Class ID,Preferred Label,Synonyms,Definitions,Obsolete,CUI,Semantic Types,Parents,2D boundary of,alternative term,antisymmetric property,bearer of,BFO CLIF specification label,BFO OWL specification label,concretizes,contains process,curator note,definition source,derives from,derives into,disposition of,editor note,editor preferred term,elucidation,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 curation status,has disposition,has function,has ID digit count,has ID policy for,has ID prefix,has ID range allocated to,has member,has obsolescence reason,has output,has part,has participant,has quality,has role,has specified input,has specified output,has_material_basis_in,http://data.bioontology.org/metadata/obo/part_of,http://data.bioontology.org/metadata/prefixIRI,http://data.bioontology.org/metadata/treeView,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://www.geneontology.org/formats/oboInOwl#hasAlternativeId,http://www.geneontology.org/formats/oboInOwl#hasDbXref,http://www.geneontology.org/formats/oboInOwl#hasDefinition,http://www.geneontology.org/formats/oboInOwl#hasExactSynonym,http://www.geneontology.org/formats/oboInOwl#hasOBONamespace,http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym,http://www.geneontology.org/formats/oboInOwl#hasURI,http://www.geneontology.org/formats/oboInOwl#inSubset,http://www.geneontology.org/formats/oboInOwl#term_editor,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/2002/07/owl#topObjectProperty,http://xmlns.com/foaf/0.1/homepage,http://xmlns.com/foaf/0.1/page,imported from,in branch,inheres in,is allocated id range,is concretized as,is denotator type,is specified input of,is specified output of,label,located in,location of,member of,negatively regulates,OBO foundry unique label,occupies temporal region,occurs in,ontology term requester,part of,participates in,positively regulates,preceded by,precedes,quality of,realized in,realizes,regulates,results in,results in formation of,role of,shorthand,temporal interpretation,term editor,term replaced by,term tracker item,textual definition
http://purl.obolibrary.org/obo/IDO_0000548,invasion factor,invasin,Biological macromolecule that has an invasion disposition.,false,,,http://purl.obolibrary.org/obo/CHEBI_33839,,invasin,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000548,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,invasion factor,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Biological macromolecule that has an invasion disposition.
http://purl.obolibrary.org/obo/APOLLO_SV_00000229,place closure control strategy,,Infectious disease control strategy that has an action specification that is realized in closing facilities where organisms congregate during times when the facilities normally would be open.,false,,,http://purl.obolibrary.org/obo/APOLLO_SV_00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000229,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,place closure control strategy,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious disease control strategy that has an action specification that is realized in closing facilities where organisms congregate during times when the facilities normally would be open.
http://www.ontologyrepository.com/CommonCoreOntologies/GeopoliticalEntity,geopolitical entity,,A geospatial region that delimits the authority of a formally constituted government to exercise its control within the bounded area.,false,,,http://www.ontologyrepository.com/CommonCoreOntologies/GeospatialRegion,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,geopolitical entity,,,,,,,,,,,,,,,,,,,,,,,,,,A geospatial region that delimits the authority of a formally constituted government to exercise its control within the bounded area.
http://purl.obolibrary.org/obo/CHEBI_33697,ribonucleic acid,,Nucleic acid composed of nucleotides containing ribose and linked by phosphodiester bonds.,false,,,http://purl.obolibrary.org/obo/CHEBI_33696,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:33697,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,ribonucleic acid,,,,,,,,,,,,,,,,,,,,,,,,,,Nucleic acid composed of nucleotides containing ribose and linked by phosphodiester bonds.
http://purl.obolibrary.org/obo/CL_0000000,cell,,"This should be an inferred subclass of BFO:object. -John|Material entity that is part of or derived from an organism, with maximally connected cell compartments surrounded by a plasma membrane.",false,,,http://purl.obolibrary.org/obo/CARO_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CL:0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/cl.owl,,,,,,,,cell,,,,,,,,,,,,,,,,,,,,,,,,,,"This should be an inferred subclass of BFO:object. -John|Material entity that is part of or derived from an organism, with maximally connected cell compartments surrounded by a plasma membrane."
http://purl.obolibrary.org/obo/IDO_0000467,susceptibility,,"Quality that inheres in an entity and is the degree to which it can be harmed by another entity.|Low susceptibility is often referred to as resistance.  In this sense, resistance is a quality.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000467,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Low susceptibility is often referred to as resistance.  In this sense, resistance is a quality.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,susceptibility,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an entity and is the degree to which it can be harmed by another entity.
