Class ID,Preferred Label,Synonyms,Definitions,Obsolete,CUI,Semantic Types,Parents,2D boundary of,a comme produit spécifié,a entrée spécifiée,a membre,a participant,a pour paramètre,a protocole,achieves_planned_objective,actes on behalf of,alternative term,antisymmetric property,bearer of,BFO CLIF specification label,BFO OWL specification label,broadMatch,concretizes,concrétise,contains process,contains process,curator note,dcterms:license,definition,definition source,denoted by,denoted by,denotes,derives from,derives into,disposition of,editor note,editor preferred term,elucidation,est associé à,est attribué à,est commencé par,est fini par,est influencé par,est invalidé par,est partie de,est réalisé dans,exactMatch,example of usage,expand assertion to,expand expression to,first order logic expression,function of,has 2D boundary,has associated axiom(fol),has associated axiom(nl),has axiom label,has coordinate unit label,has curation status,has disposition,has for profile,has function,has ID digit count,has ID policy for,has ID prefix,has ID range allocated to,has identifier,has key,has measurement datum,has measurement unit label,has measurement value,has member,has obsolescence reason,has part,has part,has participant,has quality,has quality,has role,has role,has time stamp,has value,has value specification,has value specification,has x coordinate value,has y coordinate value,has z coordinate value,has_specified_input,has_specified_output,http://data.bioontology.org/metadata/prefixIRI,http://protege.stanford.edu/plugins/owl/protege#defaultLanguage,http://purl.org/dc/elements/1.1/contributor,http://purl.org/dc/elements/1.1/coverage,http://purl.org/dc/elements/1.1/creator,http://purl.org/dc/elements/1.1/date,http://purl.org/dc/elements/1.1/description,http://purl.org/dc/elements/1.1/format,http://purl.org/dc/elements/1.1/identifier,http://purl.org/dc/elements/1.1/language,http://purl.org/dc/elements/1.1/license,http://purl.org/dc/elements/1.1/member,http://purl.org/dc/elements/1.1/publisher,http://purl.org/dc/elements/1.1/relation,http://purl.org/dc/elements/1.1/rights,http://purl.org/dc/elements/1.1/source,http://purl.org/dc/elements/1.1/subject,http://purl.org/dc/elements/1.1/title,http://purl.org/dc/elements/1.1/type,http://purl.org/dc/terms/license,http://www.geneontology.org/formats/oboInOwl#created_by,http://www.geneontology.org/formats/oboInOwl#creation_date,http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty,http://www.w3.org/1999/02/22-rdf-syntax-ns#type,http://www.w3.org/2000/01/rdf-schema#comment,http://www.w3.org/2000/01/rdf-schema#isDefinedBy,http://www.w3.org/2000/01/rdf-schema#seeAlso,http://www.w3.org/ns/prov#actedOnBehalfOf,http://www.w3.org/ns/prov#hadMember,http://www.w3.org/ns/prov#used,http://www.w3.org/ns/prov#value,http://www.w3.org/ns/prov#wasAssociatedWith,http://www.w3.org/ns/prov#wasAttributedTo,http://www.w3.org/ns/prov#wasDerivedFrom,http://www.w3.org/ns/prov#wasEndedBy,http://www.w3.org/ns/prov#wasGeneratedBy,http://www.w3.org/ns/prov#wasInfluencedBy,http://www.w3.org/ns/prov#wasInformedBy,http://www.w3.org/ns/prov#wasInvalidatedBy,http://www.w3.org/ns/prov#wasStartedBy,http://xmlns.com/foaf/0.1/homepage,http://xmlns.com/foaf/0.1/mbox,http://xmlns.com/foaf/0.1/page,IEDB alternative term,imported from,in branch,inheres in,is about,is about,is allocated id range,is concretized as,is denotator type,is derived from,is duration of,is generated by,is informed by,is quality measured as,is quality measurement of,is quality specification of,is_specified_input_of,is_specified_output_of,is_supported_by_data,ISA alternative term,label,located in,location of,may be identical to,member of,mentions,narrowMatch,objective_achieved_by,OBO foundry unique label,obsolete_describes,obsolete_materially denotes,obsolete_represents,obsolete_specifically denotes,occurs in,occurs in,ontology term requester,part of,participates in,quality is specified as,quality of,realized in,realizes,realizes,retired from use as of,role de,role of,scheduled for obsoletion on or after,temporal interpretation,term editor,term replaced by,term tracker item,utilise
http://purl.obolibrary.org/obo/IAO_0000594,software application,,A software application is software that can be directly executed by some processing unit.,false,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,,A software application is software that can be directly executed by some processing unit.,https://github.com/information-artifact-ontology/IAO/issues/80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000594,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software application,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Michel Dumontier,,,
http://purl.obolibrary.org/obo/PATO_0000122,length,,A 1-D extent quality which is equal to the distance between two points.,false,,,http://purl.obolibrary.org/obo/PATO_0001708,,,,,,,,,,,,,,,,,,,,,,A 1-D extent quality which is equal to the distance between two points.,,,,,,,,,length,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0000122,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,length,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/PATO_0000125,mass,,A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter.,false,,,http://purl.obolibrary.org/obo/PATO_0001018,,,,,,,,,,,,,,,,,,,,,,A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter.,,,,,,,,,mass,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0000125,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,mass,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000025,study subject group,,"an aggregation or a set of ""bmslm:studied organism"" having the ""bmslm:study subject"" role",false,,,http://purl.obolibrary.org/obo/BFO_0000027,,,,,,,,,,SGP,,,,,,,,,,,,"an aggregation or a set of ""bmslm:studied organism"" having the ""bmslm:study subject"" role",,,,,,,,,study subject group,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000025,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,study subject group|groupe de sujets dans l étude,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000595,software script,," A software script is software whose instructions can be executed using a software 
interpreter.",false,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,," A software script is software whose instructions can be executed using a software 
interpreter.",https://github.com/information-artifact-ontology/IAO/issues/80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000595,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software script,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Michel Dumontier,,,
http://purl.obolibrary.org/obo/IAO_0000181,Venn diagram,,"A Venn diagram is a report graph showing all hypothetically possible
logical relations between a finite collection of sets.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,"A Venn diagram is a report graph showing all hypothetically possible
logical relations between a finite collection of sets.",WEB: http://en.wikipedia.org/wiki/Venn_diagram,,,,,,,,Venn diagram,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000181,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Venn diagram,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:James Malone|PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://purl.obolibrary.org/obo/OBI_0000471,study design execution,,a planned process that carries out a study design,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,,,,,,,,,,,"6/11/9: edited at workshop. Used to be: study design execution is a process with the objective to generate data according to a concretized study design. The execution of a study design is part of an investigation, and minimally consists of an assay or data transformation.",,a planned process that carries out a study design,branch derived,,,,,,,removed axiom has_part some (assay or 'data transformation') per discussion on protocol application mailing list to improve reasoner performance. The axiom is still desired.,study design execution,,,,,,,,,,,"injecting a mouse with PBS solution, weighing it, and recording the weight according to a study design.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000471,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,,,,,,,,,,,,study design execution,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000043,agent product,,a pharmaceutical object that is produced to act on living organisms or biological samples,false,,,http://purl.obolibrary.org/obo/BFO_0000030,,,,,,,,,,AGT identification,,,,,,,,,,,,a pharmaceutical object that is produced to act on living organisms or biological samples,,,,,,,,,agent product,,,,,,,,,,,Antibody used in immunohistochemistry|18-Fluorodeoxyglucose used in a PET-CT scan,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000043,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,agent product|produit agent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000064,algorithm,,A plan specification which describes the inputs and output of mathematical functions as well as workflow of execution for achieving an predefined objective. Algorithms are realized usually by means of implementation as computer programs for execution by automata.,false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,,,,,,,,,,,,,A plan specification which describes the inputs and output of mathematical functions as well as workflow of execution for achieving an predefined objective. Algorithms are realized usually by means of implementation as computer programs for execution by automata.,"OBI_0000270|adapted from discussion on OBI list (Matthew Pocock, Christian Cocos, Alan Ruttenberg)",,,,,,,,algorithm,,,,,,,,,,,PMID: 18378114.Genomics. 2008 Mar 28. LINKGEN: A new algorithm to process data in genetic linkage studies.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000064,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,algorithm,,,,,,,,,,,,,,,,,,,,,,,,,,,,PlanAndPlannedProcess Branch|Philippe Rocca-Serra,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000001,biomedical research study,,"a planned process that follows several steps, from the specification of the  study to the publication of its results.",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,STU,,,,,,,,,,,,"a planned process that follows several steps, from the specification of the  study to the publication of its results.",,,,,,,,,research study,,,,,,,,,,http://purl.obolibrary.org/obo/ERO_0000347,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000001,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,étude de recherche biomédicale|biomedical research study,,,,,,http://purl.obolibrary.org/obo/OBI_0000066,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000062,technical referent,,"a role played by an expert in the use of a ressource (device, software, method) in the course of a study",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,"a role played by an expert in the use of a ressource (device, software, method) in the course of a study",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000062,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,référent technique|technical referent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.w3.org/ns/prov#Activity,Activity,,,false,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/GAZ_00000448,geographic location,,"A reference to a place on the Earth, by its name or by its geographical location.",false,,,http://purl.obolibrary.org/obo/BFO_0000029,,,,,,,,,,,,,,,,,,,,,,"A reference to a place on the Earth, by its name or by its geographical location.",,,,,,,,,geographic location,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GAZ:00000448,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#NamedIndividual|http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/gaz.owl,,,,,,,,,,,,,,,,,,,geographic location,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000023,device,,"a material entity that is designed to perform a function in a scientific experiment (examination, processing, scientific calculation), but is not a reagent.
source : OBO|first this was called Acquisition Device and Then it was extended to all devices of a study|device has several configurations refered to as versions.",false,,,http://purl.obolibrary.org/obo/OBI_0000047,,,,,,,,,,AQD|DVC,,,,,,,,,,,,"a material entity that is designed to perform a function in a scientific experiment (examination, processing, scientific calculation), but is not a reagent.
source : OBO",,,,,,,,,device,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0000968,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000023,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,first this was called Acquisition Device and Then it was extended to all devices of a study|device has several configurations refered to as versions.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,appareil|device,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000180,heatmap,,"A heatmap is a report graph which is a graphical representation of data
where the values taken by a variable(s) are shown as colors in a
two-dimensional map.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,"A heatmap is a report graph which is a graphical representation of data
where the values taken by a variable(s) are shown as colors in a
two-dimensional map.",GROUP:OBI,,,,,,,,heatmap,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000180,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,heatmap,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:James Malone|PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://purl.obolibrary.org/obo/IAO_0000033,directive information entity,,An information content entity whose concretizations indicate to their bearer how to realize them in a process.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,An information content entity whose concretizations indicate to their bearer how to realize them in a process.,,,,,,,,"8/6/2009 Alan Ruttenberg: Changed label from ""information entity about a realizable"" after discussions at ICBO|Werner pushed back on calling it realizable information entity as it isn't realizable. However this name isn't right either. An example would be a recipe. The realizable entity would be a plan, but the information entity isn't about the plan, it, once concretized, *is* the plan. -Alan|2013-05-30 Alan Ruttenberg: What differentiates a directive information entity from an information concretization is that it can have concretizations that are either qualities or realizable entities. The concretizations that are realizable entities are created when an individual chooses to take up the direction, i.e. has the intention to (try to) realize it.|2009-03-16: provenance: a term realizable information entity was proposed for OBI (OBI_0000337) , edited by the PlanAndPlannedProcess branch. Original definition was  ""is the specification of a process that can be concretized and realized by an actor"" with alternative term  ""instruction"".It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term.",,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000033,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/BFO_0000017,,,,,,,,,,,,,,,,directive information entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Bjoern Peters|PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/BFO_0000015,process,,"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])",false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,Process,process,,,,,,,,"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])",,,,,,,,"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)",,,,,,,,,,,,"the life of an organism|the course of a disease|the flight of a bird|a process of sleeping|your process of aging.|a process of cell-division, \ a beating of the heart|a process of meiosis",,,,,,(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] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000015,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,process,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000045,studied organism,,"A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,SSU organism,,,,,,,,,,,,"A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.",http://en.wikipedia.org/wiki/Organism,,,,,,,,studied organism,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000045,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,studied organism|organisme étudié,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000001,entity,,,false,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,,Entity,entity,,,,,,,,,,,,,,,,"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|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",,An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001]),,,,,,,,,,your body mass index|Verdi’s Requiem|Julius Caesar|the Second World War,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000001,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000185,photograph,,"A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc.",false,,,http://purl.obolibrary.org/obo/IAO_0000101,,,,,,,,,,,,,,,,,,,,,,"A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc.",WEB: http://en.wiktionary.org/wiki/photograph,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000185,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,photograph,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:Alan Ruttenberg|PERSON:Joanne Luciano|PERSON:Melanie Courtot,,,
http://purl.obolibrary.org/obo/GO_0008150,biological_process,,"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.",false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,"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.",,,,,,,,,biological_process,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0008150,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,,,,,,,,,,,,biological_process,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000007,biological sample,,"an object that has been harvested from a living organism: organ, biological tissue, cells, shredded material, etc.",false,,,http://purl.obolibrary.org/obo/BFO_0000030,,,,,,,,,,SAR identification,,,,,http://nmrml.org/nmrCV#NMR:1000457,,,,,,,"an object that has been harvested from a living organism: organ, biological tissue, cells, shredded material, etc.",,,,,,,,,biological sample,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000007,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,échantillon biologique|biological sample,,,,,,http://purl.obolibrary.org/obo/OBI_0100051|http://purl.obolibrary.org/obo/OBI_0002076,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000453,measure function,,Measure function is a function that is borne by a processed material  and realized in a process in which information about some entity is expressed relative to some reference.,false,,,http://purl.obolibrary.org/obo/BFO_0000034,,,,,,,,,,,,,,,,,,,,,,Measure function is a function that is borne by a processed material  and realized in a process in which information about some entity is expressed relative to some reference.,,,,,,,,,measure function,,,,,,,,,,,"A glucometer measures blood glucose concentration, the glucometer has a measure function.",,,,http://purl.obolibrary.org/obo/OBI_0000047,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000453,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,measure function,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Daniel Schober|PERSON:Frank Gibson|PERSON: Helen Parkinson,,,
