: "Animals display variations in the structure or organization of components of the motor neuron, internal to the cell itself or in relation to the cellular environment compared to that observed in control animals. A motor neuron is a neuronal cell that synapses to an effector (muscle, gland etc.)." [WB:WBPerson712] comment: WBbt:0005409. synonym: "motor neuron morphology abnormal" NARROW [] is_a: WBPhenotype:0000905 ! neuron morphology variant [Term] id: WBPhenotype:0001332 name: vesicle number variant def: "Animals display variations in the number of spherical membrane-bound fluid-filled organelles, compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "vesicle number abnormal" NARROW [] is_a: WBPhenotype:0001671 ! vesicle organization variant [Term] id: WBPhenotype:0001333 name: neuron cell body absent misplaced def: "The body of a neuron is not where it should be when compared to control animals; it is absent or misplaced." [WB:WBPaper00000502, WB:WBPaper00000635, WB:WBPerson712] is_a: WBPhenotype:0000816 ! neuron development variant [Term] id: WBPhenotype:0001334 name: hermaphrodite sex muscle morphology variant def: "Any variation in the form, structure or composition of the muscles of the adult hermaphrodite reproductive system compared to control. In C. elegans hermaphrodites these muscles include the vulval and uterine muscles, located near the vulva in the midbody, which all derive from the M myoblast (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "hermaphrodite sex muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0001335 ! hermaphrodite reproductive system morphology variant [Term] id: WBPhenotype:0001335 name: hermaphrodite reproductive system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the hermaphrodite reproductive system, compared to control. The reproductive system is involved in the generation of progeny which contain genetic material inherited from the parents." [WB:WBPerson2021, WB:WBPerson557] synonym: "hermaphrodite reproductive system morphology abnormal" NARROW [] is_a: WBPhenotype:0000605 ! reproductive system morphology variant [Term] id: WBPhenotype:0001336 name: male mating efficiency eliminated def: "Males sire no cross progeny." [WB:WBPaper00000179, WB:WBPaper00000608, WB:WBPerson557] synonym: "no male progeny" EXACT [] is_a: WBPhenotype:0000843 ! male mating efficiency reduced [Term] id: WBPhenotype:0001337 name: adrenergic receptor antagonist response variant def: "Animals exhibit variations in their response to a specific adrenergic receptor antagonist compared to that observed in control animals." [WB:WBPerson557] synonym: "adrenergic receptor antagonist response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001338 name: phentolamine resistant def: "Animals fail to respond to the concentration of phentolamine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001337 ! adrenergic receptor antagonist response variant [Term] id: WBPhenotype:0001339 name: egg laying levamisole resistant def: "Animals are not induced to lay eggs in reponse to exogenous levamisole. In C. elegans, levamisole stimulates egg-laying." [WB:WBPaper00000635, WB:WBPerson712] is_a: WBPhenotype:0000421 ! levamisole resistant is_a: WBPhenotype:0001101 ! egg laying response to drug variant [Term] id: WBPhenotype:0001340 name: egg laying imipramine resistant def: "Animals are not induced to lay eggs in reponse to exogenous imipramine. In C. elegans, imipramine stimulates egg-laying." [WB:WBPaper00000635, WB:WBPaper00001133, WB:WBPaper00031293, WB:WBPerson712] is_a: WBPhenotype:0000340 ! imipramine resistant is_a: WBPhenotype:0001101 ! egg laying response to drug variant [Term] id: WBPhenotype:0001341 name: egg laying phentolamine resistant def: "Animals are not induced to lay eggs in reponse to exogenous phentolamine. In C. elegans, phentolamine stimulates egg-laying." [WB:WBPaper00000635, WB:WBPerson712] is_a: WBPhenotype:0001101 ! egg laying response to drug variant is_a: WBPhenotype:0001338 ! phentolamine resistant [Term] id: WBPhenotype:0001342 name: egg laying imipramine hypersensitive def: "Animals respond to exogenous imipramine at a lower concentration or within a shorter time period than control animals under the same conditions." [WB:WBPaper00000635, WB:WBPerson712] is_a: WBPhenotype:0001101 ! egg laying response to drug variant [Term] id: WBPhenotype:0001343 name: meiotic spindle defective early emb def: "Early embryos exhibit defects in the assembly, disassembly, arrangement, elongation or stabilization of the microtubule spindle during a meiotic cell cycle." [GO:0000212, WB:WBPerson2021] comment: Possible XP. is_a: WBPhenotype:0000759 ! spindle defective early emb is_a: WBPhenotype:0001868 ! meiotic spindle defective [Term] id: WBPhenotype:0001344 name: organelle organization biogenesis variant def: "Intracellular membrane bound compartments vary in shape or size from that observed in control animals." [WB:WBPaper00032168, WB:WBPerson712] synonym: "organelle organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0001345 name: cytoskeleton organization biogenesis variant def: "Animals exhibit variations in the form, structure, composition or arrangement of any of the various filamentous elements that form the internal framework of cells, compared to control. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [GO:0005856, WB:WBPerson2021, WB:WBPerson557] synonym: "cytoskeleton organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001346 name: actin cytoskeleton dynamics variant def: "Any variation in the dynamic structural changes to the arrangement of constituent parts of cytoskeletal structures comprising actin filaments and their associated proteins compared to control." [GO:0031532, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "actin cytoskeleton dynamic abnormal" NARROW [] is_a: WBPhenotype:0001587 ! actin organization biogenesis variant [Term] id: WBPhenotype:0001347 name: intestinal calcium signaling variant def: "Any variation in the series of molecular signals in which an intestinal cell uses calcium ions to convert an extracellular signal into a response, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "intestinal calcium signaling abnormal" NARROW [] is_a: WBPhenotype:0001093 ! intestinal physiology variant is_a: WBPhenotype:0002170 ! calcium mediated signaling variant [Term] id: WBPhenotype:0001348 name: chromosome morphology variant def: "Variations in the form or composition of a structure in the cell nucleus which contains the genetic material encoded as DNA and surrounded by histone proteins and other regulatory elements compared to control. In C. elegans the normal cell contains 5 pairs of 'autosomes' and one or two X chromosomes (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "chromosome morphology abnormal" NARROW [] is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0001349 name: protein phosphorylation variant def: "Variations in the processes that incorporate phosphate groups to one or more amino acids within a protein, compared to control." [GO:0006468, WB:WBPerson2021] synonym: "protein phosphorylation abnormal" NARROW [] is_a: WBPhenotype:0001382 ! protein modification variant is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001350 name: protein phosphorylation increased def: "Animals exhibit higher levels of protein phosphorylation compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001349 ! protein phosphorylation variant [Term] id: WBPhenotype:0001351 name: protein phosphorylation reduced def: "Animals exhibit decreased levels of protein phosphorylation compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001349 ! protein phosphorylation variant [Term] id: WBPhenotype:0001352 name: endoplasmic reticulum metabolism variant def: "Variations in the chemical reactions and pathways of the endoplasmic reticulum compared to control." [WB:WBPerson2021] synonym: "endoplasmic reticulum metabolism abnormal" NARROW [] synonym: "er metabolism abnormal" RELATED [] is_a: WBPhenotype:0001283 ! organelle metabolism variant [Term] id: WBPhenotype:0001353 name: centration defective early emb def: "The coordinated movement during prophase of the two centrosomes and the two pronuclei towards the center of the one cell embryo is abolished." [WB:WBPaper00027230, WB:WBPerson2021, WB:WBPerson557] synonym: "centration abnormal" NARROW [] is_a: WBPhenotype:0001152 ! pronuclear migration defective early emb [Term] id: WBPhenotype:0001354 name: actin cytoskeleton filament morphology variant def: "Animals exhibit variations in the form, structure, composition or arrangement of actin, an abundant cytoskeletal protein in most cells, often linked to the plasma membrane and concentrated at cell junctions compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "actin cytoskeleton filament morphology abnormal" NARROW [] is_a: WBPhenotype:0001587 ! actin organization biogenesis variant [Term] id: WBPhenotype:0001355 name: gonad morphology variant def: "Variations in the form or composition of a specialized tissue of the reproductive tract that produces the male or female gametes compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "gonad morphology abnormal" NARROW [] is_a: WBPhenotype:0000605 ! reproductive system morphology variant [Term] id: WBPhenotype:0001356 name: male sex muscle morphology variant def: "Any variation in the form, structure or composition of the muscles of the adult male reproductive system compared to control. In C. elegans males, the M myoblast gives rise to a much larger set of specialized muscles, compared to hermaphrodites, which differentiate within the tail region (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "male sex muscle morphology abnormal" NARROW [] is_a: WBPhenotype:0001024 ! male morphology variant [Term] id: WBPhenotype:0001357 name: male gonad morphology variant def: "Variations in the form or composition of a specialized tissue of the reproductive tract that produces the male gametes compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "male gonad morphology abnormal" NARROW [] is_a: WBPhenotype:0001024 ! male morphology variant is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001358 name: male nervous system morphology variant def: "Male animals exhibit variations in the structure or organization of any component that is part of the complement of organ tissues that serve to detect, relay and coordinate information about an animal's internal and external environments and to initiate and integrate its effector responses and activities, compared to that in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "male nervous system morphology abnormal" NARROW [] is_a: WBPhenotype:0000604 ! nervous system morphology variant is_a: WBPhenotype:0001024 ! male morphology variant [Term] id: WBPhenotype:0001359 name: proctodeum morphology variant def: "Animals exhibit variations in the structure and organization of the chamber in the male tail that extends from the termination of four canals (vas deferens, gut, and left and right spicule channels) to just before the cloaca, from that observed in control animals." [WB:WBPaper00027278, WB:WBPerson712] synonym: "proctodeum morphology abnormal" NARROW [] is_a: WBPhenotype:0000070 ! male tail morphology variant [Term] id: WBPhenotype:0001360 name: hermaphrodite self sterile def: "Hermaphrodites fail to produce any viable progeny via self-fertilization. However, such hermaphrodites can successfully reproduce if mated to control males." [WB:WBPaper00001075, WB:WBPerson2021] is_a: WBPhenotype:0000694 ! hermaphrodite sterile [Term] id: WBPhenotype:0001361 name: chromosome condensation variant def: "Any variation in the progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells compared to control." [GO:0030261, WB:WBPerson2021, WB:WBPerson557] synonym: "chromosome condensation abnormal" NARROW [] is_a: WBPhenotype:0001743 ! mitosis variant is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001362 name: chromosome condensation failure def: "The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis in eukaryotic cells is abolished." [GO:0030261, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001361 ! chromosome condensation variant [Term] id: WBPhenotype:0001363 name: head cavity def: "The head contains cavities, possibly indicative of inappropriate cell death." [WB:cab] synonym: "head vacuole" RELATED [] is_a: WBPhenotype:0000071 ! head morphology variant [Term] id: WBPhenotype:0001364 name: male fan morphology variant def: "Any variation in the form, structure or composition of the flattened structure extending laterally at the extreme tip of the adult male consisting of nine pairs of sensory rays that lie within a web-like cuticle compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "male fan morphology abnormal" NARROW [] is_a: WBPhenotype:0000070 ! male tail morphology variant [Term] id: WBPhenotype:0001365 name: male bursa development variant def: "Any variation in the process whose specific outcome is the progression of the male bursa over time, from its formation to the mature structure, compared to control. The male bursa consists of the lateral fan and rays (WormAtlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "male bursa development abnormal" NARROW [] is_a: WBPhenotype:0001297 ! male tail development variant [Term] id: WBPhenotype:0001366 name: male fan development variant def: "Any variation in the process whose specific outcome is the progression of the male fan over time, from its formation to the mature structure, compared to control." [WB:WBPerson2021] synonym: "male fan development abnormal" NARROW [] is_a: WBPhenotype:0001365 ! male bursa development variant [Term] id: WBPhenotype:0001367 name: proctodeum development variant def: "Any variation in the process whose specific outcome is the progression of the male proctodeum over time, from its formation to the mature structure, compared to control. The union of the vas deferens and the intestine give rise to the proctodeum which contains copulatory spicules." [WB:WBPerson2021] synonym: "proctodeum development abnormal" NARROW [] is_a: WBPhenotype:0001297 ! male tail development variant [Term] id: WBPhenotype:0001368 name: spermatheca absent def: "Animals lack the somatic gonad structure that connects the distal gonad arm to the uterus." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001662 ! spermatheca development variant [Term] id: WBPhenotype:0001369 name: protein interaction variant def: "Variations in the selective and non-covalent physical association between two or more proteins, or a protein and nucleic acid/macromolecular complex, compared to control." [GO:0005515, WB:WBPerson2021] synonym: "protein interaction abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001370 name: protein protein interaction variant def: "Variations in the selective and non-covalent physical association between two or more proteins, compared to control." [WB:WBPerson2021] synonym: "protein protein interaction abnormal" NARROW [] is_a: WBPhenotype:0001369 ! protein interaction variant [Term] id: WBPhenotype:0001371 name: protein RNA interaction variant def: "Variations in the selective and non-covalent physical association between a protein and a specific RNA sequence, compared to control." [WB:WBPerson2021] synonym: "protein RNA interaction abnormal" NARROW [] is_a: WBPhenotype:0001369 ! protein interaction variant [Term] id: WBPhenotype:0001372 name: protein DNA interaction variant def: "Variations in the selective and non-covalent physical association between a protein and a specific DNA sequence, compared to control." [WB:WBPerson2021] synonym: "protein DNA interaction abnormal" NARROW [] is_a: WBPhenotype:0001369 ! protein interaction variant [Term] id: WBPhenotype:0001373 name: protein rna interaction abolished def: "Animals lack a specific protein-RNA interaction observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001371 ! protein RNA interaction variant [Term] id: WBPhenotype:0001374 name: pronuclear nuclear appearance variant emb def: "The shape and size of nuclei as well as the distribution of nucleoporins are strongly affected." [WB:cab, WB:WBPaper00028895] synonym: "Pna" RELATED [] synonym: "pronuclear nuclear appearance abnormal" NARROW [] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0001375 name: transgene expression undetectable def: "The expression of a gene product produced by DNA coded for by exogenous genetic material that has been introduced into the organism is reduced below the threshold of detection." [WB:WBPerson557] is_a: WBPhenotype:0001278 ! transgene expression reduced [Term] id: WBPhenotype:0001376 name: transgene expression undetectable cell specific def: "The expression of a gene product produced by DNA coded for by exogenous genetic material that has been introduced into the organism is reduced below the threshold of detection in specific cells." [WB:WBPerson557] is_a: WBPhenotype:0001375 ! transgene expression undetectable [Term] id: WBPhenotype:0001377 name: break induced focus formation variant def: "Variations in the generation of foci that mark crossover recombination events, compared to control. These foci mark the boundary of asymmetric synaptonemal complex disassembly." [WB:WBPaper00032296, WB:WBPerson2021, WB:WBPerson557] synonym: "break induced focus formation abnormal" NARROW [] is_a: WBPhenotype:0001256 ! DNA damage induced focus formation variant is_a: WBPhenotype:0001324 ! cell ionizing radiation response variant [Term] id: WBPhenotype:0001378 name: mitotic chromosome segregation variant def: "Any variation in the cell cycle process whereby replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle compared to control animals." [GO:0000070, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "mitotic chromosome segregation abnormal" NARROW [] is_a: WBPhenotype:0000773 ! chromosome segregation variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0001379 name: organism toxic chemical response variant def: "Animals exhibit variations in their response to a specific toxic chemical compared to that observed in control animals." [WB:WBPerson557] synonym: "organism toxic chemical response abnormal" NARROW [] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0001380 name: anoxia hypersensitive def: "Animals respond to anoxic (trace oxygen levels) stress after a shorter exposure time compared to control." [WB:WBPerson2021] is_a: WBPhenotype:0002424 ! anoxia response variant [Term] id: WBPhenotype:0001381 name: anoxia resistant def: "Animals fail to respond to trace amounts of oxygen that elicit a response in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0002424 ! anoxia response variant [Term] id: WBPhenotype:0001382 name: protein modification variant def: "Variations in the covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications), compared to control. This includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification)." [GO:0006464, WB:WBPerson2021] synonym: "protein modification abnormal" NARROW [] is_a: WBPhenotype:0000112 ! protein expression variant [Term] id: WBPhenotype:0001383 name: protein methylation variant def: "Variations in the processes that incorporate methyl groups to one or more amino acids within a protein, compared to control." [GO:0006479, WB:WBPerson2021] synonym: "protein methylation abnormal" NARROW [] is_a: WBPhenotype:0001382 ! protein modification variant is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001384 name: fertility reduced def: "Animals exhibit a reduction in the production of new individuals that contain some portion of their genetic material inherited from that organism as a result of defective gametes." [GO:0000003, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000145 ! fertility variant [Term] id: WBPhenotype:0001385 name: precocious oogenesis def: "Relatively unspecialized germ cells prematurely acquire the specialized properties of mature oocytes." [WB:WBPaper00001475, WB:WBPaper00028819, WB:WBPerson2021] is_a: WBPhenotype:0000186 ! oogenesis variant is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0001386 name: fertilization defective hermaphrodite def: "Any perturbation that disrupts the fusion of male and female gametes (sperm and oocyte) in adult hermaphrodites during sexual reproduction." [WB:WBPerson2021] is_a: WBPhenotype:0000983 ! fertilization defective [Term] id: WBPhenotype:0001387 name: fertilization defect male def: "Failure of male-derived sperm to fuse with an oocyte during sexual reproduction." [WB:WBPaper00033007, WB:WBPerson2021] is_a: WBPhenotype:0000983 ! fertilization defective [Term] id: WBPhenotype:0001388 name: organism hypersensitive gamma irradiation def: "Organisms respond to a lower dosage of gamma rays or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000497 ! organism gamma ray response variant is_a: WBPhenotype:0000711 ! organism hypersensitive ionizing radiation [Term] id: WBPhenotype:0001389 name: cell gamma ray resistant def: "Cells fail to respond to the dosage of gamma irradiation that elicits a response in control animals. Alternatively, cells require longer exposure times to gamma irradiation to mimic the response observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001326 ! cell gamma ray response variant [Term] id: WBPhenotype:0001390 name: cell UV hypersensitive def: "Cells respond to a lower dosage of UV or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000100 ! cell UV response variant [Term] id: WBPhenotype:0001391 name: gamma ray induced apoptosis increased def: "Animals exhibit an increase in the extent of activation of programmed cell death by exposure to the nucleic acid damaging agent, gamma irradiation, compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000183 ! apoptosis increased is_a: WBPhenotype:0001326 ! cell gamma ray response variant [Term] id: WBPhenotype:0001392 name: cell cycle arrest def: "Cells of the animals cease during one of its replicative phases (G1, S, G2, M)." [GO:0007050, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001995 ! cell cycle progression variant [Term] id: WBPhenotype:0001393 name: cell acidification variant def: "Variations in the processes that reduce the internal pH of a cell (measured by the concentration of the hydrogen ion), compared to control." [GO:0045851, WB:WBPerson2021] synonym: "cell acidification abnormal" NARROW [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0001394 name: cell acidification defective def: "Animals lack the capacity to reduce the internal pH of a cell." [GO:0045851, WB:WBPerson2021] synonym: "no pumping" RELATED [] is_a: WBPhenotype:0001393 ! cell acidification variant [Term] id: WBPhenotype:0001395 name: body vacuole def: "Vacuoles accumulate in the body. A vacuole is a closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material." [GO:0005776, WB:WBPerson557] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0001396 name: pumping absent def: "Animals completely lack any pharyngeal pumping motion." [WB:WBPaper00001894, WB:WBPerson2021] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0001397 name: necrotic cell death increased def: "Animals exhibit an increase in the cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents, compared to control." [GO:0070265, WB:WBPerson712] is_a: WBPhenotype:0000415 ! necrotic cell death variant [Term] id: WBPhenotype:0001398 name: neurite morphology variant def: "Animals display variations in the structure, organization of components, or spatial pattern of any projection stemming from a neuronal cell, compared to that observed in control animals." [GO:0043005, WB:WBPaper00028886, WB:WBPerson712] synonym: "neurite morphology abnormal" NARROW [] is_a: WBPhenotype:0000905 ! neuron morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001399 name: cell membrane morphology variant def: "Any variation in the structure, form or composition of the semipermeable lipid bilayer that creates a boundary between the interior and exterior environment for cells, cellular organelles and tissues, within an organism compared to control." [GO:0005886, WB:WBPerson2021, WB:WBPerson557] synonym: "cell membrane morphology abnormal" NARROW [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001400 name: level of protein expression variant def: "Animals exhibit variations in the measured expression of a protein compared to that observed in control animals." [WB:WBPerson2021] synonym: "level of protein expression abnormal" NARROW [] is_a: WBPhenotype:0000112 ! protein expression variant [Term] id: WBPhenotype:0001401 name: mitochondria morphology variant def: "The morphological appearance of mitochondria is varied compared to control animals." [WB:cab] synonym: "mitochondria morphology abnormal" EXACT [] synonym: "mitochondria morphology variant epithelial" NARROW [] synonym: "mitochondria morphology variant muscle" NARROW [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001402 name: connected mitochondria def: "Mitochondria are interconnected by thin tubules of mitochondrial inner or outer membrane." [GO:0007006, WB:WBPaper00032231, WB:WBPerson712] synonym: "connected mitochodria muscle" NARROW [] synonym: "connected mitochondria epithelial" NARROW [] is_a: WBPhenotype:0001401 ! mitochondria morphology variant [Term] id: WBPhenotype:0001403 name: antibody subcellular localization variant def: "Any variation in the placement of a protein, as detected by antibody staining, within in a cell or cellular compartment compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "antibody subcellular localization abnormal" NARROW [] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0001404 name: ectopic expression antibody def: "Any variation that results in the detection of protein expression in cells/tissues through antibody staining, that is otherwise not observed in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0001405 name: protein aggregation variant def: "Variations that result in the accumulation of soluble/insoluble protein aggregates in a particular cell or tissue, compared to control. Protein aggregates are often formed by interactions between misfolded protein molecules and/or deficiencies in proper protein folding." [WB:WBPaper00034765, WB:WBPerson2021] synonym: "protein aggregation abnormal" NARROW [] is_a: WBPhenotype:0001370 ! protein protein interaction variant [Term] id: WBPhenotype:0001406 name: protein expression reduced male def: "Variations that result in a decrease in protein expression in male animals compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000120 ! protein expression reduced [Term] id: WBPhenotype:0001407 name: protein expression reduced cell specific def: "Variations that result in a decrease in protein expression in specific cells compared to that observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0000120 ! protein expression reduced [Term] id: WBPhenotype:0001408 name: pattern protein expression variant def: "Any variation in the cellular or subcellular distribution of a protein compared to that observed in control animals." [WB:WBPerson2021] synonym: "pattern protein expression abnormal" NARROW [] is_a: WBPhenotype:0000112 ! protein expression variant [Term] id: WBPhenotype:0001409 name: protein expression ectopic def: "Any variation that results in the cellular expression of a protein in cells/tissues, that is otherwise not observed in control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001408 ! pattern protein expression variant [Term] id: WBPhenotype:0001410 name: protein expression absent def: "Animals fail to express a given protein or class of proteins." [WB:WBPerson2021] is_a: WBPhenotype:0000120 ! protein expression reduced [Term] id: WBPhenotype:0001411 name: cuticle carbohydrate surface variant def: "Animals exhibit an altered display of glycosylated proteins or lipids or altered access to glycosylated moieties along their surface from that observed in control animals of the same developmental stage. In C. elegans, variations in surface accessible glycosylated species are often revealed by altered lectin-binding from that observed in control animals." [WB:WBPaper00001576, WB:WBPerson712] synonym: "cuticle carbohydrate surface abnormal" NARROW [] synonym: "ectopic lectin binding" RELATED [] synonym: "Srf" NARROW [] is_a: WBPhenotype:0001210 ! pericellular component physiology variant [Term] id: WBPhenotype:0001412 name: alae morphology variant def: "Animals exhibit variations in the organization of the longitudinal ridges on the cuticle along the length of the animal, from that observed for control animals of the same developmental stage." [WB:WBPaper00000465, WB:WBPaper00031415, WB:WBPerson712] synonym: "alae morphology abnormal" NARROW [] is_a: WBPhenotype:0000948 ! cuticle morphology variant [Term] id: WBPhenotype:0001413 name: bacterially unswollen def: "Animals do not exhibit tail-swelling in response to infection by a bacterial pathogen (such as Microbacterium nematophilum) compared to control." [WB:cab, WB:WBPaper00026735] synonym: "Bus" BROAD [] is_a: WBPhenotype:0000073 ! tail morphology variant is_a: WBPhenotype:0001014 ! pathogen resistance increased [Term] id: WBPhenotype:0001414 name: male mating defective def: "Males exhibit defects in the specific actions or reactions that are associated with reproduction." [GO:0060179, WB:WBPerson2021, WB:WBPerson557] synonym: "Cod" BROAD [] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0001415 name: pathogen adherence variant def: "Animals exhibit variations that result in variations in the ability of or extent to which pathogens adhere to the surface of animals, compared to control." [WB:cab, WB:WBPaper00026735, WB:WBPerson2987] synonym: "pathogen adherence abnormal" NARROW [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001416 name: pathogen adherence defect def: "Pathogens are unable to adhere/colonize the surface of host animals. This defect is often associated with changes in cuticle surface properties of the host." [WB:WBPaper00028877, WB:WBPerson2021] is_a: WBPhenotype:0001014 ! pathogen resistance increased is_a: WBPhenotype:0002461 ! pathogen adherence decreased [Term] id: WBPhenotype:0001417 name: organism desiccation response variant def: "Any variation in the state or activity of an organism in response to extreme dryness or drought-like conditions, compared to control ." [GO:0009819, WB:WBPerson2021] synonym: "organism desication response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001418 name: organism hypersensitive desiccation def: "Animals respond to less severe drought-like conditions or a shorter exposure compared to control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001417 ! organism desiccation response variant [Term] id: WBPhenotype:0001419 name: emetine hypersensitive def: "Animals respond to emetine at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0001420 name: biofilm absent head def: "Animals can move thorough a lawn of bacterially produced biofilm without accumulating an enormous amount of biofilm on its nose. When C. elegans is exposed to certain bacteria (e.g., Y. pestis), a biofilm accumulates on a worm's head. The presence of this biofilm inhibits feeding by the worm, and thereby prevents growth." [WB:cab, WB:WBPaper00005238] synonym: "Bah" BROAD [] is_a: WBPhenotype:0001415 ! pathogen adherence variant [Term] id: WBPhenotype:0001421 name: endocytic transport variant def: "Animals exhibit variations in the directed movement of substances into, out of or mediated by the endosome, a membrane-bound organelle that trafficks material to different compartments of the cell or back to the plasma membrane for recycling compared to control." [GO:0016197, WB:WBPaper00031894, WB:WBPerson712] synonym: "endocytic transport abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001422 name: endocytic transport defect def: "Animals exhibit defects in the directed movement of substances into, out of or mediated by the endosome, a membrane-bound organelle that trafficks material to different compartments of the cell or back to the plasma membrane for recycling." [GO:0016197, WB:WBPerson557] is_a: WBPhenotype:0001421 ! endocytic transport variant [Term] id: WBPhenotype:0001423 name: coelomocyte physiology variant def: "Animals exhibit variations in any physical or chemical process required for the coelomocyte to carry out its normal functions or activities, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "coelomocyte physiology abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant is_a: WBPhenotype:0000607 ! coelomic system physiology variant [Term] id: WBPhenotype:0001424 name: oocyte physiology variant def: "Animals exhibit variations in any physical or chemical process required for the oocyte to carry out its normal functions or activities, compared to control animals." [GO:0009987, WB:WBPerson557, WB:WBPerson712] synonym: "oocyte physiology abnormal" NARROW [] is_a: WBPhenotype:0000929 ! hermaphrodite physiology variant is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0001425 name: receptor mediated endocytosis defective def: "Animals exhibit defects in the cell-mediated uptake of external materials via receptor activity. Receptor-mediated endocytosis ensures specificity of transport and generally occurs via clathrin-coated pits and vesicles. In C. elegans, this is often judged by the lack of yolk uptake in oocytes." [GO:0006898, pmid:16042554, WB:cab, WB:WBPerson2021] comment: Possible XP = GO:0006898. synonym: "Rme" RELATED [] is_a: WBPhenotype:0001422 ! endocytic transport defect is_a: WBPhenotype:0001424 ! oocyte physiology variant [Term] id: WBPhenotype:0001426 name: coelomocyte uptake defective def: "Fluid-phase endocytosis by coelomocytes is less frequent or efficient compared to control." [pmid:16042554, WB:cab] synonym: "Cup" RELATED [] is_a: WBPhenotype:0001422 ! endocytic transport defect is_a: WBPhenotype:0001423 ! coelomocyte physiology variant [Term] id: WBPhenotype:0001427 name: cytoplasmic appearance variant def: "Animals exhibit variations in the form, structure or composition of any cellular contents (excluding plasma membrane and nucleus), compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "cytoplasmic appearance abnormal" NARROW [] is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0001428 name: intestinal vacuole def: "Vacuoles accumulate in the intestine." [WB:WBPaper00004718, WB:WBPaper00031894, WB:WBPerson712] is_a: WBPhenotype:0000710 ! intestinal morphology variant [Term] id: WBPhenotype:0001429 name: granules cytoplasm def: "Animals accumulate an excess of vesicle-like structures in cells." [pmid:17203072, WB:cab] is_a: WBPhenotype:0001427 ! cytoplasmic appearance variant [Term] id: WBPhenotype:0001430 name: lysosome organization biogenesis variant def: "Variations in the processes that are carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a lysosome, compared to control." [GO:0007040, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "lysosome organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001431 name: pointed tail tip male def: "Male tails fail to undergo tip retraction thereby forming a 'leptoderan' or 'pointed' adult tail." [WB:WBPerson2021, WB:WBPerson557] synonym: "Lep" BROAD [] synonym: "leptoderan tail" RELATED [] synonym: "male tail spike" EXACT [] is_a: WBPhenotype:0000070 ! male tail morphology variant [Term] id: WBPhenotype:0001432 name: over retracted male tail def: "Adult males exhibit a truncated tail, often without a fan or have well-developed fans but squarish, truncated back ends compared to control. In C. elegans this is due to precocious male tail tip retraction beginning in the early L3 stage (normally retraction begins in the L4 stage). Condition can be lethal if the function of the anus is affected." [pmid:16806150, WB:cab] synonym: "Ore" BROAD [] is_a: WBPhenotype:0000070 ! male tail morphology variant is_a: WBPhenotype:0001297 ! male tail development variant [Term] id: WBPhenotype:0001433 name: precocious cell fusion def: "Two or more individual cells form a syncytium (a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane) via the fusion of the plasma membranes at an earlier stage of development compared to comparable cells in control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000165 ! cell fusion variant is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0001434 name: chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific chemical concentration gradient compared to control. Directed movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." [GO:0006935, WB:cab] synonym: "Che" RELATED [] synonym: "chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001040 ! chemosensory response variant is_a: WBPhenotype:0001049 ! chemosensory behavior variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0001435 name: ammonium chloride chemotaxis defective def: "Failure in directed movement in response to ammonium chloride compared to control. In C. elegans, NH4Cl is an attractant. NH4Cl has also subsequently been used to assay for Cl- attraction in C. elegans." [WB:WBPaper00002087, WB:WBPaper00004609, WB:WBPaper00026812] synonym: "chloride chemotaxis defective" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective is_a: WBPhenotype:0001460 ! ammonium chloride chemotaxis variant [Term] id: WBPhenotype:0001436 name: nose touch hypersensitive def: "Animals tend to initiate a response more often, compared to control, after nose-on collisions with an object. In C. elegans, animals initiate backwards movement in response to nose touch." [WB:WBPaper00028963, WB:WBPerson557] is_a: WBPhenotype:0004026 ! nose touch variant [Term] id: WBPhenotype:0001437 name: octanol chemotaxis hypersensitive def: "Animals execute a response, via directed movement to octanol at a lower concentration or shorter exposure time compared to control. In C. elegans, animals avoid octanol." [WB:WBPaper00028963] is_a: WBPhenotype:0001452 ! octanol chemotaxis variant [Term] id: WBPhenotype:0001438 name: odorant positive chemotaxis defective def: "Animals fail to move towards attractive volatile organic molecules. In C. elegans, these compounds are sensed by the AWA and AWC neurons." [WB:WBPerson2021] is_a: WBPhenotype:0000015 ! positive chemotaxis defective is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001439 name: anion positive chemotaxis defective def: "Animals fail to move towards attractive anions." [WB:WBPaper00002033, WB:WBPaper00028386] is_a: WBPhenotype:0001052 ! anion positive chemotaxis variant is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective [Term] id: WBPhenotype:0001440 name: cation positive chemotaxis defective def: "Animals fail to move towards attractive cations." [WB:WBPaper00004609] is_a: WBPhenotype:0001051 ! cation positive chemotaxis variant is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective [Term] id: WBPhenotype:0001441 name: aqueous positive chemotaxis defective def: "Animals fail to move towards attractive water-soluble chemicals." [WB:WBPerson2021] synonym: "water soluble positive chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000015 ! positive chemotaxis defective is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001442 name: sodium acetate chemotaxis defective def: "Failure in directed movement in response to sodium acetate. In C. elegans, sodium acetate is an attractant. Sodium acetate has also subsequently been used to assay for Na+ attraction in C. elegans." [WB:WBPaper00000650, WB:WBPaper00004609, WB:WBPaper00006394] synonym: "sodium chemotaxis defective" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective is_a: WBPhenotype:0001461 ! sodium acetate chemotaxis variant [Term] id: WBPhenotype:0001443 name: aqueous chemosensory response variant def: "Animals exhibit variations in response to water-soluble chemicals, compared to control." [WB:cab] synonym: "aqueous chemosensory response abnormal" NARROW [] synonym: "water soluble chemosensory response abnormal" RELATED [] is_a: WBPhenotype:0001040 ! chemosensory response variant is_a: WBPhenotype:0001049 ! chemosensory behavior variant [Term] id: WBPhenotype:0001444 name: aqueous adaptation defective def: "Animals do not exhibit characteristic desensitization to a water-soluble chemo-attractive signal in a time-concentration dependent and reversible manner compared to control." [WB:cab, WB:cgc5150] synonym: "aqueous adaptation abnormal" NARROW [] synonym: "gustatory plasticity abnormal" RELATED [] synonym: "water soluble adaptation abnormal" RELATED [] is_a: WBPhenotype:0001443 ! aqueous chemosensory response variant [Term] id: WBPhenotype:0001445 name: sodium acetate adaptation defective def: "Animals do not exhibit characteristic chemoattractive desensitization to sodium acetate in a time-concentration dependent and reversible manner compared to control." [WB:cab, WB:cgc5150] synonym: "sodium acetate adaptation abnormal" NARROW [] is_a: WBPhenotype:0001444 ! aqueous adaptation defective [Term] id: WBPhenotype:0001446 name: sodium chloride adaptation defective def: "Animals do not exhibit characteristic chemoattractive desensitization to sodium chloride in a time-concentration dependent and reversible manner compared to control." [WB:cab, WB:cgc5150] synonym: "sodium chloride adaptation abnormal" NARROW [] is_a: WBPhenotype:0001444 ! aqueous adaptation defective [Term] id: WBPhenotype:0001447 name: ammonium chloride adaptation defective def: "Animals do not exhibit characteristic chemoattractive desensitization to ammonium chloride in a time-concentration dependent and reversible manner compared to control." [WB:cab, WB:cgc5150] synonym: "ammonium chloride adaptation abnormal" NARROW [] is_a: WBPhenotype:0001444 ! aqueous adaptation defective [Term] id: WBPhenotype:0001448 name: odorant negative chemotaxis defective def: "Animals fail to move away from repellant volatile organic chemicals." [WB:WBPerson2021] synonym: "volatile negative chemotaxis defective" RELATED [] is_a: WBPhenotype:0001455 ! odorant negative chemotaxis variant [Term] id: WBPhenotype:0001449 name: aqueous negative chemotaxis defective def: "Animals fail to move away from repellent water soluble chemicals." [WB:WBPerson2021] synonym: "water soluble chemotaxis defective" RELATED [] is_a: WBPhenotype:0001450 ! aqueous negative chemotaxis variant [Term] id: WBPhenotype:0001450 name: aqueous negative chemotaxis variant def: "Animals exhibit variations through directed movement, in response to repellant water soluble chemicals, compared to control." [WB:WBPaper00006481] synonym: "aqueous negative chemotaxis abnormal" NARROW [] synonym: "water soluble chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000481 ! negative chemotaxis variant is_a: WBPhenotype:0001443 ! aqueous chemosensory response variant [Term] id: WBPhenotype:0001451 name: garlic chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of garlic compared to control. In C. elegans, garlic is typically a repellant." [WB:WBPaper00002135, WB:WBPaper00006481, WB:WBPerson557] synonym: "garlic chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001450 ! aqueous negative chemotaxis variant [Term] id: WBPhenotype:0001452 name: octanol chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of octanol. In C. elegans, octanol is typically a repellant." [WB:WBPerson557] synonym: "octanol chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001455 ! odorant negative chemotaxis variant [Term] id: WBPhenotype:0001453 name: high sodium chloride concentration osmotic avoidance variant def: "Animals exhibit variations in their avoidance response to high concentrations of sodium chloride solution compared to control." [WB:WBPerson2021] synonym: "high sodium chloride concentration osmotic avoidance abnormal" NARROW [] is_a: WBPhenotype:0000249 ! osmotic avoidance defective [Term] id: WBPhenotype:0001454 name: quinine chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of the bitter tastant quinine, a water soluble molecule. In C. elegans, quinine is typically a repellant." [WB:WBPaper00002135, WB:WBPaper00027118, WB:WBPaper00035961, WB:WBPerson557, WB:WBPerson712] synonym: "quinine chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001939 ! bitter tastant response variant [Term] id: WBPhenotype:0001455 name: odorant negative chemotaxis variant def: "Animals exhibit variations through directed movement, in response to repellant volatile organic chemicals, compared to control." [WB:WBPaper00001786] synonym: "odorant negative chemotaxis abnormal" NARROW [] synonym: "volatile negative chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000481 ! negative chemotaxis variant is_a: WBPhenotype:0001048 ! odorant chemosensory response variant [Term] id: WBPhenotype:0001456 name: nonanone chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of nonanone. In C. elegans, nonanone is typically a repellant." [WB:WBPerson2021, WB:WBPerson557] synonym: "nonanone chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001455 ! odorant negative chemotaxis variant [Term] id: WBPhenotype:0001457 name: bromide chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of bromide. In C. elegans, bromide is typically an attractant." [WB:WBPaper00000387, WB:WBPerson557] synonym: "bromide chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001052 ! anion positive chemotaxis variant [Term] id: WBPhenotype:0001458 name: chloride chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of chloride." [WB:WBPaper00000387] synonym: "ammonium chloride chemotaxis abnormal" RELATED [WB:WBPerson2021] synonym: "chloride chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001052 ! anion positive chemotaxis variant [Term] id: WBPhenotype:0001459 name: iodide chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of iodide." [WB:WBPaper00000387] synonym: "iodide chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001052 ! anion positive chemotaxis variant [Term] id: WBPhenotype:0001460 name: ammonium chloride chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of ammonium chloride. In C. elegans, at specific concentrations, ammonium chloride is an attractant. NH4Cl has also been used to assay for Cl- attraction." [WB:WBPaper00000387, WB:WBPaper00004609, WB:WBPaper00026812] synonym: "ammonium chloride chemotaxis abnormal" NARROW [] synonym: "chloride chemotaxis abnormal" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001461 name: sodium acetate chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of sodium acetate. In C. elegans, at specific concentrations, sodium acetate is an attractant. Sodium acetate has also been used to assay for Na+ attraction." [WB:WBPaper00000387, WB:WBPaper00000650, WB:WBPaper00004609)] synonym: "sodium acetate chemotaxis abnormal" NARROW [] synonym: "sodium chemotaxis abnormal" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001462 name: sodium chloride chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of sodium chloride. In C. elegans, at specific concentrations, sodium chloride is an attractant." [WB:WBPaper00000387] synonym: "sodium chloride chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0001463 name: cAMP chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of cAMP." [GO:0043327, WB:WBPaper00000387] synonym: "cAMP chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001053 ! cyclic nucleotide positive chemotaxis variant [Term] id: WBPhenotype:0001464 name: cGMP chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of cGMP." [WB:WBPaper00000387] synonym: "cGMP chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001053 ! cyclic nucleotide positive chemotaxis variant [Term] id: WBPhenotype:0001465 name: acetone chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of acetone. In C. elegans, at specific concentrations, acetone is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "acetone chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001466 name: AWA odorant chemotaxis variant def: "Any variation in the directed movement of an animal in response to a volatile chemical stimulus that is usually received and processed by the AWA sensory neuron in control animals." [WB:WBPerson2021] synonym: "AWA odorant chemotaxis abnormal" NARROW [] synonym: "AWA volatile chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001467 name: AWC odorant chemotaxis variant def: "Any variation in the directed movement of an animal in response to a volatile chemical stimulus that is usually received and processed by the AWC sensory neuron in control animals." [WB:WBPerson2021] synonym: "AWC odorant chemotaxis abnormal" NARROW [] synonym: "AWC volatile chemotaxis abnormal" RELATED [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001468 name: benzaldehyde chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of benzaldehyde. In C. elegans, at specific concentrations, benzaldehyde is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "benzaldehyde chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001467 ! AWC odorant chemotaxis variant [Term] id: WBPhenotype:0001469 name: butanone chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of butanone. In C. elegans, at specific concentrations, butanone is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "butanone chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001467 ! AWC odorant chemotaxis variant [Term] id: WBPhenotype:0001470 name: diacetyl chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of diacetyl. In C. elegans, at specific concentrations, diacetyl is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "diacetyl chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001466 ! AWA odorant chemotaxis variant [Term] id: WBPhenotype:0001471 name: hexanol chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of hexanol. In C. elegans, at specific concentrations, hexanol is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "hexanol chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001472 name: isoamyl alcohol chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of isoamyl alcohol. In C. elegans, at specific concentrations, isoamyl alcohol is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "isoamyl alcohol chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001467 ! AWC odorant chemotaxis variant [Term] id: WBPhenotype:0001473 name: pentanol chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of pentanol. In C. elegans, at specific concentrations, pentanol is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "pentanol chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001474 name: pyrazine chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of pyrazine. In C. elegans, at specific concentrations, pyrazine is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "pyrazine chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001466 ! AWA odorant chemotaxis variant [Term] id: WBPhenotype:0001475 name: trimethylthiazole chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of trimethylthiazole. In C. elegans, at specific concentrations, trimethylthiazole is an attractant." [WB:WBPerson2021, WB:WBPerson557] synonym: "trimethylthiazole chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant [Term] id: WBPhenotype:0001476 name: anterior body contraction variant def: "Any variation in the defecation motor program that involves the contraction of the anterior body wall muscles compared to control." [WB:WBPaper00001937, WB:WBPerson2021, WB:WBPerson557] synonym: "anterior body contraction abnormal" NARROW [] is_a: WBPhenotype:0000210 ! defecation contraction variant [Term] id: WBPhenotype:0001477 name: anterograde transport variant def: "Any variation in the directed movement of organelles or molecules along microtubules from the cell body toward the cell periphery in nerve cell axons, compared to control." [GO:0008089, WB:WBPerson2021, WB:WBPerson557] synonym: "anterograde transport abnormal" NARROW [] is_a: WBPhenotype:0000853 ! intraflagellar transport variant [Term] id: WBPhenotype:0001478 name: body elongation variant def: "Any variation in the elongation of embryonic epidermal cells compared to control. In C. elegans, this elongation occurs along an anterior-posterior axis, which is required to transform the bean-shaped embryo into the elongated shape of the worm." [WB:WBPerson2021, WB:WBPerson557] synonym: "body elongation abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0001479 name: dauer pheromone sensation variant def: "Animals exhibit variations in any of a series of events in which a pheromone stimulus is received by a cell and converted into a molecular signal that induces dauer formation in control animals." [GO:0043695, WB:WBPerson2021, WB:WBPerson557] synonym: "dauer pheromone sensation abnormal" NARROW [] is_a: WBPhenotype:0000132 ! pheromone induced dauer formation variant is_a: WBPhenotype:0000305 ! pheromone sensation variant is_a: WBPhenotype:0001847 ! sterol induced dauer formation variant [Term] id: WBPhenotype:0001480 name: grinder relaxation variant def: "Variations in the rhythmic relaxations of the a highly specialized cuticle region of the pharynx inside the lumen of the second bulb, compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "grinder relaxation abnormal" NARROW [] is_a: WBPhenotype:0000336 ! terminal bulb relaxation variant [Term] id: WBPhenotype:0001481 name: thrashing increased def: "The number of body thrashes within an aqueous environment in a given period of time is increased, compared with control worms." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001700 ! swimming variant [Term] id: WBPhenotype:0001482 name: frequency body bend reduced alt_id: WBPhenotype:0002330 def: "Animals exhibit a reduction in the frequency of oscillations between adjacent body segments from that observed for control animals." [WB:WBPaper00024949, WB:WBPerson557, WB:WBPerson712] synonym: "bending frequency reduced" EXACT [] synonym: "frequency of sinusoidal movement reduced" EXACT [] synonym: "temporal frequency of sinusoidal movement decreased" EXACT [] is_a: WBPhenotype:0001213 ! locomotion reduced is_a: WBPhenotype:0004023 ! frequency of body bend variant [Term] id: WBPhenotype:0001483 name: late stage egg laid def: "The eggs being deposited by adults are of a later developmental stage, compared to control. In C. elegans, this is likely to be a consequence of delayed active egg-laying periods." [WB:WBPaper00004310, WB:WBPerson2021] is_a: WBPhenotype:0000438 ! retarded heterochronic variations is_a: WBPhenotype:0000545 ! egg retention [Term] id: WBPhenotype:0001484 name: ammonium acetate chemotaxis defective def: "Animals fail to execute directed movement in response to ammonium acetate. In C. elegans, ammonium acetate is an attractant." [WB:WBPaper00004136] is_a: WBPhenotype:0000265 ! odorant positive chemotaxis variant is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective [Term] id: WBPhenotype:0001485 name: ER stress response variant def: "Animals exhibit variations in their response to the presence of unfolded proteins in the endoplasmic reticulum (ER) or to other ER-related stressors compared to control." [GO:0030968] synonym: "endoplasmic reticulum stress response abnormal" RELATED [] synonym: "ER stress response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0001486 name: unfolded protein accumulation def: "Animals accumulate unfolded proteins in the endoplasmic reticulum (ER) and or the mitochondria." [WB:WBPerson557] is_a: WBPhenotype:0000142 ! cell stress response variant is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001487 name: male spicule development variant def: "Animals exhibit variations in the development of the male elongated sclerotized structures covered by a hardened layer of cuticle in the tail (which are actively everted during copulation to fasten the male copulatory fan to the vulva) compared to control." [WB:cab, WB:WBPerson363] synonym: "male spicule development abnormal" NARROW [] is_a: WBPhenotype:0000430 ! male copulatory structure development variant [Term] id: WBPhenotype:0001488 name: gubernaculum development variant def: "Animals exhibit variations in the development of the sclerotic cuticle that forms the roof of the proctodeum (gubernaculum) compared to control." [WB:cab, WB:WBPerson363] synonym: "gubernaculum development abnormal" NARROW [] is_a: WBPhenotype:0001367 ! proctodeum development variant [Term] id: WBPhenotype:0001489 name: gubernaculum morphology variant def: "Animals exhibit variations in the structure or composition of the sclerotic cuticle that forms the roof of the proctodeum, from that observed in control animals." [WB:cab, WB:WBPaper00027278, WB:WBPerson363, WB:WBPerson712] synonym: "gubernaculum morphology abnormal" NARROW [] is_a: WBPhenotype:0001359 ! proctodeum morphology variant [Term] id: WBPhenotype:0001490 name: obsolete posterior region morphology abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000793 [Term] id: WBPhenotype:0001491 name: obsolete anterior region morphology abnormal def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000792 [Term] id: WBPhenotype:0001492 name: no back end def: "Animals lack a properly developed posterior region compared to control. In C. elegans, mutants exhibit a severely deformed posterior region with a variable knob-like shape; accompanied by arrest at about the time of hatching with fairly normal pharyngeal and anterior development. Most mutants arrest as L1 larvae, and 5% do not hatch." [WB:cab, WB:cgc4499] synonym: "Nob" BROAD [] is_a: WBPhenotype:0000081 ! L1 arrest is_a: WBPhenotype:0000793 ! posterior body morphology variant is_a: WBPhenotype:0000800 ! posterior region development variant is_a: WBPhenotype:0000867 ! embryonic arrest [Term] id: WBPhenotype:0001493 name: VPC cell division precocious def: "VPCs (vulval precursor cells) divide at an earlier stage of development compared to control animals; in C. elegans, VPCs divide in the mid-L3 stage to generate the 22 cells that comprise the vulva." [pmid:16300753, WB:cab] is_a: WBPhenotype:0000345 ! VPC cell division variant is_a: WBPhenotype:0001495 ! cell division precocious [Term] id: WBPhenotype:0001494 name: distal tip cell migration precocious def: "DTCs migrate at an earlier stage of development, compared to control." [pmid:16300753, WB:cab] is_a: WBPhenotype:0000195 ! distal tip cell migration variant is_a: WBPhenotype:0000439 ! precocious heterochronic variations [Term] id: WBPhenotype:0001495 name: cell division precocious def: "Cells divide at an earlier stage of development compared to control animals." [WB:cab] is_a: WBPhenotype:0000439 ! precocious heterochronic variations is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0001496 name: metaphase to anaphase transition defect alt_id: WBPhenotype:0001214 def: "Cells exhibit variations in the process whereby a cell progresses from metaphase to anaphase, compared to control. Metaphase is the second stage of chromosome segregation in the cell cycle where chromosomes become aligned on the equatorial plate of the cell and anaphase is the stage where sister chromatids (or homologous chromosomes) separate and migrate towards the poles of the spindle." [GO:0007091, WB:WBPerson712] synonym: "Mat" RELATED [] synonym: "metaphase to anaphase transition fails" EXACT [] is_a: WBPhenotype:0000740 ! cell cycle variant [Term] id: WBPhenotype:0001497 name: mitotic metaphase to anaphase transition defect def: "Cells exhibit variations in the process whereby a cell progresses from metaphase to anaphase during mitosis, compared to control. Metaphase is the second stage of chromosome segregation in the cell cycle where chromosomes become aligned on the equatorial plate of the cell and anaphase is the stage where sister chromatids separate and migrate towards the poles of the spindle." [GO:0007091, WB:WBPerson712] is_a: WBPhenotype:0001496 ! metaphase to anaphase transition defect [Term] id: WBPhenotype:0001498 name: sperm pseudopod physiology variant def: "Animals exhibit variations in any physical or chemical process required for the pseudopod of the sperm to carry out its normal functions or activities or be able to perceive and respond to stimuli, compared to control animals." [WB:WBPerson557] synonym: "sperm pseudopod physiology abnormal" NARROW [] is_a: WBPhenotype:0000987 ! germ cell physiology variant [Term] id: WBPhenotype:0001499 name: meiotic chromosome segregation variant def: "Variations in the process by which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle, compared to control." [GO:0045132, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "meiotic chromosome segregation abnormal" NARROW [] is_a: WBPhenotype:0000773 ! chromosome segregation variant [Term] id: WBPhenotype:0001500 name: pentanedione chemotaxis variant def: "Any variation in the directed movement of a worm in response to a specific concentration gradient of pentanedione." [WB:cab, WB:cgc2931] synonym: "pentanedione chemotaxis abnormal" NARROW [] is_a: WBPhenotype:0001467 ! AWC odorant chemotaxis variant [Term] id: WBPhenotype:0001501 name: odorant discrimination defective def: "Animals fail to discriminate between distinct odorants." [WB:cab] synonym: "odorant discrimination abnormal" NARROW [] is_a: WBPhenotype:0001048 ! odorant chemosensory response variant [Term] id: WBPhenotype:0001502 name: chemical resistant def: "Animals fail to respond to the concentration of a specific chemical that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0001503 name: ventral nerve cord maintenance variant def: "Any variation in the mechanisms used to ensure that axons in the ventral nerve cord maintain their correct positioning after termination of axonal outgrowth and target recognition compared to control." [WB:WBPaper00005064, WB:WBPerson557] synonym: "ventral nerve cord maintenance abnormal" NARROW [] is_a: WBPhenotype:0000515 ! ventral nerve cord development variant [Term] id: WBPhenotype:0001504 name: maternal effect sterile def: "Sterility caused by aberrant maternal components required for normal postembryonic development and/or function of the germ line." [WB:WBPaper00001477] synonym: "Mes" BROAD [] is_a: WBPhenotype:0001037 ! sterile progeny [Term] id: WBPhenotype:0001505 name: spontaneous reversal variant def: "Any variation in the processes that govern spontaneous backward locomotion compared to control." [WB:WBPaper00001311, WB:WBPerson557] synonym: "spontaneous reversal abnormal" NARROW [] is_a: WBPhenotype:0002320 ! reversal variant [Term] id: WBPhenotype:0001506 name: spontaneous reversal rate variant def: "Any variation in the processes that govern the rate at which spontaneous backward locomotion is initiated compared to control. In C. elegans, animals moving forward consistently initiate backward locomotion approximately 10 times per 3 minutes." [WB:WBPaper00001311, WB:WBPaper00026650, WB:WBPerson557] synonym: "spontaneous reversal rate abnormal" NARROW [] is_a: WBPhenotype:0001505 ! spontaneous reversal variant [Term] id: WBPhenotype:0001507 name: Bacillus thuringiensis toxin resistant def: "Animals fail to be affected by toxins produced by Bacillus thuringiensis (Bt toxins) in the same manner as control animals." [GO:0042493, WB:WBPaper00004264, WB:WBPaper00004776, WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0001508 name: anchor cell fusion defective def: "Any perturbation that disrupts the fusion between the anchor cell and the surrounding utse syncytium. Such variations result in the loss of uterine-vulval connectivity and continuity." [WB:WBPaper00029363, WB:WBPerson2021] synonym: "anchor cell fusion abnormal" NARROW [] is_a: WBPhenotype:0000165 ! cell fusion variant is_a: WBPhenotype:0000283 ! vulva uterus connection defective [Term] id: WBPhenotype:0001509 name: rays missing alt_id: WBPhenotype:0000407 def: "Any of the finger-like sensory sensilla that project from the tail and embed in the male fan are absent." [WB:WBPerson2021, WB:WBPerson557] synonym: "ray loss" EXACT [] is_a: WBPhenotype:0000199 ! male tail sensory ray development variant is_a: WBPhenotype:0000505 ! male ray morphology variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001510 name: neuronal cell fate specification variant def: "Any variation in the processes that govern acquisition of neuronal cell fates compared to control." [WB:WBPerson2021] synonym: "neuronal cell fate specification abnormal" NARROW [] is_a: WBPhenotype:0000216 ! cell fate specification variant [Term] id: WBPhenotype:0001511 name: linker cell migration variant def: "Variations in the stereotypical migration pattern of the linker cell in a developing male compared to control." [WB:WBPaper00028966, WB:WBPerson2021] synonym: "linker cell migration abnormal" NARROW [] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0001512 name: loss of left right asymmetry def: "Bilaterally symmetric cell fail to acquire specific left-right asymmetric properties such as L/R specific cell position, cell death or gene expression." [WB:WBPaper00037739, WB:WBPerson2021] synonym: "Lsy" BROAD [] is_a: WBPhenotype:0000216 ! cell fate specification variant [Term] id: WBPhenotype:0001513 name: dense core vesicle exocytosis variant def: "Variations in the process of secretion of a class of membrane-bound vesicles found inside neurons, gland cells, and some epithelial cells in which the central core appears darkly stained when viewed in thin section by electron microscopy, compared to control. Exocytosis occurs via the fusion of the vesicle with the plasma membrane of a cell (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dense core vesicle exocytosis abnormal" NARROW [] is_a: WBPhenotype:0000728 ! exocytosis variant [Term] id: WBPhenotype:0001514 name: synaptic vesicle endocytosis variant def: "Variations in the uptake of a small membrane-bound organelle, filled with neurotransmitter(s) and/or neuropeptides, by the invagination of small region of the plasma membrane to form a new membrane-bounded vesicle compared to control(Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "synaptic vesicle endocytosis abnormal" NARROW [] is_a: WBPhenotype:0001422 ! endocytic transport defect is_a: WBPhenotype:0001684 ! synaptic vesicle homeostasis variant is_a: WBPhenotype:0001752 ! vesicle trafficking variant [Term] id: WBPhenotype:0001515 name: struts variant def: "Animals exhibit variations in the quantity or patterning of electron-dense columnar structures that join the basal and cortical cuticle layers, from that observed in control animals." [WB:WBPaper00000465, WB:WBPerson712] synonym: "struts abnormal" NARROW [] is_a: WBPhenotype:0000948 ! cuticle morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001516 name: helical cuticle def: "Animals exhibit a helically twisted cuticle. In practice the degree of twisting is measured as the number of helical twists the alae make about anterior/posterior axis of the animal." [WB:WBPaper00000465, WB:WBPerson712] synonym: "cuticle helicity abnormal" NARROW [] is_a: WBPhenotype:0000948 ! cuticle morphology variant [Term] id: WBPhenotype:0001517 name: annulae morphology variant def: "Animals exhibit variations in the circumferential pattern of ridges in the outer cortical layer of the cuticle, compared to that observed in control animals of the same developmental stage." [WB:WBPaper00000465, WB:WBPaper00031415, WB:WBPerson712] synonym: "annulae morphology abnormal" NARROW [] is_a: WBPhenotype:0000948 ! cuticle morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001518 name: biogenic amine physiology variant def: "Any variation in the levels and/or localization of biogenic amines compared to control animals." [WB:WBPaper00000365] synonym: "biogenic amine physiology abnormal" NARROW [] synonym: "FIF" BROAD [] synonym: "Formaldehyde induced fluorescence abnormal" RELATED [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001519 name: posterior cell migration variant def: "Any variation in the orderly movement of cells along the posterior axis of the animal (abolished, misdirected or incomplete) compared to control." [WB:WBPerson2021] synonym: "abnormal posterior cell migration" NARROW [] is_a: WBPhenotype:0000594 ! cell migration variant [Term] id: WBPhenotype:0001520 name: posterior neuron migration variant def: "Any variation in the orderly movement of neurons along the posterior axis of the animal(abolished, misdirected or incomplete) compared to control." [WB:WBPerson2021] synonym: "abnormal posterior neuron migration" NARROW [] is_a: WBPhenotype:0001140 ! neuron migration variant is_a: WBPhenotype:0001519 ! posterior cell migration variant [Term] id: WBPhenotype:0001521 name: body elongation retracted def: "Embryos retract after the embryonic elongation process." [WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0001522 name: spicules protrude def: "The elongated sclerotized structures covered by a hardened layer of cuticle in the male tail (which are actively everted during copulation to fasten the male copulatory fan to the vulva) constitutively extend into the external environment through the cloacal opening. In C. elegans males there are two copulatory spicules." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000908 ! cloacal morphology variant [Term] id: WBPhenotype:0001523 name: extracellular matrix variant def: "Any variation in the makeup, density or area of the ECM compared to control." [WB:WBPerson712] synonym: "extracellular matrix abnormal" NARROW [] is_a: WBPhenotype:0000912 ! pericellular component morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001524 name: quiescence variant def: "Exhibition of quiescent behavior under inappropriate conditions and improper recovery from quiescent state. Quiescent behavior is normally coupled with lethargus." [WB:WBPerson2021] synonym: "narcoleptic" RELATED [] synonym: "quiescence abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001525 name: terminal bulb morphology variant def: "Animals exhibit variations in the structure or organization of the posterior region of the pharynx compared to control." [WB:WBPerson2021] synonym: "terminal bulb morphology abnormal" NARROW [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant [Term] id: WBPhenotype:0001526 name: ciliated neuron morphology variant def: "Animals exhibit variations in the structure or organization of any one of the specialized sensory receptor cells of the nervous system that compared to control animals. In C. elegans, these specialized cells are characterized as having axoneme containing dendritic projections emanating from their cell body." [WB:WBPaper00000503, WB:WBPaper00029016, WB:WBPerson712] comment: WBbt:0006816. synonym: "ciliated neuron morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant is_a: WBPhenotype:0000905 ! neuron morphology variant [Term] id: WBPhenotype:0001527 name: amphid phasmid sensillum morphology variant def: "Animals exhibit variations in the quantity, structure or organization of any component of any specialized chemosensory organs located on the head or along the tail, compared to that observed in control animals." [WB:WBPerson712] comment: WBbt:0005391. synonym: "amphid phasmid sensillum morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0001528 name: sensillum accessory cell morphology variant def: "Animals exhibit variations in the quantity, structure or organization of any component of the sensillum channel including the sheath and or socket cells, their junctions with each other, channel neurons or surrounding epithelia compared to control." [WB:WBPaper00000932, WB:WBPerson712] synonym: "sensillum accessory cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0001529 name: sensilium sheath cell variant def: "Any variation in the form, structure or composition of an interfacial epithelial cell which forms a specialized environment surrounding the ciliated sensory ending(s) of one or more neurons and is often accompanied by a more distal socket cell compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "sensilium sheath cell abnormal" NARROW [] is_a: WBPhenotype:0001528 ! sensillum accessory cell morphology variant is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001530 name: cephalic sensillum morphology variant def: "Animals exhibit variations in the quantity, structure or organization of any component of a specialized sensory organ in the head that contains a CEP receptor neuron, compared to control. In C. elegans, cells in these organs are refractory to FITC dye uptake." [WB:WBPaper00000214, WB:WBPaper00000503, WB:WBPaper00000932, WB:WBPerson712] comment: WBbt:0006920. synonym: "cephalic sensillum morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0001531 name: labial sensillum morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the sensilla of the mouth compared to control. In C. elegans, these sensillum are arranged in two (inner and outer) concentric rings around the mouth." [WB:WBPaper00000214, WB:WBPaper00000938, WB:WBPerson712] synonym: "labial sensillum morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0001532 name: inner labial morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the inner labial ring compared to control. In C. elegans, the ring is composed of six sensilla, which include associated neurons IL1 & IL2." [WB:WBPaper00000938, WB:WBPerson712] synonym: "inner labial morphology abnormal" NARROW [] is_a: WBPhenotype:0001531 ! labial sensillum morphology variant [Term] id: WBPhenotype:0001533 name: outer labial morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the outer labial ring compared to control. In C. elegans, this ring consists of four sensilla (OLQ) or the two additional lateral sensilla (OLL), which are part of the labial sensillum." [WB:WBPaper00000938, WB:WBPerson712] synonym: "outer labial morphology abnormal" NARROW [] is_a: WBPhenotype:0001531 ! labial sensillum morphology variant [Term] id: WBPhenotype:0001534 name: neuronal ECM variant def: "Any variation in makeup, density or area of the ECM lending structure to neurons compared to control animals. In C. elegans, the neuronal ECM is sometimes referred to as a mantle." [WB:WBPaper00000502, WB:WBPerson712] synonym: "neuronal ECM abnormal" NARROW [] is_a: WBPhenotype:0001523 ! extracellular matrix variant [Term] id: WBPhenotype:0001535 name: deirid sensillum morphology variant def: "Animals exhibit variations in the quantity, structure or organization of the components of the sensilla situated laterally in the anterior (ADE) or the posterior (PDE) of the animal compared to control. In C. elegans, each of the 4 deirid sensilla (2ADE, 2 PDE) contains a pair of neurons with ciliated dendritic processes that lie in a channel formed by a socket cell and invaginated sheath cell. The cilia of the deirids terminate in the subcuticle and are not exposed to the outside; however occasionally take up FITC." [WB:WBPaper00000938, WB:WBPaper00029016, WB:WBPerson712] synonym: "deirid sensillum morphology abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant [Term] id: WBPhenotype:0001536 name: embryonic cell patterning variant def: "Embryos exhibit variations in the patterning of differentiated cell types, compared to control." [WB:WBPerson557] synonym: "embryonic cell patterning abnormal" NARROW [] is_a: WBPhenotype:0000050 ! embryonic lethal [Term] id: WBPhenotype:0001537 name: mRNA turnover variant def: "Any variation in the ability of cells to monitor the quality of their mRNAs and degrade any transcripts that are poorly or incompletely translated compared to control." [WB:WBPaper00004926] synonym: "mRNA turnover abnormal" NARROW [] is_a: WBPhenotype:0000028 ! RNA processing variant [Term] id: WBPhenotype:0001538 name: mRNA surveillance defective def: "Defects in the cellular machinery that targets aberrant mRNAs species (nonsense codons, splice errors, altered untranslated regions etc.) for degradation. In C. elegans, mutations in such loci often act as allele-specific non gene-specific recessive suppressors of certain allele phenotypes and cause abnormal morphogenesis of male and hermaphrodite genitalia." [WB:WBPaper00001192, WB:WBPaper00004926] synonym: "Smg" NARROW [] is_a: WBPhenotype:0000028 ! RNA processing variant [Term] id: WBPhenotype:0001539 name: dauer induction variant def: "Animals exhibit variations in the entry into the dauer stage when exposed to conditions that induce dauer formation in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer induction abnormal" NARROW [] is_a: WBPhenotype:0000159 ! dauer arrest variant [Term] id: WBPhenotype:0001540 name: dauer lifespan variant def: "The life span of dauer-staged animals is either longer or shorter than that observed in control dauer animals." [WB:WBPerson2021] synonym: "dauer lifespan abnormal" NARROW [] is_a: WBPhenotype:0000039 ! life span variant is_a: WBPhenotype:0001547 ! dauer metabolism variant [Term] id: WBPhenotype:0001541 name: dauer gonad arrest variant def: "Variations in the execution of the developmentally-regulated cell cycle arrest in the gonad during the dauer stage, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer gonad arrest abnormal" NARROW [] is_a: WBPhenotype:0000637 ! dauer formation variant [Term] id: WBPhenotype:0001542 name: dauer feeding suppressed variant def: "Any variation in the inhibition of feeding which is induced/occurs during the dauer stage compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer feeding suppressed abnormal" NARROW [] is_a: WBPhenotype:0001001 ! dauer behavior variant [Term] id: WBPhenotype:0001543 name: dauer reduced locomotion variant def: "Dauer stage animals exhibit a decrease in self-propelled movement on a solid medium compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer reduced locomotion abnormal" NARROW [] is_a: WBPhenotype:0001001 ! dauer behavior variant [Term] id: WBPhenotype:0001544 name: dauer sensory response variant def: "Variations in the state or activity of a dauer stage organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer sensory response abnormal" NARROW [] is_a: WBPhenotype:0001001 ! dauer behavior variant [Term] id: WBPhenotype:0001545 name: dauer body morphology variant def: "Any variation in the overall structure or appearance of an animal progressing through an alternative larval stage in response to environmental stresses compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer body morphology abnormal" NARROW [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0001546 name: dauer resistance to harsh conditions variant def: "Variations which lead to the decreased ability of dauer larva to survive at extreme conditions, such as high or low temperatures, the presence of dilute acids, detergents, anesthetics, or even fixatives, compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer resistance to harsh conditions abnormal" NARROW [] is_a: WBPhenotype:0000159 ! dauer arrest variant [Term] id: WBPhenotype:0001547 name: dauer metabolism variant def: "Animals exhibit variations in the chemical reactions and pathways that occur during the dauer life stage, compared to control." [WB:WBPerson2021] synonym: "dauer metabolism abnormal" NARROW [] is_a: WBPhenotype:0000159 ! dauer arrest variant [Term] id: WBPhenotype:0001548 name: dauer axial ratio variant def: "Any variation in the ratio of the body length to body width in a dauer stage animal, compared to control. Long thin animals will have a high axial ratio." [WB:WBPerson557] synonym: "dauer axial ratio abnormal" NARROW [] is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001549 name: dauer gut variant def: "Dauer stage animals exhibit variations in the form, structure or composition of the chain of cuboidal cells which form a central lumen lined by microvilli that allow the passage of food, compared to control. Food passes from the posterior pharynx to the intestine where it is digested and then on to the rectum which processes the waste products for excretion." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer gut abnormal" NARROW [] is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001550 name: dauer buccal cavity morphology variant def: "Variations in the form or composition of the cuticle-lined lumenal region which lies just behind the lips at the entrance to the pharyngeal lumen in dauer stage animals compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer buccal cavity morphology abnormal" NARROW [] is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001551 name: dauer cuticle variant def: "Any variation in the progression of the formation of the rigid external coating (which is secreted by the hypodermis, seam and some interfacial epithelial cells) during the dauer larva stage, compared to control animals (Wormatlas). The dauer larval stage is a developmentally arrested larval stage that is specialized for survival under harsh, or otherwise unfavorable environmental conditions." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer cuticle abnormal" NARROW [] is_a: WBPhenotype:0000948 ! cuticle morphology variant is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001552 name: dauer pharynx morphology variant def: "Variations in the form or composition of the mouthparts at the anterior end of the digestive tract during the dauer stage, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer pharynx morphology abnormal" NARROW [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001553 name: dauer excretory gland variant def: "Dauer stage animals exhibit variations in the form, structure or composition of a pair of large cells in the head that fuse to form a single gland whose contents are released into the excretory duct through a specialized secretory membrane, compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer excretory gland abnormal" NARROW [] is_a: WBPhenotype:0000914 ! excretory gland cell morphology variant is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001554 name: dauer nose morphology variant def: "Dauer stage animals exhibit variations in the form, structure or composition of any portion of the extreme anterior part of their body compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer nose morphology abnormal" NARROW [] is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001555 name: dauer sensory system morphology variant def: "Any variations in the form, structure or composition of a set of interacting or interdependent entities forming the dauer sensory system, compared to control. The dauer sensory system is used to perceive the physical and chemical environment during the dauer larval stage." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer sensory system morphology abnormal" NARROW [] is_a: WBPhenotype:0001545 ! dauer body morphology variant [Term] id: WBPhenotype:0001556 name: dauer sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of the components of the sense organs comprised of ciliated sensory nerve endings enveloped by sheath and/or socket cells, from that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer sensillum abnormal" NARROW [] is_a: WBPhenotype:0000299 ! sensillum morphology variant is_a: WBPhenotype:0001555 ! dauer sensory system morphology variant [Term] id: WBPhenotype:0001557 name: dauer labial sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of the sensilla of the mouth compared to control. In C. elegans, these sensillum are arranged in two (inner and outer) concentric rings around the mouth." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer labial sensillum abnormal" NARROW [] is_a: WBPhenotype:0001531 ! labial sensillum morphology variant is_a: WBPhenotype:0001556 ! dauer sensillum variant [Term] id: WBPhenotype:0001558 name: dauer amphid sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of any component of any specialized chemosensory organs located on the head, compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer amphid sensillum abnormal" NARROW [] is_a: WBPhenotype:0000255 ! amphid phasmid morphology variant is_a: WBPhenotype:0000256 ! amphid morphology variant is_a: WBPhenotype:0001527 ! amphid phasmid sensillum morphology variant is_a: WBPhenotype:0001556 ! dauer sensillum variant [Term] id: WBPhenotype:0001559 name: dauer deirid sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of the components of the sensilla situated laterally in the anterior (ADE) or the posterior (PDE) of the animal compared to control. In C. elegans, each of the 4 deirid sensilla (2ADE, 2 PDE) contains a pair of neurons with ciliated dendritic processes that lie in a channel formed by a socket cell and invaginated sheath cell. The cilia of the deirids terminate in the subcuticle and are not exposed to the outside; however occasionally take up FITC." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer deirid sensillum abnormal" NARROW [] is_a: WBPhenotype:0001535 ! deirid sensillum morphology variant is_a: WBPhenotype:0001556 ! dauer sensillum variant [Term] id: WBPhenotype:0001560 name: obsolete dauer sensory system plug variant def: "OBSOLETE." [WB:WBPerson557] synonym: "dauer sensory system plug abnormal" NARROW [] is_obsolete: true consider: WBPhenotype:0001550 [Term] id: WBPhenotype:0001561 name: dauer inner labial sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of the components of the inner labial ring compared to control. In C. elegans, the ring is composed of six sensilla, which include associated neurons IL1 & IL2." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer inner labial sensillum abnormal" NARROW [] is_a: WBPhenotype:0001532 ! inner labial morphology variant is_a: WBPhenotype:0001557 ! dauer labial sensillum variant [Term] id: WBPhenotype:0001562 name: dauer outer labial sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of the components of the outer labial ring compared to control. In C. elegans, this ring consists of four sensilla (OLQ) or the two additional lateral sensilla (OLL), which are part of the labial sensillum." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer outer labial sensillum abnormal" NARROW [] is_a: WBPhenotype:0001533 ! outer labial morphology variant is_a: WBPhenotype:0001557 ! dauer labial sensillum variant [Term] id: WBPhenotype:0001563 name: dauer cephalic sensillum variant def: "Dauer stage animals exhibit variations in the quantity, structure or organization of any component of a specialized sensory organ in the head that contains a CEP receptor neuron, compared to control. In C. elegans, cells in these organs are refractory to FITC dye uptake." [WB:WBPerson2021, WB:WBPerson557] synonym: "dauer cephalic sensillum abnormal" NARROW [] is_a: WBPhenotype:0001530 ! cephalic sensillum morphology variant is_a: WBPhenotype:0001556 ! dauer sensillum variant [Term] id: WBPhenotype:0001564 name: duration of self fertility variant def: "The window of production of self-fertilized eggs exceeds or does not extend to the same length as control." [WB:WBPaper00002419, WB:WBPerson712] synonym: "duration of self fertility abnormal" NARROW [] is_a: WBPhenotype:0000806 ! hermaphrodite fertility variant [Term] id: WBPhenotype:0001565 name: lysine chemotaxis defective def: "Failure to execute characteristic response to lysine as defined by control animals. In C. elegans, lysine is an attractant." [WB:WBPaper00001481, WB:WBPaper00001786, WB:WBPerson2021] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective [Term] id: WBPhenotype:0001566 name: ventral enclosure variant def: "Any variation in the process that regulates the migration of ventral epidermal cells toward the ventral midline (to encase underlying cells in an epithelial monolayer) in developing embryos compared to control." [WB:WBPaper00027244, WB:WBPerson2021] synonym: "ventral enclosure abnormal" NARROW [] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0001567 name: nuclei enlarged def: "Nuclei of specific cells are larger compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0001568 name: mRNA export variant def: "Any variation in the export of mRNA from the cell nucleus compared to control." [WB:WBPaper00005960] synonym: "mRNA export abnormal" NARROW [] is_a: WBPhenotype:0000114 ! mRNA expression variant is_a: WBPhenotype:0001708 ! protein export from nucleus defective [Term] id: WBPhenotype:0001569 name: body wall muscle myosin organization defective def: "The characteristic organization of myosin filaments into discrete A-bands within the muscle cells is disrupted. In C. elegans, myosin filaments no longer appear as continuous longitudinally oriented fibers across the muscle quadrants." [WB:WBPaper00001894, WB:WBPerson2021] synonym: "body wall muscle myosin organization abnormal" NARROW [] synonym: "body wall muscle thick myofilament organization abnormal" RELATED [WB:WBPerson2021] synonym: "Dim" RELATED [] is_a: WBPhenotype:0000782 ! body wall muscle thick filament variant [Term] id: WBPhenotype:0001570 name: body wall muscle actin organization defective def: "The characteristic organization of actin filaments into I-bands is disrupted. In C. elegans, actin filaments no longer appear as thin continuous longitudinal stripes along the muscle quadrants." [WB:WBPaper00001894, WB:WBPerson2021] synonym: "body wall muscle actin organization abnormal" NARROW [] synonym: "body wall muscle thin myofilament organization abnormal" RELATED [WB:WBPerson2021] is_a: WBPhenotype:0000781 ! body wall muscle thin filament variant [Term] id: WBPhenotype:0001571 name: body wall muscle cell polarization variant def: "Variations in the accumulation of muscle proteins at membranes where adjacent muscle cells contact each other and the hypodermis compared to control. In C. elegans, during early embryonic body wall muscle development, muscle, basement membrane, and hypodermal components are all colocalized in a continuous linear structure at the site of muscle-hypodermal contact." [WB:WBPaper00001895] synonym: "body wall muscle cell polarization abnormal" NARROW [] is_a: WBPhenotype:0000926 ! body wall muscle morphology variant [Term] id: WBPhenotype:0001572 name: masculinized def: "Animals that are not ordinarily male, exhibit male-specific attributes. In C. elegans, XX animals exhibit male-specific attributes." [WB:WBPaper00000178, WB:WBPaper00001206, WB:WBPerson712] is_a: WBPhenotype:0001022 ! hermaphrodite sexual development variant [Term] id: WBPhenotype:0001573 name: nicotine response variant def: "Animals exhibit variations in the response to the addition of nicotine compared to that observed in control animals. Nicotine is a cholinergic agonist." [WB:WBPerson557] synonym: "nicotine response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001574 name: ATP levels variant def: "Animals exhibit variations in the cellular levels of Adenosine-5'-triphosphate (ATP), compared to control. ATP is a nucleotide that plays a versatile role in cell biology." [WB:WBPerson2021, WB:WBPerson557] synonym: "ATP levels abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001575 name: ATP levels reduced def: "Animals exhibit a decrease in the cellular levels of Adenosine-5'-triphosphate (ATP), compared to control. ATP is a nucleotide that plays a versatile role in cell biology." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001574 ! ATP levels variant [Term] id: WBPhenotype:0001576 name: mitochondria spacing variant def: "Variations in the spatial distribution of the mitochondria within the cell compared to control." [GO:0048311, WB:WBPerson2021, WB:WBPerson557] synonym: "mitochondria spacing abnormal" NARROW [] is_a: WBPhenotype:0001401 ! mitochondria morphology variant is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0001577 name: mitochondria alignment variant def: "Animals exhibit variations in the parallel arrangement of mitochondria within a cell compared to control." [WB:WBPaper00028954] synonym: "mitochondria alignment abnormal" NARROW [] is_a: WBPhenotype:0001576 ! mitochondria spacing variant [Term] id: WBPhenotype:0001578 name: cholinergic agonist resistant def: "Animals fail to respond to the concentration of cholinergic agonist that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0001579 name: cholinergic agonist hypersensitive def: "Animals respond to a cholinergic agonist at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0001580 name: nuclear envelope breakdown variant def: "Any variation in the progression of the controlled breakdown of the nuclear envelope, compared to control." [GO:0051081, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "nuclear envelope breakdown abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0002037 ! nuclear envelope organization variant [Term] id: WBPhenotype:0001581 name: X linked gene expression enhanced def: "Levels of transcripts associated with genes on the X chromosome are increased compared to control." [WB:WBPaper00001011, WB:WBPerson712] is_a: WBPhenotype:0000718 ! dosage compensation variant [Term] id: WBPhenotype:0001582 name: X linked gene expression reduced def: "Levels of transcripts associated with genes on the X chromosome are decreased compared to control." [WB:WBPaper00001011, WB:WBPerson712] is_a: WBPhenotype:0000718 ! dosage compensation variant [Term] id: WBPhenotype:0001583 name: XXX progeny def: "Animals segregate progeny with 3 X chromosomes." [WB:WBPaper00000179, WB:WBPerson712] is_a: WBPhenotype:0001664 ! X chromosome nondisjunction [Term] id: WBPhenotype:0001584 name: chromosome alignment variant def: "Any variation in the movement of chromosomes to the spindle equator during mitosis compared to control animals." [GO:0051310, WB:WBPerson557] synonym: "chromosome alignment at metaphase plate abnormal" NARROW [] synonym: "chromosome alignment at metaphase plate variant" NARROW [] synonym: "chromosome congression" RELATED [] is_a: WBPhenotype:0000773 ! chromosome segregation variant [Term] id: WBPhenotype:0001585 name: asymmetric cell division variant def: "Any variation in a cell's ability to divide asymmetrically to produce two daughter cells with different developmental potentials compared to control." [GO:0008356, WB:WBPerson2021, WB:WBPerson557] synonym: "asymmetric cell division abnormal" NARROW [] is_a: WBPhenotype:0001235 ! cell division polarity variant [Term] id: WBPhenotype:0001586 name: multiple anchor cells def: "Animals contain more than one anchor cell. In C. elegans, presumptive ventral uterine cells undergo fate transformation and instead acquire the properties of an anchor cell (often due to defects in lateral signaling)." [WB:WBPaper00001423, WB:WBPerson2021] synonym: "double anchor cell" NARROW [] is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001587 name: actin organization biogenesis variant def: "Animals exhibit variations in the formation and/or arrangement of actin, an abundant cytoskeletal protein in most cells, often linked to the plasma membrane and concentrated at cell junctions compared to control (Wormatlas)." [GO:0030036, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "actin organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0001345 ! cytoskeleton organization biogenesis variant [Term] id: WBPhenotype:0001588 name: microtubule organization biogenesis variant def: "Animals exhibit variations in the form, structure, composition or arrangement of a robust macromolecular array, composed primarily of tubulin, which forms long extended cytoskeletal elements compared to control (Wormatlas)." [GO:0000226, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. synonym: "microtubule organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0001345 ! cytoskeleton organization biogenesis variant [Term] id: WBPhenotype:0001589 name: microtubule nucleation variant def: "Any variation that alters the characteristic de novo formation of a microtubule compared to control." [GO:0007020] synonym: "microtubule nucleation abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0001588 ! microtubule organization biogenesis variant [Term] id: WBPhenotype:0001590 name: microtubule depolymerization variant def: "Any variation that alters the characteristic removal of tubulin heterodimers from one or both ends of a microtubule compared to control." [GO:0007019] synonym: "microtubule depolymerization abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0001588 ! microtubule organization biogenesis variant [Term] id: WBPhenotype:0001591 name: microtubule polymerization variant def: "Any variation that alters the characteristic addition of tubulin heterodimers to one or both ends of a microtubule compared to control." [GO:0046785] synonym: "microtubule polymerization abnormal" NARROW [] is_a: WBPhenotype:0000519 ! physiology variant is_a: WBPhenotype:0001588 ! microtubule organization biogenesis variant [Term] id: WBPhenotype:0001592 name: fainter def: "Alternating periods of stopping and moving; Motion is interrupted by periods of inactivity lasting several seconds." [WB:WBPaper00031286] is_a: WBPhenotype:0002308 ! pausing variant [Term] id: WBPhenotype:0001593 name: transgene silencing variant def: "Animals exhibit variations in the homology-dependent transcriptional level silencing of the expression of exogenous DNA that has been introduced into the organism, compared to control. In C. elegans this silencing occurs only in the germline." [WB:WBPaper00005399, WB:WBPerson2021, WB:WBPerson557] synonym: "transgene silencing abnormal" NARROW [] is_a: WBPhenotype:0002063 ! maintenance of gene silencing variant [Term] id: WBPhenotype:0001594 name: germline transgene silencing variant def: "Animals exhibit variations in the homology-dependent transcriptional level silencing of the expression of exogenous DNA that has been introduced into the organism, in the germline, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "germline transgene silencing abnormal" NARROW [] is_a: WBPhenotype:0001593 ! transgene silencing variant [Term] id: WBPhenotype:0001595 name: somatic transgene silencing variant def: "Animals exhibit variations in the homology-dependent transcriptional level silencing of the expression of exogenous DNA that has been introduced into the organism, in the soma, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "somatic transgene silencing abnormal" NARROW [] is_a: WBPhenotype:0001593 ! transgene silencing variant [Term] id: WBPhenotype:0001596 name: tail bobbed def: "Swelling of the tail hypodermis resulting in a prematurely-truncated and thickened appearance of the tail. In C. elegans, this is usually applies to hermaphrodites." [WB:WBPaper00024194, WB:WBPerson712] is_a: WBPhenotype:0000073 ! tail morphology variant [Term] id: WBPhenotype:0001597 name: muscle missing def: "Any variation that results in a fewer than control number of muscle cells." [WB:WBPaper00001423, WB:WBPaper00002946, WB:WBPerson2021] is_a: WBPhenotype:0000622 ! muscle system development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001598 name: inhibitor of serotonin uptake variant def: "Treatment with inhibitors of serotonin reuptake does not elicit the same response as observed for control animals." [WB:WBPerson712] synonym: "inhibitor of serotonin uptake abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001599 name: ouabain resistant def: "Animals fail to respond to the concentration of ouabain that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans, resistance to ouabain is often assayed via body contraction response." [WB:WBPaper00000484, WB:WBPerson2021] is_a: WBPhenotype:0000331 ! inhibitors of na k atpase resistant [Term] id: WBPhenotype:0001600 name: contraction response to ouabain resistant def: "Animals require increased concentration or longer exposure to ouabain to elicit the rapid muscular contractions seen in control animals." [WB:WBPaper00000484] is_a: WBPhenotype:0001599 ! ouabain resistant [Term] id: WBPhenotype:0001601 name: biogenic amine receptor antagonist resistant def: "Animals fail to respond to the concentration of biogenic amine receptor antagonist that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson712] synonym: "serotonin receptor antagonist" NARROW [] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0001602 name: methiothepin resistant def: "Animals fail to respond to the concentration of methiothepin that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00031241, WB:WBPerson721] is_a: WBPhenotype:0001601 ! biogenic amine receptor antagonist resistant [Term] id: WBPhenotype:0001603 name: cyproheptadine resistant def: "Animals fail to respond to the concentration of cyproheptadine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00031241, WB:WBPerson721] is_a: WBPhenotype:0001601 ! biogenic amine receptor antagonist resistant [Term] id: WBPhenotype:0001604 name: mianserin resistant def: "Animals fail to respond to the concentration of mianserin that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00031241, WB:WBPerson721] synonym: "dibenzazepine resistant" RELATED [] is_a: WBPhenotype:0001601 ! biogenic amine receptor antagonist resistant [Term] id: WBPhenotype:0001605 name: extended life span response to mianserin resistant def: "Animals do not live longer in response to mianserin compared to control." [WB:WBPaper00031241, WB:WBPerson721] is_a: WBPhenotype:0001604 ! mianserin resistant [Term] id: WBPhenotype:0001606 name: ethanol hypersensitive def: "Animals respond to ethanol at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00002358, WB:WBPerson712] synonym: "alcohol sensitive" BROAD [] is_a: WBPhenotype:0000008 ! anesthetic hypersensitive [Term] id: WBPhenotype:0001607 name: paralysis response to ethanol hypersensitive def: "Animals become paralyzed in response to ethanol at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00002358, WB:WBPerson712] is_a: WBPhenotype:0001606 ! ethanol hypersensitive [Term] id: WBPhenotype:0001608 name: enflurane hypersensitive def: "Animals respond to the anesthetic enflurane at lower concentrations or shorter exposure times than control animals." [WB:WBPaper00002037, WB:WBPerson721] synonym: "ether hypersensitive" RELATED [] is_a: WBPhenotype:0000008 ! anesthetic hypersensitive [Term] id: WBPhenotype:0001609 name: isoflurane hypersensitive def: "Animals respond to the anesthetic isoflurane at lower concentrations or shorter response times than control animals." [WB:WBPaper00002037, WB:WBPerson721] synonym: "ether hypersensitive" RELATED [] is_a: WBPhenotype:0000008 ! anesthetic hypersensitive [Term] id: WBPhenotype:0001610 name: diethyl ether hypersensitive def: "Animals respond to the anesthetic ether at lower concentrations or shorter response times than control animals." [WB:WBPaper00001063, WB:WBPaper00002037, WB:WBPerson721] synonym: "ether hypersensitive" RELATED [] is_a: WBPhenotype:0000008 ! anesthetic hypersensitive [Term] id: WBPhenotype:0001611 name: halothane hypersensitive def: "Animals respond to the lipid-soluble anesthetic halothane at lower concentrations or shorter response times compared to control animals." [WB:WBPaper00000958, WB:WBPaper00031286, WB:WBPerson721] is_a: WBPhenotype:0000008 ! anesthetic hypersensitive [Term] id: WBPhenotype:0001612 name: ethanol resistant def: "Animals fail to respond to the concentration of ethanol that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to ethanol to elicit the response compared to control animals. In C.elegans the phenotype designation Jud is short for JUDang, which is Korean for resistant to alcohol." [WB:WBPaper00002358, WB:WBPaper00031371, WB:WBPerson557, WB:WBPerson712] synonym: "alcohol resistant" BROAD [] synonym: "Jud" BROAD [] is_a: WBPhenotype:0000009 ! anesthetic resistant [Term] id: WBPhenotype:0001613 name: paralysis response to ethanol resistant def: "Animals in the presence of ethanol continue to respond to touch under conditions when control worms have stopped responding to stimuli." [WB:WBPaper00031371, WB:WBPerson712] is_a: WBPhenotype:0001612 ! ethanol resistant [Term] id: WBPhenotype:0001614 name: anticonvulsant response variant def: "Animals exhibit variations in their response to a specific anticonvulsant compared to that observed in control animals." [WB:WBPerson557] synonym: "anticonvulsant response abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001615 name: anticonvulsant resistant def: "Animals fail to respond to the concentration of compounds that act as anticonvulsants that elicit a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00024698, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0001614 ! anticonvulsant response variant [Term] id: WBPhenotype:0001616 name: trimethadione resistant def: "Animals fail to respond to the concentration of trimethadione, which acts as an anticonvulsant, that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00024698, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001615 ! anticonvulsant resistant [Term] id: WBPhenotype:0001617 name: ethosuximide resistant def: "Animals fail to respond to the concentration of ethosuximide, which acts as an anticonvulsant, that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson712] is_a: WBPhenotype:0001615 ! anticonvulsant resistant [Term] id: WBPhenotype:0001618 name: halothane resistant def: "Animals fail to respond to the concentration of the anesthetic halothane that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00004721, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000009 ! anesthetic resistant [Term] id: WBPhenotype:0001619 name: isoflurane resistant def: "Animals fail to respond to the concentration of the volatile anesthetic isoflurane that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00004721, WB:WBPerson712] is_a: WBPhenotype:0000009 ! anesthetic resistant [Term] id: WBPhenotype:0001620 name: organism oxidative stress response variant def: "Animals exhibit variations in their response to oxidative stress compared to that observed in control animals." [WB:WBPerson557] synonym: "organism oxidative stress response abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001621 name: organism oxidative stress response hypersensitive def: "Animals respond to a lower concentration of reactive oxygen species or a shorter exposure compared to control animals." [WB:WBPerson2021] is_a: WBPhenotype:0001620 ! organism oxidative stress response variant [Term] id: WBPhenotype:0001622 name: egg laying serotonin hypersensitive def: "Animals lay eggs at a greater rate in response to exogenous serotonin compared to control animals." [WB:WBPaper00002487, WB:WBPerson712] is_a: WBPhenotype:0000023 ! serotonin hypersensitive is_a: WBPhenotype:0001629 ! egg laying serotonin variant [Term] id: WBPhenotype:0001623 name: male tail curling serotonin variant def: "Any variation in the posture of the male tail after application of exogenous serotonin compared to control. In C. elegans, males respond with a tight ventral curling of the male tail in response to serotonin." [WB:WBPaper00001861, WB:WBPerson557] synonym: "male tail curling serotonin abnormal" NARROW [] is_a: WBPhenotype:0001232 ! serotonin response variant [Term] id: WBPhenotype:0001624 name: male tail curling serotonin resistant def: "Animals fail to respond to the concentration of serotonin that elicits a male tail curling response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans males respond to serotonin with a tight ventral curling of the male tail and posterior body." [WB:WBPaper00001861, WB:WBPerson557] is_a: WBPhenotype:0000024 ! serotonin resistant is_a: WBPhenotype:0001623 ! male tail curling serotonin variant [Term] id: WBPhenotype:0001625 name: male tail curling serotonin hypersensitive def: "Males respond to serotonin by curling their tails at a lower concentration or a shorter exposure compared to control animals. In C. elegans males respond to serotonin with a tight ventral curling of the male tail and posterior body." [WB:WBPaper00001861, WB:WBPaper00028762, WB:WBPerson557] is_a: WBPhenotype:0000023 ! serotonin hypersensitive is_a: WBPhenotype:0001623 ! male tail curling serotonin variant [Term] id: WBPhenotype:0001626 name: locomotion rate serotonin variant def: "Any variation in the locomotion rate after application of exogenous serotonin compared to control." [WB:WBPaper00002141] synonym: "locomotion rate serotonin abnormal" NARROW [] is_a: WBPhenotype:0000517 ! behavior variant is_a: WBPhenotype:0001232 ! serotonin response variant [Term] id: WBPhenotype:0001627 name: locomotion rate serotonin hypersensitive def: "The decrease in locomotion rate in the presence of serotonin is greater than control animals." [WB:WBPaper00002141] synonym: "locomotion rate serotonin reduced" RELATED [] is_a: WBPhenotype:0000023 ! serotonin hypersensitive is_a: WBPhenotype:0001626 ! locomotion rate serotonin variant [Term] id: WBPhenotype:0001628 name: locomotion rate serotonin resistant def: "Animals fail to decrease their locomotion rate in response the concentration of serotonin that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00002141] synonym: "locomotion rate serotonin increased" RELATED [] is_a: WBPhenotype:0000024 ! serotonin resistant is_a: WBPhenotype:0001626 ! locomotion rate serotonin variant [Term] id: WBPhenotype:0001629 name: egg laying serotonin variant def: "Any variation in egg laying behavior after application of exogenous serotonin compared to control. In C. elegans, serotonin induces egg laying." [WB:WBPaper00000635, WB:WBPerson712] synonym: "egg laying serotonin abnormal" NARROW [] is_a: WBPhenotype:0001101 ! egg laying response to drug variant is_a: WBPhenotype:0001232 ! serotonin response variant [Term] id: WBPhenotype:0001630 name: gut obstructed def: "Any variation in the developmental progression of the intestine that leads to a blockage in the alimentary canal." [WB:WBPerson2021, WB:WBPerson557] synonym: "Gob" BROAD [] is_a: WBPhenotype:0000708 ! intestinal development variant [Term] id: WBPhenotype:0001631 name: nullo X gamete def: "Animals produce ova/sperm that contain no X chromosome in a nonmendelian segregation pattern." [WB:WBPaper00000179, WB:WBPerson712] synonym: "nullo X gamete abnormal" NARROW [] is_a: WBPhenotype:0001664 ! X chromosome nondisjunction [Term] id: WBPhenotype:0001632 name: diplo X gamete def: "Animals produce ova/sperm that contain 2 X chromosomes." [WB:WBPaper00000179, WB:WBPerson712] is_a: WBPhenotype:0001664 ! X chromosome nondisjunction [Term] id: WBPhenotype:0001633 name: lethal gamete def: "Animals produce ova/sperm that contain lethal factors as a result of chromosomal disjunction defects." [WB:WBPaper00000179, WB:WBPerson712] is_a: WBPhenotype:0000966 ! germline mortal is_a: WBPhenotype:0001174 ! chromosome disjunction defective [Term] id: WBPhenotype:0001634 name: organism electrophilic stress hypersensitive def: "Animals respond to compounds that elicit electrophilic stress at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001635 name: excess pharyngeal cells def: "Animals contain an excess number of pharyngeal cells compared to control. In C. elegans, pharyngeal cells are derived from MS-blastomere. The overproduction of pharyngeal tissues is a result of other blastomeres adopting an MS-like fate." [WB:WBPaper00001584, WB:WBPaper00002922, WB:WBperson2021] is_a: WBPhenotype:0000707 ! pharyngeal development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001636 name: excess intestinal cells def: "Animals contain an excess number of intestinal cells compared to control. In C. elegans, intestinal cells are derived from E-blastomere. The overproduction of intestinal tissues is a result of other blastomeres adopting an E-like fate or excess cell proliferation in the E lineage." [WB:WBPaper00001584, WB:WBPaper00002330, WB:WBperson2021] is_a: WBPhenotype:0000708 ! intestinal development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001637 name: no Intestine def: "Embryos fail to generate cells that exhibit intestinal specification. In C. elegans, the E blastomere is the precursor of all the intestinal cells." [WB:WBPaper00002946, WB:WBperson2021] is_a: WBPhenotype:0000708 ! intestinal development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001638 name: endosome fusion defective def: "Animals are deficient in the formation or disassembly of lysosomes." [GO:0034058, WB:WBPaper00029049, WB:WBPerson712] is_a: WBPhenotype:0001422 ! endocytic transport defect [Term] id: WBPhenotype:0001639 name: roaming reduced def: "Animals exhibit a decrease in their high-speed movement in the forward direction with brief backward movement compared to control. In C. elegans, Animals do not move more than a few body lengths from their starting position and searches occur locally with pivoting behavior." [WB:WBPaper00003743, WB:WBPaper00031455, WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson712] synonym: "lurcher" RELATED [] synonym: "path range decreased" RELATED [] is_a: WBPhenotype:0000238 ! foraging reduced is_a: WBPhenotype:0001213 ! locomotion reduced is_a: WBPhenotype:0002315 ! roaming variant [Term] id: WBPhenotype:0001640 name: acidification level defective def: "Animals are unable to acidify compartments to the same level as that observed in control animals given the same stimulus." [WB:WBPaper00031246, WB:WBPerson712] synonym: "acidification level abnormal" NARROW [] is_a: WBPhenotype:0000607 ! coelomic system physiology variant [Term] id: WBPhenotype:0001641 name: posterior body wall contraction defective def: "Animals lack or exhibit defects in the posterior body muscle contractions during the defecation cycle." [WB:WBPaper00031426, WB:WBPerson712] synonym: "pBoc" RELATED [] is_a: WBPhenotype:0000157 ! posterior body wall contraction defecation cycle variant [Term] id: WBPhenotype:0001642 name: cell cleavage variant emb def: "Variations that disrupt stereotypical embryonic cleavage patterns (such as cleavage rate, division axes or asymmetric division)." [GO:0040016, WB:WBPaper00001032, WB:WBPerson2021] is_a: WBPhenotype:0000266 ! cell cleavage variant [Term] id: WBPhenotype:0001643 name: excess hypodermal cells def: "Embryos generate an excess number of hypodermal cells compared to control." [WB:WBPerson2021] synonym: "Skn" BROAD [] is_a: WBPhenotype:0000701 ! epithelial development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001644 name: protein metabolism variant def: "Animals exhibit variations in any process that involves the maintenance, biosynthesis or accumulation of proteins in the organism compared to control." [WB:WBPerson557] synonym: "protein metabolism abnormal" NARROW [] is_a: WBPhenotype:0000463 ! metabolic pathway variant is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0001645 name: protein degradation variant def: "Variations in the chemical reactions and pathways resulting in the directed breakdown of a protein (via the destruction of its native, active configuration) compared to control." [GO:0030163, WB:WBPerson2021] synonym: "protein degradation abnormal" NARROW [] is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001646 name: no pharynx def: "Embryos fail to generate cells that exhibit pharyngeal specification." [WB:WBPaper00001521, WB:WBPerson2021] synonym: "Pha" BROAD [] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0001647 name: posterior pharynx variant def: "Any variation in the progression of the posterior portion of the pharynx over time compared to control. In C. elegans the posterior region includes the isthmus and terminal bulb (second bulb)." [WB:WBPerson2021, WB:WBPerson557] synonym: "posterior pharynx abnormal" NARROW [] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0001648 name: no posterior pharynx def: "Embryos fail to generate cells that give rise to the posterior portion of the pharynx. In C. elegans, the MS blastomere- derived pharyngeal cells constitute the posterior portion of the pharynx." [WB:WBPaper00002330, WB:WBPerson2021] is_a: WBPhenotype:0001646 ! no pharynx is_a: WBPhenotype:0001647 ! posterior pharynx variant [Term] id: WBPhenotype:0001649 name: Fluorouracil resistant def: "Animals fail to respond to the concentration of Fluorouracil (5-FU) that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. Elegans Fluorouracil induces germ cell death, inhibits embryogenesis and inhibits larval growth (depending on dose) in control animals." [WB:WBPaper00031571, WB:WBPerson721] synonym: "5 FU resistant" EXACT [] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0001650 name: germ cell death response to 5 FU resistant def: "Germ cell death fails in response to the concentration of 5-FU that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans, in addition to cell death, 5-FU exposed animals exhibit condensed germ cell nuclei or unhealthy nuclei." [WB:WBPaper00031571, WB:WBPerson721] is_a: WBPhenotype:0001649 ! Fluorouracil resistant [Term] id: WBPhenotype:0001651 name: growth arrest response to 5 FU resistant def: "Animals grow well during or after exposure to 5-FU under conditions where control animals are growth inhibited." [WB:WBPaper00031571, WB:WBPerson721] is_a: WBPhenotype:0001649 ! Fluorouracil resistant [Term] id: WBPhenotype:0001652 name: anchor cell invasion variant def: "Any variation in the process by which the gonad anchor cell makes contact with vulval cells in order to create a uterine-vulval connection. In C. elegans, this includes the loss of the basement membranes between these cells and the crossing of the basolateral portion of the anchor cell through this gap." [WB:WBPaper00005989] synonym: "anchor cell invasion abnormal" NARROW [] is_a: WBPhenotype:0000283 ! vulva uterus connection defective [Term] id: WBPhenotype:0001653 name: cadmium response variant def: "Animals exhibit variations in their response to cadmium compared to that observed in control animals." [WB:WBPerson557] synonym: "cadmium response abnormal" NARROW [] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0001654 name: cadmium resistant def: "Animals fail to respond to the concentration of cadmium that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to cadmium to elicit the response compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001653 ! cadmium response variant [Term] id: WBPhenotype:0001655 name: cadmium hypersensitive def: "Animals respond to cadmium at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001653 ! cadmium response variant [Term] id: WBPhenotype:0001656 name: distal tip cell development variant def: "Any variation in the progression of the leader cell that guides and shapes the outgrowth of the gonad while crawling along the body wall to force the germline to extend into a long tubular shape over time from its formation to its mature structure compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "distal tip cell development abnormal" NARROW [] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0001657 name: cell junction variant def: "Animals exhibit variations in the specialized region of connection between two cells or between a cell and the extracellular matrix compared to control." [GO:0030054, WB:WBPaper00031590, WB:WBPerson712] synonym: "cell junction abnormal" NARROW [] is_a: WBPhenotype:0001399 ! cell membrane morphology variant [Term] id: WBPhenotype:0001658 name: intercellular junction variant def: "Animals exhibit variations in the specialized region of connection between two cells compared to control." [GO:0005911, WB:WBPaper00031590, WB:WBPerson712] synonym: "cell cell junction abnormal" RELATED [] synonym: "intercellular junction abnormal" NARROW [] is_a: WBPhenotype:0001657 ! cell junction variant [Term] id: WBPhenotype:0001659 name: spermatheca morphology variant def: "Any variation in the form, structure or composition of the somatic gonad structure that connects the distal gonad arm to the uterus compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "spermatheca morphology abnormal" NARROW [] is_a: WBPhenotype:0000977 ! somatic gonad morphology variant [Term] id: WBPhenotype:0001660 name: loss of asymmetry ASE def: "The two morphologically bilaterally symmetric gustatory neurons ASE left (ASEL) and ASE right (ASER) fail to undergo a left/right asymmetric diversification in cell fate." [WB:WBPaper00030973, WB:WBPerson2021] synonym: "2ASEL" NARROW [] synonym: "2ASER" NARROW [] is_a: WBPhenotype:0001510 ! neuronal cell fate specification variant is_a: WBPhenotype:0001512 ! loss of left right asymmetry [Term] id: WBPhenotype:0001661 name: loss of asymmetry AWC def: "The two morphologically bilaterally symmetric olfactory neurons AWC left (AWCL) and AWC right (AWCR) fail to undergo a left/right asymmetric diversification in cell fate." [WB:WBPaper00003760, WB:WBPerson2021] synonym: "2 AWC off" NARROW [] synonym: "2 AWC on" NARROW [] is_a: WBPhenotype:0001510 ! neuronal cell fate specification variant is_a: WBPhenotype:0001512 ! loss of left right asymmetry [Term] id: WBPhenotype:0001662 name: spermatheca development variant def: "Any variation in the progression of the somatic gonad structure that connects the distal gonad arm to the uterus over time from an initial condition to a later condition compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "spermatheca development abnormal" NARROW [] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0001663 name: organism oxidative stress resistant def: "Animals fail to respond to the levels of reactive oxygen species that elicit a response in control animals." [WB:WBPerson2021] synonym: "Oxr" BROAD [] is_a: WBPhenotype:0001620 ! organism oxidative stress response variant [Term] id: WBPhenotype:0001664 name: X chromosome nondisjunction def: "The frequency of sex chromosome segregation is perturbed, resulting in the production of exceptional gametes (e.g. ova or sperm) and populations with a sex ratio altered from the rate of 1:500 as observed for control populations." [WB:WBPaper00000179, WB:WBPaper00000565, WB:WBPerson712] is_a: WBPhenotype:0001174 ! chromosome disjunction defective [Term] id: WBPhenotype:0001665 name: low incidence male progeny def: "Lower numbers of male progeny occur in the population compared to control populations. In C. elegans, the low incidence of males phenotype in a self-fertilizing hermaphrodite population is a result of an decrease in X chromosome nondisjunction." [WB:WBPaper00000565, WB:WBPerson712] is_a: WBPhenotype:0001664 ! X chromosome nondisjunction [Term] id: WBPhenotype:0001666 name: organism hypersensitive X ray irradiation def: "Animals respond to iononizing radiation at a lower dose or a shorter exposure compared to control animals. Iononizing radiation has a wavelength in the 10 to 0.01 nanometer range. In C. elegans, increased sensitivity to X-ray irradiation is often observed as a decrease in survival upon exposure compared to control animals given the same treatment." [WB:WBPaper00000565, WB:WBPaper00003886, WB:WBPerson712] is_a: WBPhenotype:0000276 ! organism X ray response variant is_a: WBPhenotype:0000711 ! organism hypersensitive ionizing radiation [Term] id: WBPhenotype:0001667 name: methyl methanesulfonate hypersensitive def: "Animals respond to the chemical mutagen methyl methanesulfonate (MMS) a methanesulfonate ester and alkylating agent at a lower concentration or a shorter exposure compared to control animals. In C. elegans, increased sensitivity to MMS can be observed as a decrease in egg hatch upon acute exposure or inhibition of growth after chronic exposure compared to control animals given the same treatment." [WB:WBPaper00000565, WB:WBPerson712] synonym: "MMS hypersensitive" EXACT [] is_a: WBPhenotype:0000498 ! methyl methanesulfonate response variant [Term] id: WBPhenotype:0001668 name: oocyte accumulation def: "An increased number of oocytes are retained in the gonad without becoming endomitotic, compared to control." [WB:WBPaper00006281, WB:WBPaper00030855] synonym: "oocyte number increased" RELATED [] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001669 name: presynaptic vesicle number variant def: "Animals exhibit a variation in the ratio of synaptic vesicles per synapse of a neuron, compared to control animals." [WB:WBPaper00027305, WB:WBPerson712] synonym: "presynaptic vesicle number abnormal" NARROW [] synonym: "synaptic vesicle number abnormal" RELATED [] is_a: WBPhenotype:0001321 ! presynaptic region morphology variant [Term] id: WBPhenotype:0001670 name: presynaptic vesicle number reduced alt_id: WBPhenotype:0001322 def: "Animals exhibit an overall decrease in the quantity of synaptic vesicles at the synapse compared to control animals." [WB:WBPaper00027305, WB:WBPerson712] synonym: "synaptic vesicle number reduced" RELATED [] is_a: WBPhenotype:0001669 ! presynaptic vesicle number variant [Term] id: WBPhenotype:0001671 name: vesicle organization variant def: "Animals display variations in the distribution of spherical membrane-bound fluid-filled organelles, compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "vesicle organization abnormal" NARROW [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001672 name: commisure growth variant def: "Animals exhibit variations in the extension of the part of the axon that forms a bridge between body regions, compared to control animals." [WB:WBPerson2021, WB:WBPerson712] synonym: "commisure growth abnormal" NARROW [] is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0001673 name: telomere homeostasis variant def: "Animals exhibit variations in the processes that affect and monitor the activity of telomeric proteins and the length of telomeric DNA, which allow the chromosome to persist from generation to generation, compared to control." [GO:0032204, WB:WBPaper00031585, WB:WBPerson712] synonym: "telomere homeostasis abnormal" NARROW [] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0001674 name: telomere morphology variant def: "Animals exhibit variations in the sequence or organization of the components of the terminal region of its chromosome, (i.e. telomere, which serves to stabilize the chromosome) compared to control." [GO:0000781, WB:WBPaper00003886, WB:WBPerson712] synonym: "telomere morphology abnormal" NARROW [] is_a: WBPhenotype:0001348 ! chromosome morphology variant [Term] id: WBPhenotype:0001675 name: male gonad development variant def: "Males exhibit variations in the reproductive system, from its formation to the mature structure compared to control." [WB:WBPerson712] synonym: "male gonad development abnormal" NARROW [] is_a: WBPhenotype:0000691 ! gonad development variant [Term] id: WBPhenotype:0001676 name: touch receptor cell morphology variant def: "Animals exhibit variations in the structure or composition of any neuron within the class of sensory neurons responsible for relaying mechanical stimuli to the animal compared to control." [WB:WBPaper00000550, WB:WBPerson712] synonym: "mechanosensory neuron abnormal" RELATED [] synonym: "microtubule cell morphology abnormal" RELATED [] synonym: "touch receptor cell morphology abnormal" NARROW [] is_a: WBPhenotype:0000905 ! neuron morphology variant [Term] id: WBPhenotype:0001677 name: stage specific cuticle antigenicity variant def: "Animals display cuticle components displayed by animals of a different developmental stage, compared to control." [WB:WBPaper00002589, WB:WBPerson712] synonym: "Srf" NARROW [] synonym: "stage specific cuticle antigenicity abnormal" NARROW [] is_a: WBPhenotype:0001687 ! surface antigenicity variant [Term] id: WBPhenotype:0001678 name: cuticle physiology variant def: "Animals produce cuticles that vary in components such as proteins or carbohydrates, observed in control animals of the same developmental stage and raised under the same conditions." [WB:WBPaper00001576, WB:WBPerson712] synonym: "cuticle physiology abnormal" NARROW [] is_a: WBPhenotype:0001210 ! pericellular component physiology variant [Term] id: WBPhenotype:0001679 name: multipolar neuron def: "Neurons have more than one process extending from the cell body." [WB:WBPaper00031901, WB:WBPerson712] is_a: WBPhenotype:0000905 ! neuron morphology variant [Term] id: WBPhenotype:0001680 name: adoption of fused vulval cell fate def: "Vulval precursor cells forgo further cell division and fuse to the hypodermis instead of adopting their intended fate (becoming primary, secondary or tertiary vulval cells)." [WB:WBPerson2021, WB:WBPerson712] synonym: "F fate abnormal" RELATED [] synonym: "VPC fused fate abnormal" RELATED [] is_a: WBPhenotype:0001272 ! vulval cell induction variant [Term] id: WBPhenotype:0001681 name: spindle orientation variant def: "The alignment of the spindle relative to other cellular structures varies from that observed in control animals." [GO:0051294, WB:WBPaper00031898, WB:WBPerson712] synonym: "spindle orientation abnormal" NARROW [] is_a: WBPhenotype:0000761 ! spindle position orientation defective early emb is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001682 name: organism UV resistant def: "Organisms respond to UV at a higer dose or a longer exposure compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000143 ! organism UV response variant [Term] id: WBPhenotype:0001683 name: spermatogenesis defective hermaphrodite def: "Variations that specifically disrupt sperm production in XX hermaphrodites. By contrast, spermatogenesis in XO males remains unaffected." [WB:WBPaper00002113, WB:WBPaper00002631] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0001684 name: synaptic vesicle homeostasis variant def: "The rates of synaptic vesicle exocytosis and endocytosis vary from that observed in control animals." [WB:WBPaper00031872, WB:WBPerson712] synonym: "synaptic vesicle homeostasis abnormal" NARROW [] is_a: WBPhenotype:0000846 ! presynaptic region physiology variant [Term] id: WBPhenotype:0001685 name: postsynaptic region morphology variant def: "The region opposite to the presynaptic region deviates in the structure, configuration or ratio of its components specific for receiving signals from the other side of the synapse compared to control." [WB:WBPaper00031872, WB:WBPerson712] synonym: "postsynaptic region morphology abnormal" NARROW [] is_a: WBPhenotype:0000616 ! synapse morphology variant [Term] id: WBPhenotype:0001686 name: postsynaptic region physiology variant def: "Animals exhibit variations in any physical or chemical process in the region, opposite to the presynaptic region, which is required for receiving signals from the other side of the synapse compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "postsynaptic region physiology abnormal" NARROW [] is_a: WBPhenotype:0000584 ! synaptic transmission variant [Term] id: WBPhenotype:0001687 name: surface antigenicity variant def: "Cuticles of animals or cuticular extracts exhibit an altered pattern of antibody binding compared to Bristol N2 animals of the same developmental stage." [WB:WBPaper00001280, WB:WBPerson712] synonym: "Srf" BROAD [] synonym: "surface antigenicity abnormal" NARROW [] is_a: WBPhenotype:0001688 ! surface coat variant [Term] id: WBPhenotype:0001688 name: surface coat variant def: "The electron dense, amorphous envelope that comprises the outermost layer of the cuticle varies in composition from that observed in control animals of the same developmental stage. The integrity of the surface coat is often revealed by an altered antigenicity or biochemical make up." [GO:0060104] synonym: "Srf" BROAD [] synonym: "surface coat abnormal" NARROW [] is_a: WBPhenotype:0000201 ! cuticle development variant is_a: WBPhenotype:0001678 ! cuticle physiology variant [Term] id: WBPhenotype:0001689 name: surface antigen negative def: "Cuticles or cuticular extracts do not bind antibodies that are observed to bind the surfaces or cuticular extracts of Bristol N2 animals of the same developmental stage." [WB:WBPaper00001280, WB:WBPerson712] synonym: "Srf" NARROW [] is_a: WBPhenotype:0001687 ! surface antigenicity variant [Term] id: WBPhenotype:0001690 name: constitutive larval display def: "Animals display surface antigens throughout all larval stages, unlike Bristol N2 worms, which display the antigens only during one larval stage." [WB:WBPaper00002589, WB:WBPerson712] synonym: "Cld" BROAD [] is_a: WBPhenotype:0001677 ! stage specific cuticle antigenicity variant [Term] id: WBPhenotype:0001691 name: germ nuclei rachis def: "Germ nuclei are misplaced in the gonad and are observed in the rachis. Sheath cells are observed protruding between these nuclei. Meiotic or mitotic specification of germ nuclei is not affected." [WB:WBPaper00031889, WB:WBPerson712] synonym: "germ line morphogenesis(Glm)" NARROW [] is_a: WBPhenotype:0001940 ! rachis morphology variant [Term] id: WBPhenotype:0001692 name: pheromone induced larval display defective def: "Animals are not induced to display surface antigens by exposure to pheromone as observed for Bristol N2 animals." [WB:WBPaper00002589, WB:WBPerson712] synonym: "ILD abnormal" EXACT [] synonym: "induced larval display abnormal" RELATED [] synonym: "pheromone induced larval display abnormal" NARROW [] is_a: WBPhenotype:0001687 ! surface antigenicity variant [Term] id: WBPhenotype:0001693 name: male posterior alae def: "Males have alae that extend into the tail region. Alae are small linear ridges running along the lateral lines of the cuticle. In C. elegans alae do not extend into the tail region (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "Pal" BROAD [] is_a: WBPhenotype:0000202 ! alae variant is_a: WBPhenotype:0001240 ! male tail sensory ray differentiation variant [Term] id: WBPhenotype:0001694 name: spermatogenesis to oogenesis switch defective def: "Hermaphrodites continue to produce sperm past the time at which the transition to oogenesis normally occurs. Thus, germ cells that would normally become oocytes are transformed into sperm instead." [WB:WBPaper00001883, WB:WBPaper00002113, WB:WBPerson2021] synonym: "spermatogenesis to oogenesis switch abnormal" NARROW [] is_a: WBPhenotype:0001572 ! masculinized [Term] id: WBPhenotype:0001695 name: glycosyltransferase activity variant def: "Animals exhibit variations in their catalytic ability the transfer glycolsyl groups from one compound (donor) to another (acceptor) often measured by a reduction in the amount of glycosylated products compared to that observed in control animals of the same developmental stage." [GO:0016757, WB:WBPerson712] synonym: "glycosyltransferase activity abnormal" NARROW [] is_a: WBPhenotype:0000733 ! catalysis variant [Term] id: WBPhenotype:0001696 name: biosynthesis variant def: "Animals exhibit variations in the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones compared to control." [GO:0009058, WB:WBPaper00029024, WB:WBPerson712] synonym: "biosynthesis abnormal" NARROW [] is_a: WBPhenotype:0000463 ! metabolic pathway variant [Term] id: WBPhenotype:0001697 name: chondroitin biosynthesis variant def: "Animals exhibit variations in the chemical reactions and pathways resulting in the formation of chondroitin sulfate compared to control." [WB:WBPaper00029024, WB:WBPaper00031153, WB:WBPerson712] synonym: "chondroitin biosynthesis abnormal" NARROW [] is_a: WBPhenotype:0001696 ! biosynthesis variant [Term] id: WBPhenotype:0001698 name: heparan sulfate biosynthesis variant def: "Animals exhibit variations in the chemical reactions and pathways resulting in the formation of the heparan sulfate proteoglycan compared to control." [WB:WBPaper00029024, WB:WBPaper00031153, WB:WBPerson712] synonym: "heparan sulfate biosynthesis abnormal" NARROW [] is_a: WBPhenotype:0001696 ! biosynthesis variant [Term] id: WBPhenotype:0001699 name: localized movement variant def: "Specific body regions of an animal display variations in movement compared to that observed in control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "localized movement abnormal" NARROW [] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0001700 name: swimming variant def: "Animals exhibit variations in movement in liquid from that observed for control animals." [WB:WBPaper00031835, WB:WBPerson712] synonym: "movement in liquid abnormal" RELATED [] synonym: "swimming abnormal" NARROW [] synonym: "thrashing abnormal" RELATED [] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0001701 name: spastic locomotion def: "Animals exhibit uncharacteristic muscle contractions during the process by which they travel from one location to another." [WB:WBPerson2021, WB:WBPerson557] synonym: "convulsive" RELATED [] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0001702 name: directionality variant def: "Animals exhibit variations in the directional changes that separate consecutive runs, from that observed for control animals. In C. elegans, these aberrations include variations in the form or extent of omega turns or reversals (shifts from forward to backward movements)." [WB:WBPaper00000075, WB:WBPaper00003740, WB:WBPaper00031656, WB:WBPerson712] synonym: "directionality abnormal" NARROW [] synonym: "reversal abnormal" RELATED [] synonym: "turning abnormal" RELATED [] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0001703 name: body bend variant def: "Any variation in the maximum ventral and dorsal flex of the animal compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "body bend abnormal" NARROW [] is_a: WBPhenotype:0004018 ! sinusoidal movement variant [Term] id: WBPhenotype:0001704 name: multiple alae def: "Alae contain more cuticular ridges than control animals. In C. elegans alae are composed of three cuticular ridges." [WB:WBPaper00026841, WB:WBPerson557] is_a: WBPhenotype:0001412 ! alae morphology variant [Term] id: WBPhenotype:0001705 name: nucleocytoplasmic transport defective def: "The directed movement of molecules between the nucleus and the cytoplasm is impaired." [GO:0006913, WB:WBPerson557] synonym: "nucleocytoplasmic transport abnormal" NARROW [] is_a: WBPhenotype:0001283 ! organelle metabolism variant [Term] id: WBPhenotype:0001706 name: nuclear export defective def: "The directed movement of substances out of the nucleus is impaired." [GO:0051168, WB:WBPerson557] synonym: "nuclear export abnormal" NARROW [] is_a: WBPhenotype:0001705 ! nucleocytoplasmic transport defective [Term] id: WBPhenotype:0001707 name: nuclear import defective def: "The directed movement of substances into the nucleus is impaired." [GO:0051170, WB:WBPerson557] synonym: "nuclear import abnormal" NARROW [] is_a: WBPhenotype:0001705 ! nucleocytoplasmic transport defective [Term] id: WBPhenotype:0001708 name: protein export from nucleus defective def: "The directed movement of a protein from the nucleus into the cytoplasm is impaired." [GO:0006611, WB:WBPerson557] synonym: "protein export from nucleus abnormal" NARROW [] is_a: WBPhenotype:0001706 ! nuclear export defective [Term] id: WBPhenotype:0001709 name: rhythmic tolerance to stress variant def: "Animals exhibit variations in light/dark cycle recurrence of reactions to stress conditions compared to that observed for control animals." [WB:WBPaper00032037, WB:WBPerson712] synonym: "circadian variation in stress tolerance abnormal" RELATED [] synonym: "rhythmic tolerance to stress abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant is_a: WBPhenotype:0001711 ! rhythmic behavior variant [Term] id: WBPhenotype:0001710 name: rhythmic tolerance to osmotic stress variant def: "Animals exhibit variations in light/dark cycle recurrence of reactions to osmotic stress compared to that observed for control animals." [WB:WBPaper00032037, WB:WBPerson712] synonym: "rhythmic tolerance to osmotic stress abnormal" NARROW [] is_a: WBPhenotype:0001709 ! rhythmic tolerance to stress variant [Term] id: WBPhenotype:0001711 name: rhythmic behavior variant def: "Animals exhibit variations in actions or responses that occur with measurable periodicity, from that observed for control animals." [GO:0007622, WB:WBPerson712] synonym: "rhythmic behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001712 name: circadian rhythm behavior variant def: "Animals exhibit variations in the actions or reactions that recur with a periodicity associated with light/dark cycles, compared to control." [GO:0048512, WB:WBPaper00032037, WB:WBPerson712] synonym: "circadian rhythm behavior abnormal" NARROW [] is_a: WBPhenotype:0001711 ! rhythmic behavior variant [Term] id: WBPhenotype:0001713 name: locomotory rhythm variant def: "Animals exhibit variations in locomotor activity during its light/dark cycle from that observed in control animals." [GO:0045475, WB:WBPaper00031656, WB:WBPerson712] synonym: "locomotory rhythm abnormal" NARROW [] is_a: WBPhenotype:0001711 ! rhythmic behavior variant [Term] id: WBPhenotype:0001714 name: pirouette variant def: "Animals exhibit variations in turning bouts, consisting of one or more sharp turning events separating consecutive runs, which serve to orient the animal within a gradient, compared to control." [WB:WBPaper00003740, WB:WBPaper00026967, WB:WBPerson712] synonym: "pirouette abnormal" NARROW [] is_a: WBPhenotype:0002311 ! turning variant [Term] id: WBPhenotype:0001715 name: pirouette frequency variant def: "Animals exhibit variations in the number of directional changes over time from that observed for control animals." [WB:WBPaper00031656, WB:WBPerson712] synonym: "frequency of directionality abnormal" NARROW [] synonym: "pirouette frequency abnormal" NARROW [] is_a: WBPhenotype:0001714 ! pirouette variant [Term] id: WBPhenotype:0001716 name: forward point velocity variant def: "Animals exhibit variations in the velocity of forward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00024949, WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson712] synonym: "forward point velocity abnormal" NARROW [] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0001717 name: centroid velocity variant def: "Animals exhibit variations in the translocation of the mean position of the rear two-thirds (centroid position) of the animal over time, from that observed for control animals." [WB:WBPaper00024949, WB:WBPaper00031656, WB:WBPerson712] synonym: "centroid velocity abnormal" NARROW [] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0001718 name: instantaneous velocity variant def: "Animals exhibit variations in the mean translocation of the points along the animal's track compared to control." [WB:WBPaper00024949, WB:WBPerson712] synonym: "instantaneous velocity abnormal" NARROW [] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0001719 name: unfolded protein response variant def: "Animals exhibit variations in any of the series of molecular signals generated as a consequence of the presence of unfolded proteins in the endoplasmic reticulum (ER) and or the mitochondria, compared to control. One such response is the increase in expression of chaperones." [GO:0030968, WB:WBPaper00030877, WB:WBPaper00032003, WB:WBPerson557, WB:WBPerson712] synonym: "ER unfolded protein response abnormal" RELATED [] synonym: "unfolded protein response" RELATED [] synonym: "unfolded protein response abnormal" NARROW [] synonym: "UPR" RELATED [] is_a: WBPhenotype:0000142 ! cell stress response variant is_a: WBPhenotype:0000523 ! chemical response variant is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001720 name: spermatozoa retro location defective def: "Spermatozoa do not crawl back into the spermatheca after being swept into the uterus by passing oocytes." [WB:WBPaper00032030, WB:WBPerson712] synonym: "spermatheca homing abnormal" RELATED [] synonym: "spermatozoa retro location abnormal" NARROW [] is_a: WBPhenotype:0000389 ! hermaphrodite sperm fertilization defective is_a: WBPhenotype:0001386 ! fertilization defective hermaphrodite [Term] id: WBPhenotype:0001721 name: pathogen infected pharynx variant def: "Animals exhibit variations in the extent of pathogen invasion into the pharynx compared to control. This is often measured as the percentage of animals exhibiting a pathogen-invaded pharynx within a given population." [WB:WBPaper00032003, WB:WBPerson712] synonym: "pathogen infected pharynx abnormal" NARROW [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001722 name: pathogen infected pharynx increase def: "Animals exhibit a greater extent of pathogen invasion into the pharynx compared to control." [WB:WBPaper00032003, WB:WBPerson712] is_a: WBPhenotype:0001721 ! pathogen infected pharynx variant [Term] id: WBPhenotype:0001723 name: pathogen infected pharynx decrease def: "Animals exhibit a lesser extent of pathogen invasion into the pharynx compared to control." [WB:WBPaper00032003, WB:WBPerson712] is_a: WBPhenotype:0001721 ! pathogen infected pharynx variant [Term] id: WBPhenotype:0001724 name: tunicamycin hypersensitive def: "Animals respond to tunicamycin at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00030877, WB:WBPerson557] is_a: WBPhenotype:0000359 ! tunicamycin response variant [Term] id: WBPhenotype:0001725 name: osmotic stress response variant def: "Animals exhibit variations in the response to osmotic stress compared to control. In C. elegans, exposure to stress-inducing osmotic conditions invokes cellular changes, including transcriptional up or down-regulation of genes." [WB:WBPaper00032031, WB:WBPerson712] synonym: "osmotic stress response abnormal" NARROW [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0001726 name: body length variant def: "Animals vary in the distance between anterior and posterior ends of the animal from that observed in control animals." [WB:WBPerson712] synonym: "body length abnormal" NARROW [] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0001727 name: body width variant def: "Animals vary in the distance between dorsal and ventral sides when measured across the body at right angles to the length, from that observed in control animals." [WB:WBPerson712] synonym: "body width abnormal" NARROW [] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0001728 name: mating plug production variant def: "Males differ from control animals in their ability to form copulatory plugs or their placement of these plugs. In C. elegans, males of the Hawaiian strain (CB4856) typically form mating plugs." [WB:WBPaper00032027, WB:WBPerson712] synonym: "mating plug production abnormal" NARROW [] is_a: WBPhenotype:0000928 ! male physiology variant [Term] id: WBPhenotype:0001729 name: mating plug produced def: "Males form copulatory mating plugs." [WB:WBPaper00002770, WB:WBPerson712] synonym: "mating plug plus" RELATED [] synonym: "plug plus" RELATED [] is_a: WBPhenotype:0001728 ! mating plug production variant [Term] id: WBPhenotype:0001730 name: mating plug deficient def: "Males do not form copulatory mating plug." [WB:WBPaper00002770, WB:WBPerson712] synonym: "mating plug minus" RELATED [] synonym: "plug minus" RELATED [] is_a: WBPhenotype:0001728 ! mating plug production variant [Term] id: WBPhenotype:0001731 name: thermal bias in tracking variant def: "Animals exhibit variations in the duration of the trajectory of the forward track in a thermal gradient compared to control." [WB:WBPaper00032070, WB:WBPerson712] synonym: "cryophilic bias" RELATED [] synonym: "thermal bias in tracking abnormal" NARROW [] is_a: WBPhenotype:0000478 ! isothermal tracking behavior variant [Term] id: WBPhenotype:0001732 name: organism response to pH variant def: "Animals exhibit variations in their response and ability to survive over a range of pH conditions compared to control." [WB:WBPaper00032033, WB:WBPerson712] synonym: "organism response to pH abnormal" NARROW [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001733 name: pheromone suppressed pumping defective def: "Animals treated with pheromone do not exhibit a decrease in pumping rate similar to that observed for control animals." [WB:WBPaper00032082, WB:WBPerson712] synonym: "pheromone suppressed pumping abnormal" NARROW [] is_a: WBPhenotype:0001287 ! suppressed pharyngeal pumping defective [Term] id: WBPhenotype:0001734 name: starvation suppressed pumping defective def: "Animals deprived of food do not exhibit a decrease in pumping rate similar to that observed for control animals." [WB:WBPaper00032082, WB:WBPerson712] synonym: "food deprived suppression of pumping abnormal" RELATED [] synonym: "starvation suppressed pumping abnormal" NARROW [] is_a: WBPhenotype:0001287 ! suppressed pharyngeal pumping defective [Term] id: WBPhenotype:0001735 name: muscle cell activity variant def: "Animals exhibit variations in the frequency, rate or extent of muscle contraction compared to control animals." [GO:0006937, WB:WBPaper00032000, WB:WBPerson712] synonym: "muscle cell activity abnormal" NARROW [] is_a: WBPhenotype:0000990 ! muscle cell physiology variant [Term] id: WBPhenotype:0001736 name: acetate chemotaxis defective def: "Failure to execute the characteristic response to acetate compared to control animals." [WB:WBPaper00031959, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000015 ! positive chemotaxis defective [Term] id: WBPhenotype:0001737 name: aqueous compound discrimination defective def: "Animals are unable to locate the gradient peak of a water soluble compound, which was generated on a uniform concentration of another compound." [WB:WBPaper00031959, WB:WBPerson712] synonym: "aqueous compound discrimination abnormal" NARROW [] is_a: WBPhenotype:0001443 ! aqueous chemosensory response variant [Term] id: WBPhenotype:0001738 name: ammonium chemotaxis defective def: "Failure to execute the characteristic response to ammonium compared to control animals." [WB:WBPaper00031959, WB:WBPerson712] is_a: WBPhenotype:0000015 ! positive chemotaxis defective [Term] id: WBPhenotype:0001739 name: aging variant def: "Any variation in an organism's decline over time from its optimal fertility and viability compared to control animals." [WB:WBPaper00032067, WB:WBPerson712] synonym: "aging abnormal" NARROW [] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0001740 name: organ senescence variant def: "Any variation in the preprogrammed process that occurs in an organism that is associated with the dismantling of an organ and an overall decline in metabolic function compared to control animals. This may include variations in the rate or extent of morphological disarray and of the breakdown or organelles, membranes and other cellular components." [GO:0010260, WB:WBPaper00032067, WB:WBPerson712] synonym: "organ senescence abnormal" NARROW [] is_a: WBPhenotype:0000530 ! organ system development variant is_a: WBPhenotype:0000534 ! organ system morphology variant is_a: WBPhenotype:0000575 ! organ system physiology variant is_a: WBPhenotype:0001739 ! aging variant [Term] id: WBPhenotype:0001741 name: spontaneous spicule protraction def: "Males exhibit spicule-muscle seizures leading to inappropriately timed protraction compared to control." [WB:WBPaper00032000, WB:WBPerson712] synonym: "Prc" BROAD [] synonym: "precocious spicule protraction" RELATED [] synonym: "protraction constitutive" RELATED [] is_a: WBPhenotype:0002443 ! spicule protraction variant [Term] id: WBPhenotype:0001742 name: lipid synthesis increased def: "The endogenous anabolism of any lipid species has been increased compared to that observed in control animals." [WB:WBPaper00032082, WB:WBPerson712] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0001743 name: mitosis variant def: "Any variation in the division of the eukaryotic cell nucleus to produce two daughter nuclei that contain the identical chromosome complement of their mother compared to control." [GO:0000278, WB:WBPerson557] synonym: "mitosis abnormal" NARROW [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0001744 name: cell adhesion variant def: "Any variation in the attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix compared to control." [GO:0007155, WB:WBPerson557] synonym: "cell adhesion abnormal" NARROW [] is_a: WBPhenotype:0001657 ! cell junction variant [Term] id: WBPhenotype:0001745 name: adherens junction variant def: "Any variation in a cell junction at which the cytoplasmic face of the plasma membrane is attached to actin filaments compared to control." [GO:0005912, WB:WBPerson557] synonym: "adherens junction abnormal" NARROW [] is_a: WBPhenotype:0001658 ! intercellular junction variant [Term] id: WBPhenotype:0001746 name: tight junction defective def: "Any perturbation in the belt-like region of very close contact between the plasma membranes of adjacent cells that results in the complete occlusion of the intercellular space." [GO:0005923, WB:WBPerson557] synonym: "tight junction abnormal" NARROW [] synonym: "zonula occludens abnormal" EXACT [] is_a: WBPhenotype:0001658 ! intercellular junction variant [Term] id: WBPhenotype:0001747 name: zinc response variant def: "Animals exhibit variations in the change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a zinc ion stimulus compared to control." [GO:0010043, WB:WBPerson712] synonym: "zinc response abnormal" NARROW [] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0001748 name: pharynx unattached def: "The pharynx or pharyngeal muscle does not form a functional connection to the mouth or buccal cavity." [WB:WBPaper00031910, WB:WBPerson712] synonym: "Pun" EXACT [] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0001749 name: zinc toxicity hypersensitive def: "The toxic response to zinc occurs at a lower concentration or a shorter exposure compared to control animals. In C. elegans hypersensitive animals exhibit delayed development or lethality at concentrations of zinc (e.g. ZnSO4), which has little or no effect on control worms." [WB:WBPaper00031911, WB:WBPerson712] is_a: WBPhenotype:0001747 ! zinc response variant [Term] id: WBPhenotype:0001750 name: zinc toxicity resistant def: "Animals fail to exhibit toxicity to the concentration of zinc that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans toxic responses to zinc include delayed development or lethality." [WB:WBPaper00031911, WB:WBPerson712] is_a: WBPhenotype:0001747 ! zinc response variant [Term] id: WBPhenotype:0001751 name: organism hypertonic lethality increased def: "Animals exhibit increased lethality as a result of exposure to environments with a higher solute concentration than their own internal environment, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "Hos" RELATED [] synonym: "hypertonic sensitive" RELATED [] is_a: WBPhenotype:0000141 ! stress induced lethality increased is_a: WBPhenotype:0000876 ! organism osmotic stress response variant [Term] id: WBPhenotype:0001752 name: vesicle trafficking variant def: "Animals exhibit variations in vesicle-based directed movement of substances into, out of, or within a cell compared to control." [GO:0016192, WB:WBPerson712] synonym: "vesicle trafficking abnormal" NARROW [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001753 name: coelomocyte uptake increased def: "Animals exhibit intensified accumulation of fluids or fluorescent markers etc. within their coelomocytes compared to control animals." [WB:WBPaper00004883, WB:WBPerson712] is_a: WBPhenotype:0001426 ! coelomocyte uptake defective [Term] id: WBPhenotype:0001754 name: endosome to lysosome trafficking defective def: "Contents of endosomes fail to be transported to lysosomal compartments." [WB:WBPaper00029049, WB:WBPerson712] is_a: WBPhenotype:0001421 ! endocytic transport variant [Term] id: WBPhenotype:0001755 name: UV induced mitotic germ cell arrest defective def: "Animals do not arrest mitotic germ cell division, as control animals, when treated with UV radiation." [WB:WBPaper00028948, WB:WBPerson557] is_a: WBPhenotype:0000100 ! cell UV response variant [Term] id: WBPhenotype:0001756 name: UV induced apoptosis decreased def: "Programmed cell death caused by UV radiation is reduced compared to control animals. In C. elegans, this is often measured in the pachytene region of the gonad." [WB:WBPaper00028948, WB:WBPerson557] is_a: WBPhenotype:0000100 ! cell UV response variant [Term] id: WBPhenotype:0001757 name: neuropeptide metabolism variant def: "Animals exhibit variations in any process that involves the maintenance, biosynthesis or accumulation of signalling peptides in the organism compared to control." [WB:WBPerson712] synonym: "neuropeptide metabolism abnormal" NARROW [] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001758 name: neuropeptide processing variant def: "Variations in the chemical reactions and pathways involved in the formation and maturation of specialized peptidergic neurotransmitters encoded as preproproteins that are posttranslationally processed to yield bioactive neuropeptides compared to control (Wormatlas)." [WB:WBPerson2021, WB:WBPerson557] synonym: "neuropeptide processing abnormal" NARROW [] is_a: WBPhenotype:0000122 ! post translational processing variant is_a: WBPhenotype:0001757 ! neuropeptide metabolism variant [Term] id: WBPhenotype:0001759 name: 21U RNA expression variant def: "Variations in the biogenesis or stability of the 21U-RNA class of molecules compared to control. Molecules are classified as 21U-RNA based on the presence of a 5'U and a conserved upstream motif, which may specify the production of these molecules, in addition these molecules are typically 21nt in length." [GO:0016070, WB:WBPaper00028915, WB:WBPaper00031962, WB:WBPerson712] synonym: "21U RNA expression abnormal" NARROW [] synonym: "piRNA expression abnormal" RELATED [] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0001760 name: G tract instability def: "Animals exhibit an increase in the rate of deletion events in mono-G or G-rich tracts within the genome compared to control." [WB:WBPaper00031945, WB:WBPerson712] is_a: WBPhenotype:0000000 ! chromosome instability [Term] id: WBPhenotype:0001761 name: axon midline crossing variant def: "Regulated ventral midline crossing by axons vary either in the frequency of crossing events or the maintenance through development of process positions compared to control." [GO:0016199, WB:WBPaper00032007, WB:WBPerson712] synonym: "axon midline crossing abnormal" NARROW [] is_a: WBPhenotype:0000384 ! axon guidance variant [Term] id: WBPhenotype:0001762 name: uptake of yolk defective def: "Yolk is not taken up by oocytes in the same manner or to the same degree as observed for control animals. This often leads to an accumulation of yolk in the pseudocoelom." [WB:WBPaper00003831, WB:WBPerson712] is_a: WBPhenotype:0001422 ! endocytic transport defect is_a: WBPhenotype:0001424 ! oocyte physiology variant [Term] id: WBPhenotype:0001763 name: uptake by intestinal cell defective def: "Uptake of subtances from the intestine is altered from that observed in control animals." [WB:WBPaper00004883, WB:WBPerson712] is_a: WBPhenotype:0000986 ! epithelial cell physiology variant is_a: WBPhenotype:0001422 ! endocytic transport defect [Term] id: WBPhenotype:0001764 name: carbon dioxide response variant def: "Animals exhibit variations in their response to carbon dioxide compared to control." [WB:WBPerson712] synonym: "carbon dioxide response abnormal" NARROW [] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0001765 name: carbon dioxide avoidance variant def: "Variations in the characteristic movement away from specific CO2 levels compared to control. C. elegans avoids high levels of CO2." [WB:WBPaper00031935, WB:WBPerson557, WB:WBPerson712] synonym: "carbon dioxide avoidance abnormal" NARROW [] synonym: "Cdad" RELATED [] synonym: "CO2 avoidance abnormal" RELATED [] is_a: WBPhenotype:0001764 ! carbon dioxide response variant [Term] id: WBPhenotype:0001766 name: cholesterol depletion hypersensitive def: "Animals are more sensitive to the reduction of cholesterol in the environment compared to control animals." [GO:0042632, WB:WBPaper00026641, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0001767 name: commissure handedness defective def: "Outgrowth of the commissure occurs on the side of the body different from that observed in control animals." [WB:WBPaper00032007, WB:WBPerson712] is_a: WBPhenotype:0000181 ! axon trajectory variant is_a: WBPhenotype:0000384 ! axon guidance variant [Term] id: WBPhenotype:0001768 name: commissure number variant def: "Variations in the quantity of circumferential axonal tracts from the number observed in control animals." [WB:WBPaper00032007, WB:WBPerson712] synonym: "commissure number abnormal" NARROW [] is_a: WBPhenotype:0001226 ! commissure variant [Term] id: WBPhenotype:0001769 name: cytoplasmic RNAi defective def: "Animals fail to silence cytoplasmic-localized RNAs. Nuclear-localized RNAs may still be sensitive to RNAi." [WB:WBPaper00032049, WB:WBPerson712] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001770 name: endo siRNA binding variant def: "Animals exhibit variations in their selective interactions with small interfering RNA molecules compared to control." [GO:0035197, WB:WBPaper00032049, WB:WBPerson712] synonym: "endo siRNA binding abnormal" NARROW [] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001771 name: endo siRNA production variant def: "Animals exhibit variations in the length or amount of any endogenous small interfering RNA molecule populations compared to control." [WB:WBPaper00031932, WB:WBPaper00032049, WB:WBPerson712] synonym: "endo siRNA production abnormal" NARROW [] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001772 name: endogenous transposase levels increased def: "Animals exhibit an increase in the levels of transposase mRNA, from endogenous transposons, over that measured in control animals." [WB:WBPaper00031962, WB:WBPerson712] is_a: WBPhenotype:0000745 ! transposon silencing variant [Term] id: WBPhenotype:0001773 name: enhanced locomotion defective def: "Animals do not exhibit an increase in speed when placed in an environment that relies on a combination of swimming and crawling behaviors compared to control." [WB:WBPaper00031965, WB:WBPerson712] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0001774 name: gut on the exterior def: "An epidermal enclosure defect that results in internal organs lying on the outside of the embryo." [WB:WBPaper00005123, WB:WBPaper00032090, WB:WBPerson712] synonym: "Gex" EXACT [] is_a: WBPhenotype:0000047 ! gastrulation variant [Term] id: WBPhenotype:0001775 name: hormetic temperature induced life span extension defective def: "Pre-treatment with stress-inducing temperatures does not result in a life-span extension as it does in control animals." [WB:WBPaper00028750, WB:WBPaper00031942, WB:WBPerson712] is_a: WBPhenotype:0000061 ! extended life span is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0001776 name: siRNA expression variant def: "Variations in the biogenesis and stability of the small interfering class of RNA molecules compared to control. In C. elegans these molecules are antisense to mRNA's and may be processed from long double-stranded RNA." [GO:0016070, WB:WBPaper00028915, WB:WBPaper00031962, WB:WBPerson712] synonym: "siRNA expression abnormal" NARROW [] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0001777 name: pre mRNA levels increased def: "Animals exhibit an increase in the levels of nuclear mRNA species compared to control." [WB:WBPaper00032049, WB:WBPerson712] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0001778 name: nuclear RNAi defective def: "Animals fail to silence nuclear-localized RNAs. Animals still retain sensitivity to RNAi for those RNAs located outside of the nucleus." [WB:WBPaper00032049, WB:WBPerson712] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001779 name: miRNA expression variant def: "Variations in the biogenesis or stability of the microRNA class of molecules compared to control. In C. elegans these molecules are endogenous single-stranded regulatory molecules, 19-25 nucleotides long, with the potential to arise from hairpin, foldback, structures from their primary transcripts." [GO:0035196, WB:WBPaper00028915, WB:WBPaper00029181, WB:WBPaper00030747, WB:WBPaper00031962, WB:WBPerson712] synonym: "miRNA expression abnormal" NARROW [] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0001780 name: associative learning variant def: "Variations in the behavioral plasticity induced by the integration of two sensory signals compared to control. In C. elegans animals exhibit enhancement of butanone chemotaxis by preexposure to butanone and food." [WB:WBPaper00029060, WB:WBPerson2021] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0001781 name: hypersensitivity to mutagen def: "Animals are more susceptible than control animals to the effects of a nucleic acid damaging agent. This increased susceptibility is often measured by an increase in the rate of spontaneous mutations or an increased lethality." [WB:WBPaper00031945, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0001782 name: anoxia response attenuated def: "Response to trace levels of oxygen is reduced or weakened compared to the response of control animals." [WB:WBPaper00031981, WB:WBPerson712] is_a: WBPhenotype:0002424 ! anoxia response variant [Term] id: WBPhenotype:0001783 name: ligand gated channel activity variant def: "Animals exhibit variations in the actions of a channel that catalyses the transmembrane transfer of a cation when acetylcholine has been bound by the channel complex or one of its constituent parts compared to control animals." [GO:0022834, WB:WBPaper00031930, WB:WBPerson712] synonym: "ligand gated channel activity abnormal" NARROW [] is_a: WBPhenotype:0000631 ! drug response variant is_a: WBPhenotype:0000656 ! acetylcholine synaptic transmission variant is_a: WBPhenotype:0001833 ! membrane trafficking variant [Term] id: WBPhenotype:0001784 name: lysosome homeostasis deficient def: "Animals are deficient in the formation or disassembly of lysosomes." [GO:0007040, WB:WBPaper00029049, WB:WBPerson712] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001785 name: memory retention defective def: "Animals are deficient in their recalled and repeated responses to stimuli they are exposed to during learning and memory paradigms." [WB:WBPaper00031974, WB:WBPerson712] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0001786 name: neuronal ion channel clustering defective def: "Animals exhibit variations in the targeting, clustering and or maintenance of ion channels in distinct subcellular domains of the neuron compared to control animals." [GO:0045161, WB:WBPaper00031930, WB:WBPerson712] is_a: WBPhenotype:0000816 ! neuron development variant is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0001787 name: phototaxis defective def: "Animals do not respond via directed movement to light stimuli in the same manner as control animals. In C. elegans, animals move away from light." [WB:WBPaper00031999, WB:WBPerson712] is_a: WBPhenotype:0001897 ! light response variant [Term] id: WBPhenotype:0001788 name: resistant to mutagens def: "Animals survive longer than control animals after or during exposure to DNA damaging agents." [WB:WBPaper00031934, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant is_a: WBPhenotype:0000739 ! DNA damage response variant [Term] id: WBPhenotype:0001789 name: temperature influenced life span variant def: "Life span of the animal is not influenced by changes in temperature in the same manner as control animals." [WB:WBPaper00031942, WB:WBPerson712] synonym: "temperature independent life span" NARROW [] synonym: "temperature influenced life span abnormal" NARROW [] is_a: WBPhenotype:0000039 ! life span variant is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0001790 name: thermoreceptor currents absent def: "Cooling or warming evoked changes in membrane currents are not observed." [WB:WBPaper00032060, WB:WBPerson712] synonym: "ThRC absent" RELATED [] is_a: WBPhenotype:0000851 ! ciliated neuron physiology variant [Term] id: WBPhenotype:0001791 name: defecation cycle temperature compensation variant def: "Animals exhibit variations in temperature dependent differences in the length of their defecation cycle. In C. elegans the length of the cycle is the same at different temperatures, showing temperature compensation." [WB:WBPaper00002315, WB:WBPerson712] synonym: "defecation cycle temperature compensation abnormal" NARROW [] is_a: WBPhenotype:0000207 ! defecation cycle variant [Term] id: WBPhenotype:0001792 name: nuclei small def: "Nuclei of specific cells are smaller compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0001793 name: aboc expulsion missing def: "The anterior body contraction and expulsion steps of the defecation cycle are absent; posterior body contractions are still present." [WB:WBPaper00002776, WB:WBPerson712] synonym: "Aex" RELATED [] is_a: WBPhenotype:0000391 ! defecation missing motor steps [Term] id: WBPhenotype:0001794 name: cytoplasmic processing body variant def: "Discrete foci within the cytoplasm containing congregations of mRNA translational suppression and degradation mechanisms vary in their arrangement, clustering or are otherwise not well-defined compared to control." [WB:WBPaper00031914, WB:WBPaper00032172, WB:WBPerson712] synonym: "cytoplasmic processing body abnormal" NARROW [] synonym: "P body abnormal" RELATED [] is_a: WBPhenotype:0001300 ! germ cell cytoplasmic morphology variant [Term] id: WBPhenotype:0001795 name: microsatellite instability def: "Animals exhibit variations in repeat lengths of microsatellite genomic sequences compared to control." [WB:WBPaper00031859, WB:WBPerson712] is_a: WBPhenotype:0000000 ! chromosome instability [Term] id: WBPhenotype:0001796 name: organism hypersensitive interstrand cross link agents def: "Animals exhibit increased sensitivity to interstrand cross-linking agents, such as HN2 (nitrogen mustard) and CDDP (cisplatin) compared to control. In C. elegans, increased sensitivity to these agents is often observed as a decrease in survival compared to control animals after exposure to the agent." [WB:WBPaper00031868, WB:WBPerson712] synonym: "interstrand cross link agent hypersensitive" RELATED [] is_a: WBPhenotype:0000067 ! organism stress response variant [Term] id: WBPhenotype:0001797 name: pachytene arrested germline nuclei def: "Germline nuclei do not progress through pachytene to diplotene." [WB:WBPaper00031914, WB:WBPerson712] is_a: WBPhenotype:0001946 ! pachytene progression during oogenesis variant [Term] id: WBPhenotype:0001798 name: inhibition of synaptogenesis defective def: "The processes that inhibit the location or frequency of formation of synapses are downregulated resulting in the formation of synapses or synapse-like structures in areas of the neuron that are typically devoid of synapses in control animals." [GO:0051964, WB:WBPaper00032163, WB:WBPerson712] is_a: WBPhenotype:0000625 ! synaptogenesis variant is_a: WBPhenotype:0000944 ! neurite development variant [Term] id: WBPhenotype:0001799 name: inhibition of synaptogenesis hyperactive def: "The processes that inhibit the location or frequency of formation of synapses are upregulated compared to control." [GO:0051964, WB:WBPaper00032163, WB:WBPerson712] is_a: WBPhenotype:0000944 ! neurite development variant [Term] id: WBPhenotype:0001800 name: antimicrobial gene expression variant def: "Changes in the levels of innate immune gene products in response to pathogen exposure are significantly different from that observed in control animals." [WB:WBPaper00031865, WB:WBPerson712] synonym: "antimicrobial gene expression abnormal" NARROW [] is_a: WBPhenotype:0002164 ! innate immune response variant [Term] id: WBPhenotype:0001801 name: axodendritic polarity variant def: "Animals fail to establish or maintain characteristics that delineate the dendrite from the axon. The exclusion of presynaptic components from the dendrite is one indication of axodendritic polarity." [WB:WBPaper00032163, WB:WBPerson712] synonym: "axodendritic polarity abnormal" NARROW [] is_a: WBPhenotype:0000944 ! neurite development variant [Term] id: WBPhenotype:0001802 name: body wall muscle relaxation defective def: "Animals fail to relax their body wall muscles to the same extent as muscles in control animals." [WB:WBPaper00032190, WB:WBPerson712] is_a: WBPhenotype:0000596 ! body behavior variant [Term] id: WBPhenotype:0001803 name: endosome biogenesis variant def: "Animals exhibit variations in the formation or disassembly of membrane bound organelles that traffic material between the plasma membrane and internal compartments of the cell, compared to control." [WB:WBPaper00032168, WB:WBPerson712] synonym: "endosome biogenesis abnormal" NARROW [] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001804 name: fat associated bodies reduced def: "Animals exhibit a decrease in the number of fat containing organelles compared to control. In C. elegans this number can be assayed by decreases in the number of Nile Red or BODIPY 493/503 staining bodies." [WB:WBPaper00032168, WB:WBPerson712] synonym: "lipid body number reduced" RELATED [] is_a: WBPhenotype:0001901 ! fat associated bodies variant [Term] id: WBPhenotype:0001805 name: mitochondria vesiculated def: "Inner membrane of mitochondria are disconnected and form vesicular bodies." [GO:0007005, WB:WBPaper00032231, WB:WBPerson712] is_a: WBPhenotype:0001401 ! mitochondria morphology variant [Term] id: WBPhenotype:0001806 name: protein stabilization variant def: "Any variation in the ability of a protein to resist disintegration via chemical or physical modifications compared to control." [WB:WBPaper00029085, WB:WBPerson2021] synonym: "protein stabilization abnormal" NARROW [] is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0001807 name: alternative splicing variant def: "Any variation in the process of generating multiple mRNA molecules from a given set of exons by differential use of exons from the primary transcript(s) to form multiple mature mRNAs that vary in their exon composition compared to control." [GO:0000380, WB:WBPerson557] synonym: "alternative splicing abnormal" NARROW [] is_a: WBPhenotype:0000028 ! RNA processing variant [Term] id: WBPhenotype:0001808 name: cell corpse digestion variant def: "The degradation of genomic and or cellular material of the corpse does not occur at the same rate or under the same conditions as observed in control animals undergoing cell death." [WB:WBPaper00032272, WB:WBPerson712] synonym: "cell corpse digestion abnormal" NARROW [] is_a: WBPhenotype:0000885 ! engulfment variant [Term] id: WBPhenotype:0001809 name: organelle fusion defective def: "The formation of mature intracellular compartments via membrane fusion is disrupted." [WB:WBPaper00032272, WB:WBPerson712] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001810 name: oocyte septum formation variant def: "Animals exhibit variations in the partitioning of oocytes from each other compared to control animals." [WB:WBPaper00028947] synonym: "oocyte cellularization defective" RELATED [] synonym: "oocyte partition variant" RELATED [] synonym: "oocyte septum formation abnormal" NARROW [] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0001811 name: serotonin induced fat reduction variant def: "Animals retain a significantly greater proportion of their fat upon serotonin treatment, compared to control." [WB:WBPaper00031915, WB:WBPerson2021] synonym: "serotonin induced fat reduction abnormal" NARROW [] synonym: "serotonin induced fat regulation" RELATED [] is_a: WBPhenotype:0000024 ! serotonin resistant is_a: WBPhenotype:0001232 ! serotonin response variant [Term] id: WBPhenotype:0001812 name: embryonic rupture def: "During development of the embryo, the epidermis loses integrity and the contents of the embryo are expelled." [WB:WBPerson557] is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0001813 name: synapsis defective def: "Animals exhibit defects in the stabilization of homologue pairing, which occurs through the initiation and formation of the synaptonemal complex, during meiosis." [WB:WBPaper00032296, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001814 name: crossover defective def: "Animals exhibit defects in the number or extent of connections between chromatids that occur during the process of genetic material exchange between homologous segments of non-sister chromatids." [GO:0051026, WB:WBPaper00032296, WB:WBPerson712] synonym: "chiasma defective" RELATED [] synonym: "homologous recombination foci variant" RELATED [] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001815 name: desynapsis defective def: "Animals exhibit defects in the asymmetric diassembly of the synaptonemal complex during progression through meiosis." [WB:WBPaper00032296, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001816 name: egg laying circuit variant def: "Neuromuscular signaling between neurons and egg laying musculature varies from that observed for control animals." [WB:WBPaper00032221, WB:WBPerson712] synonym: "egg laying circuit abnormal" NARROW [] is_a: WBPhenotype:0000929 ! hermaphrodite physiology variant [Term] id: WBPhenotype:0001817 name: enhanced taste aversion defective def: "The conditioned aversion to a specific chemical compound as a result of that compound being coupled with an unfavorable condition, such as starvation, does not increase to the same extent as observed for control animals." [WB:WBPaper00032335, WB:WBPerson712] synonym: "enhanced gustatory plasticity defective" RELATED [] synonym: "enhanced taste aversion defective" RELATED [] synonym: "starvation enhanced taste aversion defective" RELATED [] is_a: WBPhenotype:0000147 ! organism starvation response variant is_a: WBPhenotype:0001444 ! aqueous adaptation defective [Term] id: WBPhenotype:0001818 name: neuron activation variant def: "Activity of the neuron varies from that observed for control animals or neurons. In C. elegans neuron activity is often assayed by observing calcium spikes." [WB:WBPaper00032221, WB:WBPerson712] synonym: "neuron activation abnormal" NARROW [] synonym: "neuron activity abnormal" RELATED [] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0001819 name: pathogen load variant def: "The number of pathogens associated with the animal vary from that associated with control animals." [WB:WBPaper00032196, WB:WBPerson712] synonym: "bacterial load variant" NARROW [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001820 name: bordering def: "Animals tend to accumulate at the thickest part of the bacterial lawn." [WB:WBPaper00003187, WB:WBPaper00032342, WB:WBPerson712] synonym: "bordering increased" RELATED [] is_a: WBPhenotype:0000662 ! foraging behavior variant is_a: WBPhenotype:0001291 ! social behavior variant [Term] id: WBPhenotype:0001821 name: non bordering def: "Animals do not accumulate at the thickest part of the bacterial lawn. Animals do not preferentially deplete bacterial food at the thicker parts of the lawn." [WB:WBPaper00032342, WB:WBPerson712] is_a: WBPhenotype:0000662 ! foraging behavior variant is_a: WBPhenotype:0001291 ! social behavior variant [Term] id: WBPhenotype:0001822 name: dauer pheromone secretion variant def: "Animals produce pheromone but it does not undergo controlled release into the environment." [WB:WBPaper00032517, WB:WBPerson712] is_a: WBPhenotype:0000258 ! cell secretion variant is_a: WBPhenotype:0000609 ! excretory secretory system physiology variant [Term] id: WBPhenotype:0001823 name: sperm recruitment variant def: "Any variation in the mechanism by which sperm find their correct target destinations (spermatheca)." [WB:WBPaper00028527, WB:WBPerson2021] is_a: WBPhenotype:0001424 ! oocyte physiology variant [Term] id: WBPhenotype:0001824 name: meiotic progression prophase variant def: "Animals exhibit variations in any process necessary for the progression through prophase during meiosis compared to control animals." [WB:WBPaper00005486, WB:WBPerson557] is_a: WBPhenotype:0000313 ! meiotic progression during oogenesis variant is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0001825 name: rudimentary gonad def: "Animals have very few or no germline nuclei and gonad arms that are very small or missing." [WB:WBPaper00005486, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001826 name: RNA degradation variant def: "Variations in the regulated breakdown of RNA species via the action of cellular enzymes (RNases) compared to control." [WB:WBPaper00032091, WB:WBPerson2021] is_a: WBPhenotype:0000028 ! RNA processing variant is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0001827 name: RNA metabolism variant def: "Variations in any process that involves the maintenance, biosynthesis or accumulation of RNA in the organism compared to control." [WB:WBPaper00004325, WB:WBPerson2021] is_a: WBPhenotype:0000463 ! metabolic pathway variant is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0001828 name: RNAi persistence variant def: "Variations in the persistence of an RNAi induced phenotype compared to control." [WB:WBPaper00004325, WB:WBPerson2021] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0001829 name: premature spermatid activation def: "Any variation that results in the premature differentiation of spermatids into motile spermatozoa compared to control." [WB:WBPaper00033007, WB:WBPerson2021] is_a: WBPhenotype:0000670 ! spermatogenesis variant [Term] id: WBPhenotype:0001830 name: response to multiple stressors variant def: "Any variation in an animal's response to exposure to multiple stressors occuring simultaneously or during an overlapping temporal window compared to control." [WB:WBPaper00031874, WB:WBPerson2021] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0001831 name: intestinal microvilli variant def: "Any variation in the formation of intestinal microvilli. Microvilli are actin-based cellular structures that form plasma membrane projections into the extracellular space and whose specialized shape provides increased cellular surface area. Microvilli are a crucial component of the terminal differentiation process for many epithelial cell types, usually ones that play an absorptive or filtering role." [WB:WBPaper00025171, WB:WBPerson557] is_a: WBPhenotype:0000705 ! intestinal cell development variant [Term] id: WBPhenotype:0001832 name: nuclear pore variant def: "Any variation that disrupts the assembly, distribution, localization or organization of any of the numerous similar discrete openings in the nuclear envelope, where the inner and outer nuclear membranes are joined." [GO:0005643, WB:WBPerson557] is_a: WBPhenotype:0002037 ! nuclear envelope organization variant [Term] id: WBPhenotype:0001833 name: membrane trafficking variant def: "Any variation in the directed movement of substances in a cell, from one side of a membrane to another, compared to control." [GO:0005215, WB:WBPaper00025137, WB:WBPerson2021] synonym: "membrane transport variant" RELATED [] synonym: "transporter activity variant" RELATED [] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001834 name: mRNA splicing variant def: "Variations in the processes regulating the excision of intervening introns from the primary mRNA transcript, compared to control." [GO:0008380, WB:WBPaper00032287, WB:WBPerson2021] is_a: WBPhenotype:0000028 ! RNA processing variant is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0001835 name: energy expenditure variant def: "Variations in the amount of energy consumed by an organism compared to control. Energy expenditure is often determined by assaying oxygen consumption." [WB:WBPaper00032936, WB:WBPerson2021] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001836 name: eggshell morphology variant def: "Any variation in the overall structure or appearance of the protective barrier which isolates the embryo from the external environment, compared to control ." [WB:WBPaper00033072, WB:WBPerson2021] is_a: WBPhenotype:0000037 ! egg morphology variant [Term] id: WBPhenotype:0001837 name: diet induced life span variant def: "Life span of the animal is not influenced by changes in diet in the same manner as control animals." [WB:WBPaper00032936, WB:WBPerson2021] is_a: WBPhenotype:0000039 ! life span variant [Term] id: WBPhenotype:0001838 name: drug induced gene expression variant def: "Gene expression of an animal is not influenced by drug treatment in the same manner as control animals." [WB:WBPaper00033094, WB:WBPerson2021] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0001839 name: phorbol ester resistant def: "Animals fail to respond to the concentration of phorbol esters that elicit a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. Phorbol esters such as PMA act as DAG mimetics." [WB:WBPaper00033094, WB:WBPerson2021] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0001840 name: response to injury variant def: "Variations in the processes that restore integrity to a damaged tissue following an injury, compared to control." [GO:0042060, WB:WBPaper00033094, WB:WBPerson2021] synonym: "wound healing variant" RELATED [] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0001841 name: second messenger mediated signaling variant def: "Any variation in a series of molecular signals that help relay a receptor mediated signal within the cell, compared to control. Second messengers often comprise of ions (eg: Ca2+) or small molecules (cGMP, cAMP etc) that are formed or released into the cytosol." [GO:0019932, WB:WBPaper00033456, WB:WBPerson2021] is_a: WBPhenotype:0000463 ! metabolic pathway variant [Term] id: WBPhenotype:0001842 name: drug withdrawal response variant def: "Any variation in the state or activity of an organism as a result of abrupt discontinuation or decreased dosage of a drug, compared to control." [WB:WBPaper00033168, WB:WBPerson2021] synonym: "rebound response defective" RELATED [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001843 name: hormone metabolism variant def: "Animals exhibit variations in any process that involves the degradation, biosynthesis or accumulation of hormones within the organism compared to control. Hormones are naturally occurring substances secreted by specialized cells that affect the metabolism or behavior of other cells possessing functional receptors for the hormone." [GO:0042445, WB:WBPaper00034639, WB:WBPerson2021] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001844 name: lipid hydrolysis regulation variant def: "Variations in the process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of lipids, compared to control." [GO:0050994, WB:WBPaper00033126, WB:WBPerson2021] synonym: "fat granule regulated breakdown variant" RELATED [] synonym: "fat granule regulated hydrolysis variant" RELATED [] synonym: "lipid lysis regulation variant" RELATED [] synonym: "regulation of lipid catabolic process variant" RELATED [] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0001845 name: lipid modification variant def: "Variations in the covalent alteration of one or more components (eg: fatty acids, sterols etc.) in a lipid, resulting in a change in the properties of the lipid, compared to control." [GO:0030258, WB:WBPaper00034639, WB:WBPerson2021] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0001846 name: phagosome maturation defective def: "Early phagosomes fail to undergo the maturation process following the ingestion of particulate material by phagocytosis; During maturation, phagosomes acquire markers of late endosomes and lysosomes." [GO:0001845, WB:WBPaper00031805, WB:WBPerson2021] is_a: WBPhenotype:0000885 ! engulfment variant [Term] id: WBPhenotype:0001847 name: sterol induced dauer formation variant def: "Variations in the processes that facilitate/permit dauer entry when exposed to specific sterol molecules, compared to control." [WB:WBPaper00034639, WB:WBPerson2021] is_a: WBPhenotype:0001539 ! dauer induction variant [Term] id: WBPhenotype:0001848 name: tube morphogenesis variant def: "Variations in the process by which the anatomical structures of a tube are generated and organized, compared to control. Morphogenesis pertains to the creation of form or shape." [GO:0035239, WB:WBPaper00033081, WB:WBPerson2021] synonym: "tubulogenesis variant" RELATED [] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0001849 name: zinc homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of zinc ions within an organism compared to control." [GO:0006882, WB:WBPaper00033166, WB:WBPerson2021] is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0001850 name: radiation induced germ cell apoptosis resistant def: "Programmed cell death of germ cells caused by exposure to ionizing energy does not occur to the same extent as it does in control animals." [WB:WBPaper00032006, WB:WBPaper00032243, WB:WBPaper00032356, WB:WBPerson712] is_a: WBPhenotype:0000737 ! germ cell resistant ionizing radiation is_a: WBPhenotype:0002152 ! mutagen induced apoptosis variant [Term] id: WBPhenotype:0001851 name: radiation induced reproductive cell death variant def: "Animals exhibit variations in radiation induced non-apoptotic death of multipotential precursor cells or tissues (clonogens) compared to control. Elimination of clonogens results in normal tissue damage as well as solid-tumor eradication." [WB:WBPaper00027700, WB:WBPerson2021] is_a: WBPhenotype:0001173 ! non apoptotic cell death variant is_a: WBPhenotype:0001268 ! induced cell death variant [Term] id: WBPhenotype:0001852 name: antihelmintic response variant def: "Animals exhibit variations in their response to an agent that destroys or causes the expulsion of parasitic intestinal worms compared to that observed in control animals." [WB:WBPaper00035074, WB:WBPerson2021] is_a: WBPhenotype:0000459 ! pesticide response variant [Term] id: WBPhenotype:0001853 name: AAD response variant def: "Animals exhibit variations in their response to the amino-acetonitrile derivatives (AADs) class of synthetic anthelmintics, compared to that observed in control animals." [WB:WBPaper00035150, WB:WBPerson2021] is_a: WBPhenotype:0001852 ! antihelmintic response variant [Term] id: WBPhenotype:0001854 name: benomyl response variant def: "Animals exhibit variations in their response to the microtubule-depolymerizing drug benomyl, compared to that observed in control animals." [WB:WBPaper00035150, WB:WBPerson2021] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001855 name: fluoride resistant def: "Animals fail to respond to the concentration of fluoride ions that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to fluoride ions to elicit the response compared to control animals." [WB:WBPaper00035174, WB:WBPerson2021] is_a: WBPhenotype:0001502 ! chemical resistant [Term] id: WBPhenotype:0001856 name: ivermectin response variant def: "Animals exhibit variations in their response to ivermectin, an agonist of glutamate-gated chloride channels, compared to that observed in control animals." [WB:WBPaper00035150, WB:WBPaper00035194, WB:WBPerson2021] is_a: WBPhenotype:0000631 ! drug response variant is_a: WBPhenotype:0001852 ! antihelmintic response variant [Term] id: WBPhenotype:0001857 name: pathogen induced gene expression variant def: "Gene expression of an animal is not influenced by the exposure to disease causing agents in the same manner as control animals." [WB:WBPaper00035315, WB:WBPerson2021] is_a: WBPhenotype:0000717 ! gene expression variant is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0001858 name: suppression of head oscillations defective def: "Animals fail to suppress head oscillations in response to anterior touch. In C. elegans, this behavior is a result of tyraminergic signaling." [WB:WBPaper00031692, WB:WBPaper00034683, WB:WBPerson2021] synonym: "Sho" RELATED [WB:WBPaper00025096] is_a: WBPhenotype:0000595 ! head behavior variant [Term] id: WBPhenotype:0001859 name: Dosage compensation complex assembly variant def: "Any variation in the aggregation, arrangement and bonding together of proteins on DNA or RNA to form the complex that mediates dosage compensation on one or more X chromosomes, compared to control." [GO:0042714, WB:WBPaper00035328, WB:WBPerson2021] comment: Possible xp. synonym: "DCC localization variant" RELATED [] is_a: WBPhenotype:0000718 ! dosage compensation variant [Term] id: WBPhenotype:0001860 name: endocytic recycling defective def: "Variations in the directed movement of membrane-bounded vesicles from recycling endosomes back to the plasma membrane where they are recycled for further rounds of transport, compared to control." [GO:0032456, WB:WBPaper00035466, WB:WBPerson2021] is_a: WBPhenotype:0001422 ! endocytic transport defect [Term] id: WBPhenotype:0001861 name: environmental stimuli induced gene expression variant def: "Gene expression of an animal is not influenced by environmental changes in the same manner as control animals." [WB:WBPaper00035435, WB:WBPerson2021] is_a: WBPhenotype:0000717 ! gene expression variant [Term] id: WBPhenotype:0001862 name: manganese homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of manganese ions within an organism compared to control." [GO:0030026, WB:WBPaper00035485, WB:WBPerson2021] comment: Possible XP. is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0001863 name: manganese response variant def: "Animals exhibit variations in their response to manganese compared to that observed in control animals." [GO:0010042, WB:WBPaper00035485, WB:WBPerson2021] comment: Possible XP. is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0001864 name: protein transport variant def: "Any variation in the processes that modulate the frequency, rate or extent of the directed movement of a protein into, out of, within or between cells by means of some external agent such as a transporter or pore compared to control." [GO:0051223, WB:WBPaper00035491, WB:WBPerson2021] comment: Possible XP. is_a: WBPhenotype:0001644 ! protein metabolism variant is_a: WBPhenotype:0001833 ! membrane trafficking variant [Term] id: WBPhenotype:0001865 name: protein ubiquitination variant def: "Variations in the process by which one or more ubiquitin moieties are added to a protein, compared to control." [GO:0016567, WB:WBPaper00035602, WB:WBPerson2021] comment: Possible XP. synonym: "protein ubiquitylation variant" RELATED [] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0001866 name: reduced pathogen accumulation def: "Animals exhibit a reduction in pathogen accumulation, persistent colonization, and luminal distension of the intestine." [GO:0009617, GO:0045087, WB:WBPaper00035215, WB:WBPerson2987] synonym: "Rpa" RELATED [] is_a: WBPhenotype:0001819 ! pathogen load variant [Term] id: WBPhenotype:0001867 name: mitotic spindle asters defective early emb def: "Early embryos exhibit defects in the assembly, disassembly, arrangement, elongation or stabilization of the microtubule spindle asters during a mitotic cell cycle." [WB:WBPaper00032910, WB:WBPerson2987] is_a: WBPhenotype:0001102 ! mitotic spindle defective early emb is_a: WBPhenotype:0001110 ! aster defective early emb [Term] id: WBPhenotype:0001868 name: meiotic spindle defective def: "Cells undergoing meiosis exhibit defects in the overall function or activity of the meiotic spindle." [WB:WBPaper00032910, WB:WBPerson2987] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0001869 name: meiotic spindle positioning defective def: "Cells undergoing meiosis exhibit defects in the positioning of the meiotic spindle." [WB:WBPaper00032910, WB:WBPerson2987] is_a: WBPhenotype:0001868 ! meiotic spindle defective [Term] id: WBPhenotype:0001870 name: meiotic spindle rotation defective def: "Cells undergoing meiosis exhibit defects in the rotation of the meiotic spindle." [WB:WBPaper00032910, WB:WBPerson2987] is_a: WBPhenotype:0001868 ! meiotic spindle defective [Term] id: WBPhenotype:0001871 name: drug induced life span variant def: "Life span of the animal is not influenced by drug exposure in the same manner as control animals." [WB:WBPaper00035656, WB:WBPerson2021] is_a: WBPhenotype:0000039 ! life span variant is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001872 name: drug induced locomotion variant def: "Locomotion of the animal is not influenced by drug exposure in the same manner as control animals." [WB:WBPaper00035656, WB:WBPerson2021] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001873 name: meiotic spindle assembly defective def: "Early embryos exhibit defects in the aggregation, arrangement and bonding together of a set of components to form the meiotic spindle, the array of microtubules and associated molecules that serves to move duplicated and/or homologous chromosomes apart." [WB:WBPaper00032910, WB:WBPerson2987] is_a: WBPhenotype:0001868 ! meiotic spindle defective [Term] id: WBPhenotype:0001874 name: protein neddylation variant def: "Any variation in the conjugation of the ubiquitin-like protein Nedd8 to another protein compared to control." [GO:0045116, WB:WBPerson2021, WB:WBPerson557] comment: Possible XP. is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0001875 name: anaphase bridging def: "Chromosomal masses fail to fully separate and remained linked during anaphase." [WB:WBPerson2021, WB:WBPerson557] synonym: "chromosome bridging" RELATED [] synonym: "lagging chromatin" RELATED [] is_a: WBPhenotype:0001378 ! mitotic chromosome segregation variant [Term] id: WBPhenotype:0001876 name: centriole biogenesis variant def: "Any variation in the formation or disassembly of the cylindrical structures that are composed of groupings of microtubules found close to the nucleus (centrioles) compared to control. Centrioles are arranged perpendicularly and are surrounded by an amorphous mass of dense material (the pericentriolar material). The centrioles and the pericentriolar material constitute the compound structure known as the centrosome." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0001903 ! centrosome biogenesis variant [Term] id: WBPhenotype:0001877 name: nuclear membrane morphology variant def: "Any variation in the structure, form or composition of the membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated, compared to control." [GO:0005634, WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0002037 ! nuclear envelope organization variant [Term] id: WBPhenotype:0001878 name: hydroxyurea response variant def: "Animals exhibit variations in the response to the addition of hydroxyurea compared to that observed in control animals. Hydroxyurea stops DNA from being replicated." [WB:WBPerson2021, WB:WBPerson557] synonym: "HU response variant" RELATED [] synonym: "hydroxycarbamide response variant" RELATED [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0001879 name: hydroxyurea hypersensitive def: "Animals respond to hydroxyurea at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson2021, WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0001878 ! hydroxyurea response variant [Term] id: WBPhenotype:0001880 name: endoplasmic reticulum morphology variant def: "Any variation in the form, structure or composition of the endoplasmic reticulum compared to control. The endoplasmic reticulum (ER) is an irregular network of membranes, that occurs in the cytoplasm, and forms a complex meshwork of tubular channels. The ER has two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [GO:0005783, WB:WBPaper00025163, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0001881 name: endoplasmic reticulum symmetry variant early emb def: "Any variation in the normally asymmetric distribution of the endoplasmic reticulum during cell divisions of the early embryo. The endoplasmic reticulum (ER) is an irregular network of membranes, that occurs in the cytoplasm, and forms a complex meshwork of tubular channels. The ER has two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [WB:WBPaper00025163, WB:WBPerson2987] is_a: WBPhenotype:0001880 ! endoplasmic reticulum morphology variant [Term] id: WBPhenotype:0001882 name: aneuploidy def: "Any variation in the number of chromosomes in a cell compared to control." [WB:WBPaper00032450, WB:WBPerson2987] is_a: WBPhenotype:0000773 ! chromosome segregation variant [Term] id: WBPhenotype:0001885 name: cleavage furrow initiation defective early emb def: "Embryos exhibit defects in the formation of the groove in the cell surface near the old metaphase plate at the onset of cytokinesis." [WB:WBPaper00024200, WB:WBPerson2987] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0001886 name: cleavage furrow termination defective early emb def: "Embryos exhibit defects in the maintenance or termination of the groove in the cell surface near the old metaphase plate during cytokinesis." [WB:WBPaper00024200, WB:WBPerson2987] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0001887 name: excess seam cells def: "Animals execute supernumerary cell divisions during the development of the lateral, alae-producing epithelial cells, resulting in a larger number of these cells than control animals." [WB:WBPaper00032974, WB:WBPerson2987] is_a: WBPhenotype:0000701 ! epithelial development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001888 name: fat associated bodies increased def: "Animals exhibit an increase in the number of fat containing organelles compared to control. In C. elegans this number can be assayed by increases in the number of BODIPY 493/503 staining." [WB:WBPaper00035972, WB:WBPerson2021] synonym: "lipid body number increased" RELATED [] synonym: "lipid droplet expansion" RELATED [] is_a: WBPhenotype:0001901 ! fat associated bodies variant [Term] id: WBPhenotype:0001889 name: body wall muscle sarcomere morphology variant def: "Any variation in the form, structure or composition of the repeating units of a myofibrils in a muscle cell that are composed of an array of overlapping thick and thin filaments, compared to control." [GO:0030017, WB:WBPerson557] is_a: WBPhenotype:0000926 ! body wall muscle morphology variant [Term] id: WBPhenotype:0001890 name: body wall muscle dense body variant def: "Any variation in the attachment plaque for thin filaments onto the cell membrane. The dense body in body wall muscles is especially large, indenting far into the cytoplasm to border each sarcomere, thus providing a long row of coherent attachment sites at regular intervals (WormAtlas)." [WB:WBPerson557] is_a: WBPhenotype:0001889 ! body wall muscle sarcomere morphology variant [Term] id: WBPhenotype:0001891 name: M line variant def: "Animals exhibit variations in the form, structure or composition of a planar structure within the muscle sarcomere which lies midway within the thick filament (A) band, attaching to the plasma membrane at its base and running up towards the inward surface of the myofilament lattice, compared to control animals (Wormatlas)." [WB:WBPerson557] is_a: WBPhenotype:0001889 ! body wall muscle sarcomere morphology variant [Term] id: WBPhenotype:0001892 name: glycogen levels variant def: "Any variation in the levels of the polymerized form of glucose throughout the body of the animal as compared to controls." [WB:WBPaper00033086, WB:WBPerson2987] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001893 name: mitochondrial membrane potential reduced def: "Any reduction in the membrane potential (voltage gradient) across the inner mitochondrial membrane compared to control." [WB:WBPaper00033162, WB:WBPerson2987] is_a: WBPhenotype:0001282 ! mitochondrial metabolism variant [Term] id: WBPhenotype:0001894 name: nuclear number variant def: "Animals exhibit variations in the number of nuclei contained in a particular cell type compared to control." [WB:WBPaper00033438, WB:WBPerson2987] is_a: WBPhenotype:0000504 ! nuclear division variant [Term] id: WBPhenotype:0001895 name: parental chromosome mixing defective def: "Parental chromosomes fail to undergo appropriate mixing upon pronuclear fusion resulting in a zygotic nucleus in which parental genomes remain segregated." [GO:0007344, WB:WBPerson2987] synonym: "pronuclear fusion defective" RELATED [] is_a: WBPhenotype:0001026 ! nuclear morphology variation early emb is_a: WBPhenotype:0001034 ! pronuclear nuclear appearance defective early emb is_a: WBPhenotype:0001035 ! nuclear appearance number defective early emb is_a: WBPhenotype:0001138 ! nucleus defective early emb is_a: WBPhenotype:0001151 ! pronucleus centrosomes defective early emb is_a: WBPhenotype:0001159 ! pronuclear morphology defective early emb [Term] id: WBPhenotype:0001896 name: gamma ray induced apoptosis decreased def: "Animals exhibit a decrease in the extent of activation of programmed cell death by exposure to the nucleic acid damaging agent, gamma irradiation, compared to control." [WB:WBPaper00036343, WB:WBPerson2021] is_a: WBPhenotype:0000182 ! apoptosis reduced is_a: WBPhenotype:0001326 ! cell gamma ray response variant [Term] id: WBPhenotype:0001897 name: light response variant def: "Variations in the state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus (electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light) compared to control." [GO:0009416, WB:WBPaper00032087, WB:WBPerson2021] synonym: "Lite" RELATED [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0001898 name: meiotic sister chromatid segregation variant def: "Variations in the process by which sister chromatids, identical chromosomes resulting from DNA replication, are physically separated during the meiotic cell cycle, compared to control." [WB:WBPaper00034684, WB:WBPerson2987] is_a: WBPhenotype:0001499 ! meiotic chromosome segregation variant [Term] id: WBPhenotype:0001899 name: glutathione levels variant def: "Animals exhibit variations in the amount of glutathione compared to control animals at a defined stage. Glutathione, the tripeptide glutamylcysteinylglycine, acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins." [GO:0006749, WB:WBPerson557] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0001900 name: reduced levels of reduced glutathione def: "Animals exhibit a decrease in the cellular levels of reduced glutathione (GSH), compared to control. Reduced levels of GSH may be an indication of susceptibility to oxidative stress." [WB:WBPaper00034717, WB:WBPerson2987] synonym: "reduced levels of GSH" RELATED [] is_a: WBPhenotype:0001899 ! glutathione levels variant [Term] id: WBPhenotype:0001901 name: fat associated bodies variant def: "Animals exhibit variations in the formation or disassembly of fat containing organelles compared to control." [WB:WBPerson557] synonym: "lipid body variant" RELATED [] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001902 name: fat associated body size increased def: "Animals exhibit an increase in the size of fat containing organelles compared to control. In C. elegans this can be assayed by BODIPY 493/503 staining." [WB:WBPaper00034742, WB:WBPerson2987] synonym: "lipid body size increased" RELATED [] is_a: WBPhenotype:0001901 ! fat associated bodies variant [Term] id: WBPhenotype:0001903 name: centrosome biogenesis variant def: "Animals exhibit variations in the formation, maturation or disassembly of the centrosome (a subcellular body consisting of two centrioles embedded in a protein matrix). The centrosome serves as a microtubule organizing center as well as a regulator of cell-cycle progression." [WB:WBPerson557] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0001904 name: manganese toxicity resistant def: "Animals fail to exhibit toxicity to the concentration of manganese that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans toxic responses to manganese include dopamine (DA) neuron neurodegeneration." [WB:WBPaper00035259, WB:WBPerson557] is_a: WBPhenotype:0001863 ! manganese response variant [Term] id: WBPhenotype:0001905 name: fewer eggs laid def: "Animals lay fewer total number of eggs over the lifetime of the animal." [WB:WBPaper00035252, WB:WBPerson2987] is_a: WBPhenotype:0000640 ! egg laying variant [Term] id: WBPhenotype:0001906 name: hypodermal cell elongation defective def: "During epidermal morphogenesis, hypodermal cells do not properly undergo the characteristic cell shape changes necessary for the embryo to elongate." [WB:WBPaper00003991, WB:WBPerson712] is_a: WBPhenotype:0000701 ! epithelial development variant [Term] id: WBPhenotype:0001907 name: dorsal intercalation defective def: "Animals exhibit defects in the generation of the dorsal epithelial sheet, which entails distinct cell shape changes and movements to affect the interdigitation of two rows of dorsal cells resulting in a single row of cells across the dorsal midline." [WB:WBPaper00003991, WB:WBPerson712] is_a: WBPhenotype:0000701 ! epithelial development variant [Term] id: WBPhenotype:0001908 name: ventral closure defective def: "The animal displays defects in any step of the ventral enclosure process resulting an embryo that is not enclosed and or with interior cells protruding out of the embryo." [WB:WBPaper00003991, WB:WBPerson712] is_a: WBPhenotype:0001566 ! ventral enclosure variant [Term] id: WBPhenotype:0001909 name: obsolete translational repression variant def: "OBSOLETE. Any variation in the prevention of mRNA translation that normally occurs in certain cells, compared to control." [WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0002157 [Term] id: WBPhenotype:0001910 name: kinetochore organization variant def: "Animals exhibit variations in the assembly, arrangement, orientation, or disassembly of the kinetochore, a multisubunit protein complex on chromosomes where the spindle fibers attach during cell division to pull the chromosomes apart." [GO:0051383, WB:WBPaper00035270, WB:WBPerson557] comment: Possible XP. is_a: WBPhenotype:0001348 ! chromosome morphology variant [Term] id: WBPhenotype:0001911 name: axon regeneration defective def: "Animals do not regrow axons following axon loss or damage, to the same extent, or in the same manner as observed in control animals." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000880 ! axon development variant [Term] id: WBPhenotype:0001912 name: fewer coelomocytes def: "The number of coelomocytes are reduced compared to control animals. Coelomocytes are free-floating spherical cells lying in the pseudocoelomic cavity of animals that can endocytose many compounds." [WB:WBPaper00035290, WB:WBPerson2987] is_a: WBPhenotype:0000618 ! coelomic system development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001913 name: excess coelomocytes def: "The number of coelomocytes are increased compared to control animals. Coelomocytes are free-floating spherical cells lying in the pseudocoelomic cavity of animals that can endocytose many compounds." [WB:WBPaper00035290, WB:WBPerson2987] is_a: WBPhenotype:0000618 ! coelomic system development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001914 name: fewer pharyngeal cells def: "Animals contain fewer pharyngeal cells compared to control animals. In C. elegans, pharyngeal cells are derived from MS-blastomere." [WB:WBPaper00035290, WB:WBPerson2987] is_a: WBPhenotype:0000707 ! pharyngeal development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001915 name: mRNA expression ectopic def: "Any variation that results in the cellular expression of an mRNA in cells/tissues, that is otherwise not observed in control animals." [WB:WBPaper00035290, WB:WBPerson2987] is_a: WBPhenotype:0000114 ! mRNA expression variant [Term] id: WBPhenotype:0001916 name: increased pathogen survival def: "Pathogens internally associated with the animal exhibit an increase in survival compared to control animals." [WB:WBPaper00035289, WB:WBPerson2987] is_a: WBPhenotype:0001819 ! pathogen load variant [Term] id: WBPhenotype:0001917 name: protein acetylation variant def: "Variations in the processes that incorporate acetyl groups to one or more amino acids within a protein, compared to control. An acetyl group is CH3CO-." [GO:0006473, WB:WBPaper00025192, WB:WBPerson557] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0001918 name: chemical hypersensitive def: "Animals respond to a specific chemical at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0001919 name: gut granules enlarged def: "Animals exhibit larger inclusions within the intestinal cytoplasm, including birefringent crystalline objects and other dark-staining endosomes. In C. elegans these contents typically include glycogen granules (polysaccharide storage), rhabditin (carbohydrate storage), yolk granules (lipid and protein), and concentrated waste products (Wormatlas)." [WB:WBPaper00035924, WB:WBPerson2987] is_a: WBPhenotype:0002240 ! gut granule morphology variant [Term] id: WBPhenotype:0001920 name: twisted pharynx def: "The growth of pharyngeal components occurs in a radial fashion around the longitudinal axis of the worm as demonstrated by bent radial contractile arrays within the pharyngeal muscle cells. The defect is more pronounced as development progresses resulting in a more obvious twisting phenotype. Depending on the allele, the twist can be right-handed or left-handed" [WB:WBPaper00030736, WB:WBPerson712] synonym: "pharynx twisted" RELATED [] synonym: "Twp" RELATED [] is_a: WBPhenotype:0000707 ! pharyngeal development variant [Term] id: WBPhenotype:0001921 name: meiotic DNA double strand break formation variant def: "Any variation in the creation of double-strand breaks that occur during meiosis that may result in the initiation of meiotic recombination." [GO:0042138, WB:WBPerson557] comment: Possible XP. is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0001922 name: axonal transport variant def: "Any variation in the directed movement of organelles or molecules along microtubules in nerve cell axons." [GO:0008088, WB:WBPerson557] comment: Possible XP. synonym: "axon cargo transport variant" RELATED [] synonym: "axon transport variant" EXACT [] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0001923 name: fewer seam cells def: "The population of the lateral, alae-producing epithelial cells (seam cells) is reduced compared to control animals." [WB:WBPaper00034768] is_a: WBPhenotype:0000701 ! epithelial development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001924 name: oocytes stacked def: "Oocytes are found one on top of the other in the dorsal to ventral orientation in the gonad." [WB:WBPerson557] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001925 name: oocytes disorganized def: "Oocytes are no longer arranged in the gonad in the same manner as control animals." [WB:WBPerson557] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001926 name: gonad sheath contraction rate increased def: "Basal contraction rate and or peak contraction rate of the gonadal sheath is increased relative to control animals." [WB:WBPaper00027739, WB:WBPerson2987] is_a: WBPhenotype:0001199 ! gonad sheath contractions variant [Term] id: WBPhenotype:0001927 name: extra distal tip cells def: "Animals produce an excess number of distal tip cells compared to controls." [WB:WBPaper00033102, WB:WBPerson2987] is_a: WBPhenotype:0001656 ! distal tip cell development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001928 name: extra gonad arms def: "Animals produce an excess number of gonad arms compared to controls." [WB:WBPaper00033102, WB:WBPerson2987] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0001929 name: linker cell absent def: "The gonads of male animals do not produce the linker cell involved in guiding the developing male gonad to the sex organs in the male tail." [WB:WBPaper00033102, WB:WBPerson2987] is_a: WBPhenotype:0001675 ! male gonad development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001930 name: muscle arm development defective def: "Animals extend altered or fewer numbers of dorsal and or ventral muscle arms compared to control animals." [WB:WBPaper00032907, WB:WBPerson712] synonym: "Madd" RELATED [] synonym: "muscle arm extension defective" RELATED [] is_a: WBPhenotype:0000540 ! muscle arm development variant [Term] id: WBPhenotype:0001931 name: muscle arm axon connection variant def: "The morphology or number of connections between muscle arms and commissural motor axons varies from control animals." [WB:WBPaper00032907, WB:WBPerson712] is_a: WBPhenotype:0000540 ! muscle arm development variant [Term] id: WBPhenotype:0001932 name: myopodia present def: "Animals exhibit ectopic plasma membrane extensions from muscle, these extensions are random projections that are thinner than the typical muscle arm." [WB:WBPaper00032907, WB:WBPerson712] is_a: WBPhenotype:0000904 ! muscle cell morphology variant [Term] id: WBPhenotype:0001933 name: synaptic vesicle tag abnormal in mechanosensory neurons def: "The pattern of localization of presynaptic markers is disrupted compared to control animals." [WB:WBPaper00035070, WB:WBPerson712] synonym: "Sam" RELATED [] is_a: WBPhenotype:0000847 ! presynaptic component localization variant [Term] id: WBPhenotype:0001934 name: vulval muscle extension variant def: "Any variation in the extension of vulval muscles compared to control. In C. elegans contralateral vulval muscles fail to meet at the midline." [WB:WBPaper00036485, WB:WBPerson712] synonym: "Vme" RELATED [] is_a: WBPhenotype:0001314 ! vulval muscle variant [Term] id: WBPhenotype:0001935 name: protein aggregation induced paralysis def: "Animals become paralyzed in response to aggregation of proteins like poly-glutamine or beta-amyloid." [WB:WBPaper00033115, WB:WBPerson2987] is_a: WBPhenotype:0002425 ! protein aggregation induced behavior variant [Term] id: WBPhenotype:0001936 name: resistant to protein aggregation induced paralysis def: "Animals fail to respond to the aggregation of proteins that elicits a paralysis response in control animals." [WB:WBPaper00033115, WB:WBPerson2987] is_a: WBPhenotype:0001935 ! protein aggregation induced paralysis [Term] id: WBPhenotype:0001937 name: hypersensitive to protein aggregation induced paralysis def: "Animals respond to protein aggregation at a lower concentration of aggregates or in less time compared to control animals." [WB:WBPaper00033115, WB:WBPerson2987] is_a: WBPhenotype:0001935 ! protein aggregation induced paralysis [Term] id: WBPhenotype:0001938 name: DNA repair variant def: "Any variation in the process of restoring DNA after damage. DNA damage can be caused by a many chemical or physical agents, and this damage is repaired by a variety of different DNA repair pathways." [GO:0006281, WB:WBPerson557] is_a: WBPhenotype:0000732 ! DNA metabolism variant [Term] id: WBPhenotype:0001939 name: bitter tastant response variant def: "Animals are not repelled by bitter tastants such as quinine, primaquine quinacrine etc., to the same extent as control animals." [WB:WBPaper00035961, WB:WBPerson712] is_a: WBPhenotype:0001450 ! aqueous negative chemotaxis variant [Term] id: WBPhenotype:0001940 name: rachis morphology variant def: "Any variation in the form, structure or composition of the nucleus-free core of germ line cytoplasm in the gonad compared to control animals. In the C. elegans germline, nuclei exiting mitosis and entering meiosis are arranged along the cortex of the germline, partially enclosed by cellular membrane, forming a nucleus-free core of germline cytoplasm, called the rachis." [WB:WBPaper00031889, WB:WBPerson557] synonym: "rachis morphology abnormal" RELATED [] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001941 name: rachis narrow def: "The nucleus-free core of germline cytoplasm in the gonad is not as wide as control animals." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001940 ! rachis morphology variant [Term] id: WBPhenotype:0001942 name: rachis absent def: "The nucleus-free core of germline cytoplasm in the gonad is missing." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001940 ! rachis morphology variant [Term] id: WBPhenotype:0001943 name: rachis wide def: "The width of the nucleus-free core of germline cytoplasm in the gonad is larger compared to control animals." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001940 ! rachis morphology variant [Term] id: WBPhenotype:0001944 name: oocyte number decreased def: "A decreased number of celullarized haploid female germ cells (oocytes) are present in the gonad compared to control." [WB:WBPaper00038381, WB:WBPerson557] synonym: "fewer oocytes" RELATED [] is_a: WBPhenotype:0000186 ! oogenesis variant is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001945 name: oocytes small def: "The size of haploid female germ cells (oocytes) are significantly smaller compared to control." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001946 name: pachytene progression during oogenesis variant def: "Developing oocytes show defects in their entry, progression through or exit from the pachytene stage compared to control animals. Pachytene is a cell cycle process comprising the steps by which a cell progresses through the third stage of prophase I in meiosis, in which crossing over occurs between a chromatid in one partner and another chromatid in the homologous chromosome." [GO:0000239, WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001824 ! meiotic progression prophase variant [Term] id: WBPhenotype:0001947 name: diplotene progression during oogenesis variant def: "Developing oocytes show defects in their entry, progression through or exit from the diplotene stage compared to control animals. Diplotene is a cell cycle process comprising the steps by which a cell progresses through the fourth stage of prophase I in meiosis, in which the homologous chromosomes begin to separate and the synaptonemal complex dissolves." [GO:0000240, WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001824 ! meiotic progression prophase variant [Term] id: WBPhenotype:0001948 name: diakinesis progression during oogenesis variant def: "Developing oocytes show defects in their entry, progression through or exit from the diakinesis stage compared to control animals. Diakinesis is a cell cycle process comprising the steps by which a cell progresses through the final stage of prophase I in meiosis; the transition to meiotic metaphase I." [GO:0000241, WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001824 ! meiotic progression prophase variant [Term] id: WBPhenotype:0001949 name: diakinesis region organization variant def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the gonad that are in the diakinesis stage. In C. elegans the diakinesis region occurs in the proximal gonad arm and is preceded by the diplotene region. In the diakinesis region oocytes arrest until oocyte maturation occurs." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant is_a: WBPhenotype:0001948 ! diakinesis progression during oogenesis variant [Term] id: WBPhenotype:0001950 name: diplotene region organization variant def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the gonad that are in the diplotene stage. In C. elegans the diplotene region follows the pachytene region and occurs just distal to, and coincident with, the loop in the gonad arm. In the diplotene region germ cell compartments become organized into a single file." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant is_a: WBPhenotype:0001947 ! diplotene progression during oogenesis variant [Term] id: WBPhenotype:0001951 name: pachytene region organization variant def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the pachytene stage region of the gonad. In C. elegans the pachytene region begins just proximal to the germline's transition zone, where germ cells coordinately switch into the leptotene/zygotene stage from the premeiosis stage (WormAtlas)." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant is_a: WBPhenotype:0001946 ! pachytene progression during oogenesis variant [Term] id: WBPhenotype:0001952 name: germline nuclear positioning variant def: "Variations in the directed movement/or positioning of a nucleus to a specific location within the germline compartment compared to control." [WB:WBPaper00038381, WB:WBPerson557] synonym: "germline nuclear migration variant" RELATED [] is_a: WBPhenotype:0000511 ! nuclear positioning variant [Term] id: WBPhenotype:0001953 name: nuclear fallout def: "Nuclei have fallen out of developing germ cell compartments into the rachis." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001952 ! germline nuclear positioning variant [Term] id: WBPhenotype:0001954 name: diplotene absent during oogenesis def: "The diplotene stage is not observed in developing oocytes. Diplotene is a cell cycle process comprising the steps by which a cell progresses through the fourth stage of prophase I in meiosis, in which the homologous chromosomes begin to separate and the synaptonemal complex dissolves." [GO:0000240, WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001947 ! diplotene progression during oogenesis variant [Term] id: WBPhenotype:0001955 name: multiple nuclei oocyte def: "Haploid female germ cells (oocytes) contain more than one nucleus." [WB:WBPaper00038381, WB:WBPerson557] synonym: "multinucleate oocyte" RELATED [] is_a: WBPhenotype:0000186 ! oogenesis variant is_a: WBPhenotype:0001260 ! oocyte morphology variant is_a: WBPhenotype:0002413 ! multiple nuclei [Term] id: WBPhenotype:0001956 name: oocytes lack nucleus def: "Haploid female germ cells (oocytes) lack a nucleus." [WB:WBPaper00038381, WB:WBPerson557] synonym: "anucleate oocytes" RELATED [] is_a: WBPhenotype:0000186 ! oogenesis variant is_a: WBPhenotype:0001260 ! oocyte morphology variant [Term] id: WBPhenotype:0001957 name: gonad small def: "A decrease in size of the specialized tissue of the reproductive tract that produces the male or female gametes compared to control (Wormatlas)." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001958 name: gonad degenerate def: "Animals contain a gonad that initially functioned, but subsequently stopped. In hermaphrodites or females there is often the presence old embryos and/or hatched larva, but no young embryos, in the uterus." [WB:WBPaper00038381, WB:WBPerson557] synonym: "degenerate gonad" RELATED [] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001959 name: spindle pole pulling force variant def: "Pulling forces on the astral microtubules at the spindle poles vary from that observed for control spindles." [WB:WBPaper00031928, WB:WBPerson712] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0001960 name: spindle oscillation variant def: "The spindle in the early embryo is aberrant in the characteristic posterior aster oscillations that occur along the transverse longitudinal axis of the spindle." [WB:WBPaper00031928, WB:WBPerson712] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0001961 name: reproductive longevity extended def: "Animals continue to produce progeny significantly past the time reproduction stops in control animals." [WB:WBPaper00031688, WB:WBPerson712] is_a: WBPhenotype:0001739 ! aging variant [Term] id: WBPhenotype:0001962 name: missing distal tip cells def: "Animals produce less distal tip cells compared to controls." [WB:WBPaper00026603, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001656 ! distal tip cell development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001963 name: homolog association variant def: "The association of homologs during diakinesis and the maintenance of their association through meiosis I as well as the preservation of centromeric cohesin between sister chromatids does not proceed as it does in control animals." [WB:WBPaper00032269, WB:WBPerson712] is_a: WBPhenotype:0001824 ! meiotic progression prophase variant [Term] id: WBPhenotype:0001964 name: dopaminergic fate atypical def: "Animals exhibit differential regulation of the dopaminergic fate among the various classes of dopaminergic neurons." [WB:WBPaper00032147, WB:WBPaper00036201, WB:WBPerson712] synonym: "Dopy" RELATED [] is_a: WBPhenotype:0001510 ! neuronal cell fate specification variant [Term] id: WBPhenotype:0001965 name: cell membrane physiology variant def: "Animals exhibit variations in any physical or chemical process required for the composition, component distribution, or other aspect of membranes of the cell, compared to control animals." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0001966 name: cell endomembrane physiology variant def: "Animals exhibit variations in any physical or chemical process required for the composition, component distribution, or other aspect of membranes of within the cell, compared to control animals." [WB:WBPaper00037899, WB:WBPerson712] is_a: WBPhenotype:0001965 ! cell membrane physiology variant [Term] id: WBPhenotype:0001967 name: meiotic chromatin reorganization variant def: "Animals differ from control animals in the length of or mechanics of the steps that culminate in the preservation and subsequent disassembly of the synaptonemal complex, the specification of bivalent arms, and proper cohesion of sister chromatids." [WB:WBPaper00032269, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0001968 name: somatic gonad precursor symmetrical sisters def: "All somatic gonad precursor (SGP) daughters adopt a proximal fate resulting in an increase in the number of AC precursor cells at the expense of distal tip cells (DTC), which are thereby absent." [WB:WBPaper00026603, WB:WBPerson712] synonym: "symmetrical sisters" RELATED [] synonym: "Sys" BROAD [] is_a: WBPhenotype:0000399 ! somatic gonad development variant is_a: WBPhenotype:0001235 ! cell division polarity variant [Term] id: WBPhenotype:0001969 name: germ cell compartment morphology variant def: "Any variation in the form or composition of the compartments in the germline of females/hermaphrodites compared to control animals. In C. elegans these compartments contain a nucleus and are connected to a common cytoplasm (rachis). These compartments eventually undergo cellularization and become oocytes." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0000900 ! germ cell morphology variant [Term] id: WBPhenotype:0001970 name: germ cell compartment nuclei number variant def: "Germ cell compartments contain an an atypical number on nuclei compared to control." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001969 ! germ cell compartment morphology variant [Term] id: WBPhenotype:0001971 name: germ cell compartment anucleate def: "Germ cell compartments do not contain a nucleus." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001970 ! germ cell compartment nuclei number variant [Term] id: WBPhenotype:0001972 name: germ cell compartment multinucleate def: "Germ cell compartments contain multiple nuclei." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001970 ! germ cell compartment nuclei number variant [Term] id: WBPhenotype:0001973 name: germ cell compartment size variant def: "Any variation in germ cell compartment size compared to control." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001969 ! germ cell compartment morphology variant [Term] id: WBPhenotype:0001974 name: germ cell compartment small def: "Germ cell compartments are smaller than that of control animals." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001973 ! germ cell compartment size variant [Term] id: WBPhenotype:0001975 name: germ cell compartment large def: "Germ cell compartments are larger than that of control animals." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001973 ! germ cell compartment size variant [Term] id: WBPhenotype:0001976 def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0001978 [Term] id: WBPhenotype:0001977 name: germ cell partition morphology variant def: "Any variation in the form or composition of the compartment partitions in the germline of females/hermaphrodites that exist when nuclei are still connected to a common cytoplasm (rachis), compared to control animals." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001969 ! germ cell compartment morphology variant [Term] id: WBPhenotype:0001978 name: germ cell partition absent alt_id: WBPhenotype:0001976 def: "Animals lack germ cell partitions (germ cell compartments)." [WB:WBPaper00038381, WB:WBPerson557] synonym: "germ cell compartment absent" EXACT [] is_a: WBPhenotype:0001977 ! germ cell partition morphology variant [Term] id: WBPhenotype:0001979 name: gonad vesiculated def: "Animals contain small, fluid-filled, anucleate, spherical membrane-bound structures within the gonad." [GO:0031982, WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001355 ! gonad morphology variant [Term] id: WBPhenotype:0001980 name: germ cell compartment expansion variant def: "Animals exhibit variations in the increase in size of compartments of the germline. In the C. elegans germline, syncytial compartments enlarge just prior to and coincident with the loop region, eventually abscising, to become fully enclosed germ cells (oocytes)." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001969 ! germ cell compartment morphology variant [Term] id: WBPhenotype:0001981 name: germ cell compartment expansion absent def: "The compartments of the germline do not increase in size." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0001980 ! germ cell compartment expansion variant [Term] id: WBPhenotype:0001982 name: cell membrane organization biogenesis variant def: "Variations in the process(es) involved in the assembly, transport, arrangement or disassembly of cell membrane structures or components compared to control." [WB:WBPaper00038381, WB:WBPerson557] is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0001983 name: lawn leaving behavior variant def: "Variation of the time an individual spent on a patch of food (bacterial lawn) before leaving, compared to control animals." [WB:WBPaper00038234, WB:WBPerson363] synonym: "exploration behavior variant" RELATED [] synonym: "exploratory behavior variant" NARROW [] synonym: "patch leaving behavior variant" EXACT [] is_a: WBPhenotype:0000662 ! foraging behavior variant [Term] id: WBPhenotype:0001984 name: long range axon migration variant def: "Animals exhibit axons with migration behaviors that differ from those observed in control animals after the axons cross a half-way point between opposing neural cords. In C. elegans this point is marked by the lateral seam cells between the ventral and dorsal cords." [WB:WBPaper00038105, WB:WBPerson712] is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0001985 name: short range axon migration variant def: "Animals exhibit axons with migration behaviors that differ from those observed in control animals before the axons reach a half-way point between opposing neural cords. In C. elegans this point is marked by the lateral seam cells between the ventral and dorsal cords." [WB:WBPaper00038105, WB:WBPerson712] is_a: WBPhenotype:0001224 ! axon outgrowth variant [Term] id: WBPhenotype:0001986 name: high temperature induced L1 arrest def: "Animals undergo an irreversible high temperature-induced developmental arrest during the first larval stage." [WB:WBPaper00038168, WB:WBPerson2987] is_a: WBPhenotype:0000081 ! L1 arrest is_a: WBPhenotype:0001273 ! organism heat response variant [Term] id: WBPhenotype:0001987 name: acetylcholinesterase activity variant def: "Any variation in the measured levels of acetylcholinesterase (AChE) activity compared to control animals." [WB:WBPaper00001039, WB:WBPerson712] synonym: "acetylcholinesterase class activity variant" EXACT [] is_a: WBPhenotype:0000124 ! enzyme activity reduced [Term] id: WBPhenotype:0001988 name: detergent hypersensitive def: "Animals respond to a detergent at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00000514, WB:WBPerson712] is_a: WBPhenotype:0001918 ! chemical hypersensitive [Term] id: WBPhenotype:0001989 name: hypoxia hypersensitive def: "Animals respond to hypoxic (low oxygen levels) stress after a shorter exposure time compared to control." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002423 ! hypoxia response variant [Term] id: WBPhenotype:0001990 name: hypoxia resistant def: "Animals fail to respond to low amounts of oxygen that elicit a response in control animals." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002423 ! hypoxia response variant [Term] id: WBPhenotype:0001991 name: hypoxia response attenuated def: "Response to low levels of oxygen is reduced or weakened compared to the response of control animals." [WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002423 ! hypoxia response variant [Term] id: WBPhenotype:0001992 name: extra gonadal sheath cells def: "Animals exhibit an increase in the number of somatic sheath cells surrounding each gonad arm compared to controls." [WB:WBPaper00006209, WB:WBPerson2987] is_a: WBPhenotype:0000399 ! somatic gonad development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0001993 name: fewer gonadal sheath cells def: "Animals exhibit fewer somatic sheath cells surrounding each gonad arm, compared to controls." [WB:WBPaper00006209, WB:WBPerson2987] is_a: WBPhenotype:0000399 ! somatic gonad development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0001994 name: left right handedness variant def: "Any variation in the establishment of left-right asymmetry of the body axis compared to controls." [WB:WBPerson2987, WB:WBPerson557] synonym: "left right asymmetry variant" RELATED [] is_a: WBPhenotype:0000578 ! body axis development variant [Term] id: WBPhenotype:0001995 name: cell cycle progression variant def: "Cells of the animals exhibit variations in the progression or exit from the biochemical and morphological processes that occur during successive replication or nuclear replication events from that observed for control animals." [GO:0007049, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000740 ! cell cycle variant [Term] id: WBPhenotype:0001996 name: cell cycle quiescence variant def: "Any variation in the cell cycle arrest process that results in arrest during G1 phase, whereupon the cell enters a specialized resting state known as G0 or quiescence before entering the S phase, compared to control." [GO:0070314, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0001995 ! cell cycle progression variant [Term] id: WBPhenotype:0001997 name: nuclear anchoring variant def: "The nucleus or nuclei are not positioned in a similar manner or pattern in the cell or syncytium to that observed in controls." [WB:WBPaper00003628, WB:WBPerson712] is_a: WBPhenotype:0000511 ! nuclear positioning variant [Term] id: WBPhenotype:0001998 name: hypersensitive to laser ablation def: "Animals respond more severely to laser ablation than control animals subjected to the same laser ablation conditions." [WB:WBPaper00038282, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0001999 name: conflicting sensory integration variant def: "Animals behave differently from control animals in assays testing for the ability to resolve or respond to conflicting sensory inputs." [WB:WBPaper00038243, WB:WBPerson712] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0002000 name: recovery from enhanced locomotion variant def: "Animals that exhibit an increase in locomotion activity do not return to basal level locomotion activity at the same rate as that of control animals." [WB:WBPaper00038487, WB:WBPerson712] is_a: WBPhenotype:0000641 ! activity level variant [Term] id: WBPhenotype:0002001 name: synapse density variant def: "The number of synapses per unit area of a neuron differs in the animal compared to that observed for control animals." [WB:WBPaper00039786, WB:WBPerson712] is_a: WBPhenotype:0000604 ! nervous system morphology variant [Term] id: WBPhenotype:0002002 name: supernumerary centrosomes def: "A cell or cell of the animal exhibits extra centrosomes (a subcellular body consisting of two centrioles embedded in a protein matrix) compared to control." [WB:WBPaper00028464, WB:WBPerson2987] is_a: WBPhenotype:0001903 ! centrosome biogenesis variant [Term] id: WBPhenotype:0002003 name: hydrogen peroxide homeostasis variant def: "Animals exhibit variations in steady-state levels of hydrogen peroxide (H2O2) compared to control." [WB:WBPaper00040082, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002004 name: actomyosin contractility defective def: "Animals exhibit defects in the flow rate or targeting of the cortical actomyosin network, which occurs during polarization as well as contraction of the contractile ring, compared to control animals." [WB:WBPaper00038098, WB:WBPerson712] is_a: WBPhenotype:0000034 ! embryonic polarity variant is_a: WBPhenotype:0001587 ! actin organization biogenesis variant is_a: WBPhenotype:0002408 ! cytokinesis variant [Term] id: WBPhenotype:0002005 name: actomyosin cytoskeletal tension variant def: "The tension of the cytoskeleton comprised of the actomyosin network differs from controls. This tension can be measured by laser-cutting of the actomyosin cytoskeleton and observing any differences the recoil velocity of cortex adjacent to the cut site." [WB:WBPaper00038098, WB:WBPerson712] is_a: WBPhenotype:0001346 ! actin cytoskeleton dynamics variant [Term] id: WBPhenotype:0002006 name: anaphase I progression variant early embryo def: "Compared to controls, embryos exhibit variations in the part meiosis I in which homologous chromosomes separate and migrate away from each other." [WB:WBPaper00031064, WB:WBPerson712] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb is_a: WBPhenotype:0002389 ! anaphase variant [Term] id: WBPhenotype:0002007 name: cortical blebs present def: "Embryos display cortical protusions during cytokinesis." [WB:WBPaper00038098, WB:WBPerson712] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant is_a: WBPhenotype:0002408 ! cytokinesis variant [Term] id: WBPhenotype:0002008 name: glycation variant def: "Animals exhibit variations in the non-enzymatic glycosylation process of attaching a protein or lipid to a sugar molecule, compared to control animals." [WB:WBPaper00040082, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002009 name: proteasome core activity variant def: "Animals exhibit variations from controls in their protein degradation machinery, which functions through the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain." [GO:0004175, WB:WBPaper00040082, WB:WBPerson712] is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0002010 name: protein turnover variant def: "The dynamics of the replacement of old proteins by newly synthesized or modified proteins varies from that of control animals. This phenotype is often measured by fluorescence recovery after photobleaching (FRAP)." [WB:WBPaper00038098, WB:WBPerson712] is_a: WBPhenotype:0001644 ! protein metabolism variant [Term] id: WBPhenotype:0002011 name: bivulva def: "Animals exhibit a secondary vulval invagination that is anterior or posterior to the primary opening depending on the the inappropriate placement of daughter cells along the anterior/posterior axis during vulval development." [WB:WBPaper00040151, WB:WBPerson712] is_a: WBPhenotype:0000695 ! vulva morphology variant [Term] id: WBPhenotype:0002012 name: meiotic chromosome organization variant def: "Any variation in the process of chromosome organization that is involved in meiosis, compared to control." [GO:0070192, WB:WBPerson557] is_a: WBPhenotype:0000775 ! meiosis variant is_a: WBPhenotype:0001041 ! meiosis defective early emb [Term] id: WBPhenotype:0002013 name: univalent meiotic chromosomes def: "Chromosomes fails to pair with homologous chromosomes during the prophase stage of meiosis." [WB:WBPerson101, WB:WBPerson557] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0002014 name: current measurement variant def: "Any observed variation in the measurement of current across the cell membrane compared to measurements in control animals. Current is a flow of electric charge through a medium." [WB:WBPerson557] is_a: WBPhenotype:0001315 ! electrophysiology variant [Term] id: WBPhenotype:0002015 name: voltage measurement variant def: "Any observed variation in the measurement of voltage across the cell membrane compared to measurements in control animals. Voltage is the difference in electric potential energy per unit charge between two points." [WB:WBPerson557] is_a: WBPhenotype:0001315 ! electrophysiology variant [Term] id: WBPhenotype:0002016 name: biotin chemotaxis defective def: "Failure to execute the characteristic response to biotin as defined by control animals. In C. elegans, biotin is typically an attractant." [WB:WBPaper00001481, WB:WBPaper00005801, WB:WBPerson101, WB:WBPerson557] is_a: WBPhenotype:0001441 ! aqueous positive chemotaxis defective [Term] id: WBPhenotype:0002017 name: VPC competence variant def: "Any variation in the ability of multipotent vulval precursor cells to respond to signals compared to control animals." [WB:WBPerson557] synonym: "vulval precursor cell competence abnormal" RELATED [] synonym: "vulval precursor cell competence variant" RELATED [] is_a: WBPhenotype:0000216 ! cell fate specification variant [Term] id: WBPhenotype:0002018 name: retarded seam cell fusion def: "Seam cells fuse to form a continuous syncytium along the body wall at a later stage of development compared to control." [WB:WBPaper00031488, WB:WBPerson2987] is_a: WBPhenotype:0000166 ! seam cell fusion variant [Term] id: WBPhenotype:0002019 name: fewer eggs in utero def: "Adult animals display a smaller number of eggs inside the uterus compared to controls" [WB:WBPaper00031804, WB:WBPerson2987] is_a: WBPhenotype:0000624 ! reproductive system development variant [Term] id: WBPhenotype:0002020 name: transmission of nerve impulse variant def: "Transmission of the signal along the neuron varies from control. This process includes the flow of information from the neuron cell body to the synapse and across to the postsynaptic cell." [GO:0019226, WB:WBPaper00031592, WB:WBPerson712] is_a: WBPhenotype:0000612 ! nervous system physiology variant [Term] id: WBPhenotype:0002021 name: synaptic spike frequency variant def: "Animals exhibit variations in the autonomously initiated periodic trains of calcium transients observed at the synapse, which are independent of presynaptic inputs." [WB:WBPaper00031592, WB:WBPerson712] is_a: WBPhenotype:0000584 ! synaptic transmission variant is_a: WBPhenotype:0002023 ! spike frequency variant [Term] id: WBPhenotype:0002022 name: no synaptic spike frequency def: "Calcium transients at presynaptic regions do not occur." [WB:WBPaper00031592, WB:WBPerson712] is_a: WBPhenotype:0002021 ! synaptic spike frequency variant [Term] id: WBPhenotype:0002023 name: spike frequency variant def: "Animals exhibit variations in the autonomously initiated periodic trains of calcium transients observed either at the cell body or the synaptic region, which are independent of presynaptic inputs." [WB:WBPaper00031592, WB:WBPerson712] is_a: WBPhenotype:0002020 ! transmission of nerve impulse variant [Term] id: WBPhenotype:0002024 name: cell body spike frequency variant def: "Animals exhibit variations in the autonomously initiated periodic trains of calcium transients observed in cell bodies, which are independent of presynaptic inputs." [WB:WBPaper00031592, WB:WBPerson712] is_a: WBPhenotype:0002023 ! spike frequency variant [Term] id: WBPhenotype:0002025 name: cell size decreased def: "The diameter, volume, or area taken up by a cell differs from that measured in control animals." [WB:WBPaper00038069, WB:WBPerson712] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002026 name: differential touch sensitivity variant def: "Animals differ from control animals in response to mechanical stimulation targeting different parts of the same cell. In N2 wild-type animals, response to touch near the ALM cell body is reduced compared with touch of the cell area near the second pharyngeal bulb." [WB:WBPaper00040149, WB:WBPerson712] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0002027 name: gonad independent vulva differentiation def: "VPCs differentiate in the absence of inductive signals coming from the gonad." [WB:WBPaper00025001, WB:WBPaper00027764, WB:WBPerson712] synonym: "Gid" EXACT [] is_a: WBPhenotype:0000354 ! cell differentiation variant is_a: WBPhenotype:0001272 ! vulval cell induction variant [Term] id: WBPhenotype:0002028 name: mechanoreceptor current variant def: "Animals differ from controls in their electrical response to mechanical stimulus." [WB:WBPaper00040149, WB:WBPerson712] synonym: "MRC variant" RELATED [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0002029 name: metal homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of metal ions within an organism compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002030 name: magnesium homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of magnesium ions within an organism compared to control." [GO:0010960, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0002031 name: lectin response variant def: "Exposure to carbohydrate binding gene products result in an altered action in comparison to controls." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0000459 ! pesticide response variant is_a: WBPhenotype:0001210 ! pericellular component physiology variant [Term] id: WBPhenotype:0002032 name: lectin binding variant def: "Animals differ from controls in the range, specificity, or presence of targets for exogenously applied lectins." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0002031 ! lectin response variant [Term] id: WBPhenotype:0002033 name: lectin binding occurs def: "Animals contain targets for exogenously applied lectins." [WB:WBPaper00038311, WB:WBPerson712] synonym: "ectopic lectin binding" RELATED [] is_a: WBPhenotype:0002031 ! lectin response variant [Term] id: WBPhenotype:0002034 name: lectin binding does not occur def: "Animals are not observed to contain targets for exogenously applied lectins." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0002031 ! lectin response variant [Term] id: WBPhenotype:0002035 name: resistant to lectin def: "Exposure to lectin has no affect on the behavior, growth, or development of the animal compared to controls." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0002031 ! lectin response variant [Term] id: WBPhenotype:0002036 name: susceptible to lectin def: "Exposure to lectin results in altered behavior, growth, or development of the animal compared to controls." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0002031 ! lectin response variant [Term] id: WBPhenotype:0002037 name: nuclear envelope organization variant def: "The appearance and association of components along the double lipid bilayer enclosing the nucleus differs from controls. The NE separates nuclear contents from the rest of the cytoplasm and includes the intermembrane space, perinuclear space." [WB:WBPaper00040620, WB:WBPerson712] is_a: WBPhenotype:0001028 ! nuclear appearance variant [Term] id: WBPhenotype:0002038 name: ciliary localization defective def: "Proteins show defects in their localization in the cilia compared to control animals." [WB:WBPaper00031689] synonym: "cil" BROAD [] is_a: WBPhenotype:0000851 ! ciliated neuron physiology variant [Term] id: WBPhenotype:0002039 name: retrograde transport variant def: "Animals exhibit variation in the directed movement of organelles or molecules along microtubules from the cell periphery in nerve cell axons to the cell body, compared to control." [WB:WBPaper00038442, WB:WBPerson712] is_a: WBPhenotype:0000853 ! intraflagellar transport variant [Term] id: WBPhenotype:0002040 name: asymmetric chromosome segregation def: "Chromosomes are not segregated symmetrically during mitosis." [WB:WBPaper00038412, WB:WBPerson712] synonym: "chaotic mitosis" RELATED [] is_a: WBPhenotype:0001378 ! mitotic chromosome segregation variant [Term] id: WBPhenotype:0002041 name: molt variant def: "Animals exhibit variation in timing or ability to molt." [WB:WBPaper00040467, WB:WBPerson712] is_a: WBPhenotype:0000750 ! larval development variant [Term] id: WBPhenotype:0002042 name: molting arrhythmic def: "Molting cycles do not occur in a temporally controlled manner and cannot be synchronized across a population." [WB:WBPaper00040467, WB:WBPerson712] is_a: WBPhenotype:0002041 ! molt variant [Term] id: WBPhenotype:0002043 name: hermaphrodite mating efficiency reduced def: "The number of cross progeny produced by hermaphrodites is reduced compared to control hermaphrodites." [WB:WBPerson557] is_a: WBPhenotype:0004001 ! hermaphrodite mating variant [Term] id: WBPhenotype:0002044 name: hermaphrodite mating efficiency eliminated def: "Hermaphrodites do not produce cross progeny." [WB:WBPerson557] is_a: WBPhenotype:0002043 ! hermaphrodite mating efficiency reduced [Term] id: WBPhenotype:0002045 name: cell corpse number decreased def: "Animals exhibit fewer cell corpses compared to controls at the same developmental life stage." [WB:WBPerson712] is_a: WBPhenotype:0000590 ! cell corpse number variant [Term] id: WBPhenotype:0002046 name: iron homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of iron within an organism compared to control." [GO:0055072, WB:WBPerson557] is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0002047 name: muscimol response variant def: "Animals exhibit variations in their response to muscimol compared to that observed in control animals. Muscimol is a GABA-A receptor agonist." [WB:WBPaper00038249, WB:WBPerson712] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0002048 name: abamectin resistant def: "Animals survive longer, or do not respond to the same degree as control animals under similar conditions of abamectin exposure." [WB:WBPaper00040740, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002049 ! abamectin repsonse variant [Term] id: WBPhenotype:0002049 name: abamectin repsonse variant def: "Animals are not affected to the same degree as control animals under similar conditions of abamectin exposure." [WB:WBPaper00040740, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000631 ! drug response variant is_a: WBPhenotype:0001852 ! antihelmintic response variant [Term] id: WBPhenotype:0002050 name: abamectin sensitive def: "Animals are do not survive, or become paralyzed in the presence of abamectin." [WB:WBPaper00040740, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002049 ! abamectin repsonse variant [Term] id: WBPhenotype:0002051 name: ascaroside biosynthesis variant def: "The production or regulation of ascaroside molecule populations differs from that of control animals." [WB:WBPaper00040624, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002052 name: ascaroside biosynthesis defective def: "Animals lack the ability to produce ascarosides that are capable of being produced in control animals." [WB:WBPaper00040624, WB:WBPerson712] is_a: WBPhenotype:0002051 ! ascaroside biosynthesis variant [Term] id: WBPhenotype:0002053 name: ivermectin resistant def: "Animals fail to respond to or exhibit an attenuated response to ivermectin under conditions that elicits a response in control animals." [WB:WBPaper00003945, WB:WBPaper00040740, WB:WBPerson712] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0001856 ! ivermectin response variant [Term] id: WBPhenotype:0002054 name: magnesium hypersensitivity def: "Animals exhibit an exaggerated response to magnesium compared to control animals exposed to similar concentrations." [WB:WBPaper00036046, WB:WBPerson712] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002055 name: photocurrent defective def: "Animals do not exhibit light-induced currrents to the same extent or with the same quality as control animals." [WB:WBPaper00036207, WB:WBPerson712] is_a: WBPhenotype:0002014 ! current measurement variant [Term] id: WBPhenotype:0002056 name: eating variant def: "Any variation in the specific actions or reactions of an organism causing an alteration in the ingestion of food compared to control animals. In C. elegans the main food source is bacteria and alterations in eating behavior usually lead to malnutrition." [WB:WBPerson557, WB:WBPerson712] synonym: "Eat" EXACT [] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0002057 name: Bacillus thuringiensis toxin hypersensitive def: "Animals respond to Bacillus thuringiensis toxins (Bt toxins) at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0002058 name: pore forming toxin response variant def: "Animals are not affected to the same degree as control animals under similar conditions of pore forming toxin exposure." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0002059 name: pore forming toxin hypersensitive def: "Animals respond to pore forming toxins at a lower concentration or a shorter exposure compared to control animals. Increased susceptibility to pore forming toxins (e.g. Cry5B from Bacillus thuringiensis) is often measured by a decrease in the rate of survival in the presence of pore forming toxins compared to controls." [WB:WBPerson2987, WB:WBPerson557] synonym: "Hpo" BROAD [] synonym: "hypersensitive to pore forming toxin" EXACT [] is_a: WBPhenotype:0000010 ! drug hypersensitive is_a: WBPhenotype:0002058 ! pore forming toxin response variant [Term] id: WBPhenotype:0002060 name: pore forming toxin resistant def: "Animals fail to respond to the concentration of pore forming toxins that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000011 ! drug resistant is_a: WBPhenotype:0002058 ! pore forming toxin response variant [Term] id: WBPhenotype:0002061 name: chromosome decondensation variant def: "Any variation in the progressive decompaction of chromatin that changes chromosome structure from the condensed form to a relaxed disperse form." [GO:0051312, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001743 ! mitosis variant is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0002062 name: chromosome decondensation failure def: "The process of decompaction of chromatin that changes chromosome structure from the condensed form to a relaxed disperse form is abolished." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002061 ! chromosome decondensation variant [Term] id: WBPhenotype:0002063 name: maintenance of gene silencing variant def: "Animals differ from controls in the expression of genes targeted for silencing (gene inactivation) in subsequent generations via transcriptional or post-transcriptional processes." [GO:0016458, WB:WBPaper00041239, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002064 name: maintenance of gene silencing defective def: "Animals express genes that had been targeted for heritable silencing in previous generations." [WB:WBPaper00041239, WB:WBPerson712] is_a: WBPhenotype:0002063 ! maintenance of gene silencing variant [Term] id: WBPhenotype:0002065 name: basement membrane remodeling variant def: "Animals display variations in the manner in which the basement membrane (a thin, dense, sheet-like structure built on a network of polymeric laminin and type IV collagen) is remodeled, compared to control animals." [WB:WBPaper00038447, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000200 ! pericellular component development variant [Term] id: WBPhenotype:0002066 name: basement membrane gap expansion variant def: "Animals display variations in the manner in which an opening in the basement membrane (a thin, dense, sheet-like structure built on a network of polymeric laminin and type IV collagen) expands to make way for intertissue connections, compared to control animals." [WB:WBPaper00038447, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002065 ! basement membrane remodeling variant [Term] id: WBPhenotype:0002067 name: apical constriction variant def: "Animals differ from control animals in cortical actomyocin dynamics leading to internalization of endodermal precursor cells during gastrulation." [WB:WBPaper00040757, WB:WBPerson712] is_a: WBPhenotype:0000047 ! gastrulation variant [Term] id: WBPhenotype:0002068 name: astral microtubule asymmetry defective def: "There is significantly less difference between the number of astral microtubles or other component(s) of the spindle microtuble organizing center at the anterior versus posterior poles of the spindle, than observed in control animals." [WB:WBPaper00040200, WB:WBPerson712] is_a: WBPhenotype:0002419 ! spindle aster variant [Term] id: WBPhenotype:0002069 name: axon termination defective def: "Axons in animals do not end in the same manner as they do in control animals. Some defects described include an overextension of the axon or termination of the axon in the shape of a hook, either large or small." [WB:WBPaper00040220, WB:WBPerson712] is_a: WBPhenotype:0000180 ! axon morphology variant [Term] id: WBPhenotype:0002070 name: egg laying response to muscimol variant def: "Animals do not mimic control animals in their egg-laying response to muscimol exposure. In C. elegans, muscimol inhibits egg-laying." [WB:WBPaper00038249, WB:WBPerson712] is_a: WBPhenotype:0001101 ! egg laying response to drug variant is_a: WBPhenotype:0002047 ! muscimol response variant [Term] id: WBPhenotype:0002071 name: body lengthening response to muscimol variant def: "The length of the animal does not increase to the same extent as observed for control animals, in response to exposure to muscimol." [WB:WBPaper00038249, WB:WBPerson712] is_a: WBPhenotype:0002047 ! muscimol response variant [Term] id: WBPhenotype:0002072 name: carbohydrate metabolism variant def: "Animals exhibit variations in any process that involves the maintenance, biosynthesis or accumulation of an internal store of carbohydrates within the organism or cell compared to control." [WB:WBPaper00038233, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002073 name: cation homeostasis variant def: "Animals exhibit variations in the regulation of levels, transport, and metabolism of cations within a cell or between a cell and its external environment, compared to control." [WB:WBPaper00036046, WB:WBPerson712] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002074 name: centrosome dynamics variant def: "Animals vary in the directed or coordinated movement of their centrosomes during cell division, compared to the pattern of movement observed in control animals." [WB:WBPaper00040172, WB:WBPerson712] is_a: WBPhenotype:0000764 ! embryonic cell organization biogenesis variant [Term] id: WBPhenotype:0002075 name: eggshell formation variant def: "Embryos exhibit variations in the processes that lead to the construction of the eggshell, a protective structure that minimizes water loss whilst allowing gas exchanges essential for embryonic respiration, compared to controls" [GO:0030703, WB:WBPaper00031064, WB:WBPaper00040142, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000041 ! osmotic integrity variant is_a: WBPhenotype:0000258 ! cell secretion variant [Term] id: WBPhenotype:0002076 name: cortical granule exocytosis variant def: "The process of secretion by a cell that results in the release of intracellular molecules contained within a specialized secretory vesicle that fuses with the plasma membrane during egg activation." [GO:0060471, WB:WBPaper00031064, WB:WBPaper00040142, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0002075 ! eggshell formation variant [Term] id: WBPhenotype:0002077 name: dopamine resistant def: "Animals fail to respond to the concentration of a dopamine that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals." [WB:WBPaper00038270, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000011 ! drug resistant [Term] id: WBPhenotype:0002078 name: histone methylation variant def: "The pattern or state of methyl modifications of histone varies from that of controls." [WB:WBPaper00038409, WB:WBPerson712] synonym: "methylation mark variant" RELATED [] is_a: WBPhenotype:0001383 ! protein methylation variant [Term] id: WBPhenotype:0002079 name: delayed reproductive maturity def: "The animal's ability to reproduce, or start of reproduction occurs later than that observed for control animals." [WB:WBPerson712] is_a: WBPhenotype:0000045 ! developmental delay postembryonic [Term] id: WBPhenotype:0002080 name: peptide uptake by intestinal cell variant def: "Animals exhibit variations in the degree to which or manner in which an intestinal cell is able to uptake peptides (for example, di- or tripeptides) from the intestinal lumen, compared to control animals." [WB:WBPerson2987] is_a: WBPhenotype:0001763 ! uptake by intestinal cell defective [Term] id: WBPhenotype:0002081 name: peptide uptake by intestinal cell increased def: "Animals exhibit an increase in the degree to which an intestinal cell is able to uptake peptides (for example, di- or tripeptides) from the intestinal lumen, compared to control animals." [WB:WBPerson2987] is_a: WBPhenotype:0002080 ! peptide uptake by intestinal cell variant [Term] id: WBPhenotype:0002082 name: peptide uptake by intestinal cell decreased def: "Animals exhibit a decrease in the degree to which an intestinal cell is able to uptake peptides (for example, di- or tripeptides) from the intestinal lumen, compared to control animals." [WB:WBPerson2987] is_a: WBPhenotype:0002080 ! peptide uptake by intestinal cell variant [Term] id: WBPhenotype:0002083 name: crossover variant def: "The frequency and distribution of crossover events differs from that observed for controls." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0002084 name: crossover interference variant def: "Animals differ from controls in respect to the frequency of expected double crossover events observed." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002083 ! crossover variant [Term] id: WBPhenotype:0002085 name: crossover formation variant def: "The number of crossover events differs from that of observed in control animals." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002083 ! crossover variant [Term] id: WBPhenotype:0002086 name: crossover distribution variant def: "The location-specific frequency of crossover events differs from that of observed in control animals, while the total number of crossover events does not significantly differ." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002083 ! crossover variant [Term] id: WBPhenotype:0002087 name: hydrogen sulfide hypersensitive def: "Animals respond to hydrogen sulfide at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00039977, WB:WBPerson712] is_a: WBPhenotype:0000010 ! drug hypersensitive [Term] id: WBPhenotype:0002088 name: hypersensitive to dauer pheromone def: "Animals respond to dauer pheromone at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson712] is_a: WBPhenotype:0001479 ! dauer pheromone sensation variant [Term] id: WBPhenotype:0002089 name: cell component morphology variant def: "Any variation in the form or composition of the basic structural and functional components of cells compared to control. Includes the nucleus, endoplasmic reticulum, Golgi apparatus, mitochondria, endosomes, lysosomes, and peroxisomes as well as other vesicles and organelles." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002090 name: endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as endosomes, that traffic material between the plasma membrane and internal compartments of the cell, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0001323 ! vesicle morphology variant [Term] id: WBPhenotype:0002091 name: late endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as late endosomes, that traffic material from early endosomes to internal compartments of the cell, such as lysosomes or the Golgi apparatus, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002090 ! endosome morphology variant [Term] id: WBPhenotype:0002092 name: early endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as early endosomes, that traffic material from endocytic vesicles (having recently internalized portions of the cell's plasma membrane) to internal compartments of the cell, such as recycling endosomes, late endosomes, or the Golgi apparatus, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002090 ! endosome morphology variant [Term] id: WBPhenotype:0002093 name: recycling endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as recycling endosomes, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002090 ! endosome morphology variant [Term] id: WBPhenotype:0002094 name: RAB-11 recycling endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as recycling endosomes, positive for the RAB protein RAB-11, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002093 ! recycling endosome morphology variant [Term] id: WBPhenotype:0002095 name: lysosome-related organelle morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as lysosome-related organelles (LROs) that, like lysosomes, have an acidic interior and generally act to digest components of the cell but are distinct in function, composition, and morphology, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0002096 name: golgi apparatus morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as the Golgi apparatus, that traffic material from the endoplasmic reticulum or various endosomes, and process proteins for secretion, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0002097 name: lysosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as lysosomes, that have an acidic interior and generally act to digest components of the cell, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0002098 name: cell component localization variant def: "Any variation in the subcellular localization of the basic structural and functional components of cells compared to control. Includes the nucleus, endoplasmic reticulum, Golgi apparatus, mitochondria, endosomes, lysosomes, and peroxisomes as well as other vesicles and organelles." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002099 name: lysosome-related organelle localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as lysosome-related organelles (LROs) that, like lysosomes, have an acidic interior and generally act to digest components of the cell but are distinct in function, composition, and morphology, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002100 name: endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as endosomes, that traffic material between the plasma membrane and internal compartments of the cell, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002101 name: endoplasmic reticulum localization variant def: "Any variation in the subcellular localization of the endoplasmic reticulum compared to control. The endoplasmic reticulum (ER) is an irregular network of membranes, that exists in the cytoplasm, and forms a complex meshwork of tubular channels. The ER has two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002102 name: golgi apparatus localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as the Golgi apparatus, that traffic material from the endoplasmic reticulum or various endosomes, and process proteins for secretion, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002103 name: lysosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as lysosomes, that have an acidic interior and generally act to digest components of the cell, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002104 name: recycling endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as recycling endosomes, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002100 ! endosome localization variant [Term] id: WBPhenotype:0002105 name: late endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as late endosomes, that traffic material from early endosomes to internal compartments of the cell, such as lysosomes or the Golgi apparatus, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002100 ! endosome localization variant [Term] id: WBPhenotype:0002106 name: early endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as early endosomes, that traffic material from endocytic vesicles (having recently internalized portions of the cell's plasma membrane) to internal compartments of the cell, such as recycling endosomes, late endosomes, or the Golgi apparatus, compared to control." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002100 ! endosome localization variant [Term] id: WBPhenotype:0002107 name: RAB-11 recycling endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as recycling endosomes, positive for the RAB protein RAB-11, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002104 ! recycling endosome localization variant [Term] id: WBPhenotype:0002108 name: cell type morphology variant def: "Any variation in the form or composition of specialized cell types, compared to control. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002109 name: drug susceptible def: "Animals are affected by exposure to the drug." [WB:WBPerson712] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0002110 name: RME-1 recycling endosome morphology variant def: "Any variation in the form or composition of membrane bound organelles, known as recycling endosomes, positive for the endocytosis protein RME-1, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002093 ! recycling endosome morphology variant [Term] id: WBPhenotype:0002111 name: RME-1 recycling endosome localization variant def: "Any variation in the subcellular localization of membrane bound organelles, known as recycling endosomes, positive for the endocytosis protein RME-1, that traffic material from early endosomes back to the plasma membrane of the cell, thereby recycling recently endocytosed material to be reused at the plasma membrane." [WB:WBPaper00041129, WB:WBPerson2987] is_a: WBPhenotype:0002104 ! recycling endosome localization variant [Term] id: WBPhenotype:0002112 name: synapsis maintenance defective def: "Animals are unable to maintain paired chromosome throughout pachytene." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0002113 name: synapsis formation variant def: "Animals differ from controls in respect to the formation of paired chromosome loci." [WB:WBPaper00037960, WB:WBPerson712] is_a: WBPhenotype:0002012 ! meiotic chromosome organization variant [Term] id: WBPhenotype:0002114 name: swimming induced paralysis def: "Animals become paralyzed after a measured amount of time swimming. In C. elegans, more then 80 percent of wild-type animals continue swimming vigorously in liquid even after 30 minutes." [WB:WBPaper00038270, WB:WBPerson712] synonym: "SWIP" BROAD [] is_a: WBPhenotype:0001700 ! swimming variant [Term] id: WBPhenotype:0002115 name: suicidal def: "Animals do not avoid, and perhaps seek, environments that result in their death. In the case of C. elegans, this behavior is exemplified by animals that tend to crawl off the plate." [WB:WBPerson712] is_a: WBPhenotype:0000888 ! male behavior variant [Term] id: WBPhenotype:0002116 name: subviable def: "Animals are barely alive, but not entirely dead." [WB:WBPerson712] is_a: WBPhenotype:0000531 ! organism development variant is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0002117 name: occurences of decapitation def: "Animals exhibit constrictions in the anterior portion of the head that result in decapitation." [WB:WBPerson712] is_a: WBPhenotype:0000212 ! body constriction [Term] id: WBPhenotype:0002118 name: population fitness variant def: "Populations exhibit variations in the ability to survive, grow and reproduce, thus affecting the contribution to the gene pool over generations compared to control populations. In C. elegans the fitness of a population can by assessed by measuring the rate at which E. coli is consumed." [WB:WBPaper00040316, WB:WBPaper00040815, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000519 ! physiology variant [Term] id: WBPhenotype:0002119 name: alternative splicing defective def: "The process of generating multiple mRNA molecules from differential use of exons in a primary transcript(s) does not occur or occurs with outcomes not observed in control animals." [WB:WBPerson1686, WB:WBPerson712] is_a: WBPhenotype:0001807 ! alternative splicing variant [Term] id: WBPhenotype:0002120 name: mitochondrial DNA repair variant def: "Any variation in the process of restoring mitochondrial DNA after damage." [GO:0043504, WB:WBPerson557] is_a: WBPhenotype:0001938 ! DNA repair variant [Term] id: WBPhenotype:0002121 name: heteroplasmy def: "The presence of a mixture of more than one type of an organellar genome (mitochondrial DNA (mtDNA) or plastid DNA) within a cell or individual." [WB:WBPaper00040387, WB:WBPerson2987] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0002122 name: persistence of paternal mitochondria def: "Mitochondria from spermatazoa persist in the developing embryo and animal as a result of bypassing the degradation mechanism that normally destroys paternal mitochondria immediately after fertilization. This can often lead to a form of heteroplasmy." [WB:WBPaper00040387, WB:WBPerson2987] is_a: WBPhenotype:0002121 ! heteroplasmy [Term] id: WBPhenotype:0002123 name: histone acetylation variant def: "The pattern or state of acetylation modifications of histones varies from that of controls." [WB:WBPaper00040843, WB:WBPerson2987] is_a: WBPhenotype:0001917 ! protein acetylation variant [Term] id: WBPhenotype:0002124 name: circumferential actin bundles disorganized def: "The distribution or presence of actin in circumferential actin bundles (CFB) differs from that observed in control animals. Contraction of CFBs provide the driving force for epidermal elongation." [WB:WBPaper00006290, WB:WBPerson712] is_a: WBPhenotype:0001587 ! actin organization biogenesis variant [Term] id: WBPhenotype:0002125 name: growth inhibition response to chemical def: "Animals do not grow fast or the quality of growth is decreased when exposed to a specific chemical compound when compared to control animals." [WB:WBPaper00040519, WB:WBPerson712] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0002126 name: intestinal fluorescence decreased def: "Animals exhibit a decrease in the accumulation or expression of biochromes or any other substances that fluoresce in the intestine." [WB:WBPerson712] is_a: WBPhenotype:0000293 ! alimentary system pigmentation variant [Term] id: WBPhenotype:0002127 name: intraflagellar transport velocity variant def: "Animals exhibit variation rate of directed movement of organelles or molecules along microtubules in nerve cell axons, compared to control." [WB:WBPaper00038442, WB:WBPerson712] is_a: WBPhenotype:0000853 ! intraflagellar transport variant [Term] id: WBPhenotype:0002128 name: leaving assay defective def: "Males remain on food in the absence of mates, a defect in male mate-searching behavior observed in control males." [WB:WBPaper00041718, WB:WBPerson712] synonym: "Las" BROAD [] is_a: WBPhenotype:0001983 ! lawn leaving behavior variant is_a: WBPhenotype:0004031 ! mate searching variant [Term] id: WBPhenotype:0002129 name: mitochondrial DNA copy number variant def: "Relative levels of mtDNA differ from that observed for control animals." [WB:WBPaper00032112, WB:WBPerson712] is_a: WBPhenotype:0000732 ! DNA metabolism variant is_a: WBPhenotype:0001282 ! mitochondrial metabolism variant [Term] id: WBPhenotype:0002130 name: post mating variant def: "Males exhibit variations of the behaviors observed in control animals that follow the completion of mating." [WB:WBPaper00041718, WB:WBPerson712] synonym: "mate experience variant" RELATED [] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0002131 name: muscle cell ultrastructure variant def: "Animals display variations in the structure or organization of the components of the muscle, compared to that observed in control animals." [WB:WBPerson712] is_a: WBPhenotype:0000904 ! muscle cell morphology variant [Term] id: WBPhenotype:0002132 name: protein complex organization variant def: "The formation, organization, or stability of a protein complex is altered in comparison to corresponding complexes in control animals." [WB:WBPaper00038066, WB:WBPerson712] synonym: "protein clustering variant" RELATED [] is_a: WBPhenotype:0001370 ! protein protein interaction variant [Term] id: WBPhenotype:0002133 name: ooplasmic streaming slow def: "The bulk flow of cytoplasm in the egg, that facilitates mixing of ooplasm, occurs at a reduced rate compared to that measured for controls." [WB:WBPerson712] is_a: WBPhenotype:0000360 ! cytoplasmic streaming defective [Term] id: WBPhenotype:0002134 name: predator escape defective def: "Animals are less successful than controls in evading predators during predator-prey interactions." [WB:WBPaper00039982, WB:WBPerson712] is_a: WBPhenotype:0002135 ! organism predator response variant [Term] id: WBPhenotype:0002135 name: organism predator response variant def: "Predator-prey interactions differ from that observed in control interactions." [WB:WBPaper00039982, WB:WBPerson712] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0002136 name: no anchor cell def: "Animals are missing the anchor cell. In C. elegans the anchor cell is a key organizer of vulval patterning and morphogenesis." [WB:WBPaper00003577, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000399 ! somatic gonad development variant is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0002137 name: reduced translation initiation def: "The rate of the process preceding formation of the peptide bond between the first two amino acids of a protein is reduced. This process includes the formation of a complex of the ribosome, mRNA, and an initiation complex that contains the first aminoacyl-tRNA. Increase in free ribosomes (monosomes) are indicative of reduced translation initiation." [GO:0006413, WB:WBPaper00039835, WB:WBPerson557] is_a: WBPhenotype:0000121 ! translation variant [Term] id: WBPhenotype:0002138 name: acquired thermotolerance variant def: "Animals are altered in their capacity to survive a normally lethal temperature treatment as a consequence of pretreatment at an elevated but sublethal temperature." [WB:WBPaper00040849, WB:WBPerson557] is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0002139 name: linker cell morphology variant def: "Any variation in the morphological appearance of the linker cell compared to control animals." [WB:WBPaper00035457, WB:WBPerson557] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0002140 name: male attraction response variant def: "Males do not respond to small molecules or compounds that have been shown to attract control males. This phenotype is often measured by an increase in reversal frequency or time spent in a specified scoring region" [WB:WBPaper00032050, WB:WBPerson712] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0002141 name: oxygen consumption variant def: "Variations in the process of gaseous oxygen intake between an organism and its environment compared to control animals." [WB:WBPaper00042217, WB:WBPerson557] is_a: WBPhenotype:0001835 ! energy expenditure variant [Term] id: WBPhenotype:0002142 name: mitochondrial respiratory chain variant def: "The activity, composition, or organization of the complexes of the electron transport chain, embedded in the inner mitochondrial membrane, differ from controls." [GO:0005746, WB:WBPaper00042217, WB:WBPerson712] synonym: "mitochondrial electron transport chain variant" EXACT [] synonym: "MRC variant" EXACT [] is_a: WBPhenotype:0001282 ! mitochondrial metabolism variant [Term] id: WBPhenotype:0002143 name: mitochondrial respiratory complex II variant def: "The part of the respiratory chain that catalyzes the oxidation of succinate and connects the TCA cycle with the respiratory chain, differs in activity, composition, or organization, from that of controls." [GO:0045273, WB:WBPaper00042217, WB:WBPerson712] synonym: "CO II variant" EXACT [] synonym: "Complex II variant" EXACT [] synonym: "Succinate dehydrogenase complex variant" EXACT [] is_a: WBPhenotype:0002142 ! mitochondrial respiratory chain variant [Term] id: WBPhenotype:0002144 name: mitochondrial respiratory complex I variant def: "The protein complex located in the mitochondrial inner membrane that is the first entry point for electrons into the electron transport chain and catalyzes proton translocation coupled to the oxidation of NADH by ubiquinone, differs in activity, composition, or organization from that of controls." [GO:0005747, WB:WBPaper00042217, WB:WBPerson712] synonym: "CO I variant" EXACT [] synonym: "Complex I variant" EXACT [] synonym: "NADH dehydrogenase complex variant" EXACT [] synonym: "Ubiquinone complex variant" EXACT [] is_a: WBPhenotype:0002142 ! mitochondrial respiratory chain variant [Term] id: WBPhenotype:0002145 name: siRNA processing defective def: "Animals are unable to produce or maintain short interfering RNA (siRNA) from double stranded RNA (dsRNA). siRNAs are required to initiate interference of gene expression." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0000743 ! RNAi response variant is_a: WBPhenotype:0001776 ! siRNA expression variant [Term] id: WBPhenotype:0002146 name: small RNA germline expression variant def: "Animals exhibit variations from controls in the expression, biogenesis, processing, or stability of any class of small RNA species in the germline. Small RNAs include microRNAs (miRNAs), tiny noncoding RNAs (tncRNAs), cluster of small X-chromosome derived RNAs (X cluster), and endogenous short interfering RNA (endo-siRNAs)." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0002147 name: small RNA somatic expression variant def: "Animals exhibit variations from controls in the expression, biogenesis, processing, or stability of any class of small RNA species in somatic cells. Small RNAs include microRNAs (miRNAs), tiny noncoding RNAs (tncRNAs), cluster of small X-chromosome derived RNAs (X cluster), and endogenous short interfering RNA (endo-siRNAs)." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0002148 name: somatic RNAi resistant def: "Animals show reduced susceptibility to gene silencing in somatic cells triggered by double stranded RNA (dsRNA), compared to control." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0001208 ! RNAi resistant [Term] id: WBPhenotype:0002149 name: X cluster small RNA expression variant def: "Animals exhibit variations from controls in the expression, biogenesis, processing, or stability of the small X-chromosome derived RNAs (X cluster) species of small RNA." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0002150 name: exo-RNAi response variant def: "RNAi silencing mechanisms triggered by exogenously introduced (foreign) dsRNA, do not work to the same degree as in control animals." [WB:WBPaper00027057, WB:WBPerson712] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0002151 name: mRNA deadenylation variant def: "Animals exhibit variations in the extent to which polyadenylated mRNA transcripts become deadenylated" [WB:WBPaper00037823, WB:WBPerson2987] is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0002152 name: mutagen induced apoptosis variant def: "Programmed cell death of germ cells caused by exposure to physical or chemical DNA-damaging agents does not occur to the same extent as it does in control animals." [WB:WBPerson712] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0002153 name: dsRNA processing defective def: "The production of silencing RNA from dsRNA is significantly deficient compared to controls. Deficiencies in this process can result in a defective RNAi response compared to controls." [WB:WBPaper00029211, WB:WBPerson712] is_a: WBPhenotype:0000028 ! RNA processing variant [Term] id: WBPhenotype:0002154 name: polysome mRNA association variant def: "The extent of mRNA ribosome associations varies from controls." [WB:WBPaper00032489, WB:WBPerson712] is_a: WBPhenotype:0000121 ! translation variant is_a: WBPhenotype:0001371 ! protein RNA interaction variant [Term] id: WBPhenotype:0002155 name: pre miRNA processing defective def: "The production of mature miRNA from pre-miRNA is significantly deficient compared to controls. Deficiencies in this process can result in the accumulation of pre-miRNA species and or the absence or smaller amount of mature miRNA compared to controls." [WB:WBPaper00029211, WB:WBPerson712] is_a: WBPhenotype:0000028 ! RNA processing variant is_a: WBPhenotype:0001779 ! miRNA expression variant [Term] id: WBPhenotype:0002156 name: temperature learning variant def: "Wild-type animals will exhibit an altered temperature preference based on food/temperature conditioning. Temperature learning variants do not exhibit altered responses to temperature after conditioning compared to control animals." [WB:WBPaper00031647, WB:WBPerson712] is_a: WBPhenotype:0001780 ! associative learning variant [Term] id: WBPhenotype:0002157 name: translation repression variant alt_id: WBPhenotype:0001909 def: "The extent of translational repression varies from controls." [WB:WBPaper00032489, WB:WBPerson712] synonym: "translational repression variant" EXACT [] is_a: WBPhenotype:0000121 ! translation variant [Term] id: WBPhenotype:0002158 name: P granule degradation defective def: "The selective elimination of P granule components and subsequent aggregation of degraded components into PGL granules is disrupted." [WB:WBPaper00044350, WB:WBPerson712] is_a: WBPhenotype:0001301 ! P granule defective [Term] id: WBPhenotype:0002159 name: increased pathogen accumulation def: "Animals exhibit an increase in pathogen accumulation, persistent colonization, and luminal distension of the intestine." [WB:WBPaper00032276, WB:WBPerson2987] is_a: WBPhenotype:0001819 ! pathogen load variant [Term] id: WBPhenotype:0002160 name: intraflagellar transport complex destabilized def: "The intracellular complex of proteins that participates in bidirectional transport of molecules (cargo) along axonemal microtubules is not made up of or does not maintain the proper number or ratio of components as found in control animals." [WB:WBPaper00042072, WB:WBPerson712] is_a: WBPhenotype:0002132 ! protein complex organization variant [Term] id: WBPhenotype:0002161 name: mitotic chromatin remodeling variant def: "Animals exhibit variations from controls in the organization of chromatin, including in relation to associated complexes, that occur during the mitotic cell division cycle." [GO:0006338, WB:WBPaper00040620, WB:WBPerson712] is_a: WBPhenotype:0001348 ! chromosome morphology variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0002162 name: multipolar mitotic spindle def: "Cells exhibit mitotic spindles with more than two poles." [WB:WBPaper00038412, WB:WBPerson712] synonym: "multipolar mitosis" RELATED [] is_a: WBPhenotype:0001215 ! germ cell mitosis variant is_a: WBPhenotype:0001743 ! mitosis variant [Term] id: WBPhenotype:0002163 name: oxygen consumption decreased def: "Animals exhibit a decreased rate of oxygen utilization compared to control animals." [WB:WBPaper00036073, WB:WBPerson712] is_a: WBPhenotype:0002141 ! oxygen consumption variant [Term] id: WBPhenotype:0002164 name: innate immune response variant def: "Animals exhibit variations in their defense responses that are mediated by germline encoded components that directly recognize components of potential pathogens." [GO:0045087, WB:WBPerson557] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0002165 name: muscle excitability variant def: "The extent or other quality of the excitatory postsynaptic potential (EPSP) induced by in vitro stimuli differs from that of controls." [WB:WBPaper00038066, WB:WBPerson712] is_a: WBPhenotype:0001735 ! muscle cell activity variant is_a: WBPhenotype:0002014 ! current measurement variant [Term] id: WBPhenotype:0002166 name: muscle membrane potential variant def: "The difference in electrical potential between the interior and the exterior of the muscle cell either in the resting state or during evoked stimulation differs from controls." [WB:WBPaper00039987, WB:WBPerson712] is_a: WBPhenotype:0000990 ! muscle cell physiology variant is_a: WBPhenotype:0001965 ! cell membrane physiology variant [Term] id: WBPhenotype:0002167 name: transgenerational accumulation of histone methylation def: "The amount of histone methylation, for example as measured by the amount of H3K4me2, increases over successive generations" [WB:WBPaper00045092, WB:WBPerson712] synonym: "generational accumulation of histone methylation" RELATED [] synonym: "progressive accumulation of histone methylation" RELATED [] synonym: "transgenerational epigenetic accumulation of histone methylation" RELATED [] is_a: WBPhenotype:0002078 ! histone methylation variant [Term] id: WBPhenotype:0002168 name: transgenerational loss of fertility def: "Animals exhibit a decline in fertility over generations. This is often assessed by counting laid eggs over successive generations." [WB:WBPaper00045092, WB:WBPerson712] synonym: "generational loss of fertility" RELATED [] synonym: "progressive loss of fertility" RELATED [] synonym: "transgenerational epigenetic loss of fertility" RELATED [] is_a: WBPhenotype:0000145 ! fertility variant [Term] id: WBPhenotype:0002169 name: reproductive longevity shortened def: "Animals stop producing progeny significantly before the time reproduction stops in control animals." [WB:WBPaper00027157, WB:WBPerson2987] is_a: WBPhenotype:0001739 ! aging variant [Term] id: WBPhenotype:0002170 name: calcium mediated signaling variant def: "Any variation in the series of molecular signals in which a cell or tissue uses calcium ions to convert a signal into a response, compared to control." [WB:WBPerson557] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0002171 name: alkaline pH chemotaxis variant def: "Animals exhibit variations in the characteristic movement towards typically attractive alkaline pH (pH higher than 7) compared to control. However animals tend to avoid very high pH levels (pH11). pH is a measure of the acidity or basicity of an aqueous solution. In C. elegans animals chemotax toward higher alkaline pH." [GO:0036176, WB:WBPaper00042397, WB:WBPerson557] synonym: "alkaline pH sensing variant" RELATED [] synonym: "alkalinity sensing variant" RELATED [] is_a: WBPhenotype:0001047 ! aqueous positive chemotaxis variant [Term] id: WBPhenotype:0002172 name: pathogen release variant def: "Infected animals exhibit variations in the process of releasing pathogens back into the environment, compared to control." [WB:WBPaper00040246, WB:WBPerson2987] synonym: "spore shedding variant" NARROW [] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0002173 name: cell number variant def: "Animals exhibit variations in the number of cells that make up the organism compared to control animals." [WB:WBPaper00032029, WB:WBPerson2987] is_a: WBPhenotype:0000531 ! organism development variant [Term] id: WBPhenotype:0002174 name: cell number decreased def: "The number of cells in the organism is reduced compared to control animals." [WB:WBPaper00032029, WB:WBPerson2987] is_a: WBPhenotype:0002173 ! cell number variant [Term] id: WBPhenotype:0002175 name: cell number increased def: "The number of cells in the organism is increased compared to control animals." [WB:WBPaper00032029, WB:WBPerson2987] is_a: WBPhenotype:0002173 ! cell number variant [Term] id: WBPhenotype:0002176 name: seam cell morphology variant def: "Animals exhibit variations in the structure, organization or placement of the population of the lateral, alae-producing epithelial cells (seam cells), compared to that observed in control animals." [WB:WBPaper00032029, WB:WBPerson2987] is_a: WBPhenotype:0000899 ! epithelial cell morphology variant [Term] id: WBPhenotype:0002177 name: plasma membrane composition variant def: "Any variation in the components that make up the semipermeable bilayer surrounding a cell that separates the cell from its external environment compared to control." [GO:0005886, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0002178 name: plasma membrane leaflet composition variant def: "Any variation in the components that make up either of the two leaflets of the semipermeable bilayer surrounding a cell that separates the cell from its external environment compared to control." [GO:0009897, GO:0009898, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002177 ! plasma membrane composition variant [Term] id: WBPhenotype:0002179 name: X ray induced mitotic germ cell arrest defective def: "Animals do not arrest mitotic germ cell division, as control animals, when treated with X-ray radiation." [WB:WBPaper00004952, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001324 ! cell ionizing radiation response variant [Term] id: WBPhenotype:0002180 name: apoptotic cell shedding variant def: "Animals exhibit variations in the process by which cells having undergone programmed cell death are shed or extruded into the extracellular environment." [WB:WBPaper00041303, WB:WBPerson2987] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0002181 name: extra excretory cells def: "Animals produce an excess number of excretory cells compared to controls." [WB:WBPaper00041303, WB:WBPerson2987] is_a: WBPhenotype:0000621 ! excretory system development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0002182 name: reactive oxygen species homeostasis variant def: "Animals exhibit variations in endogenous levels of reactive oxygen species (chemically reactive molecules containing oxygen) compared to that observed in control animals." [WB:WBPaper00042351, WB:WBPerson2987] is_a: WBPhenotype:0000577 ! organism homeostasis metabolism variant [Term] id: WBPhenotype:0002183 name: oxidative DNA damage variant def: "Animals exhibit variations in levels of DNA damage caused by oxidative stress." [WB:WBPaper00042351, WB:WBPerson2987] is_a: WBPhenotype:0000732 ! DNA metabolism variant [Term] id: WBPhenotype:0002184 name: starvation induced apoptosis variant def: "Any variation in the amount of cells undergoing apoptosis in organism as a result of deprivation of nourishment, compared to control. In C. elegans, starvation normally causes increased apoptosis." [WB:WBPaper00044006, WB:WBPerson557] is_a: WBPhenotype:0000147 ! organism starvation response variant is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0002185 name: cell fate transformation to endoderm def: "Animals develop endodermal cells/tissue from precursor cells that do not normally produce endodermal cells/tissue." [WB:WBPaper00003645, WB:WBPerson2987] is_a: WBPhenotype:0000414 ! cell fate transformation [Term] id: WBPhenotype:0002186 name: cell fate transformation to pharyngeal muscle def: "Animals develop pharyngeal muscles from precursor cells that do not normally produce pharyngeal muscles." [WB:WBPaper00003645, WB:WBPerson2987] is_a: WBPhenotype:0000414 ! cell fate transformation [Term] id: WBPhenotype:0002187 name: cell fate transformation to body wall muscle def: "Animals develop body wall muscle from precursor cells that do not normally produce body wall muscle." [WB:WBPaper00003574, WB:WBPaper00003645, WB:WBPerson2987] is_a: WBPhenotype:0000414 ! cell fate transformation [Term] id: WBPhenotype:0002188 name: male somatic gonad development variant def: "Any variation in the progression of the components of the male gonad that are separate from the germline proper over time, from its formation to its mature structure compared to control. In C. elegans, the male somatic gonad consists of three tissues: distal tip cells (DTCs), the seminal vesicle, and the vas deferens (Wormatlas)." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000399 ! somatic gonad development variant is_a: WBPhenotype:0001675 ! male gonad development variant [Term] id: WBPhenotype:0002189 name: extra linker cells def: "Animals produce an excess number of linker cells compared to controls." [WB:WBPaper00005116, WB:WBPerson2987] synonym: "excess linker cells" EXACT [] is_a: WBPhenotype:0001675 ! male gonad development variant is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0002190 name: fewer hypodermal cells def: "The population of hypodermal cells is reduced compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0002191 name: fewer sex myoblasts def: "Animals produce a reduced number of sex myoblasts compared to controls." [WB:WBPaper00033137, WB:WBPerson2987] is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0002192 name: extra sex myoblasts def: "Animals produce an excess number of sex myoblasts compared to controls." [WB:WBPaper00033137, WB:WBPerson2987] is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0002193 name: posterior reversed vulval lineage def: "The orientation of the progeny of P7.p mimic those of P5.p and face towards the posterior of the worm, a phenotype referred to as posterior-reversed vulval lineage (P-Rvl)." [WB:WBPaper00044058, WB:WBPerson557] synonym: "P-Rvl" BROAD [] is_a: WBPhenotype:0000220 ! vulva cell fate specification variant is_a: WBPhenotype:0000239 ! vulval cell lineage variant [Term] id: WBPhenotype:0002194 name: food dependent body size variant def: "Animals do not differ in size when grown on different food sources to the same extent as that measured for control animals. For example, in C. elegans, wild type worms are 1.65 times larger when grown on HB101 compared to those grown on OP50." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0002195 ! food dependent growth variant [Term] id: WBPhenotype:0002195 name: food dependent growth variant def: "Animals exhibit variations in growth rate or the outcome of growth in response to food compared to control. In C. elegans, animals exhibit an increase or decrease in growth rate depending on the type of bacteria they are fed." [WB:WBPaper00038311, WB:WBPerson712] is_a: WBPhenotype:0001072 ! response to food variant [Term] id: WBPhenotype:0002196 name: outward rectifying current variant def: "The driving force of the outward flow of ions does not exceed the inward flow for the opposite driving force or is otherwise altered when compared to that measured for control animals." [WB:WBPaper00036046, WB:WBPerson712] is_a: WBPhenotype:0002197 ! voltage gated channel activity variant [Term] id: WBPhenotype:0002197 name: voltage gated channel activity variant def: "Catalysis of the transmembrane transfer of a solute by a channel whose open state is dependent on the voltage across the membrane in which it is embedded is altered from that observed for controls." [WB:WBPerson712] is_a: WBPhenotype:0001315 ! electrophysiology variant [Term] id: WBPhenotype:0002198 name: neuromuscular junction organization variant def: "The proper localization and assembly of components at the junction of a neuron with a muscle cell varies from that observed in control animals." [WB:WBPaper00038066, WB:WBPerson712] is_a: WBPhenotype:0000625 ! synaptogenesis variant [Term] id: WBPhenotype:0002199 name: neuron calcium transient levels variant def: "The degree of stimulus-evoked calcium concentration changes differs from that of controls." [WB:WBPaper00039855, WB:WBPerson712] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0002200 name: oviduct muscle defective def: "Variations in the progression of the muscles of the adult hermaphrodite oviduct over time from their initial formation to their mature structure compared to control." [WB:WBPerson712] is_a: WBPhenotype:0000282 ! hermaphrodite sex muscle development variant [Term] id: WBPhenotype:0002201 name: apoptotic DNA degradation defective def: "Dying animals cells exhibit defects in the fragmentation of chromosomal DNA into oligonucleosomal-length fragments compared to control animals. This process can be monitored by the quantity and quality of TUNEL (TdT-mediated dUTP nick end labeling)-positive nuclei." [WB:WBPaper00005978, WB:WBPerson712] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0002202 name: pharynx extension defective def: "Embryos exhibit defects in the extension of pharyngeal cells toward the buccal opening during embryogenesis compared to controls." [WB:WBPaper00005085, WB:WBPerson712] is_a: WBPhenotype:0001748 ! pharynx unattached [Term] id: WBPhenotype:0002203 name: corpse morphology variant def: "Corpses resulting from programmed cell death appear different in size or shape from those of corpses in control animals." [WB:WBPaper00004688, WB:WBPerson712] is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBPhenotype:0002204 name: procorpus contraction defective def: "Animals exhibit defects in the muscle contractions of the anterior region of corpus, the area responsible for allowing food to enter the corpus." [WB:WBPaper00005996, WB:WBPerson712] is_a: WBPhenotype:0000327 ! corpus contraction defect [Term] id: WBPhenotype:0002205 name: hypersensitive to galactose def: "Animals exhibit negative effects on growth, development, or metabolism when exposed to a galactose-rich diet, compared to control animals." [WB:WBPaper00045849, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002206 name: galactose metabolism variant def: "Animals process dietary galactose differently than control animals, these differences can result in increased and or decreased levels of intermediary galactose metabolites." [WB:WBPaper00045849, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002207 name: missing gonad arms def: "Animals are missing one or both gonad arms, the normally U-shaped projections of the gonad that extend into the anterior or posterior of the animal and bends back towards the center of the animal." [WB:WBPaper00003453, WB:WBPerson2987] is_a: WBPhenotype:0000399 ! somatic gonad development variant [Term] id: WBPhenotype:0002208 name: antibody temporal expression variant def: "The expression of a protein, as determined by antibody staining, varied from controls with respect to timing such that the protein was observed to be expressed at earlier timepoints or later timepoints than controls." [WB:WBPaper00003383, WB:WBPerson2987] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0002209 name: hook development variant def: "Any variation in the development of the structure that lies on the ventral surface just anterior and central to the base of the spicule openings (small lump on the gubernaculum of the male tail) and contains a sensory structure called the hook sensillum, compared to control. In C. elegans the hook is necessary for proper male mating." [WB:WBPaper00003428, WB:WBPerson2987] is_a: WBPhenotype:0001297 ! male tail development variant [Term] id: WBPhenotype:0002210 name: extra rays def: "Animals exhibit an extra number of the finger-like sensory sensilla that project from the tail and embed in the male fan." [WB:WBPaper00003428, WB:WBPerson2987] is_a: WBPhenotype:0000199 ! male tail sensory ray development variant [Term] id: WBPhenotype:0002211 name: phasmid dye filling defect def: "Animals exhibit defects in dye-filling of the neuronal cells of the phasmid sensilla. In C. elegans, these neurons are commonly assayed by dye-filling with FITC, DiI or DiO." [WB:WBPaper00003450, WB:WBPerson2987, WB:WBPerson557] synonym: "dye filling defect" RELATED [] synonym: "Dyf" BROAD [] is_a: WBPhenotype:0000257 ! phasmid morphology variant [Term] id: WBPhenotype:0002212 name: amphid dye filling defect def: "Animals exhibit defects in dye-filling of the neuronal cells of the amphid sensilla. In C. elegans, these neurons are commonly assayed by dye-filling with FITC, DiI or DiO." [WB:WBPerson557] synonym: "dye filling defect" RELATED [] synonym: "Dyf" BROAD [] is_a: WBPhenotype:0000255 ! amphid phasmid morphology variant is_a: WBPhenotype:0000256 ! amphid morphology variant is_a: WBPhenotype:0001527 ! amphid phasmid sensillum morphology variant [Term] id: WBPhenotype:0002213 name: kinase activity reduced def: "Any variation that results in a decrease in the catalytic phosphorylation activity of a kinase enzyme compared to control. Catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein (can include an RNA component). Kinases are enzymes capable of phosphorylating their respective substrates." [WB:WBPaper00003656, WB:WBPerson2987] is_a: WBPhenotype:0000124 ! enzyme activity reduced [Term] id: WBPhenotype:0002214 name: extra pharyngeal muscle cells def: "Animals contain an excess number of pharyngeal muscle cells compared to control. In C. elegans, pharyngeal cells are derived from MS-blastomere. The overproduction of pharyngeal tissues is a result of other blastomeres adopting an MS-like fate." [WB:WBPaper00003574, WB:WBPerson2987] is_a: WBPhenotype:0001635 ! excess pharyngeal cells [Term] id: WBPhenotype:0002215 name: fewer body wall muscles def: "Any variation that results in a fewer than control number of body wall muscle cells." [WB:WBPaper00003574, WB:WBPerson2987] is_a: WBPhenotype:0001597 ! muscle missing [Term] id: WBPhenotype:0002216 name: pattern antibody staining variant def: "Any variation in the cellular or subcellular distribution of a gene product, as detected by antibody staining, compared to that observed in control animals." [WB:WBPaper00003574, WB:WBPaper00003656, WB:WBPerson2987] is_a: WBPhenotype:0000424 ! antibody staining variant [Term] id: WBPhenotype:0002217 name: antimony hypersensitive def: "Animals respond to antimony at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00002619, WB:WBPerson2987] is_a: WBPhenotype:0001918 ! chemical hypersensitive [Term] id: WBPhenotype:0002218 name: arsenite hypersensitive def: "Animals respond to arsenite at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00002619, WB:WBPaper00029261, WB:WBPaper00031023, WB:WBPerson2987] is_a: WBPhenotype:0001918 ! chemical hypersensitive [Term] id: WBPhenotype:0002219 name: fluoranthene hypersensitive def: "Animals respond to fluoranthene at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00031850, WB:WBPerson2987] is_a: WBPhenotype:0001918 ! chemical hypersensitive [Term] id: WBPhenotype:0002220 name: antimonite hypersensitivity def: "Animals respond to antimonite at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00029261, WB:WBPerson2987] is_a: WBPhenotype:0002217 ! antimony hypersensitive [Term] id: WBPhenotype:0002221 name: pharyngeal vacuole def: "The pharynx contains cavities, possibly indicative of inappropriate cell death." [WB:WBPaper00004381, WB:WBPerson2987] is_a: WBPhenotype:0001363 ! head cavity [Term] id: WBPhenotype:0002222 name: uterus vacuole def: "The uterus contains cavities, possibly indicative of inappropriate cell death." [WB:WBPaper00004381, WB:WBPerson2987] is_a: WBPhenotype:0001395 ! body vacuole [Term] id: WBPhenotype:0002223 name: manganese hypersensitivity def: "Animals respond at a faster rate or to lower concentrations of manganese that that observed for control animals." [WB:WBPaper00044740, WB:WBPerson712] is_a: WBPhenotype:0001863 ! manganese response variant [Term] id: WBPhenotype:0002224 name: mercury hypersensitive def: "Animals respond to mercury at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00004381, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002225 name: lead hypersensitive def: "Animals respond to lead at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00004381, WB:WBPerson2987] is_a: WBPhenotype:0002227 ! lead response variant [Term] id: WBPhenotype:0002226 name: cobalt hypersensitive def: "Animals respond to cobalt at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00005255, WB:WBPaper00006388, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002227 name: lead response variant def: "Animals exhibit variations in their response to lead compared to that observed in control animals." [WB:WBPaper00029261, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002228 name: aluminum response variant def: "Animals exhibit variations in their response to aluminum compared to that observed in control animals." [WB:WBPaper00029261, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002229 name: chromium response variant def: "Animals exhibit variations in their response to chromium compared to that observed in control animals." [WB:WBPaper00029261, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002230 name: metal accumulation increased def: "Animals exhibited higher amounts of internal metal concentrations compared to control animals." [WB:WBPaper00044740, WB:WBPerson712] is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0002231 name: manganese induced oxidative stress response def: "Oxidative stress induced by manganese differs from that of control worms." [WB:WBPaper00044740, WB:WBPerson712] is_a: WBPhenotype:0000068 ! oxidative stress response variant [Term] id: WBPhenotype:0002232 name: synaptic remodeling variant def: "The polarity reversal process by which synaptic components are removed from one side of the synapse and then reformed on the opposite cell does not occur or occurs in a different manner than in controls. In C. elegans, at the end of the L1 stage, the DD neurons undergo a complete polarity reversal such that the ventral synapses disappear and new synapses are formed on opposing dorsal body muscles." [WB:WBPaper00005543, WB:WBPerson712] is_a: WBPhenotype:0000625 ! synaptogenesis variant [Term] id: WBPhenotype:0002233 name: osmolarity modulated swimming variant def: "The swimming behavior of animals are influenced or modulate by the osmolarity of the swimming buffer. The swimming of wild-type C. elegans animals are not affected by the osmolarity of the swimming liquid." [WB:WBPaper00041219, WB:WBPerson712] is_a: WBPhenotype:0001725 ! osmotic stress response variant [Term] id: WBPhenotype:0002234 name: increased acidified compartments def: "Animals contain excess acidified intracellular compartments. These compartments are positive for indicators such as Acridine Orange as well as LysoTracker Red, in a lysosome-like manner." [WB:WBPaper00005190, WB:WBPerson712] is_a: WBPhenotype:0001393 ! cell acidification variant [Term] id: WBPhenotype:0002235 name: growth defective on low phosphate media def: "Animals are unable to grow on media depleted of phosphate." [WB:WBPerson712] is_a: WBPhenotype:0000576 ! organism physiology variant [Term] id: WBPhenotype:0002236 name: endo lysosomal degradation pathway defective def: "The degradation of endocytosed and intracellular material does not occur to the same extent as it does in control animals." [WB:WBPaper00037899, WB:WBPerson712] is_a: WBPhenotype:0000585 ! cell homeostasis metabolism variant [Term] id: WBPhenotype:0002237 name: endocytic recycling compartment organization and biogenesis defective def: "Animals exhibit disruptions in tubular or tubulo-vesicular structures that function in endocytic transport from early to recycling endosomes." [WB:WBPaper00037899, WB:WBPerson712] synonym: "ERC organization and biogenesis defective" EXACT [] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0002238 name: increased levels of reactive oxygen species def: "Animals exhibit increased endogenous levels of reactive oxygen species (chemically reactive molecules containing oxygen) compared to that observed in control animals." [WB:WBPaper00040454, WB:WBPerson2987] is_a: WBPhenotype:0002182 ! reactive oxygen species homeostasis variant [Term] id: WBPhenotype:0002239 name: reduced levels of reactive oxygen species def: "Animals exhibit reduced endogenous levels of reactive oxygen species (chemically reactive molecules containing oxygen) compared to that observed in control animals." [WB:WBPaper00040454, WB:WBPerson2987] is_a: WBPhenotype:0002182 ! reactive oxygen species homeostasis variant [Term] id: WBPhenotype:0002240 name: gut granule morphology variant def: "Any variation in the morphology of the different inclusions within the intestinal cytoplasm, including birefringent crystalline objects and other dark-staining endosomes compared to control. In C. elegans these contents might include glycogen granules (polysaccharide storage), rhabditin (carbohydrate storage), yolk granules (lipid and protein), and concentrated waste products (Wormatlas)." [WB:WBPaper00040622, WB:WBPerson2987] is_a: WBPhenotype:0000902 ! intestinal cell morphology variant is_a: WBPhenotype:0001323 ! vesicle morphology variant [Term] id: WBPhenotype:0002241 name: feeding reduced def: "Animals consume less food than control animals" [WB:WBPaper00036303, WB:WBPerson2987] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0002242 name: hypersensitive to iron deficiency def: "Animals exhibit detrimental responses to iron deficiency more readily than control animals." [WB:WBPaper00040550, WB:WBPerson2987] is_a: WBPhenotype:0002046 ! iron homeostasis variant [Term] id: WBPhenotype:0002243 name: phytochelatin synthesis deficient def: "Animals do not produce the same amount of functional phytochelatins as measured in control worms. Phytochelatins are any of a group of peptides that bind metals (Cd, Zn, Cu, Pb, Hg) in thiolate coordination complexes." [GO:0046938, WB:WBPaper00036020, WB:WBPerson712] is_a: WBPhenotype:0001696 ! biosynthesis variant [Term] id: WBPhenotype:0002244 name: arsenic hypersensitive def: "Animals respond to arsenic at a lower concentration or at a shorter exposure time compared to control animals." [WB:WBPaper00036020, WB:WBPerson712] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002245 name: endogenous zinc levels reduced def: "Animals exhibit reduced levels of endogenous zinc compared to control animals." [WB:WBPaper00040622, WB:WBPerson2987] is_a: WBPhenotype:0001849 ! zinc homeostasis variant [Term] id: WBPhenotype:0002246 name: endogenous zinc levels increased def: "Animals exhibit increased levels of endogenous zinc compared to control animals." [WB:WBPaper00040622, WB:WBPerson2987] is_a: WBPhenotype:0001849 ! zinc homeostasis variant [Term] id: WBPhenotype:0002247 name: copper homeostasis variant def: "Variations in the regulation of levels, transport, and metabolism of copper ions within an organism compared to control." [WB:WBPaper00040622, WB:WBPerson2987] is_a: WBPhenotype:0002029 ! metal homeostasis variant [Term] id: WBPhenotype:0002248 name: hypersensitive to zinc deficiency def: "Animals exhibit detrimental responses to zinc deficiency more readily than control animals" [WB:WBPaper00040622, WB:WBPerson2987] is_a: WBPhenotype:0001849 ! zinc homeostasis variant [Term] id: WBPhenotype:0002249 name: reduced protein oxidation levels def: "Protein oxidation levels, as measured by carbonylated protein levels for example, are reduced compared to controls." [WB:WBPaper00040914, WB:WBPerson2987] is_a: WBPhenotype:0000068 ! oxidative stress response variant [Term] id: WBPhenotype:0002250 name: silver hypersensitive def: "Animals respond to silver at a lower concentration or a shorter exposure compared to control animals." [WB:WBPerson557] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002251 name: silver nanoparticle hypersensitive def: "Animals respond to silver nanoparticles (AgNPs) at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00044630, WB:WBPerson2987] is_a: WBPhenotype:0002250 ! silver hypersensitive [Term] id: WBPhenotype:0002252 name: increased susceptibility to viral infection def: "Animals are more prone to infection by virus compared to control animals." [WB:WBPaper00046393, WB:WBPerson712] is_a: WBPhenotype:0001013 ! pathogen susceptibility increased [Term] id: WBPhenotype:0002253 name: 22G RNA expression reduced def: "Animals exhibit lowered levels of any or all of the clades of 22G RNA molecules, compared to control." [WB:WBPaper00046393, WB:WBPerson712] is_a: WBPhenotype:0000113 ! RNA expression variant [Term] id: WBPhenotype:0002254 name: 3 prime target RNA uridylation reduced def: "3' uridylation of mRNA targeted for silencing does not occur at the same rate or extent of targeted mRNA in control animals." [WB:WBPaper00046393, WB:WBPerson712] is_a: WBPhenotype:0000028 ! RNA processing variant [Term] id: WBPhenotype:0002255 name: amino acid metabolism variant def: "Animals exhibit variations in any process that involves the maintenance, biosynthesis or accumulation of amino acids within the organism or cell compared to control." [WB:WBPaper00038278, WB:WBPerson2987] is_a: WBPhenotype:0000463 ! metabolic pathway variant [Term] id: WBPhenotype:0002256 name: selenium response variant def: "Animals exhibit variations in their response to selenium compared to that observed in control animals." [WB:WBPaper00038278, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002257 name: iron hypersensitive def: "Animals respond to iron at a lower concentration or a shorter exposure compared to control animals." [WB:WBPaper00038278, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002258 name: nickel toxicity resistant def: "Animals fail to exhibit toxicity to the concentration of nickel that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. In C. elegans toxic responses to nickel include delayed development or lethality." [WB:WBPaper00038278, WB:WBPerson2987] is_a: WBPhenotype:0000591 ! metal response variant [Term] id: WBPhenotype:0002259 name: dendritic termini number reduced def: "The number of terminal regions of a neuron's dendrite is less that that observed for control animals." [WB:WBPaper00046432, WB:WBPerson557, WB:WBPerson712] is_a: WBPhenotype:0000882 ! dendrite development variant [Term] id: WBPhenotype:0002260 name: gamete necrotic death increased def: "Ooctyes and or sperm appear vacuolated and degenerated compared to gametes in control animals. This degeneration is not due to normal programmed cell death." [WB:WBPaper00041364, WB:WBPerson712] synonym: "necrotic gamete degeneration increased" RELATED [] is_a: WBPhenotype:0001397 ! necrotic cell death increased [Term] id: WBPhenotype:0002261 name: neurite connectivity defective def: "An effective connection between reciprocal target neurons is not established properly." [WB:WBPaper00042557, WB:WBPerson712] is_a: WBPhenotype:0000623 ! nervous system development variant [Term] id: WBPhenotype:0002262 name: postsynaptic component localization variant def: "Animals display variations in the distribution of the constituents of the postsynaptic side of the active zone, compared to control animals, that are required for receiving signals from the presynaptic side." [WB:WBPaper00005543, WB:WBPaper00038066, WB:WBPerson712] is_a: WBPhenotype:0001685 ! postsynaptic region morphology variant [Term] id: WBPhenotype:0002263 name: mitochondrial membrane potential increased def: "Any increase in the membrane potential (voltage gradient) across the inner\nmitochondrial membrane compared to control." [WB:WBPaper00040353, WB:WBPerson557] is_a: WBPhenotype:0001282 ! mitochondrial metabolism variant [Term] id: WBPhenotype:0002264 name: ATP levels increased def: "Animals exhibit an increase in the cellular levels of Adenosine-5'-triphosphate (ATP), compared to control. ATP is a nucleotide\nthat plays a versatile role in cell biology." [WB:WBPaper00036073, WB:WBPaper00040353, WB:WBPerson557] is_a: WBPhenotype:0001574 ! ATP levels variant [Term] id: WBPhenotype:0002265 name: lysosome-related organelle biogenesis variant def: "Variations in the processes that are carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of membrane bound organelles, known as lysosome-related organelles (LROs) that, like lysosomes, have an acidic interior and generally act to digest components of the cell but are distinct in function, composition, and morphology, compared to control." [WB:WBPaper00041842, WB:WBPerson2987] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0002266 name: mitochondrial content variant def: "Animals exhibit variations in the overall amount of mitochondria present in the animal, as determined by, for example, Mitotracker staining." [WB:WBPaper00035277, WB:WBPerson2987] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0002267 name: mitochondrial content increased def: "Animals exhibit increases in the overall amount of mitochondria present in the animal, as determined by, for example, Mitotracker staining." [WB:WBPaper00035277, WB:WBPerson2987] is_a: WBPhenotype:0002266 ! mitochondrial content variant [Term] id: WBPhenotype:0002268 name: mitochondrial content decreased def: "Animals exhibit decreases in the overall amount of mitochondria present in the animal, as determined by, for example, Mitotracker staining." [WB:WBPaper00035277, WB:WBPerson2987] is_a: WBPhenotype:0002266 ! mitochondrial content variant [Term] id: WBPhenotype:0002269 name: oxygen consumption increased def: "Animals exhibit an increased rate of oxygen utilization compared to control animals." [WB:WBPaper00035277, WB:WBPerson2987] is_a: WBPhenotype:0002141 ! oxygen consumption variant [Term] id: WBPhenotype:0002270 name: metabolite content decreased def: "Animals exhibit a decrease in the quantity of metabolites, small molecule products or intermediates required for the metabolic functioning of the cell or organism" [WB:WBPaper00040386, WB:WBPerson2987] is_a: WBPhenotype:0000463 ! metabolic pathway variant [Term] id: WBPhenotype:0002271 name: food absorption rate variant def: "Animals exhibit variations in the rate at which food is absorbed by the intestine, as determined by a time-course recording of fat staining (by C1-BODIPY-C12, for example) normalized to controls" [WB:WBPaper00032310, WB:WBPerson2987] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0002272 name: protein carbonylation variant def: "Animals exhibit variations in the covalent modification of one or more native amino acid side chains in proteins to carbonyl derivatives such as an aldehyde or ketone." [WB:WBPaper00006515] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0002273 name: dietary sugar response variant def: "Animals exhibit enhanced negative effects on growth, health, development or metabolism, in response to dietary sugar-rich diets, compared to controls." [WB:WBPaper00045849, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002274 name: plugged on body def: "Males receive copulatory plugs from other males, deposited elsewhere on their bodies, in the absence of any orifice. This typically involves penetration of the depositing male's spicules directly through the cuticle of the recipient male." [WB:WBPerson22615, WB:WBPerson7165] synonym: "Plob" BROAD [] is_a: WBPhenotype:0001728 ! mating plug production variant [Term] id: WBPhenotype:0002275 name: plugged excretory pore def: "Males receive copulatory plugs from other males, deposited on their excretory pores. This phenotype is polymorphic among C. elegans strains and also in C. briggsae." [WB:WBPerson22615, WB:WBPerson7165] synonym: "Pleb" BROAD [] synonym: "Plep" RELATED [] is_a: WBPhenotype:0001728 ! mating plug production variant [Term] id: WBPhenotype:0002276 name: dauer lifespan shortened def: "The life span of dauer-staged animals is shorter than that observed in control dauer animals." [WB:WBPaper00032396, WB:WBPerson2987] is_a: WBPhenotype:0001540 ! dauer lifespan variant [Term] id: WBPhenotype:0002277 name: dauer lifespan extended def: "The life span of dauer-staged animals is longer than that observed in control dauer animals." [WB:WBPaper00032396, WB:WBPerson2987] is_a: WBPhenotype:0001540 ! dauer lifespan variant [Term] id: WBPhenotype:0002278 name: acute functional tolerance to alcohol defective def: "Animals do not develop acute functional tolerance to alcohol after a short exposure, unlike that observed in control animals" [WB:WBPaper00046494, WB:WBPerson712] synonym: "ATF" RELATED [] is_a: WBPhenotype:0000555 ! drug adaptation variant [Term] id: WBPhenotype:0002279 name: fat associated body size decreased def: "Animals exhibit a decrease in the size of fat containing organelles compared to control. In C. elegans this can be assayed by BODIPY 493/503 staining." [WB:WBPaper00042257, WB:WBPerson2987] synonym: "lipid body size decreased" RELATED [] is_a: WBPhenotype:0001901 ! fat associated bodies variant [Term] id: WBPhenotype:0002280 name: organism osmostic stress resistant def: "Animals exhibit resistance to osmotic stress compared to that observed in control animals." [WB:WBPaper00032396, WB:WBPerson2987] is_a: WBPhenotype:0000876 ! organism osmotic stress response variant [Term] id: WBPhenotype:0002281 name: organism osmostic stress hypersensitive def: "Animals exhibit hypersensitivty to osmotic stress compared to that observed in control animals." [WB:WBPaper00032396, WB:WBPerson2987] is_a: WBPhenotype:0000876 ! organism osmotic stress response variant [Term] id: WBPhenotype:0002282 name: autophagy increased def: "Animals exhibit increased levels of the process by which their cells digest parts of their own cytoplasm, compared to control." [WB:WBPaper00026641, WB:WBPaper00038332, WB:WBPaper00041372, WB:WBPaper00043981, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000736 ! autophagy variant [Term] id: WBPhenotype:0002283 name: autophagy reduced def: "Animals exhibit reduced levels of the process by which their cells digest parts of their own cytoplasm, compared to control." [WB:WBPaper00006070, WB:WBPaper00035076, WB:WBPaper00041851, WB:WBPaper00043981, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000736 ! autophagy variant [Term] id: WBPhenotype:0002284 name: head bend angle variant def: "Any variation in the extent of the maximum flex of the most anterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001265 ! head movement variant [Term] id: WBPhenotype:0002285 name: head bend angle decreased def: "Animals exhibit a decrease in the extent of the maximum flex of the most anterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002284 ! head bend angle variant [Term] id: WBPhenotype:0002286 name: head bend angle increased def: "Animals exhibit an increase in the extent of the maximum flex of the most anterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002284 ! head bend angle variant [Term] id: WBPhenotype:0002287 name: tail movement variant def: "The most posterior portion of the animal exhibits variations in its movement compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001699 ! localized movement variant [Term] id: WBPhenotype:0002288 name: tail bend angle variant def: "Any variation in the extent of the maximum flex of the most posterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002287 ! tail movement variant [Term] id: WBPhenotype:0002289 name: tail bend angle increased def: "Animals exhibit an increase in the extent of the maximum flex of the most posterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002288 ! tail bend angle variant [Term] id: WBPhenotype:0002290 name: tail bend angle decreased def: "Animals exhibit a decrease in the extent of the maximum flex of the most posterior portion of the animal compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002288 ! tail bend angle variant [Term] id: WBPhenotype:0002291 name: body posture amplitude variant def: "Animals exhibit variations in body posture with regard to the extent of displacement measured from the mean position to an extreme position compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0002292 name: body posture amplitude decreased def: "Animals exhibit variations in body posture caused by a decrease in the extent of displacement measured from the mean position to an extreme position compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002291 ! body posture amplitude variant [Term] id: WBPhenotype:0002293 name: body posture amplitude increased def: "Animals exhibit variations in body posture caused by an increase in the extent of displacement measured from the mean position to an extreme position compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002291 ! body posture amplitude variant [Term] id: WBPhenotype:0002294 name: body posture wavelength variant def: "Animals exhibit variations in body posture with regard to the distance between repeating units of a wave pattern compared to control animals. In C. elegans, characteristic sinusoidal body posture is sinusoidal." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0002295 name: body posture wavelength decreased def: "Animals exhibit variations in body posture caused by a decrease in the distance between repeating units of a wave pattern compared to control animals. In C. elegans, characteristic sinusoidal body posture is sinusoidal." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002294 ! body posture wavelength variant [Term] id: WBPhenotype:0002296 name: body posture wavelength increased def: "Animals exhibit variations in body posture caused by an increase in the distance between repeating units of a wave pattern compared to control animals. In C. elegans, characteristic sinusoidal body posture is sinusoidal." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002294 ! body posture wavelength variant [Term] id: WBPhenotype:0002297 name: coiling variant def: "Animals exhibit variations in the occurrence of a coil-like body posture compared to control animals. This includes the amount of time spent in a coil, the frequency with which coils form and the inappropriate formation of a coil, for example when attempting to locomote." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0002298 name: coiling frequency def: "Animals exhibit variations in the amount of time spent with its body posture in a coil or the frequency with which they form coils compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002297 ! coiling variant [Term] id: WBPhenotype:0002299 name: coiling frequency decreased def: "Animals spend less time with their body posture in a coil or they decrease the frequency with which they form coils compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002298 ! coiling frequency [Term] id: WBPhenotype:0002300 name: coiling frequency increased def: "Animals spend more time with their body posture in a coil or they increase the frequency with which they form coils compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002298 ! coiling frequency [Term] id: WBPhenotype:0002301 name: nose movement variant def: "The extreme anterior of the animal exhibits variations in its movement compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000662 ! foraging behavior variant is_a: WBPhenotype:0001699 ! localized movement variant [Term] id: WBPhenotype:0002302 name: nose movement decreased def: "Animals exhibit a decrease in the movement of the extreme anterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002301 ! nose movement variant [Term] id: WBPhenotype:0002303 name: nose movement increased def: "Animals exhibit an increase in the movement of the extreme anterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002301 ! nose movement variant [Term] id: WBPhenotype:0002304 name: head movement decreased def: "Animals exhibit a decrease in the movement of the most anterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000595 ! head behavior variant is_a: WBPhenotype:0001265 ! head movement variant [Term] id: WBPhenotype:0002305 name: head movement increased def: "Animals exhibit an increase in the movement of the most anterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000595 ! head behavior variant is_a: WBPhenotype:0001265 ! head movement variant [Term] id: WBPhenotype:0002306 name: tail movement decreased def: "Animals exhibit a decrease in the movement of the most posterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000597 ! tail behavior variant is_a: WBPhenotype:0002287 ! tail movement variant [Term] id: WBPhenotype:0002307 name: tail movement increased def: "Animals exhibit an increase in the movement of the most posterior portion of the body to a new location compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000597 ! tail behavior variant is_a: WBPhenotype:0002287 ! tail movement variant [Term] id: WBPhenotype:0002308 name: pausing variant def: "Animals exhibit variations in the amount of time spent in a paused state, which is neither moving forward or backward, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001213 ! locomotion reduced [Term] id: WBPhenotype:0002309 name: Pausing decreased def: "Animals exhibit a decrease in the amount of time spent in a paused state, which is neither moving forward or backward, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002308 ! pausing variant [Term] id: WBPhenotype:0002310 name: Pausing increased def: "Animals exhibit an increase in the amount of time spent in a paused state, which is neither moving forward or backward, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002308 ! pausing variant [Term] id: WBPhenotype:0002311 name: turning variant def: "Variations in the behavior by which an organism alters its trajectory of movement compared to control, excluding shifts from forward to backward movements (this is reversal)." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001702 ! directionality variant [Term] id: WBPhenotype:0002312 name: turning frequency variant def: "Animals exhibit variations in the frequency of execution of the behavior by which the animal alters its trajectory of movement compared to control, excluding shifts from forward to backward movements (this is reversal)." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002311 ! turning variant [Term] id: WBPhenotype:0002313 name: turning frequency increased def: "Animals exhibit an increase in the frequency of execution of the behavior by which the animal alters its trajectory of movement compared to control, excluding shifts from forward to backward movements (this is reversal)." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002312 ! turning frequency variant [Term] id: WBPhenotype:0002314 name: turning frequency reduced def: "Animals exhibit a decrease in the frequency of execution of the behavior by which the animal alters its trajectory of movement compared to control, excluding shifts from forward to backward movements (this is reversal)." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002312 ! turning frequency variant [Term] id: WBPhenotype:0002315 name: roaming variant def: "Animals exhibit variations in their movement at high-speed in the forward direction with brief backward movement compared to control. During roaming, control animals often traversing wide regions." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] synonym: "path range variant" RELATED [] is_a: WBPhenotype:0000641 ! activity level variant is_a: WBPhenotype:0000662 ! foraging behavior variant [Term] id: WBPhenotype:0002316 name: dwelling variant def: "Animals exhibit variations in the low-speed/high turning movement that restricts them to a confined region compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000641 ! activity level variant is_a: WBPhenotype:0000662 ! foraging behavior variant [Term] id: WBPhenotype:0002317 name: dwelling increased def: "Animals exhibit an increase in the low-speed/high turning movement that usually restricts them to a confined region compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000238 ! foraging reduced is_a: WBPhenotype:0001213 ! locomotion reduced is_a: WBPhenotype:0002316 ! dwelling variant [Term] id: WBPhenotype:0002318 name: dwelling reduced def: "Animals exhibit a decrease in the low-speed/high turning movement that usually restricts them to a confined region compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000237 ! foraging hyperactive is_a: WBPhenotype:0002316 ! dwelling variant [Term] id: WBPhenotype:0002319 name: roaming increased def: "Animals exhibit an increase in their high-speed movement in the forward direction with brief backward movement compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] synonym: "path range increased" RELATED [] is_a: WBPhenotype:0000237 ! foraging hyperactive is_a: WBPhenotype:0002315 ! roaming variant [Term] id: WBPhenotype:0002320 name: reversal variant def: "Variations in the behavior by which an organism shifts from forward to backward movements." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001702 ! directionality variant [Term] id: WBPhenotype:0002321 name: forward point velocity decreased def: "Animals exhibit decreased velocity of forward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001716 ! forward point velocity variant [Term] id: WBPhenotype:0002322 name: forward point velocity increased def: "Animals exhibit increased velocity of forward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001716 ! forward point velocity variant [Term] id: WBPhenotype:0002323 name: backward point velocity variant def: "Animals exhibit variations in the velocity of backward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0002324 name: backward point velocity decreased def: "Animals exhibit decreased velocity of backward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002323 ! backward point velocity variant [Term] id: WBPhenotype:0002325 name: backward point velocity increased def: "Animals exhibit increased velocity of backward translocation of any point along the animal's track from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002323 ! backward point velocity variant [Term] id: WBPhenotype:0002326 name: velocity of movement decreased def: "Animals exhibit a decrease in the net velocity of an animal." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] synonym: "sluggish" RELATED [] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0002327 name: velocity of movement increased def: "Animals exhibit an increase in the net velocity of an animal" [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0004025 ! velocity of movement variant [Term] id: WBPhenotype:0002328 name: amplitude of sinusoidal movement increased def: "Animals exhibit an increase in the extent of a vibratory movement (as a worm bend) measured from the mean position to an extreme position compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] synonym: "amplitude of body bends increased" EXACT [] is_a: WBPhenotype:0004022 ! amplitude of sinusoidal movement variant [Term] id: WBPhenotype:0002329 name: obsolete temporal frequency of sinusoidal movement variant def: "OBSOLETE." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0004023 [Term] id: WBPhenotype:0002330 name: obsolete temporal frequency of sinusoidal movement decreased def: "OBSOLETE." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0001482 [Term] id: WBPhenotype:0002331 name: obsolete temporal frequency of sinusoidal movement increased def: "OBSOLETE." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_obsolete: true replaced_by: WBPhenotype:0002348 [Term] id: WBPhenotype:0002332 name: track length variant def: "Animals exhibit variations in the length of the minimum enclosing rectangle surrounding the worm body on a solid medium, as viewed through the microscope." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000001 ! body posture variant [Term] id: WBPhenotype:0002333 name: track length increased def: "Animals exhibit increased length of the minimum enclosing rectangle surrounding the worm body on a solid medium, as viewed through the microscope." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002332 ! track length variant [Term] id: WBPhenotype:0002334 name: track length decreased def: "Animals exhibit decreased length of the minimum enclosing rectangle surrounding the worm body on a solid medium, as viewed through the microscope." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002332 ! track length variant [Term] id: WBPhenotype:0002335 name: path curvature variant def: "Animals exhibit variations in the extent to which the overall path of movement is curved, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0002336 name: path curvature increased def: "Animals exhibit increases in the extent to which the overall path of movement is curved, producing tighter and more frequent curves compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002335 ! path curvature variant [Term] id: WBPhenotype:0002337 name: path curvature decreased def: "Animals exhibit decreases in the extent to which the overall path of movement is curved, producing shallower, less frequent curves and an overall straighter path, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002335 ! path curvature variant [Term] id: WBPhenotype:0002338 name: body proportion variant def: "Animals exhibit variations in the body-area-to-length ratio and/or the width-to-length ratio, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000231 ! body size variant [Term] id: WBPhenotype:0002339 name: body proportion increased def: "Animals exhibit increases in the body-area-to-length ratio and/or the width-to-length ratio, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002338 ! body proportion variant [Term] id: WBPhenotype:0002340 name: body proportion decreased def: "Animals exhibit decreases in the body-area-to-length ratio and/or the width-to-length ratio, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002338 ! body proportion variant [Term] id: WBPhenotype:0002341 name: bent posture variant def: "Animals exhibit variations in instantaneous posture with regards to eccentricity (measure of circularity) or the mean number (and/or standard deviation) of instantaneous body bends." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001703 ! body bend variant [Term] id: WBPhenotype:0002342 name: bent posture increased def: "Animals exhibit increased posture eccentricity (measure of circularity) or the mean number (and/or standard deviation) of instantaneous body bends." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002341 ! bent posture variant [Term] id: WBPhenotype:0002343 name: bent posture decreased def: "Animals exhibit decreased posture eccentricity (measure of circularity) or the mean number (and/or standard deviation) of instantaneous body bends." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002341 ! bent posture variant [Term] id: WBPhenotype:0002344 name: backing decreased def: "Animals spend less time backing compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001005 ! backward locomotion variant [Term] id: WBPhenotype:0002345 name: forward locomotion variant def: "Variations in the spontaneous or induced forward crawling locomotion of an animal compared to control." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0002346 name: forward locomotion increased def: "Animals spend more time in forward locomotion, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002345 ! forward locomotion variant [Term] id: WBPhenotype:0002347 name: forward locomotion decreased def: "Animals spend less time in forward locomotion, compared to control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002345 ! forward locomotion variant [Term] id: WBPhenotype:0002348 name: frequency of body bends increased alt_id: WBPhenotype:0002331 def: "Animals exhibit an increase in the frequency of oscillations between adjacent body segments from that observed for control animals." [WB:WBPaper00043908, WB:WBPerson2987, WB:WBPerson557] synonym: "frequency of sinusoidal movement increased" EXACT [] synonym: "temporal frequency of sinusoidal movement increased" EXACT [] is_a: WBPhenotype:0004023 ! frequency of body bend variant [Term] id: WBPhenotype:0002349 name: phosphatidylinositol 3-phosphate levels reduced def: "The levels of phosphatidylinositol 3-phosphate (a.k.a. PtdIns3P or PI3P) are reduced compared to those of control animals" [WB:WBPaper00044390, WB:WBPerson2987] is_a: WBPhenotype:0000138 ! lipid composition variant [Term] id: WBPhenotype:0002350 name: hydrogen peroxide levels increased def: "Animals exhibit increases in steady-state levels of hydrogen peroxide (H2O2) compared to control." [WB:WBPaper00041478, WB:WBPerson2987] is_a: WBPhenotype:0002003 ! hydrogen peroxide homeostasis variant [Term] id: WBPhenotype:0002351 name: hydrogen peroxide levels reduced def: "Animals exhibit reductions in steady-state levels of hydrogen peroxide (H2O2) compared to control." [WB:WBPaper00041478, WB:WBPerson2987] is_a: WBPhenotype:0002003 ! hydrogen peroxide homeostasis variant [Term] id: WBPhenotype:0002352 name: tRNA expression increased def: "Animals exhibit elevated levels of transfer RNA compared to control." [WB:WBPaper00046188, WB:WBPerson2987] is_a: WBPhenotype:0000135 ! gene expression level high [Term] id: WBPhenotype:0002353 name: tRNA expression decreased def: "Animals exhibit reduced levels of transfer RNA compared to control." [WB:WBPaper00046188, WB:WBPerson2987] is_a: WBPhenotype:0000134 ! gene expression level reduced [Term] id: WBPhenotype:0002354 name: increased susceptibility to fungal infection def: "Animals are more prone to infection from fungal pathogens compared to control animals." [WB:WBPaper00045575, WB:WBPerson712] is_a: WBPhenotype:0001013 ! pathogen susceptibility increased [Term] id: WBPhenotype:0002355 name: increased susceptibility to bacterial pathogens def: "Animals are more prone to infection by bacterial pathogens compared to control animals." [WB:WBPaper00045575, WB:WBPerson712] is_a: WBPhenotype:0001013 ! pathogen susceptibility increased [Term] id: WBPhenotype:0002356 name: sickened by nonpathogenic bacteria def: "Animals are negatively affected by bacteria that is nonpathogenic to control animals." [WB:WBPaper00045575, WB:WBPerson712] is_a: WBPhenotype:0001072 ! response to food variant [Term] id: WBPhenotype:0002357 name: metabolite content increased def: "Animals exhibit an increase in the quantity of metabolites, small molecule products or intermediates required for the metabolic functioning of the cell or organism." [WB:WBPaper00045546, WB:WBPaper00045575, WB:WBPerson712] is_a: WBPhenotype:0000463 ! metabolic pathway variant [Term] id: WBPhenotype:0002358 name: transdifferentiation defective def: "The conversion of one differentiated cell type into another does not occur as it does in control animals. In C. elegans, the Y cell undergoes a dramatic redifferentiation from being a cell in of the rectum to a PDA neuron. This transdifferentiation requires the cell to withdraw from its established position, migrate, and then become a motor neuron." [WB:WBPaper00037659, WB:WBPerson712] is_a: WBPhenotype:0001510 ! neuronal cell fate specification variant [Term] id: WBPhenotype:0002359 name: protein carbonylation increased def: "Animals exhibit an increase in the covalent modification of one or more native amino acid side chains in proteins to carbonyl derivatives such as an aldehyde or ketone." [WB:WBPaper00041478, WB:WBPerson2987] is_a: WBPhenotype:0002272 ! protein carbonylation variant [Term] id: WBPhenotype:0002360 name: cold hypersensitive def: "Animals respond more severely to cold than control animals subjected to the same cold conditions." [WB:WBPaper00046830, WB:WBPerson2987] is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0002361 name: membrane fluidity increased def: "Animals exhibit increased fluidity of cell membranes, compared to control animals." [WB:WBPaper00046830, WB:WBPerson2987] is_a: WBPhenotype:0002484 ! membrane fluidity variant [Term] id: WBPhenotype:0002362 name: protein sumoylation variant def: "Variations in the process by which one or more SUMO moieties are added to a protein, compared to control." [WB:WBPaper00048594, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0002363 name: cholesterol depletion resistant def: "Animals are more resistant to the reduction of cholesterol in the environment compared to control animals." [WB:WBPaper00024451, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000725 ! lipid metabolism variant [Term] id: WBPhenotype:0002364 name: axonal degeneration def: "Spontaneous axon breaks leading to degeneration of separated segments." [WB:WBPaper00024451, WB:WBPerson2987, WB:WBPerson9270] synonym: "axon degeneration" EXACT [] is_a: WBPhenotype:0000179 ! neuron degeneration [Term] id: WBPhenotype:0002365 name: regenerative axonal fusion defective def: "Following axon damage, animals do not undergo axonal fusion after reconnection between the regrowing axon and its separated segment to the same extent as observed in control animals." [WB:WBPaper00046306, WB:WBPerson29819, WB:WBPerson2987] is_a: WBPhenotype:0001911 ! axon regeneration defective [Term] id: WBPhenotype:0002366 name: touch-induced suppression of head movement defective def: "Animals do not suppress exploratory head movements in response to anterior touch stimuli, unlike control animals." [WB:WBPaper00039982, WB:WBPerson712] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0002367 name: non-living barrier escape defective def: "Animals are less successful than controls in extracting themselves from mesh or other non-living obstructing obstacles." [WB:WBPaper00039982, WB:WBPerson712] is_a: WBPhenotype:0000738 ! organism environmental stimulus response variant [Term] id: WBPhenotype:0002368 name: lysosomal refractile body accumulation def: "Lysosomal refractile bodies are apoptotic-like cell corpse; however, they differ in size and shape and can be described as resembling irregular cell corpses. These bodies have been shown to represent enlarged lysosomes and can occur in conjunction with altered programmed cell death programs." [WB:WBPaper00005190, WB:WBPerson712] is_a: WBPhenotype:0001784 ! lysosome homeostasis deficient [Term] id: WBPhenotype:0002369 name: sister cell division timing asynchrony reduced def: "Animals exhibit sister cells that have lost otherwise normal asynchrony of cell division timing, compared to control animals. This results in sister cells aberrantly dividing in synchrony." [WB:WBPaper00046953, WB:WBPerson2987] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002370 name: noxious heat avoidance defective def: "Animals fail to execute their characteristic movements to avoid noxious heat in a manner consistent with controls." [WB:WBPaper00046106, WB:WBPerson12691, WB:WBPerson557] is_a: WBPhenotype:0001273 ! organism heat response variant [Term] id: WBPhenotype:0002371 name: vesicle maturation defective def: "Vesicles, including those in cells, cell bodies, or synaptic terminals, do not properly form or maintain an intermediate state, such as remain coated with a clathrin coat." [WB:WBPaper00004275, WB:WBPerson712] is_a: WBPhenotype:0001321 ! presynaptic region morphology variant [Term] id: WBPhenotype:0002372 name: presynaptic vesicle morphology altered def: "Vesicles in the presynaptic terminal differ in size, shape, or composition from those observed in control animals." [WB:WBPaper00004275, WB:WBPerson712] is_a: WBPhenotype:0001323 ! vesicle morphology variant [Term] id: WBPhenotype:0002373 name: conditional attraction to bacterial lawn def: "Animals show a stronger preference for a particular bacterium that has been grown under conditions that differ from a control lawn." [WB:WBPaper00048410, WB:WBPerson712] is_a: WBPhenotype:0000659 ! feeding behavior variant [Term] id: WBPhenotype:0002374 name: RNAi transport defective def: "Animals are deficient in the transport of silencing RNAs between cells during the systemic RNAi response process." [WB:WBPaper00041467, WB:WBPerson712] is_a: WBPhenotype:0000743 ! RNAi response variant [Term] id: WBPhenotype:0002375 name: reversion of swimming paralysis def: "Animals that exhibit paralysis (reduced thrashing) revert back to normal swimming behavior that can be tabulated as a reversion index (number revertants/number paralysis) and reversion probability (time in reversion/time after paralysis)." [WB:WBPaper00041219, WB:WBPerson712] is_a: WBPhenotype:0002114 ! swimming induced paralysis [Term] id: WBPhenotype:0002376 name: mRNA poly-A tail length decreased def: "Animals exhibit one or more mRNAs with decreased length of the 3' polyadenine tail, compared to control." [WB:WBPaper00046960, WB:WBPerson2987] is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0002377 name: mRNA poly-A tail length increased def: "Animals exhibit one or more mRNAs with increased length of the 3' polyadenine tail, compared to control." [WB:WBPaper00046960, WB:WBPerson2987] is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0002378 name: pathogen avoidance variant def: "Variations in the characteristic movement away from specific disease causing agents (pathogens) compared to control animals." [WB:WBPaper00048530, WB:WBPerson495, WB:WBPerson557] is_a: WBPhenotype:0001012 ! organism pathogen response variant [Term] id: WBPhenotype:0002379 name: mitochondria localization variant def: "The subcellular localization of mitochondrial organelles differ from that observed in control cells." [WB:WBPaper00045008, WB:WBPerson298, WB:WBPerson557] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002380 name: neuron degeneration enhanced def: "Neurons undergo a dramatic decrease in cell volume, collapse of the vacuoles and processes, and complete disintegration of the plasma membrane and most organelles at a faster rate or greater extent than those under conditions that elicit this response in control animals.