http://purl.obolibrary.org/obo/IDO_0001124,asymptomatic carrier role,,"Pathogen host role borne by an organism whose extended organism contains a pathogen bearing an infectious disposition towards the host, and the host has no symptoms of the infectious disease caused by the pathogen.",false,,,http://purl.obolibrary.org/obo/IDO_0000415,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001124,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,asymptomatic carrier role,,,,,,,,,,,,,,,,,,,,,,,,,,"Pathogen host role borne by an organism whose extended organism contains a pathogen bearing an infectious disposition towards the host, and the host has no symptoms of the infectious disease caused by the pathogen."
http://purl.obolibrary.org/obo/IDO_0001002,infection incidence rate profile,,,false,,,http://purl.obolibrary.org/obo/BFO_0000144,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection incidence rate profile,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,
http://purl.obolibrary.org/obo/GEO_000000370,geographical entity,,"Material entity that is (1) a bona fide or fiat object part of the crust, any bodies of liquid on or contained within the crust, or planetary boundary layer (if present) of a terrestrial planet (including Earth), dwarf planet, exoplanet, natural satellite, planetesimal, or small Solar System body, and that (2) overlaps the planetary surface (including having a boundary that coincides with part of the planetary surface).",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GEO:000000370,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/GEO,,,,,,,,geographical entity,,,,,,,,,,,,,,,,,,,,,,,,,,"Material entity that is (1) a bona fide or fiat object part of the crust, any bodies of liquid on or contained within the crust, or planetary boundary layer (if present) of a terrestrial planet (including Earth), dwarf planet, exoplanet, natural satellite, planetesimal, or small Solar System body, and that (2) overlaps the planetary surface (including having a boundary that coincides with part of the planetary surface)."
http://purl.obolibrary.org/obo/NCBITaxon_2759,eukaryota,,,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,NCBITaxon:2759,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ncbitaxon.owl,,,,,,,,eukaryota,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001168,symptomatic infectious agent carrier,,Infectious agent host bearing an infectious agent carrier role.,false,,,http://purl.obolibrary.org/obo/IDO_0000537,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001168,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symptomatic infectious agent carrier,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious agent host bearing an infectious agent carrier role.
http://purl.obolibrary.org/obo/CHEBI_24432,biological role,,"Role inhering in a molecular entity or part of that entity, realized in biological processes.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:24432,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,biological role,,,,,,,,,,,,,,,,,,,,,,,,,,"Role inhering in a molecular entity or part of that entity, realized in biological processes."
http://purl.obolibrary.org/obo/IDO_0000525,commensal,,Symbiont bearing a commensal role.,false,,,http://purl.obolibrary.org/obo/IDO_0000522,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000525,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,commensal,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Symbiont bearing a commensal role.
http://purl.obolibrary.org/obo/IDO_0000552,endotoxin,,Toxin bearing an endotoxin disposition that is a structural component of a pathogen and is released from the pathogen only upon cytolysis.,false,,,http://purl.obolibrary.org/obo/IDO_0000549,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,IDO:0000552,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,endotoxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Toxin bearing an endotoxin disposition that is a structural component of a pathogen and is released from the pathogen only upon cytolysis.
http://purl.obolibrary.org/obo/IDO_0000640,acquired immunodeficiency,,Immunodeficiency that is not caused by a genetic predisposition.|Causes of acquired immunodeficiences include infection and drug treatments (e.g. chemotherapy).,false,,,http://purl.obolibrary.org/obo/IDO_0000617,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000640,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Causes of acquired immunodeficiences include infection and drug treatments (e.g. chemotherapy).,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,acquired immunodeficiency,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunodeficiency that is not caused by a genetic predisposition.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001037,pathogen portal of exit site,,Anatomical space through which a pathogen exits an organism.,false,,,http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of exit site,,,,,,,,,,,,,,,,,,,,,,,,,,Anatomical space through which a pathogen exits an organism.
http://purl.obolibrary.org/obo/IDO_0000408,symbiont host role,,"Host role borne by an organism whose extended organism provides an environment supportive for the survival, growth, maturation, or reproduction of an object contained as a proper part.",false,,,http://purl.obolibrary.org/obo/IDO_0000629,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000408,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symbiont host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Host role borne by an organism whose extended organism provides an environment supportive for the survival, growth, maturation, or reproduction of an object contained as a proper part."
http://purl.obolibrary.org/obo/IDO_0000625,establishment of localization in host,,"Establishment of localization process in which a material entity reaches a site in or on a host in which it can survive, grow, multiply, or mature.",false,,,http://purl.obolibrary.org/obo/GO_0051234,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000625,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,establishment of localization in host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Establishment of localization process in which a material entity reaches a site in or on a host in which it can survive, grow, multiply, or mature."
http://purl.obolibrary.org/obo/IDO_0001085,pathogen death temporal region,,Zero-dimensional temporal region occupied by a pathogen death process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001085,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen death temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by a pathogen death process boundary.