http://purl.obolibrary.org/obo/OBI_0000272,protocol,,"A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.",false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,,,,,,,,,,,,,"A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.",OBI branch derived + wikipedia (http://en.wikipedia.org/wiki/Protocol_%28natural_sciences%29),,,,,,,,BMSLM: protocol|protocol,,,,,,,,,,,"PCR protocol, has objective specification, amplify DNA fragment of interest, and has action specification describes the amounts of experimental reagents used (e..g. buffers, dNTPS, enzyme), and the temperature and cycle time settings for running the PCR.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000272,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,study protocol,protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,PlanAndPlannedProcess Branch,,,
http://purl.obolibrary.org/obo/BFO_0000028,three-dimensional spatial region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000006,,,,,,,,,,,,,ThreeDimensionalSpatialRegion,3d-s-region,,,,,,,,,,,,,,,,,,A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001]),,,,,,,,,,"a sphere-shaped region of space,|a cube-shaped region of space",,,,,,(forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000028,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,three-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000088,report,,"a document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record)",false,,,http://purl.obolibrary.org/obo/IAO_0000310,,,,,,,,,,,,,,,,,,,,,,"a document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record)",OBI_0000099|GROUP: OBI,,,,,,,"2009-03-16: work has been done on this term during during the OBI workshop winter 2009 and the current definition was considered acceptable for use in OBI. If there is a need to modify this definition please notify OBI.|2009-03-16: this was report of results with definition: A report is a narrative object that is a formal statement of the results of an investigation, or of any matter on which definite information is required, made by some person or body instructed or required to do so.|2009-08-10 Alan Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by 'document'. Alan restored as there are OBI dependencies and this merits further discussion|2009-03-16: comment from Darren Natale: I am slightly uneasy with the sentence ""Topic of the report is on 
something that has completed.""  Should it be restricted to those things 
that are completed?  For example, a progress report is (usually) about 
something that definitely has *not* been completed, or may include 
(only) projections.  I think the definition would not suffer if the 
whole sentence is deleted.|disagreement about where reports go. alan: only some gene lists are reports. Is a report all the content of some document? The example of usage suggests that a report may be part of  some article. Term needs clarification",report,,,,,,,,,,,Examples of reports are gene lists and investigation reports. These are not published (journal) articles but may be included in a journal article.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000088,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,report,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Alan Ruttenberg|PERSON:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/IAO_0000009,datum label,,A label is a symbol that is part of some other datum and is used to either partially define  the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,"9/22/11 BP: changed the rdfs:label for this class from 'label' to 'datum label' to convey that this class is not intended to cover all kinds of labels (stickers, radiolabels, etc.), and not even all kind of textual labels, but rather the kind of labels occuring in a datum. 
",,A label is a symbol that is part of some other datum and is used to either partially define  the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label,,,,,,,,http://www.golovchenko.org/cgi-bin/wnsearch?q=label#4n,datum label,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000009,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,datum label,,,,,,,,,,,,,,,,,,,,,,,,,,,,GROUP: IAO,,,
http://purl.obolibrary.org/obo/IAO_0000416,time measurement datum,,A scalar measurement datum that is the result of measuring a temporal interval,false,,,http://purl.obolibrary.org/obo/IAO_0000032,,,,,,,,,,,,,,,,,,,,,,A scalar measurement datum that is the result of measuring a temporal interval,,,,,,,,2009/09/28 Alan Ruttenberg. Fucoidan-use-case,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000416,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,time measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,Person:Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/OBI_0100051,specimen,,A material entity that has the specimen role.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,A material entity that has the specimen role.,GROUP: OBI Biomaterial Branch,,,,,,,Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.,specimen,,,,,,,,,,,Biobanking of blood taken and stored in a freezer for potential future investigations stores specimen.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0100051,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,specimen,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: James Malone|PERSON: Philippe Rocca-Serra,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000026,data processing unit,,a planned process of analyzing input data to produce output results that are themselves inputs to a subsequent (data processing unit). This sequence composes a (data processing) process,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,PUR,,,,,,,,,,,,a planned process of analyzing input data to produce output results that are themselves inputs to a subsequent (data processing unit). This sequence composes a (data processing) process,,,,,,,,,data processing unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000026,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,unité de chaine de traitement de données|data processing unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000057,contour plot,,,false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,,OBI_0000246|group:Flow Cytometry community,,,,,,,generically_dependent_continuants,contour plot,,,,,,,,,,,"Contour plot of SSC-H, FSC-H, and FL1-H.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000057,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,contour plot,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Allyson Lister|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/BFO_0000006,spatial region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000141,,,,,,,,,,,,,SpatialRegion,s-region,,,,,,,,,,,,,,,,"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.|BFO 2 Reference: Spatial regions do not participate in processes.",,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]),,,,,,,,,,,,,,,,(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] |(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] ,All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000006,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000032,scalar measurement datum,,"a scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label.",false,,,http://purl.obolibrary.org/obo/IAO_0000109,,,,,,,,,,,,,,,,,,,,,,"a scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label.",,,,,,,,"2009-03-16: we decided to keep datum singular in scalar measurement datum, as in
this case we explicitly refer to the singular form|Would write this as: has_part some 'measurement unit label' and has_part some numeral and has_part exactly 2, except for the fact that this won't let us take advantage of OWL reasoning over the numbers. Instead use has measurment value property to represent the same. Use has measurement unit label (subproperty of has_part) so we can easily say that there is only one of them.",,,,,,,,,,,,10 feet. 3 ml.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000032,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,scalar measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/IAO_0000593,software library,,A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application.,false,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,,A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application.,https://github.com/information-artifact-ontology/IAO/issues/80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000593,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software library,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Michel Dumontier,,,
http://purl.obolibrary.org/obo/BFO_0000140,continuant fiat boundary,,"b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])",false,,,http://purl.obolibrary.org/obo/BFO_0000141,,,,,,,,,,,,,ContinuantFiatBoundary,cf-boundary,,,,,,,,"b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])",,,,,,,,"BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions.|BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29|Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions.",,,,,,,,,,,,,,,,,,(iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001] ,Every continuant fiat boundary is located at some spatial region at every time at which it exists,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000140,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,continuant fiat boundary,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.w3.org/ns/prov#Agent,Agent,,,false,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000147,zero-dimensional continuant fiat boundary,,,false,,,http://purl.obolibrary.org/obo/BFO_0000140,,,,,,,,,,,,,ZeroDimensionalContinuantFiatBoundary,0d-cf-boundary,,,,,,,,,,,,,,,,"zero dimension continuant fiat boundaries are not spatial points. Considering the example 'the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet' : There are many frames in which that point is zooming through many points in space. Whereas, no matter what the frame, the quadripoint is always in the same relation to the boundaries of Colorado, Utah, New Mexico, and Arizona.",,a zero-dimensional continuant fiat boundary is a fiat point whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [031-001]),,,,,,,,,,"the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet|the geographic North Pole|the point of origin of some spatial coordinate system.",,,,,,(iff (ZeroDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (ZeroDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [031-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000147,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,zero-dimensional continuant fiat boundary,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000023,role,,,false,,,http://purl.obolibrary.org/obo/BFO_0000017,,,,,,,,,,,,,Role,role,,,,,,,,,,,,,,,,"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.",,"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])",,,,,,,,,,"the role of a stone in marking a property boundary|the priest role|the student role|the role of subject in a clinical trial|the role of a boundary to demarcate two neighboring administrative territories|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.|the role of a building in serving as a military target",,,,,,(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000023,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,role,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000010,examination protocol,,a protocol describing necessary steps to examine an object of interest from a biological or medical point of view.,false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,EXD,,,,,,,,,,,,a protocol describing necessary steps to examine an object of interest from a biological or medical point of view.,,,,,,,,,examination protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000010,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,examination protocol|protocole d'examen,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000031,derived data unit,,an i-c-e resulting from a research study data analysis process,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,PUR data,,,,,,,,,,,,an i-c-e resulting from a research study data analysis process,,,,,,,,,derived data unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000031,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,derived data unit|unité de données dérivées résultant,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000832,measurement device,,A device in which a measure function inheres.,false,,,http://purl.obolibrary.org/obo/OBI_0000968,,,,,,,,,,,,,,,,,,,,,,A device in which a measure function inheres.,OBI,,,,,,,,measurement device,,,,,,,,,,,"A ruler, a microarray scanner, a Geiger counter.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000832,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,measurement device,,,,,,,,,,,,,,,,,,,,,,,,,,,,GROUP:OBI Philly workshop,,,
http://purl.obolibrary.org/obo/IAO_0000414,mass measurement datum,,A scalar measurement datum that is the result of measurement of mass quality,false,,,http://purl.obolibrary.org/obo/IAO_0000032,,,,,,,,,,,,,,,,,,,,,,A scalar measurement datum that is the result of measurement of mass quality,,,,,,,,2009/09/28 Alan Ruttenberg. Fucoidan-use-case,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000414,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,mass measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,Person:Alan Ruttenberg,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000022,software tool,,"a design specification consisting of a series of instructions that can be interpreted by a processing unit or directly executed by it to analyze the study data.
source : OBO",false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,STL,,,,,,,,,,,,"a design specification consisting of a series of instructions that can be interpreted by a processing unit or directly executed by it to analyze the study data.
source : OBO",,,,,,,,,software tool,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000022,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,outil logiciel|software tool,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000009,two-dimensional spatial region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000006,,,,,,,,,,,,,TwoDimensionalSpatialRegion,2d-s-region,,,,,,,,,,,,,,,,,,A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001]),,,,,,,,,,an infinitely thin plane in space.|the surface of a sphere-shaped part of space,,,,,,(forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000009,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,two-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OGMS_0000031,disease,,A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.,,,,,,,,,disease,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000031,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,,,,,,,,,,,,disease,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000012,data acquisition protocol,,a protocol to describe the steps required for data acquisition,false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,ACD,,,,,,,,,,,,a protocol to describe the steps required for data acquisition,,,,,,,,,data acquisition protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000012,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data acquisition protocol|protocole d acquisition de données,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000112,specimen role,,a role borne by a material entity that is gained during a specimen collection process and that can be realized by use of the specimen in an investigation,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,a role borne by a material entity that is gained during a specimen collection process and that can be realized by use of the specimen in an investigation,OBI,,,,,,,"blood taken from animal: animal continues in study, whereas blood has role specimen.
something taken from study subject, leaves the study and becomes the specimen.|parasite example
- when parasite in people we study people, people are subjects and parasites are specimen
- when parasite extracted, they become subject in the following study
specimen can later be subject.|22Jun09.  The definition includes whole organisms, and can include a human.  The link between specimen role and study subject role has been removed.  A specimen taken as part of a case study is not considered to be a population representative, while a specimen taken as representing a population, e.g. person taken from a cohort, blood specimen taken from an animal) would be considered a population representative and would also bear material sample role.|Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.",specimen role,,,,,,,,,,,liver section; a portion of a culture of cells; a nemotode or other animal once no longer a subject (generally killed); portion of blood from a patient.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000112,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,specimen role,,,,,,,,,,,,,,,,,,,,,,,,,,,,GROUP:  Role Branch,,,
http://purl.obolibrary.org/obo/IAO_0000027,data item,,"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.",false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,data,,,,,,,,,,,,"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.",,,,,,,,"2014-03-31: See discussion at http://odontomachus.wordpress.com/2014/03/30/aboutness-objects-propositions/|JAR: datum     -- well, this will be very tricky to define, but maybe some 
information-like stuff that might be put into a computer and that is 
meant, by someone, to denote and/or to be interpreted by some 
process... I would include lists, tables, sentences... I think I might 
defer to Barry, or to Brian Cantwell Smith