\n" [WB:WBPaper00045008, WB:WBPerson298, WB:WBPerson557] synonym: "increased neurodegeneration" RELATED [] is_a: WBPhenotype:0000636 ! neuron degeneration variant [Term] id: WBPhenotype:0002381 name: pheromone production variant def: "Animals exhibit variations in the amount and/or quality of pheromone produced compared to control animals at a defined stage." [WB:WBPaper00046134, WB:WBPerson14245, WB:WBPerson557] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002382 name: resistant to bioactive compound def: "Animals fail to respond to the concentration of a bioactive compound that elicits a response in control animals. Alternatively, animals require increased concentration or longer exposure to this compound to elicit the response compared to control animals. A bioactive compound is a chemical found in small amounts in organisms or, synthetically produced, that has effects on biological processes in another organism." [WB:WBPaper00045930, WB:WBPerson12526, WB:WBPerson557] is_a: WBPhenotype:0001502 ! chemical resistant [Term] id: WBPhenotype:0002383 name: light touch habituation variant def: "Any variation in the decreased behavioral response to repeated light head or tail touch compared to control. A gentle touch to the animal's head causes backward movement, whereas a gentle touch to the animal's tail causes forward movement. When wild-type animals are touched repeatedly on the head or tail, after some repetition they stop responding to the touch stimulus." [WB:WBPaper00041335, WB:WBPerson5092, WB:WBPerson557] is_a: WBPhenotype:0000626 ! habituation variant [Term] id: WBPhenotype:0002384 name: xenotoxicity suppressor def: "Animals are resistant to the toxicity of an anti-infective xenobiotic such as R24. Such small molecules protect the host from bacterial infection by inducing antibacterial immune responses via the p38 MAPK pathway. These molecules tend to have toxic effects in addition to immunostimulatory activity." [WB:WBPerson512] synonym: "Xenobiotic toxicity resistant" RELATED [] synonym: "Xts" BROAD [] is_a: WBPhenotype:0000631 ! drug response variant [Term] id: WBPhenotype:0002385 name: high pH avoidance defective def: "Animals fail to avoid a high pH (alkaline) environment as compared to control animals. This is at very high pH, for example around pH11." [WB:WBPaper00043891, WB:WBPerson1928] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0002386 name: fibrous body-membranous organelle (FB-MO) assembly variant def: "Animals exhibit variations in the assembly of the fibrous body-membranous organelle (FB-MO), a nematode sperm-specific organelle involved in cytoplasmic partitioning during spermatogenesis, compared to control animals." [WB:WBPaper00041071, WB:WBPerson602] is_a: WBPhenotype:0001344 ! organelle organization biogenesis variant [Term] id: WBPhenotype:0002387 name: supernumerary asters def: "Dividing cells exhibit additional arrays of microtubules emanating from a spindle pole that do not connect to kinetochores, compared to control." [WB:WBPaper00041071, WB:WBPerson602] is_a: WBPhenotype:0002419 ! spindle aster variant is_a: WBPhenotype:0010002 ! cell organization biogenesis variant [Term] id: WBPhenotype:0002388 name: metaphase variant def: "Any variation in the second stage of cell division, between prophase and anaphase, during which the chromosomes become attached to the spindle fibers." [WB:WBPaper00000008, WB:WBPerson2987] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002389 name: anaphase variant def: "Any variation in the stage of meiotic or mitotic cell division in which the chromosomes move away from one another to opposite poles of the spindle." [WB:WBPaper00000008, WB:WBPerson2987] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002390 name: variable cell division timing def: "Animals exhibit larger variations in cell division timing events than in controls." [WB:WBPaper00046953, WB:WBPerson2987] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002391 name: cytokinesis failure def: "Cells attempt to divide but fail to form two daughter cells." [WB:WBPaper00041071, WB:WBPerson557] is_a: WBPhenotype:0002408 ! cytokinesis variant [Term] id: WBPhenotype:0002392 name: age dependent somatic depletion of fat def: "A depletion of somatic, but not germline, lipid stores are observed near the end of the reproductive period." [WB:WBPaper00048925, WB:WBPerson2173] synonym: "Asdf" BROAD [] is_a: WBPhenotype:0001183 ! fat content reduced [Term] id: WBPhenotype:0002393 name: anterior posterior neurite growth variant def: "Any variation in the processes that govern the directed extension of neurite projections along the anteroposterior axis of the animal compared to controls." [WB:WBPaper00041941, WB:WBPerson1687, WB:WBPerson557] synonym: "anteroposterior neurite growth variant" RELATED [] is_a: WBPhenotype:0000572 ! neuronal outgrowth variant [Term] id: WBPhenotype:0002394 name: phagosome sealing defective def: "The closure of a phagosome does not occur and it remains connected with the plasma membrane, leaving the lumen open to the outside. Complete closure usually occurs once an apoptotic cell has been surrounded by an engulfing cell." [WB:WBPaper00048406, WB:WBPerson17560, WB:WBPerson2987] is_a: WBPhenotype:0000885 ! engulfment variant [Term] id: WBPhenotype:0002395 name: corpse engulfment initiation variant def: "Animals exhibit variations in recognition of cell corpses and initiation of corpse engulfment, compared to controls." [WB:WBPaper00048406, WB:WBPerson2987] is_a: WBPhenotype:0000243 ! engulfment failure by killer cell [Term] id: WBPhenotype:0002396 name: tumor prolapse frequency decreased def: "Animals with a tumorous germline exhibit a decreased frequency of the presence of a tumor prolapse, a protrusion of tumor cells from the vulva, compared to control." [WB:WBPaper00049105, WB:WBPerson2987] is_a: WBPhenotype:0000038 ! exploded through vulva [Term] id: WBPhenotype:0002397 name: tumor prolapse frequency increased def: "Animals with a tumorous germline exhibit an increased frequency of the presence of a tumor prolapse, a protrusion of tumor cells from the vulva, compared to control." [WB:WBPaper00049105, WB:WBPerson2987] is_a: WBPhenotype:0000038 ! exploded through vulva [Term] id: WBPhenotype:0002398 name: starved L1 larvae aggregation variant def: "Animals exhibit variations in the aggregation behavior of starved L1 larvae, compared to controls." [WB:WBPaper00046860, WB:WBPerson14935] is_a: WBPhenotype:0001032 ! larval behavior variant [Term] id: WBPhenotype:0002399 name: neurotransmitter response variant def: "Animals exhibit variations in their response to a specific neurotransmitter compared to that observed in control animals." [WB:WBPaper00048522, WB:WBPerson2987] is_a: WBPhenotype:0000523 ! chemical response variant [Term] id: WBPhenotype:0002400 name: glucose intolerant def: "Animals do not live or live poorly in the presence of glucose concentrations that normally do not have an effect on control animals." [WB:WBPaper00049467, WB:WBPerson712] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002401 name: excess fatty acids def: "The concentration of fatty acids in the animal are greater than that observed for control animals." [WB:WBPaper00049467, WB:WBPerson712] is_a: WBPhenotype:0000138 ! lipid composition variant [Term] id: WBPhenotype:0002402 name: cell position defective def: "a cell (or group of cells) is not found in the correct body position compared the placement in control animals." [WB:WBPerson557] synonym: "cell position abnormal" EXACT [] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002403 name: P cell misalignment at ventral midline def: "Ventral midline blastomeres (P cells) are misaligned (not properly paired) along the ventral midline of larval animals." [WB:WBPaper00040551, WB:WBPerson2987] is_a: WBPhenotype:0002402 ! cell position defective [Term] id: WBPhenotype:0002404 name: cell cell contacts defective def: "Cell-cell contacts are made in a similar fashion to control animals." [WB:WBPaper00040551, WB:WBPerson2987] synonym: "cell cell contacts abnormal" RELATED [] is_a: WBPhenotype:0000533 ! cell morphology variant [Term] id: WBPhenotype:0002405 name: pheromone behavioral response variant def: "Animals exhibit variations in the behavioral response to pheromones, compared to control." [WB:WBPaper00040651, WB:WBPerson2987] is_a: WBPhenotype:0001040 ! chemosensory response variant is_a: WBPhenotype:0001049 ! chemosensory behavior variant [Term] id: WBPhenotype:0002406 name: aberrant posteriorly-directed neurite def: "Any neurite that is extended towards the posterior of the animal from neurons that in wild-type animals make only anterior projections (e.g. D-type neurons in C. elegans)." [WB:WBPerson1687, WB:WBPerson557] is_a: WBPhenotype:0002393 ! anterior posterior neurite growth variant [Term] id: WBPhenotype:0002407 name: egg size variant def: "Any variation in the overall size of fertilized oocytes that are laid compared to those laid by control animals." [WB:WBPerson557] synonym: "egg size abnormal" RELATED [] is_a: WBPhenotype:0000037 ! egg morphology variant [Term] id: WBPhenotype:0002408 name: cytokinesis variant def: "Any variation that disrupts the cytoplasmic division of a cell during development compared to control." [GO:0000910, WB:WBPerson557] synonym: "cytokinesis abnormal" RELATED [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002409 name: extra cleavage furrow def: "One or more extra cleavage furrows are observed in a cell about to undergo division." [WB:WBPerson557] is_a: WBPhenotype:0002410 ! cleavage furrow defective [Term] id: WBPhenotype:0002410 name: cleavage furrow defective def: "Cells exhibit defects in the formation, maintenance or termination of the groove in the cell surface near the old metaphase plate during cytokinesis." [GO:0032154, WB:WBPerson557] is_a: WBPhenotype:0002408 ! cytokinesis variant [Term] id: WBPhenotype:0002411 name: cleavage furrow initiation defective def: "Cells exhibit defects in the formation of the groove in the cell surface near the old metaphase plate at the onset of cytokinesis." [WB:WBPerson557] is_a: WBPhenotype:0002410 ! cleavage furrow defective [Term] id: WBPhenotype:0002412 name: cleavage furrow termination defective def: "Cells exhibit defects in the maintenance or termination of the groove in the cell surface near the old metaphase plate during cytokinesis." [WB:WBPerson557] is_a: WBPhenotype:0002410 ! cleavage furrow defective [Term] id: WBPhenotype:0002413 name: multiple nuclei def: "Animals have more than one nucleus in a particular cell type." [WB:WBPerson557] is_a: WBPhenotype:0001894 ! nuclear number variant [Term] id: WBPhenotype:0002414 name: spindle variant def: "Any variation in the assembly, disassembly, arrangement, elongation or stabilization of the array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart compared to control." [GO:0005819, WB:WBPerson557] synonym: "spindle abnormal" RELATED [] is_a: WBPhenotype:0000746 ! cell division variant [Term] id: WBPhenotype:0002415 name: spindle assembly defective def: "Cells exhibit defects in the aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart." [GO:0051225, WB:WBPerson557] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0002416 name: spindle position variant def: "Any variation in the placement of the array of microtubules and associated molecules that form between opposite poles of a eukaryotic cell during mitosis or meiosis compared to control." [GO:0051653, WB:WBPerson557] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0002417 name: spindle rotation variant def: "Any variation in the rotation of the spindle compared to control." [WB:WBPerson557] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0002418 name: spindle absent def: "Cells lack the array of microtubules and associated molecules that form between opposite poles of a eukaryotic cell during mitosis or meiosis." [GO:0005819, WB:WBPerson557] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0002419 name: spindle aster variant def: "Any variation in the assembly, disassembly, arrangement, elongation or stabilization of the microtubule spindle asters during a cell cycle." [WB:WBPerson557] is_a: WBPhenotype:0002414 ! spindle variant [Term] id: WBPhenotype:0002420 name: chromatin modification variant def: "Animals exhibit variations in the nature and/or extent of chromatin modification, including but not limited to acetylation and/or methylation of histones, compared to controls." [WB:WBPaper00036090, WB:WBPerson2987] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0002421 name: cold resistant def: "Animals exhibit increased ability to survive at low temperatures compared to controls." [WB:WBPerson10321, WB:WBPerson557] synonym: "cold tolerant" EXACT [] is_a: WBPhenotype:0000146 ! organism temperature response variant [Term] id: WBPhenotype:0002422 name: tunicamycin resistant def: "Animals respond to tunicamycin at a higher concentration or a longer exposure compared to control animals." [WB:WBPaper00036076, WB:WBPaper00037064, WB:WBPerson2987] is_a: WBPhenotype:0000359 ! tunicamycin response variant [Term] id: WBPhenotype:0002423 name: hypoxia response variant def: "Animals exhibit variations in response to hypoxia, low oxygen conditions, compared to controls." [WB:WBPaper00037064, WB:WBPerson2987] is_a: WBPhenotype:0000464 ! oxygen response variant [Term] id: WBPhenotype:0002424 name: anoxia response variant def: "Animals exhibit variations in response to anoxia, trace oxygen conditions, compared to controls." [WB:WBPerson557] is_a: WBPhenotype:0000464 ! oxygen response variant [Term] id: WBPhenotype:0002425 name: protein aggregation induced behavior variant def: "Variations in the specific actions or reactions in response to external or internal stimuli in response to the aggregation of proteins." [WB:WBPerson324, WB:WBPerson557] is_a: WBPhenotype:0001405 ! protein aggregation variant [Term] id: WBPhenotype:0002426 name: protein aggregation induced reduction of life span def: "The duration of viability in the adult phase of the life-cycle is lowered in response to the aggregation of proteins." [GO:0008340, WB:WBPaper00035872, WB:WBPerson324, WB:WBPerson557] is_a: WBPhenotype:0002425 ! protein aggregation induced behavior variant [Term] id: WBPhenotype:0002427 name: protein aggregation induced associative learning variant def: "Variations in the behavioral plasticity induced by the integration of two sensory signals in response to the aggregation of proteins." [WB:WBPaper00035872, WB:WBPerson324, WB:WBPerson557] is_a: WBPhenotype:0002425 ! protein aggregation induced behavior variant [Term] id: WBPhenotype:0002428 name: intestinal degeneration def: "Animals exhibit degeneration of the intestine, compared to control animals." [WB:WBPaper00041065, WB:WBPerson2987] is_a: WBPhenotype:0000710 ! intestinal morphology variant [Term] id: WBPhenotype:0002429 name: protein glycosylation variant def: "Animals exhibit variations in the degree to which some proteins are glycosylated, compared to controls." [WB:WBPaper00042060, WB:WBPerson2987] is_a: WBPhenotype:0001382 ! protein modification variant [Term] id: WBPhenotype:0002430 name: mitochondrial DNA damage variant def: "Any variation in the extent of mitochondrial DNA damage observed compared to controls." [WB:WBPaper00041209, WB:WBPerson712] is_a: WBPhenotype:0000732 ! DNA metabolism variant [Term] id: WBPhenotype:0002431 name: alternative lengthening of telomeres def: "A telomerase-independent telomere maintenance pathway that allows for strains to survive in the absence of telomerase." [WB:WBPaper00041021, WB:WBPerson7] synonym: "ALT" EXACT [] is_a: WBPhenotype:0000879 ! telomere length regulation variant [Term] id: WBPhenotype:0002432 name: EGF-induced sleep variant def: "Animals do not respond with sleeping behavior induced through the EGF pathway. The EGF-induced sleep pathway is thought to represent a distinctmolecular pathway from developmentally linked sleep. The EGF-induced sleep state occurs in two contexts: by overexpressing the EGF ortholog (LIN-3C), or by EGF signaling after stress (such as temperature elevation) in wildtype animals." [WB:WBPaper00050011, WB:WBPerson712] synonym: "stressed-induced sleep variant" RELATED [] is_a: WBPhenotype:0001524 ! quiescence variant [Term] id: WBPhenotype:0002433 name: EGF-induced sleep resistant def: "Animals respond with sleeping behavior induced through the EGF pathway, more rigorously than control animals. The EGF-induced sleep pathway is thought to represent a distinct molecular pathway from developmentally linked sleep. The EGF-induced sleep state occurs in two contexts: by overexpressing the EGF ortholog (LIN-3C), or by EGF signaling after stress (such as temperature elevation) in wildtype animals." [WB:WBPaper00050011, WB:WBPerson712] synonym: "stressed-induced sleep resistant" RELATED [] is_a: WBPhenotype:0001524 ! quiescence variant [Term] id: WBPhenotype:0002434 name: mitochondrial stress response variant def: "Animals exhibit variations in their response to mitochondrial stress, compared to controls." [WB:WBPaper00027723, WB:WBPerson2987] is_a: WBPhenotype:0000142 ! cell stress response variant [Term] id: WBPhenotype:0002435 name: less susceptibility to induced DNA damage def: "Nematodes exposed to DNA damaging agents or conditions exhibit lower susceptibility to DNA damage than other animals." [WB:WBPerson712] synonym: "induced DNA damage resistant" RELATED [] is_a: WBPhenotype:0000739 ! DNA damage response variant [Term] id: WBPhenotype:0002436 name: high susceptibility to induced DNA damage def: "Nematodes exposed to DNA damaging agents or conditions exhibit greater susceptibility to DNA damage than other animals." [WB:WBPerson712] synonym: "induced DNA damage hypersensitive" RELATED [] is_a: WBPhenotype:0000739 ! DNA damage response variant [Term] id: WBPhenotype:0002437 name: repetitive transgene expression variant def: "Animals exhibit variations in the expression of repetitive exogenous DNA compared to control." [WB:WBPaper00003822, WB:WBPerson2987] is_a: WBPhenotype:0000306 ! transgene expression variant [Term] id: WBPhenotype:0002438 name: repetitive transgene expression reduced def: "Animals exhibit reduced expression of repetitive exogenous DNA compared to control." [WB:WBPaper00003822, WB:WBPerson2987] is_a: WBPhenotype:0002437 ! repetitive transgene expression variant [Term] id: WBPhenotype:0002439 name: repetitive transgene expression increased def: "Animals exhibit increased expression of repetitive exogenous DNA compared to control." [WB:WBPaper00003822, WB:WBPerson2987] is_a: WBPhenotype:0002437 ! repetitive transgene expression variant [Term] id: WBPhenotype:0002440 name: sperm fertility defective def: "Any perturbation that renders sperm incompetent at fertilizing an oocyte." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001384 ! fertility reduced [Term] id: WBPhenotype:0002441 name: pharyngeal inter-pump interval increased def: "The time between two pumps of the pharynx is increased compared to control animals." [WB:WBPaper00050613, WB:WBPerson712] synonym: "pharyngeal inter-pumping interval increased" RELATED [] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant [Term] id: WBPhenotype:0002442 name: pharyngeal pump duration increased def: "The duration of the contraction of the pharyngeal muscle during pumping is increased compared to controls." [WB:WBPaper00050613, WB:WBPerson712] synonym: "pharyngeal pump extended" RELATED [] is_a: WBPhenotype:0000634 ! pharyngeal pumping variant [Term] id: WBPhenotype:0002443 name: spicule protraction variant def: "Any variation in the specific actions or reactions of the male that are associated with the protraction of the male copulatory spicules compared to control." [WB:WBPerson557] is_a: WBPhenotype:0000279 ! spicule insertion defective [Term] id: WBPhenotype:0002444 name: pyrimidine biosynthesis variant def: "Animals exhibit variations in the chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases." [GO:0019856, WB:WBPerson324, WB:WBPerson557] synonym: "pyrimidine base biosynthesis variant" EXACT [] is_a: WBPhenotype:0000732 ! DNA metabolism variant [Term] id: WBPhenotype:0002445 name: extra and ectopic hypodermis def: "Animals have one or more extra hypodermal cells, which are present in places they are normally not found, when compared to the number and location of these cells in control animals." [WB:WBPaper00025033, WB:WBPerson2987] is_a: WBPhenotype:0001303 ! extra and ectopic cell [Term] id: WBPhenotype:0002446 name: pharyngeal pumping rate in response to light variant def: "Animals exhibit variations in pharyngeal pumping rate in response to light, compared to controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0000020 ! pharyngeal pumping irregular is_a: WBPhenotype:0001006 ! pharyngeal pumping rate variant is_a: WBPhenotype:0001897 ! light response variant [Term] id: WBPhenotype:0002447 name: acute pumping response to light variant def: "Animals exhibit variations in the acute pharyngeal pumping response to light, during which the pharyngeal pumping rate initially (0-5 seconds after light exposure onset) decreases in response to light, compared to controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002446 ! pharyngeal pumping rate in response to light variant [Term] id: WBPhenotype:0002448 name: enhanced acute pharyngeal pumping response to light def: "Animals exhibit an enhanced acute pharyngeal pumping response to light, such that pharyngeal pumping rate decreases in response to light to a greater extent than in controls during the first 0-5 seconds after light exposure onset." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002447 ! acute pumping response to light variant [Term] id: WBPhenotype:0002449 name: reduced acute pharyngeal pumping response to light def: "Animals exhibit a reduced acute pharyngeal pumping response to light, such that pharyngeal pumping rate decreases in response to light to a lesser extent than in controls during the first 0-5 seconds after light exposure onset." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002447 ! acute pumping response to light variant [Term] id: WBPhenotype:0002450 name: burst pharyngeal pumping response to light def: "Animals exhibit variations in the burst pharyngeal pumping response to light, during which the pharyngeal pumping rate slightly increases during the5-10 seconds after light exposure onset, compared to controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002446 ! pharyngeal pumping rate in response to light variant [Term] id: WBPhenotype:0002451 name: enhanced burst pharyngeal pumping response to light def: "Animals exhibit an enhanced burst pharyngeal pumping response to light, such that during the5-10 seconds after light exposure onset the pharyngeal pumping rate increases to a greater extent than in controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002450 ! burst pharyngeal pumping response to light [Term] id: WBPhenotype:0002452 name: reduced burst pharyngeal pumping response to light def: "Animals exhibit a reduced burst pharyngeal pumping response to light, such that during the5-10 seconds after light exposure onset the pharyngeal pumping rate increases to a lesser extent than in controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002450 ! burst pharyngeal pumping response to light [Term] id: WBPhenotype:0002453 name: recovery pumping response to light variant def: "Animals exhibit variations in the recovery pharyngeal pumping response to light, during which the pharyngeal pumping rate slowly increases during the 0-10 seconds afterremoval of light exposure, compared to controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002446 ! pharyngeal pumping rate in response to light variant [Term] id: WBPhenotype:0002454 name: enhanced recovery pumping response to light def: "Animals exhibit an enhanced recovery pharyngeal pumping response to light, such that during the 0-10 seconds after removal of light exposure the pharyngeal pumping rate increases to a greater extent than in controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002453 ! recovery pumping response to light variant [Term] id: WBPhenotype:0002455 name: reduced recovery pumping response to light def: "Animals exhibit a reduced recovery pharyngeal pumping response to light, such that during the 0-10 seconds after removal of light exposure the pharyngeal pumping rate increasesto a lesser extent than in controls." [WB:WBPaper00046411, WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0002453 ! recovery pumping response to light variant [Term] id: WBPhenotype:0002456 name: calcium response to light variant def: "Animals exhibit variations in the changes in calcium levels in response to light compared to controls." [WB:WBPaper00048388, WB:WBPerson2987, WB:WBPerson557, WB:WBPerson9765] is_a: WBPhenotype:0001897 ! light response variant is_a: WBPhenotype:0002170 ! calcium mediated signaling variant [Term] id: WBPhenotype:0002457 name: ectopic vulva in male def: "Formation in the male of the egg-laying organ of female and hermaphrodite nematodes. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult." [WB:WBPaper00026839, WB:WBPerson2987] synonym: "vulva in male" EXACT [] is_a: WBPhenotype:0002499 ! ectopic vulva [Term] id: WBPhenotype:0002458 name: maternal effect morphology variant def: "Any variation in the form, structure or composition of any part of an animal caused by the perturbation of maternal gene products that are contributed to oogenesis and are required during embryogenesis." [WB:WBPerson557] synonym: "Mal" BROAD [] synonym: "maternal effect morphology abnormal" RELATED [] is_a: WBPhenotype:0000036 ! adult body morphology variant is_a: WBPhenotype:0000072 ! body morphology variant is_a: WBPhenotype:0000532 ! body region morphology variant is_a: WBPhenotype:0000535 ! organism morphology variant is_a: WBPhenotype:0000582 ! organism segment morphology variant is_a: WBPhenotype:0000934 ! developmental morphology variant [Term] id: WBPhenotype:0002459 name: hyperinduction of antimicrobial peptide expression after infection def: "Animals exhibit hyperinduction of expression of an antimicrobial peptide after an infection, compared to control animals." [WB:WBPerson168, WB:WBPerson2987] is_a: WBPhenotype:0001800 ! antimicrobial gene expression variant [Term] id: WBPhenotype:0002460 name: no induction of antimicrobial peptide expression after infection def: "Animals exhibit no induction of expression of an antimicrobial peptide after an infection, unlike control animals." [WB:WBPerson168, WB:WBPerson2987] is_a: WBPhenotype:0001800 ! antimicrobial gene expression variant [Term] id: WBPhenotype:0002461 name: pathogen adherence decreased def: "Pathogens exhibit decreased adherence to the surface of host animals." [WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0001415 ! pathogen adherence variant [Term] id: WBPhenotype:0002462 name: pathogen adherence increased def: "Pathogens exhibit increased adherence to the surface of host animals." [WB:WBPaper00049531, WB:WBPerson168, WB:WBPerson2987] is_a: WBPhenotype:0001415 ! pathogen adherence variant [Term] id: WBPhenotype:0002463 name: hookless def: "Male animals lack a copulatory hook." [WB:WBPaper00045644, WB:WBPerson557, WB:WBPerson625] is_a: WBPhenotype:0002209 ! hook development variant [Term] id: WBPhenotype:0002464 name: multiple hooks def: "Male animals exhibit multiple copulatory hooks. In wild type C. elegans males, a single hook is normally present." [WB:WBPaper00045644, WB:WBPerson557, WB:WBPerson625] is_a: WBPhenotype:0002209 ! hook development variant [Term] id: WBPhenotype:0002465 name: histone ubiquitination variant def: "The pattern or state of ubiquitin modifications of histones varies from that of controls." [WB:WBPaper00053651, WB:WBPerson1370, WB:WBPerson557] synonym: "histone ubiquitylation variant" RELATED [] is_a: WBPhenotype:0001865 ! protein ubiquitination variant [Term] id: WBPhenotype:0002466 name: RNA methylation variant def: "Variations in the processes that incorporate methyl groups to one or more bases within RNA, compared to control." [WB:WBPaper00049616, WB:WBPerson29150, WB:WBPerson557] is_a: WBPhenotype:0001827 ! RNA metabolism variant [Term] id: WBPhenotype:0002467 name: male reproductive longevity extended def: "Males continue to sire progeny significantly past the time reproduction stops in control animals or show a slower decline in mating efficiency compared to age-matched control males." [WB:WBPaper00053333, WB:WBPerson557] is_a: WBPhenotype:0001739 ! aging variant [Term] id: WBPhenotype:0002468 name: translation rate reduced def: "Animals exhibit a reduction in the rate of the chemical reactions and pathways resulting in the formation of a protein, compared to control." [GO:0006417, WB:WBPaper00046894, WB:WBPerson557] is_a: WBPhenotype:0000121 ! translation variant [Term] id: WBPhenotype:0002469 name: plate tap habituation variant def: "Any variation in the decrease in a behavioral response to a repeated plate tap stimulus compared to control." [WB:WBPaper00041802, WB:WBPerson3192, WB:WBPerson557] is_a: WBPhenotype:0000626 ! habituation variant [Term] id: WBPhenotype:0002470 name: cilia length variant def: "Animals exhibit variations in the length of the microtubule-based dendritic projections extending from the cell body, compared to that observed in control animals." [WB:WBPaper00053681, WB:WBPerson2136, WB:WBPerson557] synonym: "cilium length variant" EXACT [] is_a: WBPhenotype:0000615 ! cilia morphology variant [Term] id: WBPhenotype:0002471 name: cilia length increased def: "Animals exhibit an increase in the length of the microtubule-based dendritic projections extending from the cell body, compared to that observed in control animals." [WB:WBPaper00053681, WB:WBPerson2136, WB:WBPerson557] synonym: "cilium length increased" EXACT [] is_a: WBPhenotype:0002470 ! cilia length variant [Term] id: WBPhenotype:0002472 name: cilia length decreased def: "Animals exhibit a reduction in the length of the microtubule-based dendritic projections extending from the cell body, compared to that observed in control animals." [WB:WBPaper00053681, WB:WBPerson2136, WB:WBPerson557] synonym: "cilium length decreased" EXACT [] is_a: WBPhenotype:0002470 ! cilia length variant [Term] id: WBPhenotype:0002473 name: autophagy block def: "Animals fail to undergo the cellular catabolic process in which cells digest parts of their own cytoplasm." [GO:0006914, WB:WBPaper00046758, WB:WBPerson2242, WB:WBPerson557] synonym: "autophagy defective" EXACT [] is_a: WBPhenotype:0002283 ! autophagy reduced [Term] id: WBPhenotype:0002474 name: viral resistance increased def: "Animals are less prone to infection by virus compared to control." [WB:WBPaper00053019, WB:WBPerson24802, WB:WBPerson557] is_a: WBPhenotype:0001014 ! pathogen resistance increased [Term] id: WBPhenotype:0002475 name: pharynx length variant def: "Animals vary in the distance between most anterior and the most posterior ends of the pharynx from that observed in control animals." [WB:WBPaper00049351, WB:WBPerson2693, WB:WBPerson557] synonym: "pharyngeal length variant" EXACT [] is_a: WBPhenotype:0000709 ! pharyngeal morphology variant [Term] id: WBPhenotype:0002476 name: pharynx length increased def: "Animals have an increase in the distance between most anterior and the most posterior ends of the pharynx from that observed in control animals." [WB:WBPaper00049351, WB:WBPerson2693, WB:WBPerson557] synonym: "pharyngeal length increased" EXACT [] synonym: "pharynx elongation" EXACT [] is_a: WBPhenotype:0002475 ! pharynx length variant [Term] id: WBPhenotype:0002477 name: ribosome localization variant def: "Any variation in the subcellular localization of the ribosome compared to control. The ribosome is an intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA)." [GO:0005840, WB:WBPaper00052855, WB:WBPerson15276, WB:WBPerson557] synonym: "ribosome distribution variant" EXACT [] is_a: WBPhenotype:0002098 ! cell component localization variant [Term] id: WBPhenotype:0002478 name: axotomy response variant def: "Any variation in the cellular and molecular pathways in a neuron in response to having its axon severed compared to severing in control animals." [WB:WBPaper00053323, WB:WBPerson557, WB:WBPerson9270] is_a: WBPhenotype:0000991 ! neuron physiology variant [Term] id: WBPhenotype:0002479 name: axon regeneration enhanced def: "Any increase in regenerative regrowth of axons compared to control animals." [WB:WBPaper00053323, WB:WBPerson557, WB:WBPerson9270] synonym: "axonal regeneration enhanced" EXACT [] is_a: WBPhenotype:0000880 ! axon development variant [Term] id: WBPhenotype:0002480 name: heme levels variant def: "Animals exhibit variations in the amount of heme compared to control animals. Heme is any compound of iron complexed in a porphyrin (tetrapyrrole) ring." [GO:0006783, WB:WBPaper00049976, WB:WBPerson16107, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0000027 ! organism metabolism processing variant [Term] id: WBPhenotype:0002481 name: heme levels decreased def: "Animals exhibit a decrease in the amount of heme compared to control animals. Heme is any compound of iron complexed in a porphyrin (tetrapyrrole) ring." [GO:0006783, WB:WBPaper00049976, WB:WBPerson16107, WB:WBPerson2987, WB:WBPerson557] synonym: "heme levels reduced" EXACT [] is_a: WBPhenotype:0002480 ! heme levels variant [Term] id: WBPhenotype:0002482 name: heme levels increased def: "Animals exhibit an increase in the amount of heme compared to control animals. Heme is any compound of iron complexed in a porphyrin (tetrapyrrole) ring." [GO:0006783, WB:WBPaper00049976, WB:WBPerson16107, WB:WBPerson2987, WB:WBPerson557] is_a: WBPhenotype:0002480 ! heme levels variant [Term] id: WBPhenotype:0002483 name: fungal resistance increased def: "Animals are less prone to infection by a fungus compared to control." [WB:WBPaper00046695, WB:WBPerson557] is_a: WBPhenotype:0001014 ! pathogen resistance increased [Term] id: WBPhenotype:0002484 name: membrane fluidity variant def: "Animals exhibit variations in fluidity of cell membranes, compared to control animals." [WB:WBPaper00055850, WB:WBPerson2987] is_a: WBPhenotype:0001965 ! cell membrane physiology variant [Term] id: WBPhenotype:0002485 name: germline precursor cell morphology variant def: "Any variation in the morphological appearance of germline precursor cells compared to control animals." [WB:WBPaper00050421, WB:WBPerson2987] synonym: "primordial germ cell morphology variant" RELATED [] is_a: WBPhenotype:0002108 ! cell type morphology variant [Term] id: WBPhenotype:0002486 name: persistent primordial germ cell lobes def: "Animals exhibit persistent cellular lobes of the primordial germ cells Z2 and/or Z3 at the L1 larval stage or later, in contrast to wild type animals" [WB:WBPaper00050421, WB:WBPerson2987, WB:WBPerson35710] synonym: "persistent germline precursor cell lobes" RELATED [] is_a: WBPhenotype:0002485 ! germline precursor cell morphology variant [Term] id: WBPhenotype:0002487 name: intestinal integrity variant def: "Animals exhibit variations in the integrity of the intestine, compared to controls." [WB:WBPaper00049837, WB:WBPerson2987] is_a: WBPhenotype:0001093 ! intestinal physiology variant [Term] id: WBPhenotype:0002488 name: intestinal integrity increased def: "Animals exhibit an increase in the integrity of the intestine, compared to controls." [WB:WBPaper00049837, WB:WBPerson14863, WB:WBPerson2987] is_a: WBPhenotype:0002487 ! intestinal integrity variant [Term] id: WBPhenotype:0002489 name: intestinal integrity reduced def: "Animals exhibit a reduction in the integrity of the intestine, compared to controls." [WB:WBPerson2987] is_a: WBPhenotype:0002487 ! intestinal integrity variant [Term] id: WBPhenotype:0002490 name: ectopic axon outgrowth def: "Neurons exhibit axon outgrowth in locations not normally found in controls." [WB:WBPaper00004283, WB:WBPaper00006029, WB:WBPaper00026706, WB:WBPaper00027335, WB:WBPaper00031901, WB:WBPaper00032090, WB:WBPerson2987] is_a: WBPhenotype:0001224 ! axon outgrowth variant is_a: WBPhenotype:0002491 ! ectopic neurite outgrowth [Term] id: WBPhenotype:0002491 name: ectopic neurite outgrowth def: "Neurons exhibit neurite outgrowth in locations not normally found in controls." [WB:WBPaper00003665, WB:WBPaper00004340, WB:WBPaper00027335, WB:WBPerson2987] is_a: WBPhenotype:0000572 ! neuronal outgrowth variant [Term] id: WBPhenotype:0002492 name: ectopic body wall muscle def: "Animals exhibit one or more body wall muscle cells in locations not normally found in controls." [WB:WBPaper00035201, WB:WBPerson2987] is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0002493 name: ectopic cell def: "Animals exhibit one or more cells of a particular type in locations not normally found in controls." [WB:WBPaper00003331, WB:WBPaper00003719, WB:WBPerson2987] is_a: WBPhenotype:0000529 ! cell development variant [Term] id: WBPhenotype:0002494 name: ectopic endoderm def: "Animals exhibit one or more endodermal cells in locations not normally found in controls." [WB:WBPaper00002871, WB:WBPaper00003645, WB:WBPerson2987] is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0002495 name: ectopic hypodermis def: "Animals exhibit one or more hypodermal cells in locations not normally found in controls." [WB:WBPaper00025033, WB:WBPerson2987] is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0002496 name: ectopic neuron def: "Animals exhibit one or more neurons in locations not normally found in controls." [WB:WBPaper00000635, WB:WBPaper00027335, WB:WBPerson2987] is_a: WBPhenotype:0001310 ! neuron positioning variant is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0002497 name: ectopic pharyngeal muscle def: "Animals exhibit one or more pharyngeal muscle cells in locations not normally found in controls." [WB:WBPaper00003574, WB:WBPaper00003645, WB:WBPerson2987] is_a: WBPhenotype:0002493 ! ectopic cell [Term] id: WBPhenotype:0002498 name: ectopic organ def: "Animals exhibit one or more organs of a particular type in locations not normally found in controls." [WB:WBPaper00031604, WB:WBPerson2987] is_a: WBPhenotype:0000530 ! organ system development variant [Term] id: WBPhenotype:0002499 name: ectopic vulva def: "Animals exhibit one or more vulvae in locations not normally found in controls." [WB:WBPaper00031604, WB:WBPerson2987] is_a: WBPhenotype:0002498 ! ectopic organ [Term] id: WBPhenotype:0002500 name: ectopic cleavage furrow def: "One or more cells exhibit one or more cleavage furrows in locations not normally found in control cells." [] is_a: WBPhenotype:0002410 ! cleavage furrow defective [Term] id: WBPhenotype:0002501 name: ectopic cleavage furrow early emb def: "One or more cells of the early embryo (one-cell stage to four-cell stage) exhibit one or more cleavage furrows in locations not normally found in control cells." [WB:WBPaper00005599, WB:WBPaper00006061, WB:WBPaper00030892, WB:WBPaper00033469, WB:WBPerson2987] is_a: WBPhenotype:0001129 ! cleavage furrow defective early emb [Term] id: WBPhenotype:0002502 name: protein acetylation increased def: "Animals exhibit an increase in the covalent addition of an acetyl group to one or more native amino acid side chains in proteins." [WB:WBPaper00046534, WB:WBPerson113, WB:WBPerson2987] is_a: WBPhenotype:0001917 ! protein acetylation variant [Term] id: WBPhenotype:0002503 name: meiotic DNA double strand break formation increased def: "Animals exhibit an increase the creation of double-strand breaks that occur during meiosis that may result in the initiation of meiotic recombination." [WB:WBPaper00046534, WB:WBPerson113, WB:WBPerson2987] is_a: WBPhenotype:0001921 ! meiotic DNA double strand break formation variant [Term] id: WBPhenotype:0002504 name: pathogen release reduced def: "Infected animals exhibit a reduction in the release of pathogens back into the environment, compared to control." [WB:WBPaper00040246, WB:WBPaper00045292, WB:WBPerson2987, WB:WBPerson3965] synonym: "spore shedding reduced" NARROW [] is_a: WBPhenotype:0002172 ! pathogen release variant [Term] id: WBPhenotype:0002505 name: pathogen infection clearance variant def: "Infected animals exhibit variations in the clearance of pathogen infection compared to controls." [WB:WBPaper00044624, WB:WBPerson2706, WB:WBPerson2987] is_a: WBPhenotype:0002164 ! innate immune response variant [Term] id: WBPhenotype:0002506 name: pathogen infection clearance rate increased def: "Infected animals exhibit an increased rate of clearance of pathogen infection compared to controls." [WB:WBPaper00044624, WB:WBPerson2706, WB:WBPerson2987] is_a: WBPhenotype:0002505 ! pathogen infection clearance variant [Term] id: WBPhenotype:0002507 name: pathogen infection clearance rate decreased def: "Infected animals exhibit a decreased rate of clearance of pathogen infection compared to controls." [WB:WBPaper00044624, WB:WBPerson2706, WB:WBPerson2987] is_a: WBPhenotype:0002505 ! pathogen infection clearance variant [Term] id: WBPhenotype:0002508 name: extra neuron def: "Animals produce an excess number of neurons compared to controls." [WB:WBPaper00053165, WB:WBPerson2987, WB:WBPerson3252] is_a: WBPhenotype:0002175 ! cell number increased [Term] id: WBPhenotype:0002509 name: extra dopaminergic neuron def: "Animals produce an excess number of dopaminergic neurons compared to controls." [WB:WBPaper00053165, WB:WBPerson2987, WB:WBPerson3252] is_a: WBPhenotype:0002508 ! extra neuron [Term] id: WBPhenotype:0002510 name: fewer neurons def: "Animals exhibit fewer neurons compared to control animals." [WB:WBPaper00053165, WB:WBPerson2987, WB:WBPerson3252] is_a: WBPhenotype:0002174 ! cell number decreased [Term] id: WBPhenotype:0002511 name: fewer glutamatergic neurons def: "Animals exhibit fewer glutamatergic neurons compared to control animals." [WB:WBPaper00053165, WB:WBPerson2987, WB:WBPerson3252] is_a: WBPhenotype:0002510 ! fewer neurons [Term] id: WBPhenotype:0002512 name: thermosensory behavior variant def: "Variations in behavior that is dependent upon the sensation of temperature, compared to control." [GO:0040040, WB:WBPerson2987] synonym: "thermosensory behavior abnormal" NARROW [] is_a: WBPhenotype:0000525 ! organism behavior variant [Term] id: WBPhenotype:0002513 name: thermotaxis variant def: "Any variation in the directed movement of a worm in response to a specific temperature gradient compared to control." [GO:0043052, WB:WBPerson2987] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant is_a: WBPhenotype:0002512 ! thermosensory behavior variant [Term] id: WBPhenotype:0002514 name: backing absent def: "Animals do not exhibit backward locomotion under conditions that induce backward locomotion in control animals." [WB:WBPerson261, WB:WBPerson2987] is_a: WBPhenotype:0001005 ! backward locomotion variant [Term] id: WBPhenotype:0004001 name: hermaphrodite mating variant def: "Any variation in the specific actions or reactions of a hermaphrodite during mating compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "hermaphrodite mating abnormal" NARROW [] is_a: WBPhenotype:0000647 ! copulation variant is_a: WBPhenotype:0000887 ! hermaphrodite behavior variant [Term] id: WBPhenotype:0004002 name: attraction signal defective def: "Animals exhibit defects in the production of the sensory signal to attract males." [WB:WBPaper00005109, WB:WBPerson557] is_a: WBPhenotype:0004015 ! pre male contact variant [Term] id: WBPhenotype:0004003 name: mate finding defective def: "Males exhibit defects in their response to the mate-finding cue." [WB:WBPaper00005109, WB:WBPerson557] synonym: "mate finding abnormal" NARROW [] synonym: "response to male attractant abnormal" RELATED [] is_a: WBPhenotype:0004005 ! pre hermaphrodite contact variant [Term] id: WBPhenotype:0004004 name: male response to contact defective def: "The inability of a male to respond properly to a potential mate after contact. In C.elegans, proper response includes apposing the ventral side of his tail to the hermaphrodite's body and swimming backward." [GO:0034606, WB:WBPaper00000392, WB:WBPaper00002109, WB:WBPerson557] is_a: WBPhenotype:0001414 ! male mating defective is_a: WBPhenotype:0004006 ! post hermaphrodite contact variant [Term] id: WBPhenotype:0004005 name: pre hermaphrodite contact variant def: "Males exhibit variations in mating behavior prior to contacting its mate compared to control." [WB:WBPerson557] synonym: "pre hermaphrodite contact abnormal" NARROW [] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0004006 name: post hermaphrodite contact variant def: "Males exhibit variations in mating behavior after contacting its mate compared to control." [WB:WBPerson557] synonym: "post hermaphrodite contact abnormal" NARROW [] is_a: WBPhenotype:0000648 ! male mating variant [Term] id: WBPhenotype:0004007 name: periodic spicule prodding defective def: "Males exhibit defects in the continuous prodding of spicule tips at the vulva prior to prolonged spicule insertion." [GO:0034609, WB:WBPerson2021, WB:WBPerson557] synonym: "spicule prodding defective" RELATED [] is_a: WBPhenotype:0000279 ! spicule insertion defective [Term] id: WBPhenotype:0004008 name: sustained spicule protraction defective def: "Males exhibit defects in the prolonged, tonic, spicule extrusion through the vulva prior to sperm transfer." [GO:0034609, WB:WBPerson2021, WB:WBPerson557] synonym: "prolonged spicule protraction defective" RELATED [] is_a: WBPhenotype:0002443 ! spicule protraction variant [Term] id: WBPhenotype:0004009 name: approximate vulval location variant def: "Any variation in the mating process that includes the male stopping at the vulva (usually after backing) compared to control. In C. elegans general vulva location (stopping) requires the hook sensillum." [WB:WBPaper00002109, WB:WBPerson2021, WB:WBPerson557] synonym: "approximate vulva location variant" RELATED [] synonym: "approximate vulval location abnormal" NARROW [] synonym: "general vulval location abnormal" RELATED [] is_a: WBPhenotype:0000649 ! vulva location variant [Term] id: WBPhenotype:0004010 name: precise vulval location variant def: "Any variation in the mating process that includes the male positioning his tail precisely over the vulva so that he may insert his spicules and ejaculate compared to control. In C. elegans precise vulva location (coordinating movement and tail positioning) requires the post cloacal sensillium and the spicules." [WB:WBPaper00002109, WB:WBPerson2021, WB:WBPerson557] synonym: "precise vulva location variant" RELATED [] synonym: "precise vulval location abnormal" NARROW [] is_a: WBPhenotype:0000649 ! vulva location variant [Term] id: WBPhenotype:0004011 name: sperm transfer cessation defective def: "Any variation in the retraction of spicules after all sperm that exit the seminal vesicle have been released compared to control." [WB:WBPaper00028400] is_a: WBPhenotype:0000284 ! sperm transfer defective [Term] id: WBPhenotype:0004012 name: sperm transfer continuation defective def: "Any variation in the continued movement of sperm through the vas deferens, exiting the cloaca, compared to control. In C. elegans, when all sperm that exit the seminal vesicle have been released, the spicules retract into the male." [WB:WBPaper00028400] is_a: WBPhenotype:0000284 ! sperm transfer defective [Term] id: WBPhenotype:0004013 name: sperm release defective def: "Any variation in the initial movement of sperm through the vas deferens, exiting the cloaca, compared to control." [WB:WBPaper00028400] is_a: WBPhenotype:0000284 ! sperm transfer defective [Term] id: WBPhenotype:0004014 name: post male contact variant def: "Any variation in the specific actions or reactions of a hermaphrodite after male contact during mating compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "post male contact abnormal" NARROW [] is_a: WBPhenotype:0004001 ! hermaphrodite mating variant [Term] id: WBPhenotype:0004015 name: pre male contact variant def: "Any variation in the specific actions or reactions of a hermaphrodite prior to male contact during mating compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "pre male contact abnormal" NARROW [] is_a: WBPhenotype:0004001 ! hermaphrodite mating variant [Term] id: WBPhenotype:0004016 name: dauer nictation behavior variant def: "Any variation in the behavior exhibited by dauer larva in which they crawl up upon the substrate and wave back and forth while standing on their tail compared to control. Nictation is often associated with the search for a new host." [WB:WBPaper00027241, WB:WBPerson2021, WB:WBPerson557] synonym: "dauer nictation behavior abnormal" NARROW [] is_a: WBPhenotype:0001001 ! dauer behavior variant [Term] id: WBPhenotype:0004017 name: locomotor coordination variant def: "Animals exhibit variations in their ability to maintain characteristic and effective locomotion compared to control." [WB:WBperson557] synonym: "locomotor coordination abnormal" NARROW [] is_a: WBPhenotype:0000643 ! locomotion variant is_a: WBPhenotype:0001206 ! movement variant [Term] id: WBPhenotype:0004018 name: sinusoidal movement variant def: "Any variation in the propagation of the contraction sine wave along the body while an animal travels from one location to another, compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "sinusoidal movement abnormal" NARROW [] is_a: WBPhenotype:0004017 ! locomotor coordination variant [Term] id: WBPhenotype:0004021 name: obsolete exaggerated body bends def: "OBSOLETE." [] is_obsolete: true replaced_by: WBPhenotype:0000664 [Term] id: WBPhenotype:0004022 name: amplitude of sinusoidal movement variant def: "Any variation in the extent of a vibratory movement (as a worm bend) measured from the mean position to an extreme position compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "amplitude of body bends variant" EXACT [] synonym: "amplitude of movement abnormal" NARROW [] is_a: WBPhenotype:0001703 ! body bend variant [Term] id: WBPhenotype:0004023 name: frequency of body bend variant alt_id: WBPhenotype:0002329 def: "Animals exhibit variations in the frequency of oscillations between adjacent body segments from that observed for control animals." [WB:WBPaper00024949, WB:WBPerson557, WB:WBPerson712] synonym: "bending frequency abnormal" NARROW [] synonym: "frequency of body bend abnormal" NARROW [] synonym: "frequency of sinusoidal movement variant" EXACT [] synonym: "temporal frequency of sinusoidal movement variant" EXACT [] is_a: WBPhenotype:0001703 ! body bend variant [Term] id: WBPhenotype:0004024 name: wavelength of movement variant def: "Any variation in the distance in the line of advance of a body wave from any one point to the next point of corresponding phase compared to control." [WB:WBPerson2021, WB:WBPerson557] synonym: "wavelength of movement abnormal" NARROW [] is_a: WBPhenotype:0004018 ! sinusoidal movement variant [Term] id: WBPhenotype:0004025 name: velocity of movement variant def: "Animals exhibit variations in the net velocity of an animal, that is, the maximum distance an animal traverses over an extended period of time, from that observed for control animals." [WB:WBPaper00032008, WB:WBPerson712] synonym: "velocity of movement abnormal" NARROW [] is_a: WBPhenotype:0000641 ! activity level variant [Term] id: WBPhenotype:0004026 name: nose touch variant def: "Variations in the ability of an animal to respond with characteristic backward movement after a nose-on collision with an object compared to control. In C. elegans, this phenotype is usually assayed via stroking with a hair or similar fiber on the anterior most tip of the animal." [WB:WBPaper00001705, WB:WBPerson557] synonym: "nose touch abnormal" NARROW [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0004027 name: plate tap reflex variant def: "Animals exhibit variations in their response to substrate vibration compared to control." [WB:WBPerson557] synonym: "plate tap reflex abnormal" NARROW [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0004028 name: slowing response on food variant def: "Animals exhibit variations in modulating their locomotory rate in response to its food , compared to control. Basal slowing response refers to when well-fed animals move more slowly in the presence of bacteria than in the absence of bacteria . Second , food-deprived control animals , when transferred to bacteria , display a dramatically enhanced slowing response that ensures that the animals do not leave their newly encountered source of food." [WB:WBPaper00004195, WB:WBPerson2021] synonym: "slowing response on food abnormal" NARROW [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0004029 name: sexually dimorphic mechanosensation variant def: "Any variation with respect to perception or response to mechanical stimuli in a sex dependent manner compared to control animals." [WB:WBPerson2021, WB:WBPerson557] synonym: "sexually dimorphic mechanosensation abnormal" NARROW [] is_a: WBPhenotype:0000315 ! mechanosensation variant [Term] id: WBPhenotype:0004030 name: male response to hermaphrodite variant def: "Any variation in the response by the male to a hermaphrodite after initial contact following mate finding compared to control. In C. elegans the male stops forward locomotion, presses the ventral side of his tail against his partner's body, and begins moving backward along the hermaphrodite. Male response behavior is initiated when sensory neurons located in the rays of his tail contact a potential mate." [GO:0034606, WB:WBPaper00002109, WB:WBPerson2021, WB:WBPerson557] synonym: "male response to hermaphrodite abnormal" NARROW [] synonym: "Rsp" BROAD [] is_a: WBPhenotype:0004029 ! sexually dimorphic mechanosensation variant [Term] id: WBPhenotype:0004031 name: mate searching variant def: "Any variation in the ability of an animal to search for a mate compared to control. In C. elegans, this is defined by failure of the leaving assay." [WB:WBPaper00024428] synonym: "mate searching abnormal" NARROW [] is_a: WBPhenotype:0004005 ! pre hermaphrodite contact variant [Term] id: WBPhenotype:0006001 name: squashed vulva def: "The apparent partial collapse of the vulval invagination and the elongation of central vulva cells often leading to a flattened appearance." [WB:WBPaper00003405] synonym: "Sqv" BROAD [] is_a: WBPhenotype:0000510 ! vulval invagination variant L4 [Term] id: WBPhenotype:0008001 name: embryonic cell fate specification variant def: "Any variation in the processes that govern acquisition of particular cell fates in the embryo, from the time of zygote formation until hatching compared to control." [WB:kmva] synonym: "embryonic cell fate specification abnormal" NARROW [] is_a: WBPhenotype:0000216 ! cell fate specification variant is_a: WBPhenotype:0000749 ! embryonic development variant [Term] id: WBPhenotype:0008002 name: embryonic somatic cell fate specification variant def: "Any variation in the processes that govern acquisition of somatic cell fates in the embryo, from the time of zygote formation until hatching compared to control." [WB:kmva] synonym: "embryonic somatic cell fate specification abnormal" NARROW [] is_a: WBPhenotype:0008001 ! embryonic cell fate specification variant [Term] id: WBPhenotype:0008003 name: odorant imprinting variant def: "Any variation in a learned olfactory response whereby exposure of animals to odorants during specific developmental times or physiological states results in a lasting memory compared to control. In control animals, this imprinting determines the animal's behavior upon encountering the same odorant at a later time." [WB:WBPaper00026662, WB:WBPerson1843] synonym: "odorant imprinting abnormal" NARROW [] synonym: "olfactory imprinting abnormal" EXACT [] is_a: WBPhenotype:0001048 ! odorant chemosensory response variant [Term] id: WBPhenotype:0010001 name: cell growth variant def: "Variations in the process(es) by which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter compared to control." [GO:0016049, WB:rk] subset: phenotype_slim_wb synonym: "cell growth abnormal" NARROW [] is_a: WBPhenotype:0000030 ! growth variant is_a: WBPhenotype:0000536 ! cell physiology variant [Term] id: WBPhenotype:0010002 name: cell organization biogenesis variant def: "Variations in the process(es) involved in the assembly and arrangement of cell structures compared to control." [GO:0016043, WB:rk] subset: phenotype_slim_wb synonym: "cell organization biogenesis abnormal" NARROW [] is_a: WBPhenotype:0002089 ! cell component morphology variant [Term] id: WBPhenotype:0010003 name: cell corpse appearance delayed def: "Animals exhibit a decreased rate programmed cell death pathway leading to the destruction of the cell, viewable in its terminally dismanteled form of a cell corpse, compared to that observed for control cells." [WB:rk, WB:WBPerson712] is_a: WBPhenotype:0000185 ! apoptosis protracted is_a: WBPhenotype:0000438 ! retarded heterochronic variations [Term] id: WBPhenotype:0010004 name: cell corpse degradation variant def: "Variations in the process(es) that constitute cell corpse degradation within the engulfing cell compared to control." [WB:rk] synonym: "cell corpse degradation abnormal" NARROW [] xref: WB:rk is_a: WBPhenotype:0000730 ! apoptosis variant [Term] id: WBbt:0000100 name: C. elegans Cell and Anatomy namespace: worm_anatomy [Term] id: WBbt:0000101 name: Lineage namespace: worm_anatomy def: "pedigree of nuclei, lineal descent from P0, the founder." [WB:RYNL] xref: WB:RYNL is_a: WBbt:0000100 ! C. elegans Cell and Anatomy [Term] id: WBbt:0003670 name: gland cell namespace: worm_anatomy def: "A variety of very different cell types which share cytoplasmic features (such as large membrane-bound granules) that suggest a role in secretion, thus termed gland cells." [WBPaper:00038216] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0003672 name: epithelial cell namespace: worm_anatomy def: "cell of epithelium, the layer of cells that cover the external surface of an organism as well as forming an inner lining between the tissues and organs of that organism and the external environment. In C. elegans epithelial cells include epithelium of the alimentary tract, intestinal cells, hypodermis, interfacial cells and somatic gonad cells." [WB:rynl, WBPaper:00038216] synonym: "epithelium" RELATED [] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005730 ! epithelial system [Term] id: WBbt:0003673 name: marginal cell namespace: worm_anatomy def: "a type of pharyngeal cell that connects basement membrane to the apices of triangle-shaped pharyngeal lumen." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005460 ! pharyngeal cell is_a: WBbt:0005754 ! interfacial epithelial cell [Term] id: WBbt:0003675 name: muscle cell namespace: worm_anatomy def: "contractile cell that makes up muscle tissue." [WB:rynl] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005737 ! muscular system [Term] id: WBbt:0003679 name: neuron namespace: worm_anatomy alt_id: WBbt:0005512 alt_id: WBbt:0005516 def: "Major cell type of nervous tissue, specialized for transmission of information in the form of patterns of impulses." [ISBN:0140512888] comment: LINKOUT::WORMATLAS:: synonym: "neurone" RELATED [] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005735 ! nervous system [Term] id: WBbt:0003681 name: pharynx namespace: worm_anatomy def: "the feeding organ, a neuro-muscular pump in the head of the animal, used to ingest food, bacteria suspended in liquid, filter them out, grind them up and transport posteriorly into the instestine." [WB:rynl] comment: LINKOUT::WORMATLAS:: synonym: "esophagus" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0003760 ! organ relationship: part_of WBbt:0005743 ! digestive tract relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0003711 name: metacorpus namespace: worm_anatomy def: "posterior segment of pharyngeal corpus." [WB:rynl] is_a: WBbt:0005789 ! pharyngeal segment relationship: part_of WBbt:0003733 ! corpus [Term] id: WBbt:0003732 name: terminal bulb namespace: worm_anatomy def: "the last, posterior bulb of the pharynx." [WB:rynl] is_a: WBbt:0005789 ! pharyngeal segment [Term] id: WBbt:0003733 name: corpus namespace: worm_anatomy def: "the first, anterior bulb of the pharynx." [WB:rynl] is_a: WBbt:0005789 ! pharyngeal segment [Term] id: WBbt:0003734 name: isthmus namespace: worm_anatomy def: "a section of pharynx of which muscles contract with a peristaltic motion." [WB:rynl] is_a: WBbt:0005789 ! pharyngeal segment [Term] id: WBbt:0003760 name: organ namespace: worm_anatomy def: "a collection of cells or cell groups that collectively perform a function" [WB:rynl] is_a: WBbt:0005766 ! Anatomy [Term] id: WBbt:0003810 name: C namespace: worm_anatomy def: "Embryonic founder cell" [ISBN:0-87969-307-X] synonym: "lineage name: P0.ppa" RELATED [] is_a: WBbt:0008447 ! somatic blastomere [Term] id: WBbt:0003825 name: B cell namespace: worm_anatomy def: "Rectal cell, postembryonic blast cell in male" [ISBN:0-87969-307-X] synonym: "lineage name: ABprppppapa" RELATED [] is_a: WBbt:0006783 ! blast cell is_a: WBbt:0008182 ! rectal epithelial cell [Term] id: WBbt:0004015 name: AB namespace: worm_anatomy def: "Embryonic founder cell" [ISBN:0-87969-307-X] synonym: "AB blastomere" RELATED [] synonym: "lineage name: P0.a" RELATED [] is_a: WBbt:0008447 ! somatic blastomere [Term] id: WBbt:0004017 name: Cell namespace: worm_anatomy alt_id: WBbt:0003730 def: "a cellular object that consists of subcellular components, expresses genes or functions." [WB:rynl] synonym: "Cell type" RELATED [] is_a: WBbt:0000100 ! C. elegans Cell and Anatomy [Term] id: WBbt:0004112 name: PHso1L namespace: worm_anatomy alt_id: WBbt:0007001 def: "Post-embryonic cell of pedigree TL.paa, phasmid sockets." [ISBN:0-87969-307-X, WB:rynl] synonym: "lineage name: TL.paa" RELATED [] synonym: "TL.paa" EXACT [] is_a: WBbt:0007030 ! post-embryonic cell is_a: WBbt:0008410 ! phasmid socket cell relationship: part_of WBbt:0005098 ! lumbar ganglion left relationship: part_of WBbt:0005431 ! phasmid left sensillum [Term] id: WBbt:0004216 name: Z1.apppaaaa namespace: worm_anatomy alt_id: WBbt:0005627 def: "Anterior spermathecae" [ISBN:0-87969-307-X] synonym: "gon_herm_spth_A" RELATED [] synonym: "lineage name: Z1.apppaaaa" RELATED [] xref: WB:rynl is_a: WBbt:0007816 ! spermathecal cell relationship: part_of WBbt:0005368 ! anterior spermatheca [Term] id: WBbt:0004421 name: Psub4 namespace: worm_anatomy def: "Embryonic founder cell of germ line" [ISBN:0-87969-307-X, WB:rynl] synonym: "lineage name: P0.pppp" RELATED [] synonym: "P4" RELATED [] synonym: "P4'" RELATED [] is_a: WBbt:0008448 ! germline blastomere [Term] id: WBbt:0004422 name: P0 namespace: worm_anatomy def: "Single cell zygote" [ISBN:0-87969-307-X] synonym: "lineage name: Z" RELATED [] is_a: WBbt:0008448 ! germline blastomere [Term] id: WBbt:0004432 name: vulval cell namespace: worm_anatomy def: "Hermaphrodite vulva" [ISBN:0-87969-307-X] synonym: "lineage name: P7.pppp" RELATED [] is_a: WBbt:0008289 ! vulval syncytia precursor [Term] id: WBbt:0004458 name: MS namespace: worm_anatomy def: "Embryonic founder cell" [ISBN:0-87969-307-X] synonym: "lineage name: P0.paa" RELATED [] is_a: WBbt:0007028 ! embryonic cell [Term] id: WBbt:0004489 name: M cell namespace: worm_anatomy alt_id: WBbt:0007204 def: "Postembryonic mesoblast of pedigree MSapaapp." [ISBN:0-87969-307-X, WB:rynl] synonym: "lineage name: MSapaapp" RELATED [] synonym: "MSapaapp" EXACT [] is_a: WBbt:0006783 ! blast cell [Term] id: WBbt:0004499 name: K cell namespace: worm_anatomy def: "Rectal cell, postembryonic blast cell" [ISBN:0-87969-307-X] synonym: "lineage name: ABplpapppaa" RELATED [] is_a: WBbt:0006783 ! blast cell is_a: WBbt:0008182 ! rectal epithelial cell [Term] id: WBbt:0004522 name: anchor cell namespace: worm_anatomy def: "anchor cell, induces vulva, part of hermaphrodite gonad." [ISBN:0-87969-307-X] synonym: "AC" RELATED [] synonym: "gon_herm_anch" RELATED [] synonym: "lineage name: Z1.ppp/Z4.aaa" RELATED [] is_a: WBbt:0007815 ! hermaphrodite somatic gonadal cell [Term] id: WBbt:0004534 name: excretory socket cell namespace: worm_anatomy def: "Excretory socket cell, links duct to hypodermis" [ISBN:0-87969-307-X] synonym: "exc socket" RELATED [] synonym: "excretory pore cell" RELATED [] synonym: "lineage name: G2.p" RELATED [] is_a: WBbt:0005754 ! interfacial epithelial cell relationship: part_of WBbt:0005736 ! excretory system [Term] id: WBbt:0004540 name: excretory duct cell namespace: worm_anatomy def: "cell that forms the duct of the excretory system." [ISBN:0-87969-307-X] synonym: "exc duct" RELATED [] synonym: "lineage name: ABplpaaaapa" RELATED [] is_a: WBbt:0005754 ! interfacial epithelial cell relationship: part_of WBbt:0005736 ! excretory system [Term] id: WBbt:0004578 name: Y cell namespace: worm_anatomy def: "Rectal cell at hatching, becomes PDA in hermaphrodite, postembryonic blast cell in male" [ISBN:0-87969-307-X] synonym: "lineage name: ABprpppaaaa" RELATED [] synonym: "postembryonic C cell" RELATED [] is_a: WBbt:0006783 ! blast cell is_a: WBbt:0008182 ! rectal epithelial cell relationship: part_of WBbt:0005800 ! rectal epithelium [Term] id: WBbt:0004583 name: W cell namespace: worm_anatomy def: "Postembryonic neuroblast, analogous to Pn.a cells, also known as P0." [ISBN:0-87969-307-X, WBpaper:00038216] synonym: "lineage name: ABprapaapa" RELATED [] is_a: WBbt:0006783 ! blast cell [Term] id: WBbt:0004778 name: H0L namespace: worm_anatomy def: "Seam hypodermal cell" [ISBN:0-87969-307-X] synonym: "lineage name: ABplaaappa" RELATED [] is_a: WBbt:0005753 ! seam cell is_a: WBbt:0007028 ! embryonic cell [Term] id: WBbt:0004780 name: G1 namespace: worm_anatomy def: "Postembryonic blast cell, excretory socket in embryo" [ISBN:0-87969-307-X] synonym: "lineage name: ABprpaaaapa" RELATED [] is_a: WBbt:0007028 ! embryonic cell is_a: WBbt:0008599 ! G cell [Term] id: WBbt:0004799 name: F cell namespace: worm_anatomy def: "Rectal cell, blast cell in male" [ISBN:0-87969-307-X] synonym: "lineage name: ABplppppapp" RELATED [] is_a: WBbt:0006783 ! blast cell is_a: WBbt:0008182 ! rectal epithelial cell relationship: part_of WBbt:0005800 ! rectal epithelium [Term] id: WBbt:0004804 name: E namespace: worm_anatomy def: "Embryonic founder cell" [ISBN:0-87969-307-X] synonym: "lineage name: P0.pap" RELATED [] is_a: WBbt:0005208 ! E lineage cell is_a: WBbt:0007028 ! embryonic cell [Term] id: WBbt:0004873 name: D namespace: worm_anatomy def: "Embryonic founder cell" [ISBN:0-87969-307-X] synonym: "lineage name: P0.pppa" RELATED [] is_a: WBbt:0008447 ! somatic blastomere [Term] id: WBbt:0004942 name: U cell namespace: worm_anatomy def: "Rectal cell, postembryonic blast cell in male" [ISBN:0-87969-307-X] synonym: "lineage name: ABplppppapa" RELATED [] synonym: "postembryonic E cell" RELATED [] is_a: WBbt:0006783 ! blast cell is_a: WBbt:0008182 ! rectal epithelial cell relationship: part_of WBbt:0005800 ! rectal epithelium [Term] id: WBbt:0004946 name: TL namespace: worm_anatomy def: "Tail seam hypodermal cell, postembryonic blast cell, functions as phasmid socket in L1" [ISBN:0-87969-307-X] synonym: "lineage name: ABplappppp" RELATED [] is_a: WBbt:0005753 ! seam cell is_a: WBbt:0008409 ! tail precursor cell [Term] id: WBbt:0005022 name: Z1.paapp male namespace: worm_anatomy def: "Seminal vesicle, outer; cell of pedigree Z1.paapp in male." [ISBN:0-87969-307-X] comment: alternative nucleus Z4.aaapp male nucleus synonym: "gon_male_sves" RELATED [] synonym: "lineage name: Z1.paapp" RELATED [] is_a: WBbt:0007030 ! post-embryonic cell is_a: WBbt:0008249 ! gon_male_sves Z1 or Z4 relationship: part_of WBbt:0006870 ! seminal vesicle [Term] id: WBbt:0005024 name: gon_male_sves namespace: worm_anatomy def: "Seminal vesicle, inner" [ISBN:0-87969-307-X] synonym: "lineage name: Z4.appp" RELATED [] is_a: WBbt:0008189 ! gon male sves relationship: part_of WBbt:0006870 ! seminal vesicle [Term] id: WBbt:0005062 name: linker cell namespace: worm_anatomy def: "male gonad cell, leads gonad during morphogenesis and initiates union with cloaca" [ISBN:0-87969-307-X] synonym: "gon_male_link" RELATED [] synonym: "lineage name: Z1.paa/Z4.aaa" RELATED [] is_a: WBbt:0008209 ! male gonadal cell relationship: part_of WBbt:0006794 ! male gonad [Term] id: WBbt:0005098 name: lumbar ganglion left namespace: worm_anatomy def: "lumbar ganglion, left side." [WB:rynl] is_a: WBbt:0005830 ! lumbar ganglion [Term] id: WBbt:0005107 name: labial sensillum namespace: worm_anatomy def: "sensillum of inner or outer labial." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0005116 name: inner labial sensillum namespace: worm_anatomy def: "sensory organ of the inner labial." [WB:rynl] is_a: WBbt:0005107 ! labial sensillum [Term] id: WBbt:0005175 name: gonad namespace: worm_anatomy def: "organ producing either sperm or ova." [ISBN:0140512888] is_a: WBbt:0003760 ! organ relationship: part_of WBbt:0005744 ! reproductive tract relationship: part_of WBbt:0005747 ! reproductive system [Term] id: WBbt:0005178 name: hermaphrodite gonad namespace: worm_anatomy def: "organ in hermaphrodite animal that produces both ova and sperm." [WB:rynl] comment: LINKOUT::WORMATLAS:: synonym: "ovotestis" RELATED [] is_a: WBbt:0005175 ! gonad is_a: WBbt:0005758 ! hermaphrodite-specific [Term] id: WBbt:0005189 name: ganglion namespace: worm_anatomy def: "A cluster of nerve cells and associated glial cells (nuclear location)." [WB:rynl] xref: WB:rynl is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0005735 ! nervous system [Term] id: WBbt:0005208 name: E lineage cell namespace: worm_anatomy def: "A cell that is the E blast cell or is a lineal descendant of E." [WB:rynl] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0005237 name: touch receptor neuron namespace: worm_anatomy alt_id: WBbt:0005235 alt_id: WBbt:0005239 def: "neurons that sense body touch, have specialized microtubules in processes." [WB:rynl] synonym: "microtubule cell" RELATED [] synonym: "touch cell" RELATED [] synonym: "touch receptor" RELATED [] is_a: WBbt:0008431 ! mechanosensory neuron [Term] id: WBbt:0005255 name: buccal cavity namespace: worm_anatomy def: "cuticle-lined lumenal region surrounded by pharyngeal epithelium, situated at the anterior end of pharynx." [WB:rynl, WBPaper:00038216] is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005748 ! alimentary system relationship: part_of WBbt:0008374 ! stoma [Term] id: WBbt:0005312 name: copulatory spicule namespace: worm_anatomy is_a: WBbt:0005757 ! male-specific [Term] id: WBbt:0005319 name: spermatheca namespace: worm_anatomy def: "an accordion-like tube that contains sperm and is the site of oocyte fertilization." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005758 ! hermaphrodite-specific relationship: part_of WBbt:0005178 ! hermaphrodite gonad [Term] id: WBbt:0005342 name: uterine muscle namespace: worm_anatomy def: "muscle lining of the uterine wall." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005758 ! hermaphrodite-specific is_a: WBbt:0005781 ! smooth muscle relationship: part_of WBbt:0008587 ! egg-laying apparatus [Term] id: WBbt:0005364 name: anus namespace: worm_anatomy alt_id: WBbt:0005335 def: "openning of the rectum" [WB:rynl] synonym: "anus interface" RELATED [] xref: WB:rynl is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0005368 name: anterior spermatheca namespace: worm_anatomy def: "spermatheca in anterior gonad arm." [WB:rynl] synonym: "gon_herm_spth_A" RELATED [] is_a: WBbt:0005319 ! spermatheca relationship: part_of WBbt:0005374 ! anterior gonad arm [Term] id: WBbt:0005374 name: anterior gonad arm namespace: worm_anatomy def: "anterior lobe of the bi-lobbed hermaphrodite gonad." [WB:rynl] is_a: WBbt:0005729 ! Tissue relationship: part_of WBbt:0005178 ! hermaphrodite gonad [Term] id: WBbt:0005391 name: amphid sensillum namespace: worm_anatomy def: "Bilaterally symmetric chemosensory specializations located on the two lateral lips in the head involving a large hole in the anterior cuticle." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "amphid" RELATED [] is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0005394 name: amphid neuron namespace: worm_anatomy alt_id: WBbt:0005390 def: "neuron of the amphid sensillum" [WB:rynl] synonym: "amphid sensory neuron" RELATED [] is_a: WBbt:0006816 ! ciliated neuron relationship: part_of WBbt:0005391 ! amphid sensillum [Term] id: WBbt:0005409 name: motor neuron namespace: worm_anatomy def: "neuron making synapse on an effector (muscle, gland)." [WB:rynl] synonym: "motoneuron" RELATED [] is_a: WBbt:0003679 ! neuron [Term] id: WBbt:0005425 name: phasmid sensillum namespace: worm_anatomy def: "bilateral sensory organ in the tail, similar to the amphid in the head." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0005431 name: phasmid left sensillum namespace: worm_anatomy def: "the left one in the pair of phasmid sensilla." [WB:rynl] is_a: WBbt:0005425 ! phasmid sensillum [Term] id: WBbt:0005451 name: pharyngeal muscle cell namespace: worm_anatomy def: "type of cells that make up muscle layers in the pharynx." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005460 ! pharyngeal cell is_a: WBbt:0005820 ! alimentary muscle [Term] id: WBbt:0005460 name: pharyngeal cell namespace: worm_anatomy is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0003681 ! pharynx [Term] id: WBbt:0005501 name: outer labial sensillum namespace: worm_anatomy is_a: WBbt:0005107 ! labial sensillum [Term] id: WBbt:0005671 name: AWB namespace: worm_anatomy def: "Neuron class of two ciliated neurons with flattened, sheet-like endings that are associated with the sheath cells of the amphid sensilla" [WB:Paper00000938] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005394 ! amphid neuron is_a: WBbt:0005839 ! odorsensory neuron [Term] id: WBbt:0005729 name: Tissue namespace: worm_anatomy def: "Association of cells with a common embryological origin or pathway and similar structure and function. Usually, cells of a tissue are contiguous at cell membranes and may be of one or more types. Tissues aggregate to form organs." [ISBN:0-14-051288-8, WB:rynl] xref: CARO:0000043 xref: ISBN:0-14-051288-8 xref: WB:rynl is_a: WBbt:0005763 ! Functional system [Term] id: WBbt:0005730 name: epithelial system namespace: worm_anatomy def: "lies within the body wall, in close relation to nervous system and excretory system." [WBPaper:00038216] xref: WB:rynl is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005732 name: extracellular component namespace: worm_anatomy def: "Anatomical structures that exist outside of cells; non-cellular." [WB:rynl] xref: CARO:0000040 xref: WB:pws is_a: WBbt:0005766 ! Anatomy [Term] id: WBbt:0005733 name: hypodermis namespace: worm_anatomy def: "Epidermal layer." [WB:pws] comment: LINKOUT::WORMATLAS:: synonym: "epidermis" RELATED [] xref: CARO:0000066 xref: WB:pws is_a: WBbt:0005729 ! Tissue relationship: part_of WBbt:0005730 ! epithelial system [Term] id: WBbt:0005735 name: nervous system namespace: worm_anatomy def: "Complement of nervous tissue (neurones, nerves, receptors and support cells) serving to detect, relay and coordinate information about an animal's internal and external environments and to initiate and integrate its effector responses and activities." [ISBN:0-14-051288-8, WB:rynl] comment: LINKOUT::WORMATLAS:: xref: WB:rynl is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005736 name: excretory system namespace: worm_anatomy is_a: WBbt:0006850 ! excretory secretory system [Term] id: WBbt:0005737 name: muscular system namespace: worm_anatomy def: "the organ system that allows the animal move, includes all muscles." [WB:rynl] is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005738 name: body region namespace: worm_anatomy def: "region of the body by which tissues, cells or cell parts are classified" [WBPaper:00038216] is_a: WBbt:0005766 ! Anatomy [Term] id: WBbt:0005739 name: head namespace: worm_anatomy def: "anterior-most body region containing the pharynx." [WB:rynl] is_a: WBbt:0005738 ! body region [Term] id: WBbt:0005740 name: midbody namespace: worm_anatomy def: "body region posterior to the head and anterior to the tail" [WB:rynl] is_a: WBbt:0005738 ! body region [Term] id: WBbt:0005741 name: tail namespace: worm_anatomy def: "posterior region, from rectum to the end" [WB:rynl] is_a: WBbt:0005738 ! body region [Term] id: WBbt:0005743 name: digestive tract namespace: worm_anatomy def: "inner tube of two concentric tubes that make up the body" [WB:rynl] is_a: WBbt:0005738 ! body region [Term] id: WBbt:0005744 name: reproductive tract namespace: worm_anatomy is_a: WBbt:0005738 ! body region [Term] id: WBbt:0005745 name: pseudocoelom namespace: worm_anatomy def: "A fluid-filled space enclosed on the outside by the basal laminae of the bodywall tissues, principally those of the bodywall muscles and the hypodermis. Within this space the digestive tract and reproductive tract lie separately, each enclosed by its own basal lamina. Intercellular signals, nutrients and waste products can travel between all tissues bordering this space." [WBPaper:00038216] synonym: "body cavity" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005732 ! extracellular component is_a: WBbt:0005738 ! body region relationship: part_of WBbt:0005749 ! coelomic system [Term] id: WBbt:0005746 name: Organ system namespace: worm_anatomy def: "intergrated group of organs, performing one or more unified functions." [ISBN:0-14-051288-8] xref: ISBN:0-14-051288-8 is_a: WBbt:0005763 ! Functional system [Term] id: WBbt:0005747 name: reproductive system namespace: worm_anatomy is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005748 name: alimentary system namespace: worm_anatomy is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005749 name: coelomic system namespace: worm_anatomy is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0005750 name: socket cell namespace: worm_anatomy def: "An interfacial epithelial cell which forms a distal cap on a sheath cell to bind the sheath of a sensillum to the neighboring hypodermis, via adherens junctions. There is often a narrow opening through the socket from the exterior into the sheath channel, allowing ciliated dendrites to be exposed to the external environment. The socket cell functions similarly to a glial cell." [WBPaper:00038216] is_a: WBbt:0005754 ! interfacial epithelial cell is_a: WBbt:0005762 ! accessory cell [Term] id: WBbt:0005751 name: coelomocyte namespace: worm_anatomy def: "A free-floating spherical cell lying in the pseudocoelomic cavity of larvae and adult C. elegans which can endocytose many compounds, possibly for immune surveillance. There are six coelomocytes in adult hermaphrodites, and they display prominent cytoplasmic inclusions and vacuoles." [WBPaper:00038216] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005749 ! coelomic system [Term] id: WBbt:0005752 name: Sex specific entity namespace: worm_anatomy def: "anatomical or cell objects that exist in only one, male or hermaphrodite, sex." [WB:rynl] is_a: WBbt:0005763 ! Functional system [Term] id: WBbt:0005753 name: seam cell namespace: worm_anatomy def: "a group of hypodermal cells that lie along the apical midline of the hypodermis, at the extreme left and right sides between nose and tail" [WB:rynl, WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "lateral hypodermis" RELATED [] is_a: WBbt:0007846 ! hypodermal cell [Term] id: WBbt:0005754 name: interfacial epithelial cell namespace: worm_anatomy def: "an epithelial cell that serves either to bridge two neighboring epithelial tissues or to form an opening in the epithelium." [WB:rynl, WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "interfacial cell" RELATED [] synonym: "interfacial epithelium" RELATED [] synonym: "transitional epithelium" RELATED [] is_a: WBbt:0003672 ! epithelial cell [Term] id: WBbt:0005755 name: cuticle namespace: worm_anatomy def: "a rigid external coating which is secreted by the hypodermis, seam and some transitional epithelial cells which covers the outer body, the major openings into the body cavity from the exterior, and two large sensory bristles, the male spicules. The cuticle of the spicules, the hook, and of some portions of the spicule channels is especially rigid and is probably sclerotized. Similar sclerotic features are occasionally noted in the ventral surface of the male tail fan." [WBPaper:00038216] synonym: "exoskeleton" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005730 ! epithelial system [Term] id: WBbt:0005756 name: basal lamina namespace: worm_anatomy synonym: "basement membrane" RELATED [] synonym: "ECM" RELATED [] synonym: "extracellular matrix" RELATED [] synonym: "lamina" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005730 ! epithelial system [Term] id: WBbt:0005757 name: male-specific namespace: worm_anatomy def: "cells or anatomical parts specific to the male sex" [WB:rynl] is_a: WBbt:0005752 ! Sex specific entity relationship: part_of WBbt:0007850 ! male [Term] id: WBbt:0005758 name: hermaphrodite-specific namespace: worm_anatomy def: "cells or anatomical parts specific to the hermaphrodite sex" [WB:rynl] is_a: WBbt:0005752 ! Sex specific entity relationship: part_of WBbt:0007849 ! hermaphrodite [Term] id: WBbt:0005759 name: sensory neuron namespace: worm_anatomy def: "neuron that senses external stimuli and transduce them to signals internal to the organism." [WB:rynl] comment: WormAtlas NeuroTABLE 1 classification used. is_a: WBbt:0003679 ! neuron [Term] id: WBbt:0005760 name: somatic nervous system namespace: worm_anatomy def: "Part of the nervous system that lies completely outside the pharynx." [WB:rynl] relationship: part_of WBbt:0005735 ! nervous system [Term] id: WBbt:0005762 name: accessory cell namespace: worm_anatomy def: "cells that support sensory neurons, similar to glial cells in vertebrates. A category which collectively refers to socket cells, sheath cells, and structural cells, or their processes. All of these cells extend long processes which serve a supporting role, rather like glia, to form a protective environment around sensory neuron endings. In addition, some of these cells extend broad thin processes from their somata which wrap around neuronal ganglia, again in a glia-like fashion" [WB:rynl, WBPaper:00038216] synonym: "support cell" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005735 ! nervous system [Term] id: WBbt:0005763 name: Functional system namespace: worm_anatomy def: "concerns with functional aspects of cells and anatomical parts" [WB:rynl] is_a: WBbt:0000100 ! C. elegans Cell and Anatomy [Term] id: WBbt:0005766 name: Anatomy namespace: worm_anatomy alt_id: WBbt:0005764 def: "entity of anatomical origin that is either entirely acellular or is a collection of cells and acellular parts." [WB:rynl] synonym: "Space" RELATED [] is_a: WBbt:0000100 ! C. elegans Cell and Anatomy [Term] id: WBbt:0005767 name: pharyngeal-intestinal valve namespace: worm_anatomy alt_id: WBbt:0005435 def: "A group of six equivalent cells forms a tightly constructed 'valve' that links the posterior bulb of the pharynx to the anterior four cells of the intestine. These six cells comprise a small epithelial channel with a cuticular lining in continuity with the pharyngeal cuticle and link the lumen of the pharynx to the large lumen of the anterior intestine." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "cardia" RELATED [] synonym: "esophago-intestinal valve" RELATED [] synonym: "pharyngeal valve" RELATED [] synonym: "pharyngo-intestinal valve" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0005768 name: axis namespace: worm_anatomy def: "spatial axis" [WB:rynl] is_a: WBbt:0005766 ! Anatomy [Term] id: WBbt:0005772 name: intestine namespace: worm_anatomy def: "A chain of very large cuboidal cells forming a wide central lumen in which food arrives from the posterior pharynx, is digested, and from which waste products proceed to the rectum. Intestinal rings form in groups of two and four cells surrounding the common lumen; thus the epithelium is only one cell deep at any point, with neighboring cells firmly secured to their neighbors by apical adherens junctions. These cells have very large nuclei and many large vacuoles, yolk granules, and other inclusions; the latter increase in number and electron density as the animal ages." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "gut" RELATED [] synonym: "mesenteron" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0003760 ! organ relationship: part_of WBbt:0005743 ! digestive tract relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0005773 name: rectum namespace: worm_anatomy def: "The passage from the posterior intestine, from the rectal valve to the opening to the exterior." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005758 ! hermaphrodite-specific relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0005774 name: cloaca namespace: worm_anatomy def: "a feature of the male tail, caudal to the proctodeum, where the vas deferens and the intestine open out jointly near the tail tip to discharge their contents." [WBPaper:00038216] is_a: WBbt:0005757 ! male-specific relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0005775 name: excretory canal namespace: worm_anatomy def: "Four processes (canals) of the excretory canal cell each contain a central collecting lumen which feeds to a central lumenal canal in the cell body; the central canal forms a specialized membrane to release fluids into the excretory duct. These five canals form a continuous H-shaped channel which extends almost the full length of the body, generally in contact with the lateral hypodermis and the pseudocoelom." [WBPaper:00038216] synonym: "canal" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005812 ! excretory cell [Term] id: WBbt:0005776 name: excretory gland cell namespace: worm_anatomy def: "gland cell of the secretory-excretory system, sends processes to ring, opens into excretory duct." [ISBN:0-87969-307-X, WB:rynl] synonym: "exc gl" RELATED [] is_a: WBbt:0003670 ! gland cell is_a: WBbt:0008074 ! syncytium relationship: part_of WBbt:0005736 ! excretory system [Term] id: WBbt:0005779 name: striated muscle namespace: worm_anatomy is_a: WBbt:0003675 ! muscle cell relationship: part_of WBbt:0005813 ! body wall musculature [Term] id: WBbt:0005780 name: non-striated muscle namespace: worm_anatomy comment: LINKOUT::WORMATLAS:: is_a: WBbt:0003675 ! muscle cell [Term] id: WBbt:0005781 name: smooth muscle namespace: worm_anatomy is_a: WBbt:0005780 ! non-striated muscle is_a: WBbt:0007810 ! body muscle cell [Term] id: WBbt:0005784 name: germ line namespace: worm_anatomy def: "cell line which early in development becomes differentiated from the remaining somatic cell line, and alone has the potential to undergo meiosis and form gametes." [ISBN:0140512888] comment: LINKOUT::WORMATLAS:: synonym: "germline" RELATED [] is_a: WBbt:0004017 ! Cell is_a: WBbt:0005729 ! Tissue relationship: part_of WBbt:0005747 ! reproductive system [Term] id: WBbt:0005785 name: somatic gonad namespace: worm_anatomy def: "The components of the gonad that are separate from the germline proper. In hermaphrodite, these include five tissues which are all derived from the somatic primordium : the distal tip cells, the gonadal sheath, the spermatheca, the spermatheca-uterine valve (sp-ut) and the uterus." [WB:rynl, WBPaper:00038216] synonym: "somatic germline" RELATED [] is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0005175 ! gonad [Term] id: WBbt:0005786 name: muscle of the reproductive system namespace: worm_anatomy is_a: WBbt:0003675 ! muscle cell relationship: part_of WBbt:0005747 ! reproductive system [Term] id: WBbt:0005789 name: pharyngeal segment namespace: worm_anatomy is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0003681 ! pharynx [Term] id: WBbt:0005792 name: intestinal cell namespace: worm_anatomy def: "any of 20 large epithelial cells which form a tube and are mostly situated as bilaterally symmetric pairs around the tubular lumen. Each of these cell pairs forms an intestinal ring ( II-IX int rings). The most anterior intestinal ring (int ring I), however, is made of four cells. Intestinal cells contain large nuclei with large nucleoli and numerous autofluorescent granules in their cytoplasm." [WBPaper:00038216] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005772 ! intestine [Term] id: WBbt:0005800 name: rectal epithelium namespace: worm_anatomy def: "epithelium connecting intestine and anus." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005733 ! hypodermis relationship: part_of WBbt:0005773 ! rectum [Term] id: WBbt:0005811 name: neuronal sheath cell namespace: worm_anatomy def: "a structural (glial) cell which forms an specialized environment surrounding the sensory ending(s) of one or more neurons; sometimes accompanied by a more distal socket cell. In early development of the sensory nerves and of the nerve ring some sheath cells (cephalics and labials) may also provide a substrate for axon guidance" [WBPaper:00038216] synonym: "pocket cell" RELATED [] xref: WBPaper:00038216 is_a: WBbt:0005754 ! interfacial epithelial cell is_a: WBbt:0005762 ! accessory cell [Term] id: WBbt:0005812 name: excretory cell namespace: worm_anatomy alt_id: WBbt:0004542 def: "H-shaped cell associated with the excretory system, largest cell in C. elegans." [WB:rynl] comment: LINKOUT::WORMATLAS:: synonym: "exc_cell" RELATED [] synonym: "excretory canal cell" RELATED [] synonym: "lineage name: ABplpappaap" RELATED [] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005736 ! excretory system [Term] id: WBbt:0005813 name: body wall musculature namespace: worm_anatomy def: "Longitudinal bands of muscle cells surrounding animal body, with one band running in each quadrant of the body, regulated contraction and relaxation of these muscles cause locomotion." [ISBN:0-87969-433-5] synonym: "body muscle" RELATED [] is_a: WBbt:0005737 ! muscular system [Term] id: WBbt:0005820 name: alimentary muscle namespace: worm_anatomy def: "muscle of the alimentary organ system." [WB:rynl] is_a: WBbt:0005780 ! non-striated muscle [Term] id: WBbt:0005821 name: vulval muscle namespace: worm_anatomy def: "muscle associated with hermaphrodite vulva." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005758 ! hermaphrodite-specific is_a: WBbt:0005780 ! non-striated muscle is_a: WBbt:0007810 ! body muscle cell relationship: part_of WBbt:0008587 ! egg-laying apparatus [Term] id: WBbt:0005828 name: gonadal sheath cell namespace: worm_anatomy def: "five pairs of thin gonadal sheath cells form a single layer covering the germ line component of each arm, each pair occupying a stereotyped position along the gonad proximal-distal axis." [WBPaper:00038216] is_a: WBbt:0005781 ! smooth muscle is_a: WBbt:0005786 ! muscle of the reproductive system is_a: WBbt:0007815 ! hermaphrodite somatic gonadal cell [Term] id: WBbt:0005829 name: ventral nerve cord namespace: worm_anatomy def: "a large process bundle that runs along the vental mid-line extending from the ventral region of the nerve ring." [WB:Paper00000938] synonym: "ventral cord" RELATED [WB:Paper00000938] is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0005760 ! somatic nervous system [Term] id: WBbt:0005830 name: lumbar ganglion namespace: worm_anatomy alt_id: WBbt:0005099 def: "The left and right lumbar ganglia lie behind the pre-anal ganglion in the tail, in lateral positions. Each contains 12 neuron cell bodies that send most of their neuronal processes into the ventral nerve cord via lumbar commissures and the pre-anal ganglion. There is no local neuropil in these ganglia in the hermaphrodite, instead they form most synapses in the pre-anal ganglion. Most lumbar neurons have sensory functions. In the adult male tail, these two ganglia gain many additional neurons and have some local neuropil. The lumbar neurons lie in close association with the lateral hypodermis, and most are posterior to the anus." [WBPaper:00038216] synonym: "lumbar lateral ganglia" RELATED [] synonym: "lumbar lateral ganglion" RELATED [] xref: WB:rynl is_a: WBbt:0006977 ! tail ganglion [Term] id: WBbt:0005839 name: odorsensory neuron namespace: worm_anatomy def: "neuron that senses volatile odorants" [Wb:rynl] is_a: WBbt:0005759 ! sensory neuron [Term] id: WBbt:0005843 name: eggshell namespace: worm_anatomy def: "The shell or external calcareous covering of an egg" [ISBN:0198611862] is_a: WBbt:0005732 ! extracellular component [Term] id: WBbt:0006748 name: vulva namespace: worm_anatomy def: "female genital." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005758 ! hermaphrodite-specific is_a: WBbt:0008422 ! sex organ relationship: part_of WBbt:0005740 ! midbody relationship: part_of WBbt:0008587 ! egg-laying apparatus [Term] id: WBbt:0006754 name: amphid sheath cell namespace: worm_anatomy def: "sheath cell of amphid sensillum." [WB:rynl] is_a: WBbt:0005811 ! neuronal sheath cell [Term] id: WBbt:0006760 name: uterus namespace: worm_anatomy def: "The organ in which the eggs are developed and protected until laid." [ISBN:0198611862, WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005729 ! Tissue relationship: part_of WBbt:0005178 ! hermaphrodite gonad relationship: part_of WBbt:0008587 ! egg-laying apparatus [Term] id: WBbt:0006761 name: head muscle namespace: worm_anatomy def: "body wall muscle in the head, including first eight cells of each muscle quadrants which are innervated by nerve ring neurons." [WB:Paper00001594, WB:rynl] synonym: "head body wall muscle" RELATED [] is_a: WBbt:0005813 ! body wall musculature relationship: part_of WBbt:0005739 ! head [Term] id: WBbt:0006770 name: P1 namespace: worm_anatomy alt_id: WBbt:0007206 def: "The first (count from anterior-most) of twelve postembryonic blast cells for ventral cord motorneurons, ventral hypodermis, vulva, male preanal ganglion; ventral hypodermis in L1." [ISBN:0-87969-307-X, WB:rynl] synonym: "P1 post-embryonic blast cell" EXACT [] is_a: WBbt:0008115 ! ventral cord blast cell [Term] id: WBbt:0006783 name: blast cell namespace: worm_anatomy def: "precursor cell destined to divide some time after hatching." [WB:rynl] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0006794 name: male gonad namespace: worm_anatomy def: "gonad of a male animal, produces sperm." [WB:wjc] is_a: WBbt:0005175 ! gonad [Term] id: WBbt:0006795 name: proctodeum namespace: worm_anatomy def: "junction between the alimentary and genital tracts in the male." [WB:Paper00000462] is_a: WBbt:0005757 ! male-specific relationship: part_of WBbt:0005748 ! alimentary system [Term] id: WBbt:0006796 name: germ cell namespace: worm_anatomy def: "a cell, of either sex, directly concerned in the production of a new organism." [WB:rynl] is_a: CARO:0000000 ! anatomical entity is_a: WBbt:0005784 ! germ line relationship: develops_from WBbt:0006849 ! germline precursor cell [Term] id: WBbt:0006797 name: oocyte namespace: worm_anatomy def: "a female haploid germ cell." [WB:wjc] synonym: "ovum" RELATED [] is_a: WBbt:0005758 ! hermaphrodite-specific is_a: WBbt:0006796 ! germ cell [Term] id: WBbt:0006798 name: sperm namespace: worm_anatomy def: "Male haploid germ cell." [WB:rynl] synonym: "spermatozoa" RELATED [] synonym: "spermatozoon" RELATED [] is_a: WBbt:0006796 ! germ cell relationship: develops_from WBbt:0006800 ! spermatid [Term] id: WBbt:0006799 name: spermatocyte namespace: worm_anatomy def: "A cell which gives rise to spermatids by meiosis." [ISBN:0198611862] is_a: WBbt:0006796 ! germ cell [Term] id: WBbt:0006800 name: spermatid namespace: worm_anatomy def: "An immature sperm cell which undergoes morphogenesis to form mature, amoeboid sperm." [WB:wjc] is_a: WBbt:0006796 ! germ cell relationship: develops_from WBbt:0008592 ! secondary spermatocyte [Term] id: WBbt:0006804 name: body wall muscle cell namespace: worm_anatomy def: "type of 95 cells that make up muscles of the body wall." [WB:rynl] comment: LINKOUT::WORMATLAS:: synonym: "body muscle cell" RELATED [] synonym: "body wall muscle" RELATED [] synonym: "bodywall muscle" RELATED [] synonym: "mu_bod" RELATED [] is_a: WBbt:0005779 ! striated muscle is_a: WBbt:0007810 ! body muscle cell [Term] id: WBbt:0006816 name: ciliated neuron namespace: worm_anatomy def: "neuron type, neurons that have ciliated nerve endings." [WB:rynl] is_a: WBbt:0003679 ! neuron [Term] id: WBbt:0006830 name: HSN namespace: worm_anatomy def: "Neuron class of two motoneurons that innervate vulval muscles in the hermaphrodite." [WB:Paper00000938] comment: LINKOUT::WORMATLAS:: synonym: "hermaphrodite specific neuron" RELATED [] is_a: WBbt:0005409 ! motor neuron is_a: WBbt:0006837 ! serotonergic neuron is_a: WBbt:0006840 ! cholinergic neuron relationship: part_of WBbt:0008587 ! egg-laying apparatus [Term] id: WBbt:0006837 name: serotonergic neuron namespace: worm_anatomy def: "neuron that uses serotonin as a vesicular neurotransmitter." [WB:rynl] synonym: "5-HT neuron" RELATED [] is_a: WBbt:0003679 ! neuron [Term] id: WBbt:0006840 name: cholinergic neuron namespace: worm_anatomy def: "neuron that uses vesicular acetylcholine as a neurotransmitter." [WB:rynl] synonym: "ACh neuron" RELATED [] is_a: WBbt:0003679 ! neuron [Term] id: WBbt:0006849 name: germline precursor cell namespace: worm_anatomy def: "member of a set of two cells that generate exclusively sperm and ovum." [WB:rynl] comment: LINKOUT::WORMATLAS:: synonym: "PGC" RELATED [] synonym: "primordial germ cell" RELATED [] is_a: WBbt:0005784 ! germ line [Term] id: WBbt:0006850 name: excretory secretory system namespace: worm_anatomy def: "An organ system consists of the excretory system and associated glands." [WB:Paper00000536, WB:rynl] is_a: WBbt:0005746 ! Organ system [Term] id: WBbt:0006865 name: DTC namespace: worm_anatomy def: "somatic cell that situates at the tip of a gonad arm." [WB:rynl] synonym: "distal tip cell" RELATED [] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005175 ! gonad [Term] id: WBbt:0006870 name: seminal vesicle namespace: worm_anatomy def: "part of male gonad that holds mature sperm, made of a total of 12 nuclei." [WB:Paper00000193, WB:rynl] synonym: "gon_male_sves" RELATED [] is_a: WBbt:0005729 ! Tissue relationship: part_of WBbt:0006794 ! male gonad [Term] id: WBbt:0006908 name: gubernacular muscle namespace: worm_anatomy def: "specialized muscle type in male sex organ." [WB:rynl] synonym: "mu_male_gub" RELATED [] is_a: WBbt:0005757 ! male-specific is_a: WBbt:0005780 ! non-striated muscle is_a: WBbt:0007810 ! body muscle cell [Term] id: WBbt:0006909 name: longitudinal male muscle namespace: worm_anatomy alt_id: WBbt:0005814 def: "specialized muscle type in the posterior of adult male." [WB:rynl] synonym: "mu_male_long" RELATED [] synonym: "ventral longitudinal muscle" RELATED [] is_a: WBbt:0005757 ! male-specific is_a: WBbt:0005780 ! non-striated muscle is_a: WBbt:0005786 ! muscle of the reproductive system is_a: WBbt:0007810 ! body muscle cell [Term] id: WBbt:0006920 name: cephalic sensillum namespace: worm_anatomy def: "sensillum in the head, each with a CEP receptor neuron." [WB:rynl] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0006926 name: deirid sensillum namespace: worm_anatomy comment: LINKOUT::WORMATLAS:: is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0006929 name: sensillum namespace: worm_anatomy def: "sensory organ, consists of sensory neurons and supporting cells." [WB:rynl] is_a: WBbt:0003760 ! organ [Term] id: WBbt:0006941 name: ray namespace: worm_anatomy def: "male sensory organ; nine bilateral pairs of finger-like rays (numbered 1 to 9, Left/Right) radiate from the tail and are embedded in a cuticlar fan." [WB:rynl, WBPaper:00038216] comment: LINKOUT::WORMATLAS:: synonym: "male sensory ray" RELATED [] is_a: WBbt:0005757 ! male-specific is_a: WBbt:0006929 ! sensillum [Term] id: WBbt:0006977 name: tail ganglion namespace: worm_anatomy def: "ganglion in the tail region (posterior to rectum)." [WB:rynl] is_a: WBbt:0005189 ! ganglion relationship: part_of WBbt:0005741 ! tail [Term] id: WBbt:0006979 name: tail spike namespace: worm_anatomy def: "An acellular thin cuticle whip formed at the very end of the tail during embryogenesis." [WB:rynl, WBPaper:00038216] comment: LINKOUT::WORMATLAS:: is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005741 ! tail [Term] id: WBbt:0007028 name: embryonic cell namespace: worm_anatomy def: "cell that exists in and is part of an embryo." [WB:rynl] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0007030 name: post-embryonic cell namespace: worm_anatomy def: "a cell that is born in a worm after hatching." [WB:rynl] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0007809 name: vulval precursor cell namespace: worm_anatomy def: "cell that has the potential to form structural part of a vulva." [WB:rynl] synonym: "VPC" RELATED [] synonym: "vulval precursor" RELATED [] is_a: WBbt:0006783 ! blast cell [Term] id: WBbt:0007810 name: body muscle cell namespace: worm_anatomy def: "any muscle cell that is not pharyngeal." [WB:Paper00001807] is_a: WBbt:0003675 ! muscle cell [Term] id: WBbt:0007815 name: hermaphrodite somatic gonadal cell namespace: worm_anatomy def: "somatic (not germline) cell of the hermaphrodite gonad." [WB:rynl] is_a: WBbt:0004017 ! Cell relationship: part_of WBbt:0005178 ! hermaphrodite gonad relationship: part_of WBbt:0005785 ! somatic gonad [Term] id: WBbt:0007816 name: spermathecal cell namespace: worm_anatomy def: "cell of the hermaphrodite spermatheca." [WB:rynl] synonym: "gon herm spth" RELATED [] is_a: WBbt:0007815 ! hermaphrodite somatic gonadal cell [Term] id: WBbt:0007832 name: cuticular ala namespace: worm_anatomy def: "Small linear ridges running along the lateral lines of the cuticle, lengthwise along the body; these thickenings lie in register with the seam cells which likely produce them and are present in the cuticle of the L1, dauer and adult stages, but not in other larval stages. The alae are suspected to provide better traction when the animal generates a bodywave. Since the animal usually lies on its side, the alae are in perfect position to catch against the substrate." [WB:rynl, WBPaper:00038216] synonym: "alae" RELATED [] is_a: WBbt:0005732 ! extracellular component relationship: part_of WBbt:0005755 ! cuticle [Term] id: WBbt:0007833 name: organism namespace: worm_anatomy def: "Anatomical structure that is an individual member of a species and consists of more than one cell." [WB:rynl] comment: XREF::CARO:0000012 is_a: WBbt:0005766 ! Anatomy [Term] id: WBbt:0007846 name: hypodermal cell namespace: worm_anatomy def: "primary cell type that forms the hypodermis." [WB:rynl] is_a: WBbt:0003672 ! epithelial cell relationship: part_of WBbt:0005733 ! hypodermis [Term] id: WBbt:0007849 name: hermaphrodite namespace: worm_anatomy def: "Multi-cellular organism that can produce both male and female gametes." [CARO:0000029] synonym: "hermaphroditic organism" RELATED [] xref: CARO:0000029 is_a: WBbt:0007833 ! organism [Term] id: WBbt:0007850 name: male namespace: worm_anatomy def: "Gonochoristic organism that can produce male gametes." [CARO:0000027] synonym: "male organism" RELATED [] xref: CARO:0000027 is_a: WBbt:0007833 ! organism [Term] id: WBbt:0008073 name: syncytium precursor namespace: worm_anatomy def: "cell that is mononuclear and has a strong potential to fuse with other cell(s) to form a multinucleated cell." [WB:rynl] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0008074 name: syncytium namespace: worm_anatomy def: "cell that has more than one nucleus." [WB:rynl] comment: http://en.wikipedia.org/wiki/Syncytium synonym: "syncitium" RELATED [] synonym: "syncycia" RELATED [] synonym: "syncytial cell" RELATED [] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0008115 name: ventral cord blast cell namespace: worm_anatomy def: "Blast cell lying ventrolaterally in the late embryo and L1 larval stage which divides during the late L1 larva in stereotypical reiterated fashion to give rise to many motor neurons which begin function in the ventral cord and preanal ganglion of the early L2 larva, as well as hypodermal cells (which fuse into hyp7) and a series of programmed cell deaths. In addition, the Pn.p daughters of P3 through P8 lineages persist without fusing into the hyp7 syncytium until mid L3 stage when they can be induced to divide further to produce vulval epithelial cells (vulA - vulF) or more hyp7 cells. P0 is also known as W." [WB:rynl, WBpaper:00038216] synonym: "P cell" RELATED [] is_a: WBbt:0006783 ! blast cell [Term] id: WBbt:0008182 name: rectal epithelial cell namespace: worm_anatomy def: "These cells include: B, F, Y, U, K' and K. All rectal epithelial cells contain secretory membrane stacks along this region facing the lumenal cuticle and produce some portion of the cuticular lining of the rectum. These are interfacial cells that connect the alimentary system to the main body syncytium." [WBPaper:00038216] synonym: "rectal epithelium" RELATED [] is_a: WBbt:0005754 ! interfacial epithelial cell [Term] id: WBbt:0008189 name: gon male sves namespace: worm_anatomy def: "seminal vesicle cell of male gonad." [WB:rynl] comment: 23 cells in each animal, one cell has alternate fate. synonym: "seminal vesicle" RELATED [] is_a: WBbt:0008209 ! male gonadal cell [Term] id: WBbt:0008209 name: male gonadal cell namespace: worm_anatomy def: "cell of male gonad." [WB:rynl] synonym: "male somatic gonadal cell" RELATED [] is_a: WBbt:0004017 ! Cell is_a: WBbt:0005757 ! male-specific [Term] id: WBbt:0008249 name: gon_male_sves Z1 or Z4 namespace: worm_anatomy def: "seminal vesicle, outer; cell of the pedigree Z1.paapp or Z4.aaapp." [WB:rynl] is_a: WBbt:0008189 ! gon male sves [Term] id: WBbt:0008289 name: vulval syncytia precursor namespace: worm_anatomy def: "precursor cell of, before fusion to form vulval syncytia vulA(4), vulC(4), vulD(2), vulE(4) and vulF(4)." [WB:rynl] is_a: WBbt:0008073 ! syncytium precursor [Term] id: WBbt:0008374 name: stoma namespace: worm_anatomy def: "Portion of the digestive tract between the oral opening and the definitely tri-radiate beginning of the esophagus (pharynx)." [ISBN:0-8391-0697-1] is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0005743 ! digestive tract [Term] id: WBbt:0008409 name: tail precursor cell namespace: worm_anatomy def: "Tail lateral ectoblasts that give rise to neurons, hypodermis and glial lineages. While initially identical, after the L2 lethargus the T cell lineages become markedly different between males and hermaphrodites helping to provide the sexually dimorphic tail structures found in males." [WBPaper:00038216] synonym: "T cell" RELATED [] is_a: WBbt:0006783 ! blast cell [Term] id: WBbt:0008410 name: phasmid socket cell namespace: worm_anatomy def: "Hypodermal socket cell of the phasmid sensillum." [WB:rynl] synonym: "Phso" RELATED [] is_a: WBbt:0005750 ! socket cell [Term] id: WBbt:0008422 name: sex organ namespace: worm_anatomy def: "anatomical part of the body which is involved in sexual reproduction and constitutes the reproductive system." [WB:rynl] comment: Term definition modified from wikipedia entry. synonym: "genitalia" RELATED [] is_a: WBbt:0003760 ! organ relationship: part_of WBbt:0005747 ! reproductive system [Term] id: WBbt:0008423 name: male genital namespace: worm_anatomy def: "antomical structure of the male involved in sexual reproduction." [WB:rynl] is_a: WBbt:0005757 ! male-specific is_a: WBbt:0008422 ! sex organ [Term] id: WBbt:0008424 name: gubernaculum namespace: worm_anatomy def: "A sclerotized cuticular structure at the base of the male tail fan which houses the retracted spicules and guides the eversion of the spicules through the anus." [WB:Paper00038216] is_a: WBbt:0005766 ! Anatomy relationship: part_of WBbt:0008423 ! male genital [Term] id: WBbt:0008425 name: hook namespace: worm_anatomy def: "A small lump on the gubernaculum of the male tail. This structure lies on the ventral surface just anterior and central to the base of the spicule openings and contains a sensory structure called the hook sensillum." [WB:Paper00038216] is_a: WBbt:0008424 ! gubernaculum [Term] id: WBbt:0008426 name: nose namespace: worm_anatomy def: "The extreme anterior portion of the body." [WB:Paper00038216] is_a: WBbt:0005738 ! body region [Term] id: WBbt:0008429 name: polar body namespace: worm_anatomy def: "One of two small cells produced, each during one of the two meiotic cell divisions, which are then discarded in the creation of the haploid germ cell." [WB:Paper00038216] is_a: WBbt:0004017 ! Cell [Term] id: WBbt:0008431 name: mechanosensory neuron namespace: worm_anatomy def: "neuron that senses and responds to mechanical stimuli, such as touch." [WB:rynl] is_a: WBbt:0005759 ! sensory neuron [Term] id: WBbt:0008439 name: M lineage cell namespace: worm_anatomy def: "A cell that is the M blast cell or is a lineal descendant of M." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2012-01-26T02:48:40Z [Term] id: WBbt:0008447 name: somatic blastomere namespace: worm_anatomy def: "Embryonic cell which descends from the same parent cell as a germline blastomere." [WB:Paper00003633, WB:rynl] is_a: WBbt:0007028 ! embryonic cell created_by: raymond creation_date: 2012-03-05T10:59:36Z [Term] id: WBbt:0008448 name: germline blastomere namespace: worm_anatomy def: "Embryonic cell that has the developmental potential to generate a germ cell." [WB:Paper00003633, WB:rynl] is_a: WBbt:0007028 ! embryonic cell created_by: raymond creation_date: 2012-03-05T11:05:10Z [Term] id: WBbt:0008587 name: egg-laying apparatus namespace: worm_anatomy def: "An apparatus for laying eggs of the hermaphrodite reproductive system, consists of the uterus, the uterine muscles, the vulva, the vulval muscles, and a local neuropil formed by the egg-laying neurons." [WB:Paper00038216, WB:rynl] is_a: WBbt:0008422 ! sex organ created_by: raymond creation_date: 2012-10-30T12:29:21Z [Term] id: WBbt:0008588 name: C lineage cell namespace: worm_anatomy def: "A cell that is the C blast cell or is a lineal descendant of C." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2013-03-15T08:44:18Z [Term] id: WBbt:0008589 name: D lineage cell namespace: worm_anatomy def: "A cell that is the D blast cell or is a lineal descendant of D." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2013-03-15T08:44:18Z [Term] id: WBbt:0008590 name: P lineage cell namespace: worm_anatomy def: "A cell that is the P embryonic blast cell or is a lineal descendant of P." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2013-03-15T08:44:18Z [Term] id: WBbt:0008591 name: primary spermatocyte namespace: worm_anatomy def: "A diploid immature germ cell which forms in the gonad when a spermatogonial stem cell buds off from the rachis to form a single cell that quickly enters metaphase I and divides to form secondary spermatocytes attached to a residual body." [WBPaper:00038216] is_a: WBbt:0006799 ! spermatocyte created_by: raymond creation_date: 2013-04-17T09:54:03Z [Term] id: WBbt:0008592 name: secondary spermatocyte namespace: worm_anatomy def: "A haploid immature germ cell which forms in the gonad by the division of a diploid primary spermatocyte. It undergoes a second meiotic division to complete meiosis, at which time the daughter cells detach from the residual body to become spermatids." [WBPaper:00038216] is_a: WBbt:0006799 ! spermatocyte relationship: develops_from WBbt:0008591 ! primary spermatocyte created_by: raymond creation_date: 2013-04-17T09:54:03Z [Term] id: WBbt:0008593 name: Q lineage cell namespace: worm_anatomy def: "A cell that is QL or QR blast cell or is a lineal descendant of QL or QR." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2013-09-10T10:21:50Z [Term] id: WBbt:0008599 name: G cell namespace: worm_anatomy def: "Ventral ganglion neuroblasts present at hatching, located near the excretory pore." [WBpaper:00038216] is_a: WBbt:0006783 ! blast cell created_by: raymond creation_date: 2013-12-02T03:30:08Z [Term] id: WBbt:0008608 name: B lineage cell namespace: worm_anatomy def: "A cell that is the B post-embryonic blast cell or is a lineal descendant of B, in male." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2014-11-10T03:11:46Z [Term] id: WBbt:0008611 name: AB lineage cell namespace: worm_anatomy def: "A cell that is the AB blast cell or is a lineal descendant of AB." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2015-05-27T01:48:04Z [Term] id: WBbt:0008627 name: MS lineage cell namespace: worm_anatomy def: "A cell that is the MS blast cell or is a lineal descendant of MS." [WB:rynl] is_a: WBbt:0004017 ! Cell created_by: raymond creation_date: 2016-01-08T08:26:06Z [Term] id: WBls:0000001 name: free-living nematode stage namespace: worm_development def: "The nematode life-cycle stage that occurs entirely outside of a host organism." [WB:jl] is_a: WBls:0000101 ! Nematode life stage created_by: jl16 creation_date: 2015-03-19T10:42:18Z [Term] id: WBls:0000002 name: all stages Ce namespace: worm_development def: "All C. elegans development stages, including embryo, larva and adult stage." [WB:wjc] synonym: "all stages" BROAD [] is_a: WBls:0000001 ! free-living nematode stage [Term] id: WBls:0000003 name: embryo Ce namespace: worm_development def: "The whole period of embryogenesis, from the formation of an egg till its hatch." [WB:wjc] synonym: "embryo" BROAD [] is_a: WBls:0000002 ! all stages Ce is_a: WBls:0000102 ! nematode embryo [Term] id: WBls:0000004 name: proliferating embryo Ce namespace: worm_development def: "0-350min after first cleavage at 20 Centigrade. Proliferate from 1 cell to 560 cells. From start of first cleavage till cleavage is over." [WB:wjc] synonym: "early embryo" EXACT [] synonym: "proliferating embryo" BROAD [] relationship: part_of WBls:0000003 ! embryo Ce [Term] id: WBls:0000005 name: blastula embryo Ce namespace: worm_development def: "0-100min after first cleavage at 20 Centigrade. Proliferate from 1 cell to 28 cells. From first cleavage till the start of gastrulation." [WB:wjc] synonym: "blastula embryo" BROAD [] relationship: part_of WBls:0000004 ! proliferating embryo Ce [Term] id: WBls:0000006 name: 1-cell embryo Ce namespace: worm_development def: "Also called zygote. -50min till 0min of first cleavage at 20 Centigrade. Contains 1 cell." [WB:wjc] synonym: "1-cell embryo" BROAD [] synonym: "fertilized egg" EXACT [WB:dr] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000669 ! unfertilized egg Ce relationship: part_of WBls:0000005 ! blastula embryo Ce [Term] id: WBls:0000010 name: gastrulating embryo Ce namespace: worm_development def: "100-290min after first cleavage at 20 Centigrade. Proliferate from 28 cells to 421 cells. Referring to the whole period of gastrulation." [WB:wjc] synonym: "gastrulating embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000005 ! blastula embryo Ce relationship: part_of WBls:0000004 ! proliferating embryo Ce [Term] id: WBls:0000013 name: enclosing embryo Ce namespace: worm_development def: "290-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage when embryo just finished gastulation and is enclosing." [WB:wjc] synonym: "enclosing embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000010 ! gastrulating embryo Ce relationship: part_of WBls:0000014 ! late cleavage stage embryo Ce relationship: preceded_by WBls:0000014 ! late cleavage stage embryo Ce [Term] id: WBls:0000014 name: late cleavage stage embryo Ce namespace: worm_development def: "210-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage before the fast cleavage of cells finishes." [WB:wjc] synonym: "late cleavage stage embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: part_of WBls:0000004 ! proliferating embryo Ce relationship: preceded_by WBls:0000010 ! gastrulating embryo Ce [Term] id: WBls:0000015 name: elongating embryo Ce namespace: worm_development def: "350-620min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The stage that embryo starts elongation till elongation is over." [WB:wjc] synonym: "elongating embryo" BROAD [] synonym: "mid embryo" EXACT [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000004 ! proliferating embryo Ce relationship: part_of WBls:0000003 ! embryo Ce relationship: preceded_by WBls:0000010 ! gastrulating embryo Ce [Term] id: WBls:0000016 name: bean embryo Ce namespace: worm_development def: "350-390min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. Emrbyo elongation started but have not formed comma shape yet. The shape of embryo looks like a lima bean. A stage right before comma embryo. Also called lima embryo or lima bean stage." [WB:wjc] synonym: "bean embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000013 ! enclosing embryo Ce relationship: immediately_preceded_by WBls:0000014 ! late cleavage stage embryo Ce relationship: part_of WBls:0000015 ! elongating embryo Ce [Term] id: WBls:0000017 name: comma embryo Ce namespace: worm_development def: "390-420min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo looks like a comma. A stage between bean embryo and 1.5-fold embryo." [WB:wjc] synonym: "comma embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000016 ! bean embryo Ce relationship: part_of WBls:0000015 ! elongating embryo Ce [Term] id: WBls:0000018 name: 1.5-fold embryo Ce namespace: worm_development def: "420-460min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and fold back 50%. A stage between comma embryo and 2-fold embryo." [WB:wjc] synonym: "1.5-fold embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000017 ! comma embryo Ce relationship: part_of WBls:0000015 ! elongating embryo Ce [Term] id: WBls:0000019 name: 2-fold embryo Ce namespace: worm_development def: "460-520min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and double fold. A stage between 1.5-fold embryo and 3-fold embryo." [WB:wjc] synonym: "2-fold embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000018 ! 1.5-fold embryo Ce relationship: part_of WBls:0000015 ! elongating embryo Ce [Term] id: WBls:0000020 name: 3-fold embryo Ce namespace: worm_development def: "520-620min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and tripple fold. A stage between 2-fold embryo and fully-elongated embryo. Also called pretzel embryo or pretzel stage." [WB:wjc] synonym: "3-fold embryo" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000019 ! 2-fold embryo Ce relationship: part_of WBls:0000015 ! elongating embryo Ce [Term] id: WBls:0000021 name: fully-elongated embryo Ce namespace: worm_development def: "620-800min(hatch) after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. A stage after elongation is over. The last stage of embryogenesis. Also called pre-hatched embryo, late embryo or morphogenetic embryo." [WB:wjc] synonym: "fully-elongated embryo" BROAD [] synonym: "late embryo" EXACT [] synonym: "morphogenetic stage" EXACT [] synonym: "pre-hatched embryo" EXACT [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000015 ! elongating embryo Ce relationship: immediately_preceded_by WBls:0000020 ! 3-fold embryo Ce relationship: part_of WBls:0000003 ! embryo Ce [Term] id: WBls:0000022 name: postembryonic Ce namespace: worm_development def: "The stage after hatch till death." [WB:wjc] synonym: "postembryonic" BROAD [] is_a: WBls:0000002 ! all stages Ce is_a: WBls:0000103 ! postembryonic nematode relationship: immediately_preceded_by WBls:0000003 ! embryo Ce [Term] id: WBls:0000023 name: larva Ce namespace: worm_development def: "From the time after hatch till becomes adult." [WB:wjc] synonym: "larva" BROAD [] is_a: WBls:0000105 ! nematode larval stage relationship: immediately_preceded_by WBls:0000003 ! embryo Ce relationship: part_of WBls:0000022 ! postembryonic Ce [Term] id: WBls:0000024 name: L1 larva Ce namespace: worm_development def: "The first stage larva. At 25 Centigrade, it ranges 14-25.5 hours after fertilization, 0-11.5 hours after hatch." [WB:wjc] synonym: "L1 larva" BROAD [] is_a: WBls:0000106 ! L1 relationship: immediately_preceded_by WBls:0000003 ! embryo Ce relationship: part_of WBls:0000023 ! larva Ce [Term] id: WBls:0000026 name: L1-L2 molt Ce namespace: worm_development def: "The stage when an animal shifts from L1 larva to L2 larva. It includes the synthesis of new cuticle, cease of phrayngeal pumping during a lethargus stage, and the shed off of old cuticle." [WB:wjc] synonym: "L1-L2 molt" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000024 ! L1 larva Ce relationship: part_of WBls:0000023 ! larva Ce [Term] id: WBls:0000027 name: L2 larva Ce namespace: worm_development def: "The second stage larva. At 25 Centigrade, it ranges 25.5-32.5 hours after fertilization, 11.5-18.5 hours after hatch." [WB:wjc] synonym: "L2 larva" BROAD [] is_a: WBls:0000107 ! L2 relationship: immediately_preceded_by WBls:0000026 ! L1-L2 molt Ce relationship: part_of WBls:0000023 ! larva Ce relationship: preceded_by WBls:0000024 ! L1 larva Ce [Term] id: WBls:0000029 name: L2-L3 molt Ce namespace: worm_development def: "The stage when an animal shifts from L2 larva to L3 larva. It includes the synthesis of new cuticle, cease of phrayngeal pumping during a lethargus stage, and the shed off of old cuticle." [WB:wjc] synonym: "L2-L3 molt" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000027 ! L2 larva Ce relationship: part_of WBls:0000023 ! larva Ce [Term] id: WBls:0000032 name: dauer larva Ce namespace: worm_development def: "A third stage larva specialized for dispersal and long term survival." [ISBN:0-87969-433-5] synonym: "dauer larva" BROAD [] is_a: BFO:0000003 ! occurrent relationship: part_of WBls:0000023 ! larva Ce relationship: preceded_by WBls:0000027 ! L2 larva Ce [Term] id: WBls:0000035 name: L3 larva Ce namespace: worm_development def: "The third stage larva. At 25 Centigrade, it ranges 32.5-40 hours after fertilization, 18.5-26 hours after hatch." [WB:wjc] synonym: "L3 larva" BROAD [] is_a: WBls:0000108 ! L3 relationship: immediately_preceded_by WBls:0000029 ! L2-L3 molt Ce relationship: part_of WBls:0000023 ! larva Ce relationship: preceded_by WBls:0000027 ! L2 larva Ce [Term] id: WBls:0000037 name: L3-L4 molt Ce namespace: worm_development def: "The stage when an animal shifts from L3 larva to L4 larva. It includes the synthesis of new cuticle, cease of phrayngeal pumping during a lethargus stage, and the shed off of old cuticle." [WB:wjc] synonym: "L3-L4 molt" BROAD [] is_a: BFO:0000003 ! occurrent relationship: immediately_preceded_by WBls:0000035 ! L3 larva Ce relationship: part_of WBls:0000023 ! larva Ce [Term] id: WBls:0000038 name: L4 larva Ce namespace: worm_development def: "The fourth stage larva. At 25 Centigrade, it ranges 40-49.5 hours after fertilization, 26-35.5 hours after hatch." [WB:wjc] synonym: "L4 larva" BROAD [] is_a: WBls:0000109 ! L4 relationship: immediately_preceded_by WBls:0000032 ! dauer larva Ce relationship: immediately_preceded_by WBls:0000037 ! L3-L4 molt Ce relationship: part_of WBls:0000023 ! larva Ce relationship: preceded_by WBls:0000035 ! L3 larva Ce [Term] id: WBls:0000040 name: L4-adult molt Ce namespace: worm_development def: "The stage when an animal shifts from L4 larva to adult. It includes the synthesis of new cuticle, cease of phrayngeal pumping during a lethargus stage, and the shed off of old cuticle." [WB:wjc] synonym: "L4-adult molt" BROAD [] is_a: BFO:0000003 ! occurrent relationship: part_of WBls:0000023 ! larva Ce [Term] id: WBls:0000041 name: adult Ce namespace: worm_development def: "The stage that begins when a C.elegans individual is fully-developed and has reached maturity." [WB:wjc] synonym: "adult" BROAD [] is_a: WBls:0000104 ! nematode adult relationship: immediately_preceded_by WBls:0000023 ! larva Ce relationship: immediately_preceded_by WBls:0000040 ! L4-adult molt Ce relationship: part_of WBls:0000022 ! postembryonic Ce relationship: preceded_by WBls:0000038 ! L4 larva Ce [Term] id: WBls:0000056 name: adult male Ce namespace: worm_development def: "The stage after an male animal is fully-developed and reaches maturity." [WB:wjc] synonym: "adult male" BROAD [] is_a: WBls:0000041 ! adult Ce [Term] id: WBls:0000057 name: adult hermaphrodite Ce namespace: worm_development def: "The stage after an hermaphrodite animal is fully-developed and reaches maturity." [WB:wjc] synonym: "adult hermaphrodite" BROAD [] is_a: WBls:0000041 ! adult Ce [Term] id: WBls:0000075 name: worm life stage namespace: worm_development created_by: danielaraciti creation_date: 2012-05-30T09:04:28Z [Term] id: WBls:0000101 name: Nematode life stage namespace: worm_development def: "Any developmental stage in a nematode, including embryo, larva and adult stage." [WB:dr, WB:jl] synonym: "all stages nematode" EXACT [] synonym: "nematode developmental stage" EXACT [] is_a: WBls:0000075 ! worm life stage created_by: danielaraciti creation_date: 2013-11-25T06:13:37Z [Term] id: WBls:0000102 name: nematode embryo namespace: worm_development def: "The whole period of embryogenesis, from the formation of an egg till its hatch." [WB:dr] synonym: "embryo nematode" EXACT [] synonym: "nematode egg stage" EXACT [] is_a: WBls:0000101 ! Nematode life stage created_by: danielaraciti creation_date: 2013-11-25T06:14:14Z [Term] id: WBls:0000103 name: postembryonic nematode namespace: worm_development def: "The stage after hatch till death." [WB:dr] is_a: BFO:0000003 ! occurrent is_a: WBls:0000101 ! Nematode life stage relationship: immediately_preceded_by WBls:0000102 ! nematode embryo created_by: danielaraciti creation_date: 2013-11-25T06:14:39Z [Term] id: WBls:0000104 name: nematode adult namespace: worm_development def: "The nematode life-stage that begins when the organism is fully-developed and has reached maturity." [WB:dr] synonym: "adult nematode" EXACT [] synonym: "L5" EXACT [] is_a: WBls:0000103 ! postembryonic nematode relationship: immediately_preceded_by WBls:0000105 ! nematode larval stage created_by: danielaraciti creation_date: 2013-11-25T06:18:53Z [Term] id: WBls:0000105 name: nematode larval stage namespace: worm_development def: "The stage that begins after hatching and ends when the nematode becomes adult." [WB:dr] synonym: "larva nematode" EXACT [] synonym: "larval stage" BROAD [] synonym: "nematode larva" EXACT [] is_a: WBls:0000103 ! postembryonic nematode created_by: danielaraciti creation_date: 2013-11-25T06:19:27Z [Term] id: WBls:0000106 name: L1 namespace: worm_development def: "The first stage larva of nematodes." [WB:dr] synonym: "L1 larva nematode" EXACT [] is_a: WBls:0000105 ! nematode larval stage relationship: immediately_preceded_by WBls:0000110 ! sheathed microfilaria created_by: danielaraciti creation_date: 2013-11-25T06:20:28Z [Term] id: WBls:0000107 name: L2 namespace: worm_development def: "The second stage larva of nematodes." [WB:dr] synonym: "L2 larva nematode" EXACT [] is_a: WBls:0000105 ! nematode larval stage relationship: immediately_preceded_by WBls:0000106 ! L1 created_by: danielaraciti creation_date: 2013-11-25T06:20:54Z [Term] id: WBls:0000108 name: L3 namespace: worm_development def: "The third stage larva of nematodes." [WB:dr] synonym: "L3 larva nematode" EXACT [] is_a: WBls:0000105 ! nematode larval stage relationship: immediately_preceded_by WBls:0000107 ! L2 created_by: danielaraciti creation_date: 2013-11-25T06:21:33Z [Term] id: WBls:0000109 name: L4 namespace: worm_development def: "The fourth stage larva of nematodes." [WB:dr] synonym: "L4 larva nematode" EXACT [] is_a: WBls:0000105 ! nematode larval stage relationship: immediately_preceded_by WBls:0000108 ! L3 created_by: danielaraciti creation_date: 2013-11-25T06:22:48Z [Term] id: WBls:0000110 name: sheathed microfilaria namespace: worm_development def: "Sheathed microfilaria larvae are surrounded by a membrane thought to be derived from the vitelline membrane." [WB:dr] synonym: "sheathed microfilaria nematode" EXACT [] synonym: "sheathed microfilariae" EXACT [] is_a: WBls:0000664 ! microfilaria created_by: danielaraciti creation_date: 2013-11-25T06:23:23Z [Term] id: WBls:0000664 name: microfilaria namespace: worm_development def: "An early stage in the life cycle of some parasitic nematodes which develops from the egg and precedes the L1 stage." [WB:dr, WB:jl] comment: Anderson, R.C. (2000) Nematode Parasites of Vertebrates: Their Development and Transmission. Second Edition. CABI Publishing: Wallingford, England, pp. 472-475. synonym: "MF" EXACT [] synonym: "microfilaria nematode" EXACT [] synonym: "microfilariae" EXACT [] is_a: WBls:0000105 ! nematode larval stage created_by: danielaraciti creation_date: 2014-11-25T09:23:44Z [Term] id: WBls:0000669 name: unfertilized egg Ce namespace: worm_development synonym: "unfertilized egg" BROAD [] relationship: part_of WBls:0000002 ! all stages Ce created_by: danielaraciti creation_date: 2014-11-26T11:49:22Z [Typedef] id: IAO:0000136 name: is about def: "is_about is a (currently) primitive relation that relates an information artifact to an entity." [] property_value: editor_note "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." xsd:string property_value: example_of_usage "This document is about information artifacts and their representations" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "person:Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string domain: IAO:0000030 ! information content entity [Typedef] id: RO:0000052 name: inheres in def: "a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence" [] property_value: editor_note "A dependent inheres in its bearer at all times for which the dependent exists." xsd:string property_value: example_of_usage "this fragility inheres in this vase" xsd:string property_value: example_of_usage "this red color inheres in this apple" xsd:string property_value: IAO:0000111 "inheres in" xsd:string property_value: IAO:0000118 "inheres_in" xsd:string property_value: RO:0001900 RO:0001901 is_a: RO:0002314 ! inheres in part of inverse_of: bearer_of ! bearer of [Typedef] id: RO:0000057 name: has participant def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] property_value: dc-source http://www.obofoundry.org/ro/#OBO_REL:has_participant xsd:string property_value: editor_note "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string property_value: example_of_usage "this blood coagulation has participant this blood clot" xsd:string property_value: example_of_usage "this investigation has participant this investigator" xsd:string property_value: example_of_usage "this process has participant this input material (or this output material)" xsd:string property_value: IAO:0000111 "has participant" xsd:string property_value: IAO:0000118 "has_participant" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000002 ! continuant holds_over_chain: has_part RO:0000057 [Typedef] id: RO:0000081 name: role of def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] property_value: editor_note "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string property_value: example_of_usage "this investigator role is a role of this person" xsd:string property_value: IAO:0000118 "is role of" xsd:string property_value: IAO:0000118 "role_of" xsd:string is_a: RO:0000052 ! inheres in inverse_of: has_role ! has role [Typedef] id: RO:0001018 name: contained in subset: ro-eco property_value: editor_note "Containment is location not involving parthood, and arises only where some immaterial continuant is involved." xsd:string property_value: editor_note "Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. The containment relation on the instance level can then be defined (see definition):" xsd:string property_value: editor_note "Intended meaning:\ndomain: material entity\nrange: spatial region or site (immaterial continuant)\n " xsd:string property_value: IAO:0000111 "contained in" xsd:string property_value: IAO:0000118 "contained_in" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000004 ! independent continuant holds_over_chain: located_in part_of inverse_of: contains ! contains [Typedef] id: RO:0002013 name: has regulatory component activity def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] is_a: RO:0002017 ! has component activity is_a: RO:0002334 ! regulated by created_by: dos creation_date: 2017-05-24T09:30:46Z [Typedef] id: RO:0002014 name: has negative regulatory component activity def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. is_a: RO:0002013 ! has regulatory component activity is_a: RO:0002335 ! negatively regulated by created_by: dos creation_date: 2017-05-24T09:31:01Z [Typedef] id: RO:0002015 name: has positive regulatory component activity def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. is_a: RO:0002013 ! has regulatory component activity is_a: RO:0002336 ! positively regulated by created_by: dos creation_date: 2017-05-24T09:31:17Z [Typedef] id: RO:0002017 name: has component activity comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. is_a: RO:0002018 ! has component process created_by: dos creation_date: 2017-05-24T09:44:33Z [Typedef] id: RO:0002018 name: has component process def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] domain: BFO:0000015 ! process range: BFO:0000015 ! process is_a: has_component ! has component created_by: dos creation_date: 2017-05-24T09:49:21Z [Typedef] id: RO:0002019 name: has ligand def: "A relationship that holds between between a receptor and an chemical entity, typically a small molecule or peptide, that carries information between cells or compartments of a cell and which binds the receptor and regulates its effector function." [] domain: GO:0004872 is_a: RO:0002233 ! has input created_by: dos creation_date: 2017-07-19T17:30:36Z [Typedef] id: RO:0002022 name: directly regulated by comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="GOC:dos"} is_a: RO:0002334 ! regulated by inverse_of: RO:0002578 ! directly regulates created_by: dos creation_date: 2017-09-17T13:52:24Z [Typedef] id: RO:0002023 name: directly negatively regulated by def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002630 ! directly negatively regulates created_by: dos creation_date: 2017-09-17T13:52:38Z [Typedef] id: RO:0002024 name: directly positively regulated by def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002629 ! directly positively regulates created_by: dos creation_date: 2017-09-17T13:52:47Z [Typedef] id: RO:0002025 name: has effector activity def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [GOC:dos] comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. is_functional: true is_a: regulates ! regulates is_a: RO:0002017 ! has component activity created_by: dos creation_date: 2017-09-22T14:14:36Z [Typedef] id: RO:0002084 name: during which ends comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002122 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range. subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string is_a: RO:0002222 ! temporally related to inverse_of: ends_during ! ends_during [Typedef] id: RO:0002085 name: encompasses comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002124 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range. property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "di" xsd:string is_transitive: true is_a: RO:0002088 ! during which starts inverse_of: happens_during ! happens during [Typedef] id: RO:0002086 name: ends after comment: X ends_after Y iff: end(Y) before_or_simultaneous_with end(X) subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string holds_over_chain: ends_during preceded_by is_transitive: true is_a: RO:0002222 ! temporally related to [Typedef] id: RO:0002088 name: during which starts comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002123 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range. subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string is_a: RO:0002222 ! temporally related to inverse_of: starts_during ! starts_during [Typedef] id: RO:0002090 name: immediately precedes comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y) subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "ends_at_start_of" xsd:string property_value: IAO:0000118 "meets" xsd:string property_value: RO:0002575 BFO:0000063 holds_over_chain: ends_with starts_with is_a: precedes ! precedes [Typedef] id: RO:0002163 name: spatially disjoint from def: "A is spatially_disjoint_from B if and only if they have no parts in common" [] subset: ro-eco property_value: curator_notes "Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy" xsd:string property_value: editor_note "There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. " xsd:string property_value: foaf-page https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: RO:0001900 RO:0001901 is_a: RO:0002323 ! mereotopologically related to expand_expression_to: "BFO_0000051 exactly 0 (BFO_0000050 some ?Y)" [] [Typedef] id: RO:0002210 name: directly develops into def: "inverse of directly develops from" [] subset: RO:0002259 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000118 "developmental precursor of" xsd:string is_a: develops_into ! develops_into [Typedef] id: RO:0002217 name: actively participates in def: "x actively participates in y if and only if x participates in y and x realizes some active role" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "agent in" xsd:string is_a: participates_in ! participates_in inverse_of: RO:0002218 ! obsolete has active participant [Typedef] id: RO:0002218 name: obsolete has active participant def: "x has participant y if and only if x realizes some active role that inheres in y" [] subset: ro-eco property_value: editor_note "This may be obsoleted and replaced by the original 'has agent' relation" xsd:string property_value: example_of_usage "'heart development' has active participant some Shh protein" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has agent" xsd:string is_a: RO:0000057 ! has participant is_obsolete: true [Typedef] id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string property_value: dc-source https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent [Typedef] id: RO:0002231 name: has start location def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "starts with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in [Typedef] id: RO:0002232 name: has end location def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "ends with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in [Typedef] id: RO:0002233 name: has input def: "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." [] subset: ro-eco property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "consumes" xsd:string domain: BFO:0000015 ! process range: BFO:0000040 ! material entity holds_over_chain: starts_with RO:0002233 is_a: RO:0000057 ! has participant inverse_of: input_of ! input of [Typedef] id: RO:0002257 name: developmentally induces def: "Inverse of developmentally induced by" [] property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002286 ! developmentally succeeded by is_a: RO:0002386 ! has potential to developmentally induce [Typedef] id: RO:0002263 name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] property_value: example_of_usage "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." xsd:string property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of holds_over_chain: RO:0002327 RO:0002411 is_a: RO:0002264 ! acts upstream of or within [Typedef] id: RO:0002264 name: acts upstream of or within def: "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." [] synonym: "affects" RELATED [] property_value: example_of_usage "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." xsd:string property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within holds_over_chain: RO:0002327 RO:0002418 is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002286 name: developmentally succeeded by def: "Inverse of developmentally preceded by" [] property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002384 ! has developmental potential involving [Typedef] id: RO:0002287 name: part of developmental precursor of property_value: example_of_usage "'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: part_of RO:0002210 is_a: RO:0002286 ! developmentally succeeded by [Typedef] id: RO:0002304 name: causally upstream of, positive effect comment: holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y property_value: dc-creator "cjm" xsd:string property_value: RO:0004049 RO:0002411 is_a: RO:0002411 ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect [Typedef] id: RO:0002305 name: causally upstream of, negative effect comment: holds between x and y if and only if x is causally upstream of y and the progression of x decreases the frequency, rate or extent of y property_value: dc-creator "cjm" xsd:string property_value: RO:0004050 RO:0002411 is_a: RO:0002411 ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect [Typedef] id: RO:0002314 name: inheres in part of def: "q inheres in part of w if and only if there exists some p such that q inheres in p and p part of w." [] property_value: editor_note "Because part_of is transitive, inheres in is a sub-relation of inheres in part of" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: RO:0001900 RO:0001901 property_value: seeAlso "defining-property-chains-involving-reflexivity" holds_over_chain: RO:0000052 part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: RO:0002502 ! depends on transitive_over: part_of ! part_of [Typedef] id: RO:0002323 name: mereotopologically related to def: "A mereological relationship or a topological relationship" [] property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 [Typedef] id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string [Typedef] id: RO:0002327 name: enables property_value: curator_notes "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." xsd:string property_value: curator_notes "This relation is currently used experimentally by the Gene Ontology Consortium. It may not be stable and may be obsoleted at some future time." xsd:string property_value: example_of_usage "a particular instances of akt-2 enables some instance of protein kinase activity" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "catalyzes" xsd:string property_value: IAO:0000118 "executes" xsd:string property_value: IAO:0000118 "has" xsd:string property_value: IAO:0000118 "is catalyzing" xsd:string property_value: IAO:0000118 "is executing" xsd:string is_a: capable_of ! capable of inverse_of: RO:0002333 ! enabled by transitive_over: has_part ! has part transitive_over: RO:0002017 ! has component activity [Typedef] id: RO:0002333 name: enabled by def: "inverse of enables" [] property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: functionally_related_to ! functionally related to is_a: RO:0000057 ! has participant [Typedef] id: RO:0002334 name: regulated by def: "inverse of regulates" [] subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000589 "regulated by (processual)" xsd:string domain: BFO:0000015 ! process range: BFO:0000015 ! process is_transitive: true is_a: RO:0002427 ! causally downstream of or within [Typedef] id: RO:0002335 name: negatively regulated by def: "inverse of negatively regulates" [] subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002334 ! regulated by [Typedef] id: RO:0002336 name: positively regulated by def: "inverse of positively regulates" [] subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002334 ! regulated by [Typedef] id: RO:0002375 name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships" xsd:string property_value: curator_notes "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves)" xsd:string property_value: foaf-page https://github.com/obophenotype/uberon/issues/170 xsd:anyURI property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: part_of ! part_of is_a: RO:0002323 ! mereotopologically related to [Typedef] id: RO:0002379 name: spatially coextensive with def: "x spatially_coextensive_with y if and inly if x and y have the same location" [] property_value: curator_notes "This relation is added for formal completeness. It is unlikely to be used in many practical scenarios" xsd:string property_value: example_of_usage "A lump of clay and a statue" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: overlaps ! overlaps [Typedef] id: RO:0002384 name: has developmental potential involving def: "x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction)." [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000000 ! anatomical entity range: CARO:0000000 ! anatomical entity is_a: RO:0002324 ! developmentally related to [Typedef] id: RO:0002386 name: has potential to developmentally induce def: "x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y" [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002384 ! has developmental potential involving [Typedef] id: RO:0002404 name: causally downstream of def: "inverse of upstream of" [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: preceded_by ! preceded_by is_a: RO:0002427 ! causally downstream of or within inverse_of: RO:0002411 ! causally upstream of [Typedef] id: RO:0002405 name: immediately causally downstream of property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: immediately_preceded_by ! immediately preceded by is_a: RO:0002404 ! causally downstream of inverse_of: RO:0002412 ! immediately causally upstream of [Typedef] id: RO:0002410 name: causally related to def: "This relation groups causal relations between material entities and causal relations between processes" [] property_value: curator_notes "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: editor_note "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string [Typedef] id: RO:0002411 name: causally upstream of def: "p is causally upstream of q if and only if p precedes q and p and q are linked in a causal chain" [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_transitive: true is_a: precedes ! precedes is_a: RO:0002418 ! causally upstream of or within [Typedef] id: RO:0002412 name: immediately causally upstream of def: "p is immediately causally upstream of q iff both (a) p immediately precedes q and (b) p is causally upstream of q. In addition, the output of p must be an input of q." [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0002575 RO:0002411 is_a: RO:0002090 ! immediately precedes is_a: RO:0002411 ! causally upstream of [Typedef] id: RO:0002418 name: causally upstream of or within def: "p 'causally upstream or within' q iff (1) the end of p is before the end of q and (2) the execution of p exerts some causal influence over the outputs of q; i.e. if p was abolished or the outputs of p were to be modified, this would necessarily affect q." [] synonym: "affects" RELATED [] property_value: editor_note "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "influences (processual)" xsd:string is_transitive: true is_a: RO:0002501 ! causal relation between processes inverse_of: RO:0002427 ! causally downstream of or within [Typedef] id: RO:0002427 name: causally downstream of or within def: "inverse of causally upstream of or within" [] subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_transitive: true is_a: RO:0002501 ! causal relation between processes [Typedef] id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: involved_in regulates holds_over_chain: RO:0002327 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of [Typedef] id: RO:0002429 name: involved in positive regulation of def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0004049 RO:0002428 holds_over_chain: involved_in positively_regulates holds_over_chain: RO:0002327 positively_regulates is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002430 name: involved in negative regulation of def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0004050 RO:0002428 holds_over_chain: involved_in negatively_regulates holds_over_chain: RO:0002327 negatively_regulates is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002431 name: involved in or involved in regulation of def: "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" [] property_value: editor_note "OWL does not allow defining object properties via a Union" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "involved in or reguates" xsd:string is_a: functionally_related_to ! functionally related to is_a: RO:0002264 ! acts upstream of or within is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002432 name: is active in def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [GOC:cjm, GOC:dos] synonym: "enables activity in" EXACT [] property_value: example_of_usage "A protein that enables activity in a cytosol." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "executes activity in" xsd:string holds_over_chain: RO:0002327 occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to is_a: overlaps ! overlaps [Typedef] id: RO:0002434 name: interacts with def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] subset: ro-eco synonym: "in pairwise interaction with" EXACT [] property_value: curator_notes "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: editor_note "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: editor_note "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string property_value: foaf-page https://github.com/oborel/obo-relations/wiki/InteractionRelations xsd:anyURI property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://purl.obolibrary.org/obo/MI_0914 xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true [Typedef] id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: seeAlso ECO:0000353 property_value: seeAlso http://purl.obolibrary.org/obo/MI_0915 xsd:anyURI is_symmetric: true is_a: RO:0002434 ! interacts with [Typedef] id: RO:0002447 name: phosphorylates property_value: editor_note "Axiomatization to GO to be added later" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." xsd:string is_a: RO:0002436 ! molecularly interacts with [Typedef] id: RO:0002448 name: activity directly regulates activity of def: "Holds between molecular entities A and B where A can physically interact with B and in doing so regulates a process that B is capable of. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B." [] synonym: "molecularly controls" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002436 ! molecularly interacts with is_a: RO:0002566 ! causally influences [Typedef] id: RO:0002449 name: activity directly negatively regulates activity of def: "Holds between molecular entities A and B where A can physically interact with B and in doing so negatively regulates a process that B is capable of. For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] synonym: "molecularly decreases activity of" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "inhibits" xsd:string is_a: RO:0002448 ! activity directly regulates activity of [Typedef] id: RO:0002450 name: activity directly positively regulates activity of def: "Holds between molecular entities A and B where A can physically interact with B and in doing so positively regulates a process that B is capable of. For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] synonym: "molecularly increases activity of" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "activates" xsd:string is_a: RO:0002448 ! activity directly regulates activity of [Typedef] id: RO:0002464 name: helper property (not for use in curation) property_value: curator_notes "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string [Typedef] id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000004 ! independent continuant holds_over_chain: has_part occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} [Typedef] id: RO:0002481 name: is kinase activity property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002487 name: relation between structure and stage property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000003 ! occurrent [Typedef] id: RO:0002490 name: existence overlaps def: "x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))" [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002487 ! relation between structure and stage [Typedef] id: RO:0002500 name: causal agent in process def: "A relationship between a material entity and a process where the material entity has some causal role that influences the process" [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_a: RO:0002595 ! causal relation between material entity and a process inverse_of: RO:0002608 ! process has causal agent [Typedef] id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one of direct activation or direct inhibition. p may be upstream, downstream, part of or a container of q." [] property_value: curator_notes "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002502 name: depends on property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso BFO:0000169 [Typedef] id: RO:0002506 name: causal relation between material entities property_value: curator_notes "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: editor_note "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002559 name: causally influenced by property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influenced by (material entity to material entity)" xsd:string is_a: RO:0002506 ! causal relation between material entities inverse_of: RO:0002566 ! causally influences [Typedef] id: RO:0002563 name: interaction relation helper property property_value: foaf-page https://github.com/oborel/obo-relations/wiki/InteractionRelations xsd:anyURI property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 is_a: RO:0002464 ! helper property (not for use in curation) [Typedef] id: RO:0002564 name: molecular interaction relation helper property property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002563 ! interaction relation helper property [Typedef] id: RO:0002566 name: causally influences def: "Holds between materal entities a and b if the activity of a is causally upstream of the activity of b, or causally upstream of a an activity that modifies b" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influences (material entity to material entity)" xsd:string is_a: RO:0002506 ! causal relation between material entities [Typedef] id: RO:0002567 name: biomechanically related to def: "A relation that holds between elements of a musculoskeletal system or its analogs." [] property_value: curator_notes "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: functionally_related_to ! functionally related to [Typedef] id: RO:0002573 name: has modifier def: "A relation that holds between an attribute or a qualifier and another attribute." [] subset: ro-eco property_value: curator_notes "This relation is intended to be used in combination with PATO, to be able to refine PATO quality classes using modifiers such as 'abnormal' and 'normal'. It has yet to be formally aligned into an ontological framework; it's not clear what the ontological status of the \"modifiers\" are." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 domain: BFO:0000020 ! specifically dependent continuant range: BFO:0000020 ! specifically dependent continuant [Typedef] id: RO:0002578 name: directly regulates def: "Process(P1) directly regulates process(P2) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly regulates (processual)" xsd:string property_value: RO:0002575 RO:0002211 is_a: regulates ! regulates is_a: RO:0002412 ! immediately causally upstream of [Typedef] id: RO:0002584 name: has part structure that is capable of def: "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" [] property_value: example_of_usage "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: has_part capable_of is_a: functionally_related_to ! functionally related to is_a: RO:0002595 ! causal relation between material entity and a process [Typedef] id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: editor_note "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations domain: BFO:0000040 ! material entity range: BFO:0000015 ! process is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002596 name: capable of regulating def: "Holds between c and p if and only if c is capable of some activity a, and a regulates p." [] property_value: example_of_usage "pyrethroid -> growth" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: capable_of regulates is_a: RO:0002500 ! causal agent in process [Typedef] id: RO:0002597 name: capable of negatively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: capable_of negatively_regulates is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002598 name: capable of positively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." [] property_value: example_of_usage "renin -> arteriolar smooth muscle contraction" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002608 name: process has causal agent def: "Inverse of 'causal agent in process'" [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002609 name: obsolete related via dependence to def: "A relationship that holds between two entities, where the relationship holds based on the presence or absence of statistical dependence relationship. The entities may be statistical variables, or they may be other kinds of entities such as diseases, chemical entities or processes." [] property_value: curator_notes "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string is_obsolete: true [Typedef] id: RO:0002629 name: directly positively regulates def: "Process(P1) directly postively regulates process(P2) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P1 directly positively regulates P2." [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002578 is_a: positively_regulates ! positively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0002630 name: directly negatively regulates def: "Process(P1) directly negatively regulates process(P2) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P1 directly negatively regulates P2." [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002578 is_a: negatively_regulates ! negatively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0004031 name: enables subfunction def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] holds_over_chain: RO:0002327 has_part is_a: functionally_related_to ! functionally related to created_by: cjm creation_date: 2018-01-25T23:20:13Z [Typedef] id: RO:0004032 name: acts upstream of or within, positive effect property_value: RO:0004049 RO:0002264 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within,_positive_effect holds_over_chain: RO:0002327 RO:0004047 is_a: RO:0002264 ! acts upstream of or within created_by: cjm creation_date: 2018-01-26T23:49:30Z [Typedef] id: RO:0004033 name: acts upstream of or within, negative effect property_value: RO:0004050 RO:0002264 holds_over_chain: RO:0002327 RO:0004046 is_a: RO:0002264 ! acts upstream of or within created_by: cjm creation_date: 2018-01-26T23:49:51Z [Typedef] id: RO:0004034 name: acts upstream of, positive effect def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] property_value: RO:0004049 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_positive_effect holds_over_chain: RO:0002327 RO:0002304 is_a: RO:0002263 ! acts upstream of is_a: RO:0004032 ! acts upstream of or within, positive effect created_by: cjm creation_date: 2018-01-26T23:53:14Z [Typedef] id: RO:0004035 name: acts upstream of, negative effect def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] property_value: RO:0004050 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_negative_effect holds_over_chain: RO:0002327 RO:0002305 is_a: RO:0002263 ! acts upstream of is_a: RO:0004033 ! acts upstream of or within, negative effect created_by: cjm creation_date: 2018-01-26T23:53:22Z [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect property_value: RO:0004050 RO:0002418 is_a: RO:0002418 ! causally upstream of or within created_by: cjm creation_date: 2018-03-13T23:55:05Z [Typedef] id: RO:0004047 name: causally upstream of or within, positive effect property_value: RO:0004049 RO:0002418 is_a: RO:0002418 ! causally upstream of or within created_by: cjm creation_date: 2018-03-13T23:55:19Z [Typedef] id: adjacent_to name: adjacent to name: adjacent_to namespace: uberon def: "x adjacent to y if and only if x and y share a boundary." [] def: "x adjacent_to y iff: x and y share a boundary" [] xref: RO:0002220 property_value: editor_note "This relation acts as a join point with BSPO" xsd:string property_value: example_of_usage "A caterpillar walking on the surface of a leaf is adjacent_to the leaf, if one of the caterpillar appendages is touching the leaf. In contrast, a butterfly flying close to a flower is not considered adjacent, unless there are any touching parts." xsd:string {http://www.w3.org/2000/01/rdf-schema#seeAlso="issuecomment-218584934"} property_value: example_of_usage "The epidermis layer of a vertebrate is adjacent to the dermis." xsd:string property_value: example_of_usage "The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies." xsd:string property_value: example_of_usage "The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002163 ! spatially disjoint from [Typedef] id: anterior_to name: anterior_to namespace: uberon def: "x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer" [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000096 is_transitive: true created_by: cjm creation_date: 2009-07-31T02:15:46Z [Typedef] id: anteriorly_connected_to name: anteriorly connected to namespace: uberon def: "x anteriorly_connected_to y iff the anterior part of x is connected to y. i.e. x connected_to y and x posterior_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] is_a: connected_to ! connected to is_a: posterior_to ! posterior_to is_a: transitively_anteriorly_connected_to ! transitively anteriorly connected to [Typedef] id: attaches_to name: attached to name: attaches_to namespace: uberon def: "a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a" [] subset: ro-eco xref: RO:0002371 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000589 "attached to (anatomical structure to anatomical structure)" xsd:string property_value: seeAlso FMA:85990 is_symmetric: true is_a: attaches_to_part_of ! attached to part of is_a: connected_to ! connected to is_a: connects ! connects [Typedef] id: attaches_to_part_of name: attached to part of name: attaches_to_part_of namespace: uberon def: "a is attached to part of b if a is attached to b, or a is attached to some p, where p is part of b." [] xref: RO:0002177 property_value: IAO:0000589 "attached to part of (anatomical structure to anatomical structure)" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure holds_over_chain: attaches_to part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: RO:0002323 ! mereotopologically related to is_a: RO:0002567 ! biomechanically related to equivalent_to_chain: attaches_to part_of ! part_of [Typedef] id: axiom_lost_from_external_ontology name: axiom_lost_from_external_ontology namespace: uberon def: "A textual description of an axiom loss in this ontology compared to an external ontology." [https://orcid.org/0000-0002-6601-2165] comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000002 is_metadata_tag: true [Typedef] id: bearer_of name: bearer of namespace: uberon def: "a relation between an independent continuant (the bearer) and a specifically dependent continuant (the dependent), in which the dependent specifically depends on the bearer for its existence" [] xref: RO:0000053 property_value: editor_note "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string property_value: example_of_usage "this apple is bearer of this red color" xsd:string property_value: example_of_usage "this vase is bearer of this fragility" xsd:string property_value: IAO:0000111 "bearer of" xsd:string property_value: IAO:0000118 "bearer_of" xsd:string property_value: IAO:0000118 "is bearer of" xsd:string property_value: RO:0001900 RO:0001901 range: BFO:0000020 ! specifically dependent continuant [Typedef] id: boundary_of name: 2D boundary of name: boundary of namespace: uberon def: "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" [] xref: RO:0002000 property_value: editor_note "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: editor_note "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string property_value: example_of_usage "the surface of my skin is a 2D boundary of my body" xsd:string property_value: IAO:0000118 "2D_boundary_of" xsd:string property_value: IAO:0000118 "boundary of" xsd:string property_value: IAO:0000118 "is 2D boundary of" xsd:string property_value: IAO:0000118 "is boundary of" xsd:string property_value: RO:0001900 RO:0001901 is_a: RO:0002323 ! mereotopologically related to inverse_of: has_boundary ! has 2D boundary [Typedef] id: bounding_layer_of name: bounding layer of namespace: uberon def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\n. X part_of Y\n. exists Z :surface\n. X has_boundary Z\n. Z boundary_of Y\n\nhas_boundary: http://purl.obolibrary.org/obo/RO_0002002\nboundary_of: http://purl.obolibrary.org/obo/RO_0002000" [] comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string range: BFO:0000040 ! material entity is_a: part_of ! part_of [Typedef] id: branching_part_of name: branching part of name: branching_part_of namespace: uberon def: "x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y" [] subset: ro-eco xref: RO:0002380 property_value: editor_note "we need to check if FMA branch_of implies part_of. the relation we intend to use here should - for example, see vestibulocochlear nerve" xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso FMA:85994 xsd:string property_value: seeAlso FMA:85994 is_a: part_of ! part_of is_a: RO:0002375 ! in branching relationship with inverse_of: has_branching_part ! has branching part [Typedef] id: capable_of name: capable of namespace: uberon def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 property_value: curator_notes "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." xsd:string property_value: example_of_usage "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" xsd:string property_value: example_of_usage "osteoclast SubClassOf 'capable of' some 'bone resorption'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has function realized in" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20123131 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/21208450 domain: BFO:0000004 ! independent continuant range: BFO:0000015 ! process is_a: capable_of_part_of ! capable of part of is_a: functionally_related_to ! functionally related to expand_expression_to: "RO_0000053 some (RO_0000054 only ?Y)" [] [Typedef] id: capable_of_part_of name: capable of part of namespace: uberon def: "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." [] xref: RO:0002216 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has function in" xsd:string property_value: seeAlso "defining-property-chains-involving-reflexivity" holds_over_chain: capable_of part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: functionally_related_to ! functionally related to is_a: RO:0002500 ! causal agent in process expand_expression_to: "RO_0000053 some (RO_0000054 only (BFO_0000050 some ?Y))" [] [Typedef] id: channel_for name: channel for namespace: uberon synonym: "carries" BROAD [] domain: UBERON:0004111 ! anatomical conduit range: UBERON:0000463 ! organism substance [Typedef] id: channels_from name: channels_from namespace: uberon is_transitive: true [Typedef] id: channels_into name: channels_into namespace: uberon is_transitive: true [Typedef] id: composed_primarily_of name: composed primarily of namespace: uberon def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] def: "x composed_primarily_of y iff: more than half of the mass of x is made from parts of y" [] subset: ro-eco xref: RO:0002473 property_value: example_of_usage "'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: has_part ! has part [Typedef] id: conduit_for name: conduit for namespace: uberon def: "x is a conduit for y iff y passes through the lumen of x." [] [Typedef] id: connected_to name: connected to namespace: uberon def: "a is connected to b if and only if a and b are discrete structure, and there exists some connecting structure c, such that c connects a and b" [] def: "Binary relationship: x connected_to y if and only if there exists some z such that z connects x and y in a ternary connected_to(x,y,z) relationship." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] comment: Connection does not imply overlaps. xref: RO:0002170 property_value: example_of_usage "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." xsd:string property_value: foaf-page https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern xsd:anyURI property_value: foaf-page https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern xsd:anyURI property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: seeAlso SIO:000652 is_a: RO:0002323 ! mereotopologically related to is_a: transitively_connected_to ! transitively_connected to [Typedef] id: connects name: connects namespace: uberon def: "Binary relationship: z connects x if and only if there exists some y such that z connects x and y in a ternary connected_to(x,y,z) relationship." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] xref: RO:0002176 property_value: editor_note "this is currently used for both structural relationships (such as between a valve and the chamber it connects) and abstract relationships (anatomical lines and the entities they connect)" xsd:string property_value: example_of_usage "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." xsd:string property_value: example_of_usage "The M8 connects Glasgow and Edinburgh" xsd:string property_value: foaf-page https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern xsd:anyURI property_value: foaf-page https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern xsd:anyURI property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 domain: BFO:0000004 ! independent continuant is_a: RO:0002323 ! mereotopologically related to [Typedef] id: contains name: contains namespace: uberon subset: ro-eco xref: RO:0001019 property_value: IAO:0000111 "contains" xsd:string property_value: RO:0001900 RO:0001901 [Typedef] id: contains_process name: contains process namespace: uberon def: "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" [] comment: Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant xref: BFO:0000067 property_value: IAO:0000111 "site of" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Typedef] id: continuous_with name: continuous with name: continuous_with namespace: uberon def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] xref: RO:0002150 property_value: curator_notes "The label for this relation was previously connected to. I relabeled this to \"continuous with\". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint)" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "connected to" xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso FMA:85972 xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002323 ! mereotopologically related to [Typedef] id: contributes_to_morphology_of name: contributes to morphology of namespace: uberon def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] xref: RO:0002433 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: overlaps ! overlaps [Typedef] id: correlates_with name: correlates_with namespace: quality [Typedef] id: curator_notes name: curator note name: curator notes namespace: uberon def: "An administrative note of use for a curator but of no use for a user" [] xref: IAO:0000232 property_value: IAO:0000111 "curator note" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Alan Ruttenberg" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl is_metadata_tag: true [Typedef] id: dc-contributor name: contributor namespace: uberon xref: http://purl.org/dc/elements/1.1/contributor is_metadata_tag: true [Typedef] id: dc-creator name: creator namespace: uberon xref: http://purl.org/dc/elements/1.1/creator is_metadata_tag: true [Typedef] id: dc-source name: derived from resource namespace: uberon xref: http://purl.org/dc/elements/1.1/source is_metadata_tag: true [Typedef] id: decreased_in_magnitude_relative_to name: decreased_in_magnitude_relative_to namespace: quality def: "q1 decreased_in_magnitude_relative_to q2 if and only if magnitude(q1) < magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] comment: This relation is used to determine the 'directionality' of relative qualities such as 'decreased strength', relative to the parent type, 'strength'. domain: PATO:0000001 ! quality range: PATO:0000001 ! quality is_transitive: true is_a: different_in_magnitude_relative_to ! different_in_magnitude_relative_to [Typedef] id: deep_to name: deep_to namespace: uberon def: "Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000107 is_transitive: true [Typedef] id: development_notes name: development_notes namespace: uberon def: "Notes on the ontogenic development of instances of this class." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000011 property_value: editor_note "This annotation property may be replaced with an annotation property from an external ontology such as IAO" xsd:string is_metadata_tag: true [Typedef] id: developmentally_contributes_to name: developmentally contributes to name: developmentally_contributes_to namespace: uberon def: "inverse of has developmental contribution from" [] subset: RO:0002259 xref: RO:0002255 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: develops_into part_of is_a: has_potential_to_developmentally_contribute_to ! has potential to developmentally contribute to is_a: RO:0002286 ! developmentally succeeded by [Typedef] id: developmentally_induced_by name: developmentally induced by name: developmentally_induced_by namespace: uberon def: "t1 developmentally_induced_by t2 if there is a process of organ induction (GO:0001759) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor tissue type T to T', where T' develops_from T." [GO:0001759] def: "t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor anatomical structure type T to T', where T' develops_from T" [] comment: sources for developmentally_induced_by relationships in Uberon: Developmental Biology, Gilbert, 8th edition, figure 6.5(F) xref: RO:0002256 property_value: curator_notes "We place this under 'developmentally preceded by'. This placement should be examined in the context of reciprocal inductions[cjm]" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Melissa Haendel" xsd:string property_value: IAO:0000118 "induced by" xsd:string property_value: IAO:0000119 " Developmental Biology, Gilbert, 8th edition, figure 6.5(F)" xsd:string property_value: IAO:0000119 GO:0001759 xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: developmentally_preceded_by ! developmentally preceded by inverse_of: RO:0002257 ! developmentally induces [Typedef] id: developmentally_preceded_by name: developmentally preceded by namespace: uberon def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from xref: RO:0002258 property_value: curator_notes "In general you should not use this relation to make assertions - use one of the more specific relations below this one" xsd:string property_value: editor_note "false" xsd:boolean property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002324 ! developmentally related to inverse_of: RO:0002286 ! developmentally succeeded by [Typedef] id: developmentally_replaces name: developmentally replaces name: developmentally_replaces namespace: uberon def: "x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else" [] xref: RO:0002285 property_value: editor_note "This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "replaces" xsd:string is_a: developmentally_preceded_by ! developmentally preceded by [Typedef] id: develops_from name: develops from name: develops_from namespace: uberon namespace: worm_anatomy def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation xref: RO:0002202 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Melissa Haendel" xsd:string property_value: IAO:0000117 "Terry Meehan" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant holds_over_chain: part_of develops_from is_transitive: true is_a: developmentally_preceded_by ! developmentally preceded by is_a: has_developmental_contribution_from ! has developmental contribution from inverse_of: develops_into ! develops_into transitive_over: part_of ! part_of [Typedef] id: develops_from_part_of name: develops from part of name: develops_from_part_of namespace: uberon def: "x develops from part of y if and only if there exists some z such that x develops from z and z is part of y" [] xref: RO:0002225 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: directly_develops_from part_of is_a: develops_from ! develops from [Typedef] id: develops_in name: develops in name: develops_in namespace: uberon def: "x develops_in y if x is located in y whilst x is developing" [] comment: This relation take from EHDAA2 - precise semantics yet to be defined xref: RO:0002226 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 "EHDAA2" xsd:string property_value: IAO:0000119 "Jonathan Bard, EHDAA2" xsd:string domain: CARO:0000000 ! anatomical entity holds_over_chain: directly_develops_from located_in is_a: developmentally_preceded_by ! developmentally preceded by [Typedef] id: develops_into name: develops into name: develops_into namespace: uberon def: "inverse of develops from" [] subset: RO:0002259 xref: RO:0002203 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Terry Meehan" xsd:string is_transitive: true is_a: has_potential_to_develop_into ! has potential to develop into is_a: has_potential_to_directly_develop_into ! has potential to directly develop into is_a: RO:0002286 ! developmentally succeeded by [Typedef] id: different_in_magnitude_relative_to name: different_in_magnitude_relative_to namespace: quality def: "q1 different_in_magnitude_relative_to q2 if and only if magnitude(q1) NOT =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] domain: PATO:0000001 ! quality range: PATO:0000001 ! quality [Typedef] id: directly_develops_from name: directly develops from name: directly_develops_from namespace: uberon def: "Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y." [] comment: TODO - add child relations from DOS xref: RO:0002207 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "has developmental precursor" xsd:string property_value: IAO:0000119 "FBbt" xsd:string property_value: RO:0002575 RO:0002202 is_a: develops_from ! develops from inverse_of: RO:0002210 ! directly develops into [Typedef] id: dorsal_to name: dorsal_to namespace: uberon def: "x dorsal_to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000098 is_transitive: true inverse_of: ventral_to ! ventral_to [Typedef] id: drains name: drains namespace: uberon def: "Relation between an collecting structure and another structure, where the collecting structure acts as a conduit channeling fluid, substance or energy away from the other structure." [] comment: source: Wikipedia synonym: "drains blood from" EXACT [] synonym: "drains from" EXACT [] xref: RO:0002179 property_value: editor_note "Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between a vein and an anatomical structure" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 domain: UBERON:0001638 ! vein is_a: connected_to ! connected to [Typedef] id: dubious_for_taxon name: dubious for taxon name: dubious_for_taxon namespace: uberon def: "S dubious_for_taxon T if it is probably the case that no instances of S can be found in any instance of T." [https://orcid.org/0000-0002-6601-2165] comment: This relation lacks a strong logical interpretation, but can be used in place of never_in_taxon where it is desirable to state that the definition of the class is too strict for the taxon under consideration, but placing a never_in_taxon link would result in a chain of inconsistencies that will take ongoing coordinated effort to resolve. Example: metencephalon in teleost comment: this relation lacks a strong logical interpretation, but can be used in place of never_in_taxon where it is desirable to state that the definition of the class is too strict for the taxon under consideration, but placing a never_in_taxon link would result in a chain of inconsistencies that will take time to resolve. Example: metencephalon in teleost xref: RO:0002174 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints is_metadata_tag: true is_class_level: true [Typedef] id: editor_note name: editor note namespace: uberon def: "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." [] xref: IAO:0000116 property_value: IAO:0000111 "editor note" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Daniel Schober" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl is_metadata_tag: true [Typedef] id: ends name: ends namespace: uberon def: "inverse of ends with" [] def: "Relation between occurrents, shares an end boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165, ZFS:finishes] subset: ro-eco synonym: "finishes" EXACT [] xref: RO:0002229 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: part_of ! part_of is_a: RO:0002222 ! temporally related to inverse_of: ends_with ! ends with [Typedef] id: ends_during name: ends during name: ends_during namespace: external comment: X ends_during Y iff: ((start(Y) before_or_simultaneous_with end(X)) AND end(X) before_or_simultaneous_with end(Y). subset: ro-eco xref: RO:0002093 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "o" xsd:string property_value: IAO:0000118 "overlaps" xsd:string is_a: RO:0002222 ! temporally related to [Typedef] id: ends_with name: ends with namespace: uberon def: "x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: RO:0002230 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "finished by" xsd:string is_transitive: true is_a: has_part ! has part is_a: RO:0002222 ! temporally related to [Typedef] id: example_of_usage name: example of usage namespace: uberon def: "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." [] xref: IAO:0000112 property_value: IAO:0000111 "example" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Daniel Schober" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl is_metadata_tag: true [Typedef] id: existence_ends_during name: existence ends during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely." [https://orcid.org/0000-0002-6601-2165] def: "x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. synonym: "ceases_to_exist_during" EXACT [] xref: RO:0002492 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_ends_during_or_before ! existence ends during or before is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of [Typedef] id: existence_ends_during_or_before name: existence ends during or before namespace: uberon def: "x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002497 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: part_of existence_ends_during_or_before holds_over_chain: RO:0002286 existence_ends_during_or_before is_a: RO:0002487 ! relation between structure and stage transitive_over: part_of ! part_of transitive_over: precedes ! precedes [Typedef] id: existence_ends_with name: existence ends with namespace: uberon def: "Relation between continuant and occurrent, such that c ceases to exist at the end of p." [https://orcid.org/0000-0002-6601-2165] def: "x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002493 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage is_a: existence_ends_during ! existence ends during [Typedef] id: existence_starts_and_ends_during name: existence starts and ends during namespace: uberon domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage is_a: existence_ends_during ! existence ends during is_a: existence_starts_during ! existence starts during [Typedef] id: existence_starts_during name: existence starts during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c comes into existing during some s." [https://orcid.org/0000-0002-6601-2165] def: "x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y)." [] synonym: "begins_to_exist_during" EXACT [] xref: RO:0002488 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_starts_during_or_after ! existence starts during or after is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of [Typedef] id: existence_starts_during_or_after name: existence starts during or after namespace: uberon def: "x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002496 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: developmentally_preceded_by existence_starts_during_or_after holds_over_chain: part_of existence_starts_during_or_after is_a: RO:0002487 ! relation between structure and stage transitive_over: part_of ! part_of transitive_over: preceded_by ! preceded_by [Typedef] id: existence_starts_with name: existence starts with namespace: uberon def: "Relation between continuant and occurrent, such that c comes into existence at the start of p." [https://orcid.org/0000-0002-6601-2165] def: "x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y)." [] xref: RO:0002489 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage is_a: existence_starts_during ! existence starts during [Typedef] id: external_definition name: external_definition namespace: uberon def: "An alternate textual definition for a class taken unmodified from an external source. This definition may have been used to derive a generalized definition for the new class." [https://orcid.org/0000-0002-6601-2165] comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000001 is_metadata_tag: true [Typedef] id: external_ontology_notes name: external_ontology_notes namespace: uberon def: "Notes on how similar or equivalent classes are represented in other ontologies." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000012 property_value: editor_note "This annotation property may be replaced with an annotation property from an external ontology such as IAO" xsd:string is_metadata_tag: true [Typedef] id: filtered_through name: filtered through namespace: uberon def: "Relationship between a fluid and a material entity, where the fluid is the output of a realization of a filtration role that inheres in the material entity." [] comment: Relationship between a fluid and a filtration barrier, where the portion of fluid arises as a transformation of another portion of fluid on the other side of the barrier, with larger particles removed [Typedef] id: fma_set_term name: fma_set_term namespace: uberon xref: UBPROP:0000202 property_value: external_ontology_notes "FMA has terms like 'set of X'. In general we do not include set-of terms in uberon, but provide a mapping between the singular form and the FMA set term" xsd:string {external_ontology="FMA"} is_metadata_tag: true [Typedef] id: foaf-page name: page namespace: uberon xref: http://xmlns.com/foaf/0.1/page is_metadata_tag: true [Typedef] id: function_notes name: function_notes namespace: uberon def: "Notes on the evolved function of instances of this class." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000009 property_value: editor_note "This annotation property may be replaced with an annotation property from an external ontology such as IAO" xsd:string is_metadata_tag: true [Typedef] id: functionally_related_to name: functionally related to namespace: uberon def: "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." [] xref: RO:0002328 property_value: curator_notes "This is a grouping relation that collects relations used for the purpose of connecting structure and function" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string [Typedef] id: happens_during name: happens during namespace: external comment: X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y)) subset: ro-eco xref: RO:0002092 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "d" xsd:string property_value: IAO:0000118 "during" xsd:string is_transitive: true is_a: ends_during ! ends_during [Typedef] id: has_boundary name: has 2D boundary name: has boundary namespace: uberon def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] xref: RO:0002002 property_value: editor_note "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: editor_note "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string property_value: example_of_usage "my body has 2D boundary the surface of my skin" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "has boundary" xsd:string property_value: IAO:0000118 "has_2D_boundary" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000141 ! immaterial entity is_a: RO:0002323 ! mereotopologically related to [Typedef] id: has_branching_part name: has branching part namespace: uberon def: "inverse of branching part of" [] subset: ro-eco subset: RO:0002259 xref: RO:0002569 property_value: IAO:0000117 "Chris Mungall" xsd:string is_transitive: true is_a: RO:0002375 ! in branching relationship with [Typedef] id: has_component name: has component name: has_component namespace: protein namespace: uberon def: "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] subset: ro-eco xref: RO:0002180 property_value: curator_notes "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." xsd:string property_value: editor_note "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: RO:0001900 RO:0001901 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:Componency is_transitive: false is_a: has_part ! has part [Typedef] id: has_cross_section name: has_cross_section namespace: quality def: "s3 has_cross_section s3 if and only if : there exists some 2d plane that intersects the bearer of s3, and the impression of s3 upon that plane has shape quality s2." [PATOC:CJM] comment: Example: a spherical object has the quality of being spherical, and the spherical quality has_cross_section round. [Typedef] id: has_developmental_contribution_from name: has developmental contribution from namespace: uberon def: "x has developmental contribution from y iff x has some part z such that z develops from y" [] xref: RO:0002254 property_value: example_of_usage "Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000000 ! anatomical entity range: CARO:0000000 ! anatomical entity holds_over_chain: has_part develops_from is_transitive: true is_a: developmentally_preceded_by ! developmentally preceded by inverse_of: developmentally_contributes_to ! developmentally contributes to [Typedef] id: has_functional_parent name: has functional parent namespace: chebi_ontology is_cyclic: false is_transitive: false [Typedef] id: has_member name: has member namespace: uberon def: "has member is a mereological relation between a collection and an item." [] xref: RO:0002351 property_value: IAO:0000119 "SIO" xsd:string property_value: RO:0001900 RO:0001901 is_a: has_part ! has part [Typedef] id: has_parent_hydride name: has parent hydride namespace: chebi_ontology is_cyclic: false is_transitive: false [Typedef] id: has_part name: has part name: has_part namespace: chebi_ontology namespace: external namespace: protein namespace: quality namespace: uberon def: "a core relation that holds between a whole and its part" [] def: "Q1 has_part Q2 if and only if: every instance of Q1 is a quality_of an entity that has_quality some Q2." [PATOC:CJM] comment: We use the has_part relation to relate complex qualities to more primitive ones. A complex quality is a collection of qualities. The complex quality cannot exist without the sub-qualities. For example, the quality 'swollen' necessarily comes with the qualities of 'protruding' and 'increased size'. xref: BFO:0000051 property_value: editor_note "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." xsd:string property_value: example_of_usage "my body has part my brain (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" xsd:string property_value: example_of_usage "this year has part this day (occurrent parthood)" xsd:string property_value: IAO:0000111 "has part" xsd:string property_value: IAO:0000118 "has_part" xsd:string property_value: RO:0001900 RO:0001901 is_cyclic: false is_transitive: true is_a: overlaps ! overlaps [Typedef] id: has_potential_to_develop_into name: has potential to develop into namespace: uberon def: "x has the potential to develop into y iff x develops into y or if x is capable of developing into y" [] xref: RO:0002387 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002384 ! has developmental potential involving [Typedef] id: has_potential_to_developmentally_contribute_to name: has potential to developmentally contribute to namespace: uberon def: "x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y" [] xref: RO:0002385 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002384 ! has developmental potential involving [Typedef] id: has_potential_to_directly_develop_into name: has potential to directly develop into namespace: uberon def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] xref: RO:0002388 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_potential_to_develop_into ! has potential to develop into [Typedef] id: has_relational_adjective name: has_relational_adjective namespace: uberon comment: Used to connect a class to an adjectival form of its label. For example, a class with label 'intestine' may have a relational adjective 'intestinal'. xref: UBPROP:0000007 property_value: curator_notes "Used to connect a class to an adjectival form of its label. For example, a class with label 'intestine' may have a relational adjective 'intestinal'." xsd:string is_metadata_tag: true [Typedef] id: has_role name: has role name: has_role namespace: chebi_ontology namespace: protein def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] xref: RO:0000087 property_value: editor_note "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string property_value: example_of_usage "this person has role this investigator role (more colloquially: this person has this role of investigator)" xsd:string property_value: IAO:0000118 "has_role" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000023 ! role is_cyclic: false is_transitive: false is_a: bearer_of ! bearer of [Typedef] id: has_skeleton name: has skeleton namespace: uberon def: "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." [] def: "A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision." [http://orcid.org/0000-0002-6601-2165] synonym: "has sekeletal support" RELATED [] synonym: "has supporting framework" RELATED [] xref: RO:0002551 property_value: curator_notes "The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell)." xsd:string property_value: example_of_usage "Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has supporting framework" xsd:string domain: CARO:0000003 ! connected anatomical structure domain: UBERON:0000475 ! organism subdivision range: CARO:0000006 {http://purl.obolibrary.org/obo/IAO_0000116="This should be to a more restricted class, but not the Uberon class may be too restricted since it is a composition-based definition of skeleton rather than functional."} ! material anatomical entity range: UBERON:0010912 ! subdivision of skeleton is_a: has_part ! has part inverse_of: skeleton_of ! skeleton of is_asymmetric: true [Typedef] id: homology_notes name: homology_notes namespace: uberon def: "Notes on the homology status of this class." [https://orcid.org/0000-0002-6601-2165] comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000003 is_metadata_tag: true [Typedef] id: immediate_transformation_of name: immediate transformation of name: immediate_transformation_of namespace: uberon def: "x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t" [] synonym: "direct_transformation_of" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "immediately transforms from" EXACT [SIO:000658] xref: http://semanticscience.org/resource/SIO_000658 xref: RO:0002495 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl property_value: RO:0002575 RO:0002494 property_value: seeAlso SIO:000658 is_a: directly_develops_from ! directly_develops_from is_a: transformation_of ! transformation of [Typedef] id: immediately_deep_to name: immediately_deep_to namespace: uberon def: "This relation holds when both the deep_to and ajdacent_to relationship similarly hold." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0001107 is_a: adjacent_to ! adjacent_to is_a: deep_to ! deep_to [Typedef] id: immediately_preceded_by name: immediately preceded by name: immediately_preceded_by name: starts_at_end_of namespace: uberon namespace: worm_development def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] comment: X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y) synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string {source="SIO:000251"} property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "starts_at_end_of" xsd:string property_value: seeAlso SIO:000251 holds_over_chain: starts_with ends_with is_a: preceded_by ! preceded_by inverse_of: RO:0002090 ! immediately precedes [Typedef] id: implements_design_pattern name: implements_design_pattern namespace: uberon xref: UBPROP:0000006 is_metadata_tag: true [Typedef] id: in_anterior_side_of name: in_anterior_side_of namespace: uberon def: "X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the anterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000123 is_a: part_of ! part_of [Typedef] id: in_distal_side_of name: in_distal_side_of namespace: uberon def: "X distal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the distal portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000125 is_a: part_of ! part_of [Typedef] id: in_lateral_side_of name: in_lateral_side_of namespace: uberon def: "X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure" [https://orcid.org/0000-0002-6601-2165] xref: BSPO:0000126 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: part_of ! part_of [Typedef] id: in_left_side_of name: in_left_side_of namespace: uberon def: "X in_left_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the left portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000120 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in_lateral_side_of [Typedef] id: in_posterior_side_of name: in_posterior_side_of namespace: uberon def: "X posterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the posterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000122 is_a: part_of ! part_of [Typedef] id: in_proximal_side_of name: in_proximal_side_of namespace: uberon def: "X proximal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the proximal portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000124 is_a: part_of ! part_of inverse_of: in_distal_side_of ! in_distal_side_of [Typedef] id: in_right_side_of name: in_right_side_of namespace: uberon def: "X in_right_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the right portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000121 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in_lateral_side_of [Typedef] id: increased_in_magnitude_relative_to name: increased_in_magnitude_relative_to namespace: quality def: "q1 increased_in_magnitude_relative_to q2 if and only if magnitude(q1) > magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] comment: This relation is used to determine the 'directionality' of relative qualities such as 'increased strength', relative to the parent type, 'strength'. domain: PATO:0000001 ! quality range: PATO:0000001 ! quality is_transitive: true is_a: different_in_magnitude_relative_to ! different_in_magnitude_relative_to [Typedef] id: indirectly_supplies name: indirectly_supplies namespace: uberon def: "a indirectly_supplies s iff a has a branch and the branch supplies or indirectly supplies s" [] property_value: editor_note "add to RO" xsd:string holds_over_chain: has_branching_part indirectly_supplies holds_over_chain: has_branching_part supplies is_transitive: true [Typedef] id: input_of name: input of namespace: uberon def: "inverse of has input" [] subset: ro-eco subset: RO:0002259 xref: RO:0002352 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: functionally_related_to ! functionally related to is_a: participates_in ! participates_in [Typedef] id: involved_in name: involved in name: involved_in namespace: protein def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] xref: RO:0002331 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "actively involved in" xsd:string property_value: IAO:0000118 "enables part of" xsd:string property_value: seeAlso Involved:in holds_over_chain: RO:0002327 part_of is_transitive: false is_a: RO:0002217 ! actively participates in is_a: RO:0002431 ! involved in or involved in regulation of transitive_over: part_of ! part_of [Typedef] id: is_conjugate_acid_of name: is conjugate acid of namespace: chebi_ontology is_cyclic: true is_transitive: false inverse_of: is_conjugate_base_of ! is conjugate base of [Typedef] id: is_conjugate_base_of name: is conjugate base of namespace: chebi_ontology is_cyclic: true is_transitive: false [Typedef] id: is_count_of name: is count of namespace: uberon xref: UBPROP:0000100 is_metadata_tag: true [Typedef] id: is_enantiomer_of name: is enantiomer of namespace: chebi_ontology is_cyclic: true is_transitive: false [Typedef] id: is_opposite_of name: is opposite of namespace: quality def: "x is the opposite of y if there exists some distance metric M, and there exists no z such as M(x,z) <= M(x,y) or M(y,z) <= M(y,x)." [] xref: RO:0002604 property_value: example_of_usage "'anterior end of organism' is-opposite-of 'posterior end of organism'" xsd:string property_value: example_of_usage "'increase in temperature' is-opposite-of 'decrease in temperature'" xsd:string is_metadata_tag: true is_class_level: true [Typedef] id: is_substituent_group_from name: is substituent group from namespace: chebi_ontology is_cyclic: false is_transitive: false [Typedef] id: is_tautomer_of name: is tautomer of namespace: chebi_ontology is_cyclic: true is_transitive: true [Typedef] id: located_in name: located in name: located_in namespace: protein namespace: uberon def: "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" [] xref: RO:0001025 property_value: dc-source http://www.obofoundry.org/ro/#OBO_REL:located_in xsd:string property_value: editor_note "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: editor_note "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: example_of_usage "my brain is located in my head" xsd:string property_value: example_of_usage "this rat is located in this cage" xsd:string property_value: IAO:0000111 "located in" xsd:string property_value: IAO:0000118 "located_in" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000004 {http://purl.obolibrary.org/obo/IAO_0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant range: BFO:0000004 {http://purl.obolibrary.org/obo/IAO_0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true [Typedef] id: location_of name: location of name: location_of namespace: uberon def: "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" [] xref: RO:0001015 property_value: editor_note "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: example_of_usage "my head is the location of my brain" xsd:string property_value: example_of_usage "this cage is the location of this rat" xsd:string property_value: IAO:0000111 "is location of" xsd:string property_value: IAO:0000118 "location_of" xsd:string property_value: RO:0001900 RO:0001901 is_transitive: true inverse_of: located_in ! located in [Typedef] id: lumen_of name: lumen of namespace: uberon def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco xref: RO:0002571 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:cjm xsd:string range: BFO:0000040 ! material entity is_a: part_of ! part_of [Typedef] id: luminal_space_of name: luminal space of namespace: uberon def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco xref: RO:0002572 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000141 ! immaterial entity is_a: lumen_of ! lumen of is_a: part_of ! part_of [Typedef] id: member_of name: member of namespace: uberon def: "is member of is a mereological relation between a item and a collection." [] xref: RO:0002350 property_value: example_of_usage "An organism that is a member of a population of organisms" xsd:string property_value: IAO:0000118 "is member of" xsd:string property_value: IAO:0000118 "member part of" xsd:string property_value: IAO:0000119 "SIO" xsd:string property_value: RO:0001900 RO:0001901 is_a: part_of ! part_of inverse_of: has_member ! has member [Typedef] id: negatively_regulates name: negatively regulates namespace: external def: "Process(P1) negatively regulates process(P2) iff: P1 terminates P2, or P1 descreases the the frequency of initiation of P2 or the magnitude or rate of output of P2." [] xref: RO:0002212 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002211 holds_over_chain: ends_with negatively_regulates is_a: regulates ! regulates is_a: RO:0002305 ! causally upstream of, negative effect inverse_of: RO:0002335 ! negatively regulated by [Typedef] id: occurs_in name: occurs in namespace: external def: "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" [] comment: Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant xref: BFO:0000066 property_value: IAO:0000111 "occurs in" xsd:string property_value: IAO:0000118 "occurs_in" xsd:string property_value: IAO:0000118 "unfolds in" xsd:string property_value: IAO:0000118 "unfolds_in" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl domain: BFO:0000003 ! occurrent range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: contains_process ! contains process transitive_over: part_of ! part_of [Typedef] id: overlaps name: overlaps namespace: uberon def: "A overlaps B if they share some part in common." [] def: "x overlaps y if and only if there exists some z such that x has part z and z part of y" [] subset: ro-eco xref: RO:0002131 property_value: IAO:0000114 IAO:0000125 property_value: RO:0001900 RO:0001901 holds_over_chain: has_part overlaps holds_over_chain: has_part part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} holds_over_chain: part_of part_of is_a: RO:0002323 ! mereotopologically related to expand_expression_to: "BFO_0000051 some (BFO_0000050 some ?Y)" [] expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" [] [Typedef] id: part_of name: part of name: part_of namespace: external namespace: protein namespace: quality namespace: uberon namespace: worm_anatomy namespace: worm_development def: "a core relation that holds between a part and its whole" [] xref: BFO:0000050 property_value: editor_note "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." xsd:string property_value: example_of_usage "my brain is part of my body (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" xsd:string property_value: example_of_usage "this day is part of this year (occurrent parthood)" xsd:string property_value: IAO:0000111 "is part of" xsd:string property_value: IAO:0000118 "part_of" xsd:string property_value: RO:0001900 RO:0001901 property_value: RO:0040042 BFO:0000002 property_value: RO:0040042 BFO:0000003 property_value: RO:0040042 BFO:0000004 property_value: RO:0040042 BFO:0000017 property_value: RO:0040042 BFO:0000019 property_value: RO:0040042 BFO:0000020 property_value: RO:0040042 BFO:0000031 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:PartOf property_value: seeAlso http://www.obofoundry.org/ro/#OBO_REL:part_of xsd:string is_transitive: true is_a: overlaps ! overlaps inverse_of: has_part ! has part [Typedef] id: part_of_structure_that_is_capable_of name: part of structure that is capable of namespace: uberon def: "this relation holds between c and p when c is part of some c', and c' is capable of p." [] xref: RO:0002329 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "false" xsd:boolean holds_over_chain: part_of capable_of {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to [Typedef] id: participates_in name: participates in name: participates_in namespace: protein def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 property_value: example_of_usage "this blood clot participates in this blood coagulation" xsd:string property_value: example_of_usage "this input material (or this output material) participates in this process" xsd:string property_value: example_of_usage "this investigator participates in this investigation" xsd:string property_value: IAO:0000111 "participates in" xsd:string property_value: IAO:0000118 "participates_in" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000003 ! occurrent is_transitive: false inverse_of: RO:0000057 ! has participant [Typedef] id: pharyngeal_arch_number name: pharyngeal arch number namespace: uberon def: "x pharyngeal_arch_number N if and only if (i) x is a pharyngeal arch, and (ii) x is ancestrally pharyngeal arch number N in a series of pharyngeal arches repeated along a antero-posterior axis, with arch_number 1 being the mandibular arch." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000103 property_value: is_count_of UBERON:0002539 property_value: preceding_element_is BSPO:0000096 property_value: terminology_notes "gill arch N = PA N-2. the term branchial_arch is ambiguous." xsd:string is_metadata_tag: true [Typedef] id: positively_regulates name: positively regulates namespace: external def: "Process(P1) postively regulates process(P2) iff: P1 initiates P2, or P1 increases the the frequency of initiation of P2 or the magnitude or rate of output of P2." [] xref: RO:0002213 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002211 holds_over_chain: ends_with positively_regulates holds_over_chain: negatively_regulates negatively_regulates is_transitive: true is_a: regulates ! regulates is_a: RO:0002304 ! causally upstream of, positive effect inverse_of: RO:0002336 ! positively regulated by [Typedef] id: posterior_to name: posterior_to namespace: uberon def: "x posterior_to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail." [http://orcid.org/0000-0002-6601-2165] synonym: "caudal_to" NARROW [] xref: BSPO:0000099 is_transitive: true [Typedef] id: posteriorly_connected_to name: posteriorly connected to namespace: uberon def: "x posteriorly_connected_to y iff the posterior part of x is connected to y. i.e. x connected_to y and x anterior_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] is_a: anterior_to ! anterior_to is_a: connected_to ! connected to [Typedef] id: preceded_by name: preceded by name: preceded_by namespace: uberon namespace: worm_development def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] subset: ro-eco synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 property_value: dc-source http://www.obofoundry.org/ro/#OBO_REL:preceded_by xsd:string property_value: editor_note "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string property_value: IAO:0000111 "preceded by" xsd:string property_value: IAO:0000118 "is preceded by" xsd:string property_value: IAO:0000118 "preceded_by" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: happens_during preceded_by holds_over_chain: part_of preceded_by holds_over_chain: starts_during preceded_by is_transitive: true is_a: RO:0002086 ! ends after inverse_of: precedes ! precedes [Typedef] id: precedes name: precedes namespace: uberon def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 property_value: IAO:0000111 "precedes" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: happens_during precedes holds_over_chain: part_of precedes is_transitive: true is_a: RO:0002222 ! temporally related to [Typedef] id: preceding_element_is name: preceding element is namespace: uberon def: "A property used in conjunction with repeated_element_number to indicate an axis and directionality along that axis. If P preceding_element_is R, and P is_count_of S, and X P N, and X' P N+1, then it follows that every X R some X', and the class expression [S and R some X' and inv(R) some X] is empty (i.e. X is followed by X', with no intermediates)" [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000101 is_metadata_tag: true [Typedef] id: present_in_taxon name: present in taxon name: present_in_taxon namespace: uberon def: "S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S" [https://orcid.org/0000-0002-6601-2165] synonym: "applicable for taxon" EXACT [] xref: RO:0002175 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints is_metadata_tag: true is_class_level: true [Typedef] id: produced_by name: produced by name: produced_by namespace: uberon def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Melissa Haendel" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity [Typedef] id: produces name: produces namespace: uberon def: "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." [] comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Melissa Haendel" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity inverse_of: produced_by ! produced_by [Typedef] id: proximalmost_part_of name: proximalmost_part_of namespace: uberon def: "X proximalmost_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y" [https://orcid.org/0000-0002-6601-2165] xref: BSPO:0001106 is_a: in_proximal_side_of ! in_proximal_side_of [Typedef] id: reciprocal_of name: reciprocal_of namespace: quality def: "q1 reciprocal_of q2 if and only if : q1 and q2 are relational qualities and a phenotype e q1 e2 mutually implies a phenotype e2 q2 e." [PATOC:CJM] comment: There are frequently two ways to state the same thing: we can say 'spermatocyte lacks asters' or 'asters absent from spermatocyte'. In this case the quality is 'lacking all parts of type' - it is a (relational) quality of the spermatocyte, and it is with respect to instances of 'aster'. One of the popular requirements of PATO is that it continue to support 'absent', so we need to relate statements which use this quality to the 'lacking all parts of type' quality. [Typedef] id: regulates name: regulates namespace: external def: "process(P1) regulates process(P2) iff: P1 results in the initiation or termination of P2 OR affects the frequency of its initiation or termination OR affects the magnitude or rate of output of P2." [] xref: RO:0002211 property_value: curator_notes "Regulation precludes parthood; the regulatory process may not be within the regulated process." xsd:string property_value: editor_note "We use 'regulates' here to specifically imply control. However, many colloquial usages of the term correctly correspond to the weaker relation of 'causally upstream of or within' (aka influences). Consider relabeling to make things more explicit" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Hill" xsd:string property_value: IAO:0000117 "Tanya Berardini" xsd:string property_value: IAO:0000119 "GO" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "regulates (processual)" xsd:string property_value: IAO:0000600 "false" xsd:boolean domain: BFO:0000015 ! process range: BFO:0000015 ! process holds_over_chain: ends_with regulates holds_over_chain: RO:0002578 RO:0002578 is_transitive: true is_a: RO:0002411 ! causally upstream of inverse_of: RO:0002334 ! regulated by [Typedef] id: skeleton_of name: skeleton of namespace: uberon def: "inverse of has skeleton" [] subset: RO:0002259 xref: RO:0002576 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: part_of ! part_of [Typedef] id: starts name: starts namespace: uberon def: "inverse of starts with" [] def: "Relation between occurrents, shares a start boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165] subset: ro-eco xref: RO:0002223 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 "Allen" xsd:string is_a: part_of ! part_of is_a: RO:0002222 ! temporally related to inverse_of: starts_with ! starts with [Typedef] id: starts_during name: starts during name: starts_during namespace: external comment: X starts_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (start(X) before_or_simultaneous_with end(Y)) subset: ro-eco xref: RO:0002091 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "io" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent is_a: RO:0002222 ! temporally related to [Typedef] id: starts_with name: starts with namespace: uberon def: "x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: RO:0002224 property_value: example_of_usage "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "started by" xsd:string is_transitive: true is_a: has_part ! has part is_a: RO:0002222 ! temporally related to [Typedef] id: structure_notes name: structure_notes namespace: uberon def: "Notes on the structure, composition or histology of instances of this class." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000010 property_value: editor_note "This annotation property may be replaced with an annotation property from an external ontology such as IAO" xsd:string is_metadata_tag: true [Typedef] id: subdivision_of name: subdivision of namespace: uberon comment: placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B [Typedef] id: superficial_to name: superficial_to namespace: uberon def: "Near the outer surface of the organism. Thus, skin is superficial to the muscle layer." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000108 [Typedef] id: supplies name: supplies namespace: uberon def: "Relation between an arterial structure and another structure, where the arterial structure acts as a conduit channeling fluid, substance or energy." [] def: "relation between an artery and the structure is supplies with blood." [] comment: source: FMA synonym: "arterial supply of" EXACT [FMA:86003] xref: RO:0002178 property_value: editor_note "Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between an artery and an anatomical structure" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: seeAlso FMA:86003 domain: UBERON:0001637 ! artery is_a: connected_to ! connected to [Typedef] id: surrounded_by name: surrounded by name: surrounded_by namespace: uberon def: "x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x" [] def: "x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y" [https://orcid.org/0000-0002-6601-2165] xref: RO:0002219 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent_to inverse_of: surrounds ! surrounds [Typedef] id: surrounds name: surrounds namespace: uberon def: "inverse of surrounded by" [] def: "inverse of surrounded_by" [https://orcid.org/0000-0002-6601-2165] subset: RO:0002259 xref: RO:0002221 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent_to [Typedef] id: taxon_notes name: taxon_notes namespace: uberon def: "Notes on the how instances of this class vary across species." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000008 is_metadata_tag: true [Typedef] id: terminology_notes name: terminology_notes namespace: uberon def: "Notes on how lexical conventions regarding this class, in particular any issues that may arise due to homonyny or synonymy." [https://orcid.org/0000-0002-6601-2165] xref: UBPROP:0000013 property_value: editor_note "This annotation property may be replaced with an annotation property from an external ontology such as IAO" xsd:string is_metadata_tag: true [Typedef] id: towards name: towards namespace: quality comment: Relation binding a relational quality or disposition to the relevant type of entity. [Typedef] id: transformation_of name: transformation of namespace: uberon def: "x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships" [] synonym: "transforms from" EXACT [SIO:000657] xref: RO:0002494 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso SIO:000657 is_transitive: true is_a: develops_from ! develops from [Typedef] id: transitively_anteriorly_connected_to name: transitively anteriorly connected to namespace: uberon def: "." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] is_transitive: true [Typedef] id: transitively_connected_to name: transitively_connected to namespace: uberon is_transitive: true [Typedef] id: tributary_of name: tributary of name: tributary_of namespace: uberon def: "x tributary_of y if and only if x a channel for the flow of a substance into y, where y is larger than x. If x and y are hydrographic features, then y is the main stem of a river, or a lake or bay, but not the sea or ocean. If x and y are anatomical, then y is a vein." [] subset: ro-eco synonym: "drains into" RELATED [dbpowl:drainsTo] xref: RO:0002376 property_value: curator_notes "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (veins, arteries)" xsd:anyURI property_value: example_of_usage "Deschutes River tributary_of Columbia River" xsd:string property_value: example_of_usage "inferior epigastric vein tributary_of external iliac vein" xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "drains into" xsd:string property_value: IAO:0000118 "drains to" xsd:string property_value: IAO:0000118 "tributary channel of" xsd:string property_value: IAO:0000119 http://en.wikipedia.org/wiki/Tributary xsd:string property_value: IAO:0000119 http://www.medindia.net/glossary/venous_tributary.htm xsd:string property_value: seeAlso http://dbpedia.org/ontology/drainsTo property_value: seeAlso http://en.wikipedia.org/wiki/Tributary xsd:anyURI is_a: RO:0002375 ! in branching relationship with [Typedef] id: ventral_to name: ventral_to namespace: uberon def: "x ventral_to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000102 is_transitive: true