http://purl.obolibrary.org/obo/IDO_0000514,susceptible population,at-risk population,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members are not infected with an infectious agent and who lack immunity to the infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,at-risk population,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000514,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,susceptible population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members are not infected with an infectious agent and who lack immunity to the infectious agent.
http://purl.obolibrary.org/obo/IDO_0000425,virulence factor disposition,,"Disposition borne by a biological macromolecule produced by a pathogen that is a disposition to undergo processes that increase the pathogen's virulence.|The virulence factor disposition is typically realized in processes that improve survival of the pathogen in a host, increase the likelihood of transmission to a host, or cause pathological processes in a host.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000425,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"The virulence factor disposition is typically realized in processes that improve survival of the pathogen in a host, increase the likelihood of transmission to a host, or cause pathological processes in a host.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,virulence factor disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition borne by a biological macromolecule produced by a pathogen that is a disposition to undergo processes that increase the pathogen's virulence.
http://purl.obolibrary.org/obo/IDO_0000615,colony,,http://purl.obolibrary.org/obo/ido.owl|Organism population persisting in a site it has colonized.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000615,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,colony,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population persisting in a site it has colonized.
http://purl.obolibrary.org/obo/IDO_0001353,communicability start temporal region,,Zero-dimensional temporal region occupied by a communicability start process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001353,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability start temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by a communicability start process boundary.
http://purl.obolibrary.org/obo/IDO_0000596,infectious agent,,Organism that has an infectious disposition.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,This is an inferred subclass of pathogen.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000596,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Organism that has an infectious disposition.
http://purl.obolibrary.org/obo/IAO_0000064,algorithm,,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,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000064,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/iao.owl,,,,,,,,algorithm,,,,,,,,,,,,,,,,,,,,,,,,,,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.
http://purl.obolibrary.org/obo/ido.owl/CARO_0000062,cell space,,Anatomical space that is part of a cell.,false,,,http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/caro.owl,,,,,,,,cell space,,,,,,,,,,,,,,,,,,,,,,,,,,Anatomical space that is part of a cell.
http://purl.obolibrary.org/obo/IDO_0000480,infection incidence,,"Quality that inheres in an organism population and is the number of organisms in the population that become infected with a pathogen during a specified period of time.|A particular instance of infection incidence will depend on a type of infectious agent, a population, and a period of time.  Incidence is used as a measure of risk.  Actual measures of incidence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.  These constraints will vary with the context of the incidence measure.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000480,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"A particular instance of infection incidence will depend on a type of infectious agent, a population, and a period of time.  Incidence is used as a measure of risk.  Actual measures of incidence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.  These constraints will vary with the context of the incidence measure.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infection incidence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the number of organisms in the population that become infected with a pathogen during a specified period of time.
http://purl.obolibrary.org/obo/IDO_0000422,biological vehicle role,,"A pathogen vehicle role borne by an entity in virtue of the fact that the entity is living or contains living cells other than those that have the infectious disposition.|Examples include blood, serum, tissue, or fresh produce.",false,,,http://purl.obolibrary.org/obo/IDO_0000421,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000422,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Examples include blood, serum, tissue, or fresh produce.",,,,,,,,,,,,,,biological vehicle role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A pathogen vehicle role borne by an entity in virtue of the fact that the entity is living or contains living cells other than those that have the infectious disposition.
http://www.ontologyrepository.com/CommonCoreOntologies/DirectiveInformationContentEntity,directive information content entity,,Information Content Entity that consists of a set of propositions or images (as in the case of a blueprint) that prescribe some Entity.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,directive information content entity,,,,,,,,,,,,,,,,,,,,,,,,,,Information Content Entity that consists of a set of propositions or images (as in the case of a blueprint) that prescribe some Entity.
http://purl.obolibrary.org/obo/IDO_0000415,pathogen host role,,Host role borne by an object having a pathogen as part or an borne by an organism having a pathogen as part of its extended organism.,false,,,http://purl.obolibrary.org/obo/IDO_0000629,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000415,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host role borne by an object having a pathogen as part or an borne by an organism having a pathogen as part of its extended organism.
http://purl.obolibrary.org/obo/IDO_0000530,primary pathogen,principal pathogen,Pathogen bearing a primary infectious disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000528,,principal pathogen,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000530,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,primary pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen bearing a primary infectious disposition.
http://purl.obolibrary.org/obo/IDO_0000632,neurotoxin,,Toxin bearing a neurotoxin disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000549,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,IDO:0000632,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,neurotoxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Toxin bearing a neurotoxin disposition.
http://purl.obolibrary.org/obo/IDO_0001011,drug-based immunosuppressed organism,,Pathologically immunosuppressed organism that is experiencing drug-based immunosuppression.,false,,,http://purl.obolibrary.org/obo/IDO_0001005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,drug-based immunosuppressed organism,,,,,,,,,,,,,,,,,,,,,,,Lindsay Cowell|Alex Diehl,,,Pathologically immunosuppressed organism that is experiencing drug-based immunosuppression.