JAR: A data item is an approximately justified approximately true approximate belief|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.|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.|2009-03-16: removed datum as alternative term as datum specifically refers to singular form, and is thus not an exact synonym.",data item,,,,,,,,,,,"Data items include counts of things, analyte concentrations, and statistical summaries.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000027,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data item,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Jonathan Rees|PERSON: Chris Stoeckert|PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/PATO_0001241,physical object quality,,A quality which inheres in a continuant.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,A quality which inheres in a continuant.,,,,,,,,,physical object quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0001241,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,physical object quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000038,2 study data collection,,the second lifecycle phase in a study encompassing data collection using several devices and software,false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000036,,,,,,,,,,,,,,,,,,,,,,the second lifecycle phase in a study encompassing data collection using several devices and software,,,,,,,,,study data collection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000038,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,2 collecte de données d étude|2 study data collection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/PATO_0001018,physical quality,,A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities.,false,,,http://purl.obolibrary.org/obo/PATO_0001241,,,,,,,,,,,,,,,,,,,,,,A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities.,,,,,,,,,physical quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0001018,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,physical quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000008,temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,TemporalRegion,t-region,,,,,,,,,,,,,,,,Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional,,A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001]),,,,,,,,,,,,,,,,(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] |(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] |(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] ,Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])|All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000008,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000011,biomedical intervention protocol,,a protocol to describe the steps required to conduct a biomedical intervention,false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,ITD,,,,,,,,,,,,a protocol to describe the steps required to conduct a biomedical intervention,,,,,,,,,biomedical intervention protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000011,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,protocole d'intervention biomédicale|biomedical intervention protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000060,principal investigator,,a role played by the person referee for the project or the study. He/she is usually the head of the lab or a person from the institution coordinating a project,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,PI,,,,,,,,,,,,a role played by the person referee for the project or the study. He/she is usually the head of the lab or a person from the institution coordinating a project,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000060,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,investigateur principal|principal investigator,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000034,biological sample preparation,,a planned process of transforming a biological object into a biological sample ready for examination,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,SAR preparation,,,,,,,,,,,,a planned process of transforming a biological object into a biological sample ready for examination,,,,,,,,,biological sample preparation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000034,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,biological sample preparation|préparation d'échantillons biologiques,,,,,,http://purl.obolibrary.org/obo/OBI_0000659,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/PATO_0001708,1-D extent,,A size quality inhering in an bearer by virtue of the bearer's extension in one dimension.,false,,,http://purl.obolibrary.org/obo/PATO_0000117,,,,,,,,,,,,,,,,,,,,,,A size quality inhering in an bearer by virtue of the bearer's extension in one dimension.,,,,,,,,,1-D extent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0001708,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,1-D extent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000024,fiat object part,,,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,FiatObjectPart,fiat-object-part,,,,,,,,,,,,,,,,BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions,,"b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of  c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])",,,,,,,,,,"the upper and lower lobes of the left lung|the dorsal and ventral surfaces of the body|the division of the brain into regions|or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29|the division of the planet into hemispheres|the Western hemisphere of the Earth|the FMA:regional parts of an intact human body.",,,,,,(forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000024,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,fiat object part,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000148,zero-dimensional temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000008,,,,,,,,,,temporal instant.,,,ZeroDimensionalTemporalRegion,0d-t-region,,,,,,,,,,,,,,,,,,A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001]),,,,,,,,,,the moment at which a finger is detached in an industrial accident|the moment at which a child is born|the moment of death.|a temporal region that is occupied by a process boundary|right now,,,,,,(forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000148,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,zero-dimensional temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000061,operator,,a role of a person doing experiments and operating using a device or a software in order to execute a study process,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,a role of a person doing experiments and operating using a device or a software in order to execute a study process,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000061,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operator|opérateur,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000591,software method,,"A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task.",false,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,,"A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task.",https://github.com/information-artifact-ontology/IAO/issues/80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000591,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software method,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Michel Dumontier,,,
http://purl.obolibrary.org/obo/OBI_0000086,reagent role,,"A role inhering in a biological or chemical entity that is intended to be applied in a scientific technique to participate (or have molecular components that participate) in a chemical reaction that facilitates the generation of data about some entity distinct from the bearer, or the generation of some specified material output distinct from the bearer.|(copied from ReO)
Reagents are distinguished from instruments or devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in or have parts that participate in some chemical interaction or reaction during their intended participation in some technique.  By contrast, instruments do not participate in a chemical reaction/interaction during the technique.