http://purl.obolibrary.org/obo/IDO_0000500,variolation,,Active immunization that begins with exposure to smallpox in the form of a scab from a pustule and results in immunity against smallpox.,false,,,http://purl.obolibrary.org/obo/IDO_0000498,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000500,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,variolation,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Active immunization that begins with exposure to smallpox in the form of a scab from a pustule and results in immunity against smallpox.
http://purl.obolibrary.org/obo/APOLLO_SV_00000086,infectious disease control strategy,,Plan specification whose objective specification is an infectious disease control objective specification.,false,,,http://purl.obolibrary.org/obo/IAO_0000104,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,infectious disease control strategy,,,,,,,,,,,,,,,,,,,,,,,,,,Plan specification whose objective specification is an infectious disease control objective specification.
http://purl.obolibrary.org/obo/IDO_0001001,infection incidence proportion profile,,,false,,,http://purl.obolibrary.org/obo/BFO_0000144,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001001,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection incidence proportion profile,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,
http://purl.obolibrary.org/obo/FBdv_00005259,generative stage,,Temporal subdivision of a developmental process.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FBdv:00005259,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,generative stage,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,Temporal subdivision of a developmental process.
http://purl.obolibrary.org/obo/CHEBI_16991,deoxyribonucleic acid,,Nucleic acid composed of nucleotides containing deoxyribose and linked by phosphodiester bonds.,false,,,http://purl.obolibrary.org/obo/CHEBI_33696,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:16991,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,deoxyribonucleic acid,,,,,,,,,,,,,,,,,,,,,,,,,,Nucleic acid composed of nucleotides containing deoxyribose and linked by phosphodiester bonds.
http://purl.obolibrary.org/obo/VSMO_,surveillance process,,"Planned process with the objective to produce information about some evaluant with the purpose of, if justified by the information gathered, managing, directing, or protecting.",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,VSMO:,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/vsmo.owl,,,,,,,,surveillance process,,,,,,,,,,,,,,,,,,,,,,,,,,"Planned process with the objective to produce information about some evaluant with the purpose of, if justified by the information gathered, managing, directing, or protecting."
http://purl.obolibrary.org/obo/IDO_0000457,immunocompetent organism,,Organism that has immunocompetence.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000457,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunocompetent organism,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Organism that has immunocompetence.
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])|An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t.",false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,,"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",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,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])|An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t."
http://purl.obolibrary.org/obo/GO_0050777,negative regulation of immune response,,"Process that stops, prevents, or reduces the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus.",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0050777,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,negative regulation of immune response,,,,,,,,,,,,,,,,,,,,,,,,,,"Process that stops, prevents, or reduces the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus."
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,entity,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,anatomical space,,Site generated by morphogenetic or physiologic processes that is bounded by an anatomical surface.,false,,,http://purl.obolibrary.org/obo/BFO_0000029,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/caro.owl,,,,,,,,anatomical space,,,,,,,,,,,,,,,,,,,,,,,,,,Site generated by morphogenetic or physiologic processes that is bounded by an anatomical surface.
http://purl.obolibrary.org/obo/IDO_0000431,pathogen portal of exit role,,Role borne by an anatomical entity that serves as the site through which a pathogen exits a host.,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000431,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of exit role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Role borne by an anatomical entity that serves as the site through which a pathogen exits a host.
http://purl.obolibrary.org/obo/IDO_0000506,bacteremia,,Infection that has as part bacteria located in the blood.,false,,,http://purl.obolibrary.org/obo/IDO_0000472,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000506,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,bacteremia,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection that has as part bacteria located in the blood.
http://purl.obolibrary.org/obo/IDO_0000494,infectious disease sporadicity,,Quality that inheres in an organism population by virtue of the fact that realizations of an infectious disease occur in the population with a fluctuating prevalence.|Sporadic quality of infectious disease is relational to previous prevalence of the disease.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000494,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Sporadic quality of infectious disease is relational to previous prevalence of the disease.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease sporadicity,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population by virtue of the fact that realizations of an infectious disease occur in the population with a fluctuating prevalence.
http://purl.obolibrary.org/obo/IDO_0000603,process of establishing an infection,,"Process by which an infectious agent or infectious structure, established in a host, becomes part of an infection in the host.",false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,IDO:0000603,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,process of establishing an infection,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000625,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Process by which an infectious agent or infectious structure, established in a host, becomes part of an infection in the host."
http://purl.obolibrary.org/obo/GO_0008150,biological process,,Process specifically pertinent to the functioning of functionally integrated units.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,biological process,,,,,,,,,,,,,,,,,,,,,,,,,,Process specifically pertinent to the functioning of functionally integrated units.