Reagents are distinguished from study subjects/evaluants in that study subjects and evaluants are that about which conclusions are drawn and knowledge is sought in an investigation - while reagents, by definition, are not.  It should be noted, however, that reagent and study subject/evaluant roles can be borne by instances of the same type of material entity - but a given instance will realize only one of these roles in the execution of a given assay or technique. For example, taq polymerase can bear a reagent role or an evaluant role.  In a DNA sequencing assay aimed at generating sequence data about some plasmid, the reagent role of the taq polymerase is realized. In an assay to evaluate the quality of the taq polymerase itself, the evaluant/study subject role of the taq is realized, but not the reagent role since the taq is the subject about which data is generated.

In regard to the statement that reagents are 'distinct' from the specified outputs of a technique, note that a reagent may be incorporated into a material output of a technique, as long as the IDENTITY of this output is distinct from that of the bearer of the reagent role.  For example, dNTPs input into a PCR are reagents that become part of the material output of this technique, but this output has a new identity (ie that of a 'nucleic acid molecule') that is distinct from the identity of the dNTPs that comprise it.  Similarly, a biotin molecule input into a cell labeling technique are reagents that become part of the specified output, but the identity of the output is that of some modified cell specimen which shares identity with the input unmodified cell specimen, and not with the biotin label. Thus, we see that an important criteria of 'reagent-ness' is that it is a facilitator, and not the primary focus of an investigation or material processing technique (ie not the specified subject/evaluant about which knowledge is sought, or the specified output material of the technique).",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,reagent,,,,,,,,,,"Feb 10, 2009.  changes after discussion at OBI Consortium Workshop Feb 2-6, 2009.  accepted as core term.

May 28 2013. Updated definition taken from ReO based on discussions initiated in Philly 2011 workshop.  Former defnition described a narrower view of reagents in chemistry that restricts bearers of the role to be chemical entities (""a role played by a molecular entity used to produce a chemical reaction to detect, measure, or produce other substances"").  Updated definition allows for broader view of reagents in the domain of biomedical research to include larger materials that have parts that participate chemically in a molecular reaction or interaction.
",,"A role inhering in a biological or chemical entity that is intended to be applied in a scientific technique to participate (or have molecular components that participate) in a chemical reaction that facilitates the generation of data about some entity distinct from the bearer, or the generation of some specified material output distinct from the bearer.",PERSON:Matthew Brush,,,,,,,,reagent role,,,,,,,,,,,"Buffer, dye, a catalyst, a solvating agent.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000086,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,"(copied from ReO)
Reagents are distinguished from instruments or devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in or have parts that participate in some chemical interaction or reaction during their intended participation in some technique.  By contrast, instruments do not participate in a chemical reaction/interaction during the technique.

Reagents are distinguished from study subjects/evaluants in that study subjects and evaluants are that about which conclusions are drawn and knowledge is sought in an investigation - while reagents, by definition, are not.  It should be noted, however, that reagent and study subject/evaluant roles can be borne by instances of the same type of material entity - but a given instance will realize only one of these roles in the execution of a given assay or technique. For example, taq polymerase can bear a reagent role or an evaluant role.  In a DNA sequencing assay aimed at generating sequence data about some plasmid, the reagent role of the taq polymerase is realized. In an assay to evaluate the quality of the taq polymerase itself, the evaluant/study subject role of the taq is realized, but not the reagent role since the taq is the subject about which data is generated.

In regard to the statement that reagents are 'distinct' from the specified outputs of a technique, note that a reagent may be incorporated into a material output of a technique, as long as the IDENTITY of this output is distinct from that of the bearer of the reagent role.  For example, dNTPs input into a PCR are reagents that become part of the material output of this technique, but this output has a new identity (ie that of a 'nucleic acid molecule') that is distinct from the identity of the dNTPs that comprise it.  Similarly, a biotin molecule input into a cell labeling technique are reagents that become part of the specified output, but the identity of the output is that of some modified cell specimen which shares identity with the input unmodified cell specimen, and not with the biotin label. Thus, we see that an important criteria of 'reagent-ness' is that it is a facilitator, and not the primary focus of an investigation or material processing technique (ie not the specified subject/evaluant about which knowledge is sought, or the specified output material of the technique).",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,reagent role,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:Matthew Brush,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000041,ethical approval proof,,a document attesting that the study is compliant to ethical requirements,false,,,http://purl.obolibrary.org/obo/IAO_0000310,,,,,,,,,,,,,,,,,,,,,,a document attesting that the study is compliant to ethical requirements,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000041,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,document d'autorisation éthique|ethical approval proof,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000016,disposition,,,false,,,http://purl.obolibrary.org/obo/BFO_0000017,,,,,,,,,,,,,Disposition,disposition,,,,,,,,,,,,,,,,BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type.,,"b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])",,,,,,,,,,an atom of element X has the disposition to decay to an atom of element Y|children are innately disposed to categorize objects in certain ways.|certain people have a predisposition to colon cancer|the cell wall is disposed to filter chemicals in endocytosis and exocytosis,,,,,,(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] |(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] ,"If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000016,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,disposition,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000033,sample preparation protocol,,a protocol defining the required steps for the preparation of a biological sample.,false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,SAD,,,,,,,,,,,,a protocol defining the required steps for the preparation of a biological sample.,,,,,,,,,sample preparation protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000033,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,sample preparation protocol|protocole de préparation d'échantillon biologique,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000010,software,,"Software is a plan specification composed of a series of instructions that can be 
interpreted by or directly executed by a processing unit.",false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,,,,,,,,,,,,,"Software is a plan specification composed of a series of instructions that can be 
interpreted by or directly executed by a processing unit.",GROUP: OBI,,,,,,,see sourceforge tracker discussion at http://sourceforge.net/tracker/index.php?func=detail&aid=1958818&group_id=177891&atid=886178,software,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000010,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Bjoern Peters|PERSON: Melanie Courtot|PERSON: Chris Stoeckert|PERSON: Alan Ruttenberg,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000014,data acquisition,,"a planned process that consists of acquiring, in a homogeneous way and in a precise and indivisible period of time, data in the context of an examination.",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,ACQ,,,,,http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C43384,,,,,,,"a planned process that consists of acquiring, in a homogeneous way and in a precise and indivisible period of time, data in the context of an examination.",,,,,,,,,data acquisition,,,,,,,,,,,acquiring images with a scanner,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000014,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,acquisition de données|data acquisition,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000017,realizable entity,,,false,,,http://purl.obolibrary.org/obo/BFO_0000020,,,,,,,,,,,,,RealizableEntity,realizable,,,,,,,,,,,,,,,,,,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]),,,,,,,,,,the disposition of your blood to coagulate|the role of being a doctor|the role of this boundary to delineate where Utah and Colorado meet|the disposition of this piece of metal to conduct electricity.|the function of your reproductive organs,,,,,,(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] |(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] ,All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000017,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,realizable entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000309,diagram,,A figure that expresses one or more propositions,false,,,http://purl.obolibrary.org/obo/IAO_0000308,,,,,,,,,,,,,,,,,,,,,,A figure that expresses one or more propositions,,,,,,,,,diagram,,,,,,,,,,,"A molecular structure ribbon cartoon showing helices, turns and sheets and their relations to each other in space.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000309,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,diagram,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Lawrence Hunter,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000004,study subject,,"a role played by a ""studied organism"" in a biomedical study by participating in the study or donating samples for the study",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,SSU|study participant,,,,,,,,,,,,"a role played by a ""studied organism"" in a biomedical study by participating in the study or donating samples for the study",,,,,,,,,study subject,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000004,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.bioontology.org/ontology/NDDO?conceptid=http%3A%2F%2Fwww.purl.org%2FNDDO%2FNDDO_00000077,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,study subject|sujet dans l étude,,,,,,http://www.purl.org/NDDO/NDDO_00000077,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/UO_0000002,mass unit,,A unit which is a standard measure of the amount of matter/energy of a physical object.,false,,,http://purl.obolibrary.org/obo/IAO_0000003,,,,,,,,,,,,,,,,,,,,,,A unit which is a standard measure of the amount of matter/energy of a physical object.,,,,,,,,,mass unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,UO:0000002,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/uo.owl,,,,,,,,,,,,,,,,,,,mass unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/UO_0000001,length unit,,A unit which is a standard measure of the distance between two points.,false,,,http://purl.obolibrary.org/obo/IAO_0000003,,,,,,,,,,,,,,,,,,,,,,A unit which is a standard measure of the distance between two points.,,,,,,,,,length unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,UO:0000001,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/uo.owl,,,,,,,,,,,,,,,,,,,length unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/UO_0000003,time unit,,A unit which is a standard measure of the dimension in which events occur in sequence.,false,,,http://purl.obolibrary.org/obo/IAO_0000003,,,,,,,,,,,,,,,,,,,,,,A unit which is a standard measure of the dimension in which events occur in sequence.,,,,,,,,,time unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,UO:0000003,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/uo.owl,,,,,,,,,,,,,,,,,,,time unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000109,measurement datum,,A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device.,false,,,http://purl.obolibrary.org/obo/IAO_0000027,,,,,,,,,,,,,,,,,,,,,,A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device.,group:OBI|OBI_0000305,,,,,,,2/2/2009 is_specified_output of some assay?,measurement datum,,,,,,,,,,,"Examples of measurement data are the recoding of the weight of a mouse as {40,mass,""grams""}, the recording of an observation of the behavior of the mouse {,process,""agitated""}, the recording of the expression level of a gene as measured through the process of microarray experiment {3.4,luminosity,}.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000109,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/IAO_0000573,line graph,,"A line graph is a type of graph created by connecting a series of data
points together with a line.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,line chart,,,,,,,,,,,,"A line graph is a type of graph created by connecting a series of data
points together with a line.",GROUP:OBI|WEB: http://en.wikipedia.org/wiki/Line_chart,,,,,,,,line graph,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000573,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,line graph,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://purl.obolibrary.org/obo/BFO_0000029,site,,,false,,,http://purl.obolibrary.org/obo/BFO_0000141,,,,,,,,,,,,,Site,site,,,,,,,,,,,,,,,,,,b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002]),,,,,,,,,,the interior of your refrigerator|the hold of a ship|a rabbit hole|your left nostril (a fiat part – the opening – of your left nasal cavity)|the interior of your office|the Piazza San Marco|the interior of the trunk of your car|the Grand Canyon|a hole in the interior of a portion of cheese|an air traffic control region defined in the airspace above an airport|Manhattan Canyon)|the interior of your bedroom|the lumen of your gut|the interior of a kangaroo pouch|the cockpit of an aircraft,,,,,,(forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000029,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,site,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000182,history,,,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,History,history,,,,,,,,,,,,,,,,,,"A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000182,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,history,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000650,"database extract, transform, and load process",,"A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second.",false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000026,,,,,,,,,,ETL,,,,,,,,,,,,"A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second.","WEB:https://en.wikipedia.org/wiki/Extract,_transform,_load",,,,,,,"Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second|Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process.  We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output.","database extract, transform, and load process",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000030,http://purl.obolibrary.org/obo/IAO_0000030,IAO:0000650,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,https://github.com/information-artifact-ontology/IAO,,,,,,,,,,,,,,,,,"https://en.wikipedia.org/wiki/Extract,_transform,_load",,,,,,,,,,,,,,,,,,,,,"database extract, transform, and load process",,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:Alan Ruttenberg,,https://github.com/information-artifact-ontology/IAO/issues/187,
http://purl.obolibrary.org/obo/BFO_0000018,zero-dimensional spatial region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000006,,,,,,,,,,,,,ZeroDimensionalSpatialRegion,0d-s-region,,,,,,,,,,,,,,,,,,A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001]),,,,,,,,,,,,,,,,(forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000018,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,zero-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000044,agent administration,,"a planned process of introducing a pharmaceutical product that acts on biological tissue into a living organism, or into a biological sample",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,AGT administration,,,,,,,,,,,,"a planned process of introducing a pharmaceutical product that acts on biological tissue into a living organism, or into a biological sample",,,,,,,,,agent administration,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000044,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,agent administration|administration d'agent pharmaceutique,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000030,data processing protocol,,a protocol to describe necessary steps to undertake an analysis or data processing,false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,PCD,,,,,,,,,,,,a protocol to describe necessary steps to undertake an analysis or data processing,,,,,,,,,data processing protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000030,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data processing protocol|protocole de chaine de traitement de données,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0500000,study design,,A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution.,false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,experimental design,,,,,,,,,,rediscussed at length (MC/JF/BP). 12/9/08). The definition was clarified to differentiate it from protocol.,,A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution.,,,,,,,,Editor note: there is at least an implicit restriction on the kind of data transformations that can be done based on the measured data available.,study design,,,,,,,,,,,"a matched pairs study design describes criteria by which subjects are identified as pairs which then undergo the same protocols, and the data generated is analyzed by comparing the differences between the paired subjects, which constitute the results of the executed study design.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,,,,,,,OBI:0500000,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,,,,,,,,,,,,study design,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Chris Stoeckert,,,
http://purl.obolibrary.org/obo/OBI_0100026,organism,,"A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,"A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.",WEB: http://en.wikipedia.org/wiki/Organism,,,,,,,"13-02-2009:
OBI doesn't take position as to  when an organism starts or ends being an organism - e.g. sperm, foetus.
This issue is outside the scope of OBI.|10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')",organism,,,,,,,,,,,plant|animal|fungus|virus,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0100026,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,organism,,,,,,,,,,,,,,,,,,,,,,,,,,,,GROUP: OBI Biomaterial Branch,,,
http://purl.obolibrary.org/obo/BFO_0000003,occurrent,,,false,,,http://purl.obolibrary.org/obo/BFO_0000001,,,,,,,,,,,,,Occurrent,occurrent,,,,,,,,,,,,,,,,"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.|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.|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|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.",,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]),,,,,,,,,,,,,,,,(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] |(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] ,Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])|b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000003,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,occurrent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000004,independent continuant,,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]),false,,,http://purl.obolibrary.org/obo/BFO_0000002,,,,,,,,,,,,,IndependentContinuant,ic,,,,,,,,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]),,,,,,,,,,,,,,,,,,,,a leg|an orchestra.|a molecule|an organism|the bottom right portion of a human torso|the interior of your mouth|an atom|a chair|a spatial region|a heart,,,,,,(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] |(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] |(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] ,"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])|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])",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000004,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,independent continuant,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/PATO_0000051,morphology,,A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure.,false,,,http://purl.obolibrary.org/obo/PATO_0001241,,,,,,,,,,,,,,,,,,,,,,A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure.,,,,,,,,,morphology,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0000051,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,morphology,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000313,patent,,A document that has been accepted by a patent authority,false,,,http://purl.obolibrary.org/obo/IAO_0000310,,,,,,,,,,,,,,,,,,,,,,A document that has been accepted by a patent authority,,,,,,,,,patent,,,,,,,,,,,"US Patent 6,449,603",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000313,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,patent,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Lawrence Hunter,,,
http://purl.obolibrary.org/obo/OBI_0000047,processed material,,Is a material entity that is created or changed during material processing.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,Is a material entity that is created or changed during material processing.,,,,,,,,,processed material,,,,,,,,,,,"Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000047,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,processed material,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/IAO_0000408,length measurement datum,,A scalar measurement datum that is the result of measurement of length quality,false,,,http://purl.obolibrary.org/obo/IAO_0000032,,,,,,,,,,,,,,,,,,,,,,A scalar measurement datum that is the result of measurement of length quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,http://purl.obolibrary.org/obo/UO_0000001,,,,,,,,,,,,,,,,,,,,IAO:0000408,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/PATO_0000122,,,,,,length measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,Alan Ruttenberg,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000040,4 study results publishing,,"the fourth lifecycle phase in a study encompassing results formatting in a publication compliant format and its publishing as an article, a data paper, a website, a web ressource etc.",false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000036,,,,,,,,,,,,,,,,,,,,,,"the fourth lifecycle phase in a study encompassing results formatting in a publication compliant format and its publishing as an article, a data paper, a website, a web ressource etc.",,,,,,,,,study results publishing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000040,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,4 study results publishing|4 publication de données d étude,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000030,information content entity,,A generically dependent continuant that is about some thing.,false,,,http://purl.obolibrary.org/obo/BFO_0000031,,,,,,,,,,,,,,,,,,,,,,A generically dependent continuant that is about some thing.,OBI_0000142,,,,,,,"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).

Previous. An information content entity is a non-realizable information entity that 'is encoded in' some digital or physical entity.|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).",information content entity,,,,,,,,,,,"Examples of information content entites include journal articles, data, graphical layouts, and graphs.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000030,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/BFO_0000001,,,,,,,,,,,,,,,,information content entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Chris Stoeckert,,,
http://purl.obolibrary.org/obo/OBI_0000066,investigation,,"a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s).",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,,,,,,,,,,,"Following OBI call November 2012,26th: it was decided there was no need for adding ""achieves objective of drawing conclusion"" as existing relations were providing equivalent ability. this note closes the issue and validates the class definition to be part of the OBI core
editor = PRS|Could add specific objective specification",,"a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s).",OBI branch derived,,,,,,,,investigation,,,,,,,,,,,"Lung cancer investigation using expression profiling, a stem cell transplant investigation, biobanking is not an investigation, though it may be part of an investigation",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0000471,,,,,,,,,,,,,,,,OBI:0000066,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,,,,,,,,,,,study,investigation,,,,,,,,,,,,,,,,,,,,,,,,,,,,Bjoern Peters,,,
http://purl.obolibrary.org/obo/BFO_0000034,function,,,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,Function,function,,,,,,,,,,,,,,,,"BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc.",,"A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])",,,,,,,,,,the function of a heart pacemaker to regulate the beating of a heart through electricity|the function of a hammer to drive in nails|the function of amylase in saliva to break down starch into sugar,,,,,,(forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000034,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,function,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000021,reference data,,an i-c-e representing any data used as a reference in a study or published as a referenced data set in a study,false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000020,,,,,,,,,,RFD,,,,,,,,,,,,an i-c-e representing any data used as a reference in a study or published as a referenced data set in a study,,,,,,,,,reference data,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000021,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,données de références|reference data,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000142,one-dimensional continuant fiat boundary,,,false,,,http://purl.obolibrary.org/obo/BFO_0000140,,,,,,,,,,,,,OneDimensionalContinuantFiatBoundary,1d-cf-boundary,,,,,,,,,,,,,,,,,,a one-dimensional continuant fiat boundary is a continuous fiat line whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [032-001]),,,,,,,,,,the line separating the outer surface of the mucosa of the lower lip from the outer surface of the skin of the chin.|all lines of latitude and longitude|The Equator|the median sulcus of your tongue|all geopolitical boundaries,,,,,,(iff (OneDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (OneDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [032-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000142,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,one-dimensional continuant fiat boundary,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000094,material processing,,A planned process which results in physical changes in a specified input material,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,material transformation,,,,,,,,,,,,A planned process which results in physical changes in a specified input material,OBI branch derived,,,,,,,,material processing,,,,,,,,,,,"A cell lysis, production of a cloning vector, creating a buffer.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0000047,OBI:0000094,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,material processing,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Bjoern Peters|PERSON: Melanie Courtot|PERSON: Jennifer Fostel|PERSON: Frank Gibson|PERSON: Philippe Rocca Serra,,,
http://purl.obolibrary.org/obo/BFO_0000027,object aggregate,,,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,ObjectAggregate,object-aggregate,,,,,,,,,"ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158.",,,,,,,"An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects |BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee).",,b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004]),,,,,,,,,,"the nitrogen atoms in the atmosphere|the aggregate of bearings in a constant velocity axle joint|a collection of cells in a blood biobank.|the restaurants in Palo Alto|defined via attributive delimitations such as: the patients in this hospital|a symphony orchestra|the aggregate of blood cells in your body|defined through physical attachment: the aggregate of atoms in a lump of granite|defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container|an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)|defined by fiat: the aggregate of members of an organization|your collection of Meissen ceramic plates.|a swarm of bees is an aggregate of members who are linked together through natural bonds",,,,,,(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000027,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,object aggregate,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000026,one-dimensional spatial region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000006,,,,,,,,,,,,,OneDimensionalSpatialRegion,1d-s-region,,,,,,,,,,,,,,,,,,A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001]),,,,,,,,,,an edge of a cube-shaped portion of space.,,,,,,(forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000026,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,one-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000036,study lifecycle phase,,a temporal region encompassing a distinct step in a study|this concept was added for the first time in the BMSLM core ontology v 1.0 in order to enable lifecycle management for a research study. It is an abstract class. Use children instead.,false,,,http://purl.obolibrary.org/obo/BFO_0000038,,,,,,,,,,,,,,,,,,,,,,a temporal region encompassing a distinct step in a study,,,,,,,,,study lifecycle phase,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000036,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,this concept was added for the first time in the BMSLM core ontology v 1.0 in order to enable lifecycle management for a research study. It is an abstract class. Use children instead.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,phase de cycle de vie d une étude|study lifecycle phase,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000100,data set,,A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets.,false,,,http://purl.obolibrary.org/obo/IAO_0000027,,,,,,,,,,,,,,,,,,,,,,A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets.,OBI_0000042|group:OBI,,,,,,,"2014-05-05: Data sets are aggregates and thus must include two or more data items. We have chosen not to add logical axioms to make this restriction.|2009/10/23 Alan Ruttenberg. The intention is that this term represent collections of like data. So this isn't for, e.g. the whole contents of a cel file, which includes parameters, metadata etc. This is more like java arrays of a certain rather specific type",data set,,,,,,,,,,,Intensity values in a CEL file or from multiple CEL files comprise a data set (as opposed to the CEL files themselves).,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000100,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data set,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Allyson Lister|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/BFO_0000030,object,,,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,Object,object,,,,,,,,,,,,,,,,"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).|BFO 2 Reference: ‘objects’ are sometimes referred to as ‘grains’ [74|BFO 2 Reference: an object is a maximal causally unified material entity|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|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.",,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]),,,,,,,,,,organism|organelle|cell|atom|cells and organisms|molecule|grain of sand|planet|solid portions of matter|engineered artifacts|star,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000030,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,object,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000659,specimen collection process,,A planned process with the objective of collecting a specimen.,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,specimen collection,,,,,,,,,,"5/31/2012: This process is not necessarily an acquisition, as specimens may be collected from materials already in posession|6/9/09: used at workshop",,A planned process with the objective of collecting a specimen.,,,,,,,,"label  changed to 'specimen collection process' on 10/27/2014, details see tracker:
http://sourceforge.net/p/obi/obi-terms/716/|Philly2013: A specimen collection can have as part a material entity acquisition, such as ordering from a bank. The distinction is that specimen collection necessarily involves the creation of a specimen role. However ordering cell lines cells from ATCC for use in an investigation is NOT a specimen collection, because the cell lines already have a specimen role.|Philly2013: The specimen_role for the specimen is created during the specimen collection process.|Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.",specimen collection process,,,,,,,,,,,"drawing blood from a patient for analysis, collecting a piece of a plant for depositing in a herbarium, buying meat from a butcher in order to measure its protein content in an investigation",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/BFO_0000040,http://purl.obolibrary.org/obo/OBI_0100051,OBI:0000659,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,specimen collection process,,,,,,,,,,,,,,,,,,,,,,,,,,,,Bjoern Peters,,,
http://purl.obolibrary.org/obo/BFO_0000144,process profile,,b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002]),false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,ProcessProfile,process-profile,,,,,,,,b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002]),,,,,,,,,,"b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])",,,,,,,,,,"The simplest type of process profiles are what we shall call ‘quality process profiles’, which are the process profiles which serve as the foci of the sort of selective abstraction that is involved when measurements are made of changes in single qualities, as illustrated, for example, by process profiles of mass, temperature, aortic pressure, and so on.|One important sub-family of rate process profiles is illustrated by the beat or frequency profiles of cyclical processes, illustrated by the 60 beats per minute beating process of John’s heart, or the 120 beats per minute drumming process involved in one of John’s performances in a rock band, and so on. Each such process includes what we shall call a beat process profile instance as part, a subtype of rate process profile in which the salient ratio is not distance covered but rather number of beat cycles per unit of time. Each beat process profile instance instantiates the determinable universal beat process profile. But it also instantiates multiple more specialized universals at lower levels of generality, selected from   rate process profilebeat process profileregular beat process profile3 bpm beat process profile4 bpm beat process profileirregular beat process profileincreasing beat process profileand so on.In the case of a regular beat process profile, a rate can be assigned in the simplest possible fashion by dividing the number of cycles by the length of the temporal region occupied by the beating process profile as a whole. Irregular process profiles of this sort, for example as identified in the clinic, or in the readings on an aircraft instrument panel, are often of diagnostic significance.|On a somewhat higher level of complexity are what we shall call rate process profiles, which are the targets of selective abstraction focused not on determinate quality magnitudes plotted over time, but rather on certain ratios between these magnitudes and elapsed times. A speed process profile, for example, is represented by a graph plotting against time the ratio of distance covered per unit of time. Since rates may change, and since such changes, too, may have rates of change, we have to deal here with a hierarchy of process profile universals at successive levels",,,,,,(forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005] |(iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000144,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,process profile,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000019,quality,,,false,,,http://purl.obolibrary.org/obo/BFO_0000020,,,,,,,,,,,,,Quality,quality,,,,,,,,,,,,,,,,,,"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])",,,,,,,,,,the color of a tomato|the ambient temperature of this portion of air|the length of the circumference of your waist|the mass of this piece of gold.|the shape of your nostril|the shape of your nose,,,,,,(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] |(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] ,"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])",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000019,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000019,processing parameters profile,,parameters to reuse in a processing unit,false,,,http://purl.obolibrary.org/obo/BFO_0000144,,,,,,,,,,PCP,,,,,,,,,,,,parameters to reuse in a processing unit,,,,,,,,,a process profile that allows to meta-describe a process by specifying the parameters necessary for its execution,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000019,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,processing parameters profile|paramètres de chaine de traitement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000310,document,,A collection of information content entities intended to be understood together as a whole,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,A collection of information content entities intended to be understood together as a whole,,,,,,,,,document,,,,,,,,,,,"A journal article, patent application, laboratory notebook, or a book",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000310,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,document,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Lawrence Hunter,,,
http://purl.obolibrary.org/obo/IAO_0000184,scatter plot,,"A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,scattergraph,,,,,,,,,,,,"A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis.",WEB: http://en.wikipedia.org/wiki/Scatterplot,,,,,,,,scatter plot,,,,,,,,,,,Comparison of gene expression values in two samples can be displayed in a scatter plot,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000184,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,scatter plot,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:James Malone|PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000027,workflow input profile,,"a process profile that allows to ""meta-describe"" a process by specifying all types of input required to launch it as part of a workflow",false,,,http://purl.obolibrary.org/obo/BFO_0000144,,,,,,,,,,WFI,,,,,,,,,,,,"a process profile that allows to ""meta-describe"" a process by specifying all types of input required to launch it as part of a workflow",,,,,,,,,workflow input profile,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000027,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,workflow input profile|intrant de flux de traitement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000140,setting datum,,A settings datum is a datum that denotes some configuration of an instrument.,false,,,http://purl.obolibrary.org/obo/IAO_0000027,,,,,,,,,,,,,,,,,,,,,,A settings datum is a datum that denotes some configuration of an instrument.,,,,,,,,"Alan grouped these in placeholder for the moment. Name by analogy to measurement datum.|2/3/2009 Feedback from OBI