http://purl.obolibrary.org/obo/CARO_0000000,anatomical entity,,Material entity part of or substance produced by a multicellular organism with granularity above the level of a protein complex.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,Anatomical entities - like other material entities - may have immaterial parts.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CARO:0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/caro.owl,,,,,,,,anatomical entity,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity part of or substance produced by a multicellular organism with granularity above the level of a protein complex.
http://purl.obolibrary.org/obo/IDO_0000512,diseased population,,http://purl.obolibrary.org/obo/ido.owl|Organism population in whose members an infectious disease is being realized.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000512,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,diseased population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population in whose members an infectious disease is being realized.
http://purl.obolibrary.org/obo/IDO_0001088,acellular structure,,Object that is an arrangement of interrelated acellular parts forming a biological unit.,false,,,http://purl.obolibrary.org/obo/BFO_0000030,,,,,,,,,,,,,,,,,prions|viruses,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001088,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,acellular structure,,,,,,,,,,,,,,,,,,,,,,,,,,Object that is an arrangement of interrelated acellular parts forming a biological unit.
http://purl.obolibrary.org/obo/IDO_0000610,immunosuppression,,Process that attenuates an immune response.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000610,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunosuppression,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Process that attenuates an immune response.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001072,site of infection,,Anatomical space in which an infection is located.,false,,,http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,site of infection,,,,,,,,,,,,,,,,,,,,,,,,,,Anatomical space in which an infection is located.
http://purl.obolibrary.org/obo/IDO_0000590,chronic infectious disease course,,Infectious disease course that unfolds over a long period of time.,false,,,http://purl.obolibrary.org/obo/IDO_0000495,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000590,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,chronic infectious disease course,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disease course that unfolds over a long period of time.
http://purl.obolibrary.org/obo/IDO_0000483,infectious disease incidence rate,,Quality that inheres in an organism population and is the infectious disease incidence proportion per unit time.|An instance of infectious disease incidence rate is measured by dividing a measure of an instance of the infectious disease incidence proportion by the length of the period of time over which the incidence was measured.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000483,,,,,,,,,,,,,,,,,,,,,,,,,,,,,An instance of infectious disease incidence rate is measured by dividing a measure of an instance of the infectious disease incidence proportion by the length of the period of time over which the incidence was measured.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease incidence rate,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the infectious disease incidence proportion per unit time.
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,three-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001109,infectious agent generative stage,,Pathogen generative stage that is a temporal subdivision of an infectious agent developmental process.,false,,,http://purl.obolibrary.org/obo/IDO_0001111,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001109,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious agent generative stage,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen generative stage that is a temporal subdivision of an infectious agent developmental process.
http://purl.obolibrary.org/obo/IDO_0001095,pathogen transporter,,Material entity bearing a pathogen transporter role.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001095,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen transporter,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity bearing a pathogen transporter role.
http://purl.obolibrary.org/obo/IDO_0000522,symbiont,,Organism bearing a symbiont role.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000522,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symbiont,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Organism bearing a symbiont role.
http://purl.obolibrary.org/obo/IDO_0000434,primary infection role,,"Role borne by an infectious disorder whose host has another, distinct, infectious disorder - neither arising from the other through metastasis - which emerged after this infectious disorder was established due to increased host susceptibility to infectious disorders.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000434,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000504,,,,,,primary infection role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Role borne by an infectious disorder whose host has another, distinct, infectious disorder - neither arising from the other through metastasis - which emerged after this infectious disorder was established due to increased host susceptibility to infectious disorders."
http://purl.obolibrary.org/obo/IDO_0000414,infectious agent host role,,Pathogen host role borne by an organism whose extended organism contains an infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000415,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000414,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious agent host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen host role borne by an organism whose extended organism contains an infectious agent.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001107,source of infection site,,Anatomical space in which an infection appears in a host organism.,false,,,http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,source of infection site,,,,,,,,,,,,,,,,,,,,,,,,,,Anatomical space in which an infection appears in a host organism.
http://purl.obolibrary.org/obo/IDO_0000490,infectious disease endemicity,,"Quality that inheres in an organism population in virtue of the fact that infections of the type that causes an infectious disease are maintained in the population via intra-population transmission or by transmission from a local reservoir.|A particular instance of infectious disease endemicity will depend on a type of infectious agent and a population.  The population may be specified by temporal, geographic, or demographic constraints.  Infectious diseases that are typical or common to a particular population are referred to as endemic.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000490,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"A particular instance of infectious disease endemicity will depend on a type of infectious agent and a population.  The population may be specified by temporal, geographic, or demographic constraints.  Infectious diseases that are typical or common to a particular population are referred to as endemic.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease endemicity,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population in virtue of the fact that infections of the type that causes an infectious disease are maintained in the population via intra-population transmission or by transmission from a local reservoir.