This should be a ""setting specification"". There is a question of whether it is information about a realizable or not.

Pro other specification are about realizables.
Cons sometimes specifies a quality which is not a realizable.",,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000140,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,setting datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0000968,device,,"A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.",false,,,http://purl.obolibrary.org/obo/OBI_0000047,,,,,,,,,,instrument,,,,,,,,,,,,"A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.",OBI development call 2012-12-17.,,,,,,,"2012-12-17 JAO: In common lab usage, there is a distinction made between devices and reagents that is difficult to model. Therefore we have chosen to specifically exclude reagents from the definition of ""device"", and are enumerating the types of roles that a reagent can perform.

2013-6-5 MHB: The following clarifications are outcomes of the May 2013 Philly Workshop. Reagents are distinguished from devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in some chemical interaction or reaction during the realization of their experimental role. By contrast, devices do not participate in such chemical reactions/interactions.  Note that there are cases where devices use reagent components during their operation, where the reagent-device distinction is less clear.  For example:

(1) An HPLC machine is considered a device, but has a column that holds a stationary phase resin as an operational component.  This resin qualifies as a device if it participates purely in size exclusion, but bears a reagent role that is realized in the running of a column if it interacts electrostatically or chemically with the evaluant. The container the resin is in (“the column”) considered alone is a device. So the entire column as well as the entire HPLC machine are devices that have a reagent as an operating part.

(2) A pH meter is a device, but its electrode component bears a reagent role in virtue of its interacting directly with the evaluant in execution of an assay.

(3) A gel running  box  is a device that has a metallic lead as a component that participates in a chemical reaction with the running buffer when a charge is passed through it.  This metallic lead is considered to have a reagent role as a component of this device realized in the running of a gel.