http://purl.obolibrary.org/obo/IDO_0000533,intermediate host,secondary host,Host bearing an intermediate host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000531,,secondary host,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000533,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,intermediate host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host bearing an intermediate host role.
http://purl.obolibrary.org/obo/IDO_0001354,latency start process boundary,,Process boundary marking the start of a latency interval.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001354,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,latency start process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001348,,,,,,,,,,,,,,,,,,,,Process boundary marking the start of a latency interval.
http://purl.obolibrary.org/obo/ERO_0000347,intervention,,"Planned process used to influence one or more factors in a research study, and the independent variable in an interventional study wherein the influence is measured or evaluated.",false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,ERO:0000347,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ero.owl,,,,,,,,intervention,,,,,,,,,,,,,,,,,,,,,,,,,,"Planned process used to influence one or more factors in a research study, and the independent variable in an interventional study wherein the influence is measured or evaluated."
http://purl.obolibrary.org/obo/IDO_0000468,susceptibility to infectious agent,,Susceptibility that inheres in an organism and is the degree to which it can be harmed by an infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000467,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000468,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,susceptibility to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Susceptibility that inheres in an organism and is the degree to which it can be harmed by an infectious agent.
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000421,pathogen vehicle role,,"A pathogen transporter role borne by an entity in virtue of the fact that the entity is not a complete organism.|Drinking water bears the infectious agent vehicle role, but does not bear either of the subtype roles.",false,,,http://purl.obolibrary.org/obo/IDO_0001096,,,,,,,,,,,,,,"I don't understand the rdfs comment indicating drinking water bears the infected agent vehicle role, but neither of the subtypes. Presumably, if an infectious agent is present in drinking water, then it bears a fomite role. Drinking water is, in fact, a classic example. -John Beverley|I've expanded this definition and label to cover infectious agent pathogens and infectious structure pathogens. -John Beverley",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000421,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Drinking water bears the infectious agent vehicle role, but does not bear either of the subtype roles.",,,,,,,,,,,,,,pathogen vehicle role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A pathogen transporter role borne by an entity in virtue of the fact that the entity is not a complete organism.
http://purl.obolibrary.org/obo/IDO_0000444,protective resistance,,"Disposition inhering in an acellular structure or organism, with a part having a disposition to mitigate damage to the entity from invasive or internal threats, which is realized in one or more negative biological regulation process.|Examples include the following:  CCR5 mutations protect T cells from HIV invasion.  A tumor cell's resistance to chemotherapy protects the cell from damage by the drug (although this harms the patient).  An insect's resistance to insecticide protects it from the insecticide.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000444,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Examples include the following:  CCR5 mutations protect T cells from HIV invasion.  A tumor cell's resistance to chemotherapy protects the cell from damage by the drug (although this harms the patient).  An insect's resistance to insecticide protects it from the insecticide.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,protective resistance,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Disposition inhering in an acellular structure or organism, with a part having a disposition to mitigate damage to the entity from invasive or internal threats, which is realized in one or more negative biological regulation process."
http://purl.obolibrary.org/obo/IDO_0001378,vector surveillance,,"Surveillance process aiming to produce information about one or several objects, in the form of arthropods, which have the role of serving as biological pathogen vectors.",false,,,http://purl.obolibrary.org/obo/VSMO_,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001378,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,vector surveillance,,,,,,,,,,,,,,,,,,,,,,,,,,"Surveillance process aiming to produce information about one or several objects, in the form of arthropods, which have the role of serving as biological pathogen vectors."
http://purl.obolibrary.org/obo/OGMS_0000020,symptom,,"Process experienced by a patient which can only be experienced by the patient, that is hypothesized to be clinically relevant.",false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000020,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,symptom,,,,,,,,,,,,,,,,,,,,,,,,,,"Process experienced by a patient which can only be experienced by the patient, that is hypothesized to be clinically relevant."
http://purl.obolibrary.org/obo/IDO_0000580,passive immunity to infectious agent,,Immunity to pathogen that inheres in an organism in virtue of antibodies not produced by that organism.,false,,,http://purl.obolibrary.org/obo/IDO_0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000580,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,passive immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunity to pathogen that inheres in an organism in virtue of antibodies not produced by that organism.
http://purl.obolibrary.org/obo/GO_0051093,negative regulation of developmental process,,"Any process that stops, prevents or reduces the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0051093,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,negative regulation of developmental process,,,,,,,,,,,,,,,,,,,,,,,,,,"Any process that stops, prevents or reduces the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)."