In the examples above, a reagent is an operational component of a device, but the device itself does not realize a reagent role (as bearing a reagent role is not transitive across the part_of relation).  In this way, the asserted disjointness between a reagent and device holds, as both roles are never realized in the same bearer during execution of an assay.  ",device,,,,,,,,,,,A voltmeter is a measurement device which is intended to perform some measure function.|An autoclave is a device that sterlizes instruments or contaminated waste by applying high temperature and pressure.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,http://purl.obolibrary.org/obo/BFO_0000034,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000968,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0000094,,,device,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Helen Parkinson,,,
http://purl.obolibrary.org/obo/IAO_0000037,dot plot,,A dot plot is a report graph which is a graphical representation of data where each data point is represented by a single dot placed on coordinates corresponding to data point values in particular dimensions.,false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,A dot plot is a report graph which is a graphical representation of data where each data point is represented by a single dot placed on coordinates corresponding to data point values in particular dimensions.,OBI_0000123|group:OBI,,,,,,,,dot plot,,,,,,,,,,,Dot plot of SSC-H and FSC-H.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000037,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,dot plot,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Allyson Lister|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/IAO_0000101,image,,"An image is an affine projection to a two dimensional surface, of measurements of some quality of an entity or entities repeated at regular intervals across a spatial range, where the measurements are represented as color and luminosity on the projected on surface.",false,,,http://purl.obolibrary.org/obo/IAO_0000308,,,,,,,,,,,,,,,,,,,,,,"An image is an affine projection to a two dimensional surface, of measurements of some quality of an entity or entities repeated at regular intervals across a spatial range, where the measurements are represented as color and luminosity on the projected on surface.",OBI_0000030|group:OBI,,,,,,,,image,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000101,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,image,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Alan Ruttenberg|person:Allyson|person:Chris Stoeckert,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000020,published content,,"an i-c-e representing any content published and referenced, used or published as part of a research study (excluding data)|in its original version, this concept was just for articles but the variety of published content on the web had made it necessary to extend it",false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,BBR,,,,,,,,,,,,"an i-c-e representing any content published and referenced, used or published as part of a research study (excluding data)",,,,,,,,,published content,,,,,,,,,,,"a book, an article, a DOI, a website, an URI, an orcid, an beyond. This do not  include published data",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000020,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,"in its original version, this concept was just for articles but the variety of published content on the web had made it necessary to extend it",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,published content|contenu publié,,,,,,http://purl.obolibrary.org/obo/IAO_0000013,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000013,journal article,,a report that is published in a journal,false,,,http://purl.obolibrary.org/obo/IAO_0000088|http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000020,,,,,,,,,,,,,,,,,,,,,,a report that is published in a journal,group:OBI|OBI_0000159,,,,,,,,journal article,,,,,,,,,,,"Examples are articles published in the journals, Nature and Science. The content can often be cited by reference to a paper based encoding, e.g.  Authors, Title of article, Journal name, date or year of publication, volume and page number.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000013,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,journal article,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Alan Ruttenberg|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/BFO_0000146,two-dimensional continuant fiat boundary,,,false,,,http://purl.obolibrary.org/obo/BFO_0000140,,,,,,,,,,,,,TwoDimensionalContinuantFiatBoundary,2d-cf-boundary,,,,,,,,,,,,,,,,,,a two-dimensional continuant fiat boundary (surface) is a self-connected fiat surface whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [033-001]),,,,,,,,,,,,,,,,(iff (TwoDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (TwoDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [033-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000146,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,two-dimensional continuant fiat boundary,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000079,density plot,,A density plot is a report graph which is a graphical representation of data where the tint of a particular pixel corresponds to some kind of function corresponding the the amount of data points relativelly with their distance from the the pixel.,false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,A density plot is a report graph which is a graphical representation of data where the tint of a particular pixel corresponds to some kind of function corresponding the the amount of data points relativelly with their distance from the the pixel.,OBI_0000179|group:Flow Cytometry community,,,,,,,,density plot,,,,,,,,,,,Density plot of SSC-H and FSC-H.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000079,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,density plot,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Allyson Lister|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/IAO_0000429,email address,,,false,,,http://purl.obolibrary.org/obo/IAO_0000027,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Alan Ruttenberg 1/3/2012 - Provisional id, see issue at https://github.com/information-artifact-ontology/IAO/issues/130&thanks=130&ts=1325636583",email address,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000429,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,email address,,,,,,,,,,,,,,,,,,,,,,,,,,,,Person:Chris Stoeckart|Person:Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/OBI_0000953,processed specimen,,A specimen that has been intentionally physically modified.|A tissue sample that has been sliced and stained for a histology study.,false,,,http://purl.obolibrary.org/obo/OBI_0100051|http://purl.obolibrary.org/obo/OBI_0000047,,,,,,,,,,,,,,,,,,,,,,A specimen that has been intentionally physically modified.,Bjoern Peters,,,,,,,,processed specimen,,,,,,,,,,,"A tissue sample that has been sliced and stained for a histology study.
A blood specimen that has been centrifuged to obtain the white blood cells.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000953,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,A tissue sample that has been sliced and stained for a histology study.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,processed specimen,,,,,,,,,,,,,,,,,,,,,,,,,,,,Bjoern Peters,,,
http://purl.obolibrary.org/obo/BFO_0000011,spatiotemporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,SpatiotemporalRegion,st-region,,,,,,,,,,,,,,,,,,A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001]),,,,,,,,,,the spatiotemporal region occupied by a process of cellular meiosis.|the spatiotemporal region occupied by the development of a cancer tumor|the spatiotemporal region occupied by a human life,,,,,,(forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] |(forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] |(forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] |(forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] |(forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] ,All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])|Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])|Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])|Every spatiotemporal region occupies_spatiotemporal_region itself.|Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000011,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,spatiotemporal region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000032,data processing unit protocol,,a protocol to describe steps required to run a (data processing unit),false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,PUD,,,,,,,,,,,,a protocol to describe steps required to run a (data processing unit),,,,,,,,,data processing unit protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000032,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data processing unit protocol|protocole d'unité de traitement de données,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000183,dendrogram,,"A dendrogram is a report graph which is a tree diagram
frequently used to illustrate the arrangement of the clusters produced by a
clustering algorithm.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,"A dendrogram is a report graph which is a tree diagram
frequently used to illustrate the arrangement of the clusters produced by a
clustering algorithm.",WEB: http://en.wikipedia.org/wiki/Dendrogram,,,,,,,,dendrogram,,,,,,,,,,,"Dendrograms are often used in computational biology to
illustrate the clustering of genes.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000183,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,dendrogram,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:James Malone|PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000037,1 study specification,,"the first lifecycle phase in a study. It includes the definition of the study aim and scope, details about expected data acquisitions and processings,  budget and ethical approvement of the study.",false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000036,,,,,,,,,,,,,,,,,,,,,,"the first lifecycle phase in a study. It includes the definition of the study aim and scope, details about expected data acquisitions and processings,  budget and ethical approvement of the study.",,,,,,,,,study specification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000037,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,1 spécification d étude|1 study specification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000104,plan specification,,"A directive information entity with action specifications and objective specifications as parts that, when concretized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified.|2/3/2009 Comment from OBI review.

Action specification not well enough specified.
Conditional specification not well enough specified.
Question whether all plan specifications have objective specifications.

Request that IAO either clarify these or change definitions not to use them",false,,,http://purl.obolibrary.org/obo/IAO_0000033,,,,,,,,,,,,,,,,,,,,,,"A directive information entity with action specifications and objective specifications as parts that, when concretized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified.",OBI Plan and Planned Process branch|OBI_0000344,,,,,,,"2014-03-31: A plan specification can have other parts, such as conditional specifications.|2009-03-16: provenance: a term a plan was proposed for OBI (OBI_0000344) , edited by the PlanAndPlannedProcess branch. Original definition was "" a plan is a specification of a process that is realized by an actor to achieve the objective specified as part of the plan"". It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term.|Alternative previous definition: a plan is a set of instructions that specify how an objective should be achieved",plan specification,,,,,,,,,,,PMID: 18323827.Nat Med. 2008 Mar;14(3):226.New plan proposed to help resolve conflicting medical advice.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000104,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,"2/3/2009 Comment from OBI review.

Action specification not well enough specified.
Conditional specification not well enough specified.
Question whether all plan specifications have objective specifications.