http://purl.obolibrary.org/obo/IDO_0001166,enterotoxin disposition,,Exotoxin disposition ithat is realized in a process of damaging intestinal mucosa cells.,false,,,http://purl.obolibrary.org/obo/IDO_0000427,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001166,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,enterotoxin disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Exotoxin disposition ithat is realized in a process of damaging intestinal mucosa cells.
http://purl.obolibrary.org/obo/BFO_0000023,role,,"A realizable entity  the manifestation of which brings about some result or end that is not essential to a continuant  in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant  in some kinds of natural, social or institutional contexts.",false,,,http://purl.obolibrary.org/obo/BFO_0000017,,,,,,,,,,,,,,"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",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,role,,,,,,,,,,,,,,,,,,,,,,,,,,"A realizable entity  the manifestation of which brings about some result or end that is not essential to a continuant  in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant  in some kinds of natural, social or institutional contexts."
http://purl.obolibrary.org/obo/IDO_0001346,incubation end process boundary,,Process boundary marking the end of an incubation period.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001346,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,incubation end process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001352,,,,,,http://purl.obolibrary.org/obo/IDO_0001355,,,,,,,,,,,,,,Process boundary marking the end of an incubation period.
http://purl.obolibrary.org/obo/TRANS_0000007,contact pathogen transmission process,,Pathogen transmission process in which a pathogen is transferred to a host through surface-to-surface contact.,false,,,http://purl.obolibrary.org/obo/TRANS_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,TRANS:0000007,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/trans.owl,,,,,,,,contact pathogen transmission process,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen transmission process in which a pathogen is transferred to a host through surface-to-surface contact.
http://purl.obolibrary.org/obo/IDO_0000435,secondary infection role,,"Role borne by an infectious disorder whose host has another, distinct, primary infectious disorder - neither arising from the other through metastasis - which emerged after the primary infectious disorder was established due to increased host susceptibility to infectious disorders.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000435,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000504,,,,,,secondary infection role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Role borne by an infectious disorder whose host has another, distinct, primary infectious disorder - neither arising from the other through metastasis - which emerged after the primary infectious disorder was established due to increased host susceptibility to infectious disorders."
http://purl.obolibrary.org/obo/IDO_0000608,replication,,Production process in which a participant creates a copy of itself.,false,,,http://purl.obolibrary.org/obo/IDO_0000607,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000608,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,replication,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Production process in which a participant creates a copy of itself.
http://purl.obolibrary.org/obo/IDO_0001126,asymptomatic carrier,,Pathogen host with an infection as part but exhibits no signs or symptoms.,false,,,http://purl.obolibrary.org/obo/IDO_0000538,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001126,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,asymptomatic carrier,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen host with an infection as part but exhibits no signs or symptoms.
http://purl.obolibrary.org/obo/IDO_0001009,pathogen birth process boundary,,Process boundary that marks the start of the life cycle of a pathogen.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001009,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen birth process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001083,,,,,,,,,,,,,,,,,Lindsay Cowell|John Beverley|Alex Diehl,,,Process boundary that marks the start of the life cycle of a pathogen.
http://purl.obolibrary.org/obo/IDO_0000477,acute infectious disease course,,Infectious disease course that begins soon after infection is established and progresses rapidly to severe stages.,false,,,http://purl.obolibrary.org/obo/IDO_0000495,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000477,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,acute infectious disease course,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disease course that begins soon after infection is established and progresses rapidly to severe stages.
http://purl.obolibrary.org/obo/IDO_0000618,immunocompetence,,Disposition inhering in an organism that is the disposition to mount a normal immune response.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000618,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunocompetence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition inhering in an organism that is the disposition to mount a normal immune response.
http://purl.obolibrary.org/obo/IDO_0000475,local infection,,Infection for which the infectious agents or structures that are part of the infection are limited to a relatively small area of the host's body.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000475,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,local infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection for which the infectious agents or structures that are part of the infection are limited to a relatively small area of the host's body.
http://purl.obolibrary.org/obo/IDO_0000520,communicability interval,,One-dimensional temporal region during which a pathogen host bears a contagiousness disposition.,false,,,http://purl.obolibrary.org/obo/BFO_0000038,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0001353,,,,,,,,IDO:0000520,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability interval,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0001343,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,One-dimensional temporal region during which a pathogen host bears a contagiousness disposition.