Request that IAO either clarify these or change definitions not to use them",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,plan specification,,,,,,,,,,,,,,,,,,,,,,,,,,,,Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/OBI_0000011,planned process,,A processual entity that realizes a plan which is the concretization of a plan specification.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,"This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)|6/11/9: Edited at workshop. Used to include: is initiated by an agent",,A processual entity that realizes a plan which is the concretization of a plan specification.,branch derived,,,,,,,"'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)|We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some 
objectives is a planned process.",BMSLM: plan realization process|planned process|planned process,,,,,,,,,,,Injecting mice with a vaccine in order to test its efficacy,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000011,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,,,,,,,,,,,,planned process,,,,,,,,,,,,,,,,,,,,,,,,,,,,Bjoern Peters,,,
http://purl.obolibrary.org/obo/BFO_0000141,immaterial entity,,,false,,,http://purl.obolibrary.org/obo/BFO_0000004,,,,,,,,,,,,,ImmaterialEntity,immaterial,,,,,,,,,,,,,,,,"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",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000141,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,immaterial entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000039,3 study data analysis,,the third lifecycle phase in a study encompassing the analysis and processing of data,false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000036,,,,,,,,,,,,,,,,,,,,,,the third lifecycle phase in a study encompassing the analysis and processing of data,,,,,,,,,study data analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000039,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,3 analyse de données d étude|3 study data analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000015,information carrier,,A quality of an information bearer that imparts the information content,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,A quality of an information bearer that imparts the information content,"Smith, Ceusters, Ruttenberg, 2000 years of philosophy",,,,,,,"2014-03-10: We are not certain that all information carriers are qualities. There was a discussion of dropping it.|12/15/09: There is a concern that some ways that carry information may be processes rather than qualities, such as in a 'delayed wave carrier'.",information carrier,,,,,,,,,,,In the case of a printed paperback novel the physicality of the ink and of the paper form part of the information bearer. The qualities of appearing black and having a certain pattern for the ink and appearing white for the paper form part of the information carrier in this case.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000015,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,information carrier,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Alan Ruttenberg,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000016,data processing,,a planned process that consists of processing and analyzing the data from the various examinations in order to deliver an analysis result. It is composed of one or more (data processing units),false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,PCR,,,,,http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C48177,,,,,,,a planned process that consists of processing and analyzing the data from the various examinations in order to deliver an analysis result. It is composed of one or more (data processing units),,,,,,,,,data processing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000016,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data processing|chaine de traitement de données,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000038,graph,,A diagram that presents one or more tuples of information by mapping those tuples in to a two dimensional space in a non arbitrary way.,false,,,http://purl.obolibrary.org/obo/IAO_0000309,,,,,,,,,,,,,,,,,,,,,,A diagram that presents one or more tuples of information by mapping those tuples in to a two dimensional space in a non arbitrary way.,OBI_0000240|group:OBI,,,,,,,,graph,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000038,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,graph,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Alan Ruttenberg|person:Allyson Lister|PERSON: Lawrence Hunter,,,
http://purl.obolibrary.org/obo/IAO_0000025,programming language,,"A language in which source code is written that is intended to be executed/run by a software interpreter. Programming languages are ways to write instructions that specify what to do, and sometimes, how to do it.",false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,,,,,,,,,,,,,"A language in which source code is written that is intended to be executed/run by a software interpreter. Programming languages are ways to write instructions that specify what to do, and sometimes, how to do it.",OBI_0000058|group:OBI,,,,,,,,programming language,,,,,,,,,,,"R, Perl, Java",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000025,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,programming language,,,,,,,,,,,,,,,,,,,,,,,,,,,,person:Alan Ruttenberg|person:Chris Stoeckert,,,
http://purl.obolibrary.org/obo/PATO_0000117,size,,A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude.,false,,,http://purl.obolibrary.org/obo/PATO_0000051,,,,,,,,,,,,,,,,,,,,,,A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude.,,,,,,,,,size,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PATO:0000117,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/pato.owl,,,,,,,,,,,,,,,,,,,size,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000040,material entity,,,false,,,http://purl.obolibrary.org/obo/BFO_0000004,,,,,,,,,,,,,MaterialEntity,material,,,,,,,,,,,,,,,,"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.|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|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.",,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]),,,,,,,,,,an aggregate of human beings.|a forest fire|a tornado|a human being|an energy wave|the undetached arm of a human being|an epidemic|a flame|a photon|a sea wave|a puff of smoke|a hurricane,,,,,,(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] |(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] |(forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] ,every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])|Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000040,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,material entity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000038,one-dimensional temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000008,,,,,,,,,,,,,OneDimensionalTemporalRegion,1d-t-region,,,,,,,,,,,,,,,,"BFO 2 Reference: A temporal interval is a special kind of one-dimensional temporal region, namely one that is self-connected (is without gaps or breaks).",,A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001]),,,,,,,,,,the temporal region during which a process occurs.,,,,,,(forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000038,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,one-dimensional temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000002,continuant,,,false,,,http://purl.obolibrary.org/obo/BFO_0000001,,,,,,,,,,,,,Continuant,continuant,,,,,,,,,,,,,,,,"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|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",,"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])",,,,,,,,,,,,,,,,(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] |(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] |(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] |(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] ,"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])|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])|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])",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000002,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,continuant,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000308,figure,,An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something.,,,,,,,,,figure,,,,,,,,,,,"Any picture, diagram or table",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000120,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000308,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,figure,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Lawrence Hunter,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000009,examination,,a planned process that consists of acquiring information on an object of interest via different means in order to describe and characterize it at a given moment from a biological and medical point of view.,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,EXA,,,,,,,,,,,,a planned process that consists of acquiring information on an object of interest via different means in order to describe and characterize it at a given moment from a biological and medical point of view.,,,,,,,,,examination,,,,,,,,,,http://neurolog.unice.fr/ontoneurolog/v3.0/study-examination-subject.owl#examination,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000009,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,examination|examen,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000442,author role,,"A role inhering in a person or organization that is realized when the bearer participates in the work which is the basis of the document, in the writing of the document, and signs it with their name.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,"A role inhering in a person or organization that is realized when the bearer participates in the work which is the basis of the document, in the writing of the document, and signs it with their name.",,,,,,,,,author role,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000442,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,author role,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/BFO_0000031,generically dependent continuant,,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]),false,,,http://purl.obolibrary.org/obo/BFO_0000002,,,,,,,,,,,,,GenericallyDependentContinuant,gdc,,,,,,,,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]),,,,,,,,,,,,,,,,,,,,"the pdf file on your laptop, the pdf file that is a copy thereof on my laptop|the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule.|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.",,,,,,(iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000031,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,generically dependent continuant,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000592,software module,, A software module is software composed of a collection of software methods.,false,,,http://purl.obolibrary.org/obo/IAO_0000010,,,,,,,,,,,,,,,,,,,,,, A software module is software composed of a collection of software methods.,https://github.com/information-artifact-ontology/IAO/issues/80,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000592,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,software module,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Michel Dumontier|PERSON: Melanei Courtot,,,
http://www.w3.org/ns/prov#Entity,Entity,,,false,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000029,expected data unit,,an i-c-e describing what must be obtained as result data of a process before producing the real result data of this process,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,DUD,,,,,,,,,,,,an i-c-e describing what must be obtained as result data of a process before producing the real result data of this process,,,,,,,,,expected data unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000029,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,spécification d'unité de données|expected data unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OGMS_0000063,disease course,,The totality of all processes through which a given disease instance is realized.,false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,"replace 'OBI:occurrence of disease', need to add logical definition
The axioms of OBI occurence of disease:
Equivalent classes:
realizes some disease
Superclasses:
'has part' some 'pathologic process'
'has participant' some 
    (organism
     and ('has role' some 'host of immune response role'))
biological_process
realizes some 'host of immune response role'",,The totality of all processes through which a given disease instance is realized.,,,,,,,,,disease course,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000063,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,,,,,,,,,,,,disease course,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000035,process boundary,,p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001]),false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,ProcessBoundary,p-boundary,,,,,,,,p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001]),,,,,,,,,,,,,,,,,,,,the boundary between the 2nd and 3rd year of your life.,,,,,,(forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002] |(iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001] ,Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002]),,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000035,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,process boundary,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0200000,data transformation,,A planned process that produces output data from input data.,false,,,http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000026,,,,,,,,,,data processing|data analysis,,,,,,,,,,,,A planned process that produces output data from input data.,Branch editors,,,,,,,,data transformation,,,,,,,,,,,The application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0200000,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,data transformation,,,,,,,,,,,,,,,,,,,,,,,,,,,,Tina Hernandez-Boussard|James Malone|Helen Parkinson|Ryan Brinkman|Melanie Courtot|Richard Scheuermann|Elisabetta Manduchi|Philippe Rocca-Serra,,,
http://purl.obolibrary.org/obo/OBI_0001933,value specification,,An information content entity that specifies a value within a classification scheme or on a quantitative scale.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,An information content entity that specifies a value within a classification scheme or on a quantitative scale.,,,,,,,,"This term is currently a descendant of 'information content entity', which requires that it 'is about' something. A value specification of '20g' for a measurement data item of the mass of a particular mouse 'is about' the mass of that mouse. However there are cases where a value specification is not clearly about any particular. In the future we may change 'value specification' to remove the 'is about' requirement.",value specification,,,,,,,,,,,"The value of 'positive' in a classification scheme of ""positive or negative""; the value of '20g' on the quantitative scale of mass.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0001933,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,value specification,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:Bjoern Peters,,,
http://purl.obolibrary.org/obo/IAO_0000582,time stamped measurement datum,,,false,,,http://purl.obolibrary.org/obo/IAO_0000109,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000123,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000582,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,time stamped measurement datum,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000008,biomedical intervention,,a planned process of taking an action that changes and influences a biological object in a research study,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,ITR,,,,,,,,,,,,a planned process of taking an action that changes and influences a biological object in a research study,,,,,,,,,biomedical intervention,,,,,,,,,,http://purl.obolibrary.org/obo/ERO_0000347,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000008,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,intervention biomédicale|biomedical intervention,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/BFO_0000145,relational quality,,"b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,RelationalQuality,r-quality,,,,,,,,"b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])",,,,,,,,,,,,,,,,,,,,"a marriage bond, an instance of requited love, an obligation between one person and another.|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.",,,,,,(iff (RelationalQuality a) (exists (b c t) (and (IndependentContinuant b) (IndependentContinuant c) (qualityOfAt a b t) (qualityOfAt a c t)))) // axiom label in BFO2 CLIF: [057-001] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000145,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,relational quality,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/OBI_0002076,collection of specimens,,A material entity that has two or more specimens as its parts.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,A material entity that has two or more specimens as its parts.,"OBIB, OBI",,,,,,,Details see tracker: https://sourceforge.net/p/obi/obi-terms/778/,collection of specimens,,,,,,,,,,,Blood cells collected from multiple donors over the course of a study.,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0002076,,,,,,,,,,,,,,,Biobank,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,collection of specimens,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Person: Chris Stoeckert, Jie Zheng",,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000028,agent administration protocol,,a protocol to describe the steps required to administrate an agent (product that acts),false,,,http://purl.obolibrary.org/obo/OBI_0000272,,,,,,,,,,AGD,,,,,,,,,,,,a protocol to describe the steps required to administrate an agent (product that acts),,,,,,,,,agent administration protocol,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000028,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,agent administration protocol|protocole d'administration d'agent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000003,measurement unit label,,A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure.,false,,,http://purl.obolibrary.org/obo/IAO_0000009,,,,,,,,,,,,,,,,,,,,,,A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure.,,,,,,,,"2009-03-16: review of this term done during during the OBI workshop winter 2009 and the current definition was considered acceptable for use in OBI. If there is a need to modify this definition please notify OBI.|2009-03-16: provenance: a term measurement unit was
proposed for OBI (OBI_0000176) , edited by Chris Stoeckert and
Cristian Cocos, and subsequently moved to IAO where the objective for
which the original term was defined was satisfied with the definition
of this, different, term.",measurement unit label,,,,,,,,,,,"Examples of measurement unit labels are liters, inches, weight per volume.",,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000125,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000003,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,measurement unit label,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON: Melanie Courtot|PERSON: Alan Ruttenberg,,,
http://purl.obolibrary.org/obo/BFO_0000020,specifically dependent continuant,,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]),false,,,http://purl.obolibrary.org/obo/BFO_0000002,,,,,,,,,,,,,SpecificallyDependentContinuant,sdc,,,,,,,,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]),,,,,,,,"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.",,,,,,,,,,,,"the mutual dependence of proton donors and acceptors in chemical reactions [79|the pink color of a medium rare piece of grilled filet mignon at its center|the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction|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.|the shape of this hole.|the role of being a doctor|the function of this heart: to pump blood|the smell of this portion of mozzarella|of one-sided specifically dependent continuants: the mass of this tomato|the disposition of this fish to decay|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",,,,,,(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] ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000020,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,specifically dependent continuant,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IAO_0000179,histogram,,"A histogram is a report graph which is a statistical description of a
distribution in terms of occurrence frequencies of different event classes.",false,,,http://purl.obolibrary.org/obo/IAO_0000038,,,,,,,,,,,,,,,,,,,,,,"A histogram is a report graph which is a statistical description of a
distribution in terms of occurrence frequencies of different event classes.",GROUP:OBI,,,,,,,,histogram,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IAO_0000122,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000179,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,histogram,,,,,,,,,,,,,,,,,,,,,,,,,,,,PERSON:James Malone|PERSON:Chris Stoeckert|PERSON:Melanie Courtot,,,
http://www.fealinx-biomedical.com/ontologies/bmslm/BMSLM_0000013,raw data unit,,an i-c-e resulting from a raw data acquisition process of a research study,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,DUR,,,,,,,,,,,,an i-c-e resulting from a raw data acquisition process of a research study,,,,,,,,,raw data unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bmslm:BMSLM_0000013,,,,,,,,,,,,,,,,,,,,,,,http://www.w3.org/2002/07/owl#Class,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,unité de données brutes résultant|raw data unit,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