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,two-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001352,incubation end temporal region,,Zero-dimensional temporal region occupied by an incubation end process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001352,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,incubation end temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by an incubation end process boundary.
http://purl.obolibrary.org/obo/IDO_0000438,invasion disposition,Invasion factor; invasin,Disposition borne by a biological macromolecule that is the disposition to facilitate breach of and entry through host barriers.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,Invasion factor; invasin,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000438,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,invasion disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition borne by a biological macromolecule that is the disposition to facilitate breach of and entry through host barriers.
http://www.ontologyrepository.com/CommonCoreOntologies/GeospatialLocation,geospatial location,,A Geospatial Region at which an Entity or Event is located.,false,,,http://www.ontologyrepository.com/CommonCoreOntologies/GeospatialRegion,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,geospatial location,,,,,,,,,,,,,,,,,,,,,,,,,,A Geospatial Region at which an Entity or Event is located.
http://purl.obolibrary.org/obo/IDO_0001133,symptomatic carrier role,,"Pathogen host role borne by an organism whose extended organism contains a pathogen bearing an infectious disposition towards the host, and the host has manifested symptoms of the infectious disease caused by the pathogen.",false,,,http://purl.obolibrary.org/obo/IDO_0000415,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001133,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symptomatic carrier role,,,,,,,,,,,,,,,,,,,,,,,,,,"Pathogen host role borne by an organism whose extended organism contains a pathogen bearing an infectious disposition towards the host, and the host has manifested symptoms of the infectious disease caused by the pathogen."
http://purl.obolibrary.org/obo/OGMS_0000031,disease,,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,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000031,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,disease,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.
http://purl.obolibrary.org/obo/GO_0006959,humoral immune response,,Immune response mediated through a body fluid.,false,,,http://purl.obolibrary.org/obo/GO_0006955,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0006959,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,humoral immune response,,,,,,,,,,,,,,,,,,,,,,,,,,Immune response mediated through a body fluid.
http://purl.obolibrary.org/obo/GO_0006955,immune response,,Immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.,false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0006955,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,immune response,,,,,,,,,,,,,,,,,,,,,,,,,,Immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
http://purl.obolibrary.org/obo/IDO_0000567,secondary infection,,Infectious disorder bearing a secondary infection role.,false,,,http://purl.obolibrary.org/obo/IDO_0000504,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000567,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,secondary infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disorder bearing a secondary infection role.
http://purl.obolibrary.org/obo/IDO_0001040,bacteriostatic,,Static agent bearing a bacteriostatic disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0001090,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001040,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,bacteriostatic,,,,,,,,,,,,,,,,,,,,,,,,,,Static agent bearing a bacteriostatic disposition.
http://purl.obolibrary.org/obo/IDO_0001198,mechanical vector,,Pathogen vector bearing a mechanical vector role.,false,,,http://purl.obolibrary.org/obo/IDO_0001196,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001198,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,mechanical vector,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen vector bearing a mechanical vector role.
http://purl.obolibrary.org/obo/IDO_0000454,reverse zoonotic disposition,,"Infectious disposition to be transmitted from an infected, human host to a non-human host.|An infectious disease associated with an infectious agent that bears the reverse zoonotic disposition is referred to as a reverse zoonosis.",false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000454,,,,,,,,,,,,,,,,,,,,,,,,,,,,,An infectious disease associated with an infectious agent that bears the reverse zoonotic disposition is referred to as a reverse zoonosis.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,reverse zoonotic disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Infectious disposition to be transmitted from an infected, human host to a non-human host."
http://purl.obolibrary.org/obo/IDO_0000650,colonization of human,,Colonization of host in a human.,false,,,http://purl.obolibrary.org/obo/IDO_0000604,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000650,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,colonization of human,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Colonization of host in a human.
http://purl.obolibrary.org/obo/IDO_0000619,immunosuppressive disposition,,Disposition whose realization negatively regulates an immune response.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000619,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunosuppressive disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition whose realization negatively regulates an immune response.
http://purl.obolibrary.org/obo/GO_0002250,adaptive immune response,,"Immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory).",false,,,http://purl.obolibrary.org/obo/GO_0006955,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0002250,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,adaptive immune response,,,,,,,,,,,,,,,,,,,,,,,,,,"Immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory)."
http://purl.obolibrary.org/obo/IDO_0001025,fungicidal disposition,,Disposition to kill fungi.,false,,,http://purl.obolibrary.org/obo/IDO_0001092,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001025,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,fungicidal disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to kill fungi.
http://purl.obolibrary.org/obo/IDO_0000453,zoonotic disposition,,"Infectious disposition to be transmitted from an infected, non-human host to a human host.",false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000453,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,zoonotic disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Infectious disposition to be transmitted from an infected, non-human host to a human host."
http://purl.obolibrary.org/obo/IDO_0000501,passive immunization against infectious agent,,Immunization that begins with transfer to an organism of molecules not produced by that organism and that confer immunity against an infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000497,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000501,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,passive immunization against infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunization that begins with transfer to an organism of molecules not produced by that organism and that confer immunity against an infectious agent.
http://purl.obolibrary.org/obo/IDO_0001093,infectious structure host,,Pathogen host bearing an infectious structure host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000538,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001093,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious structure host,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen host bearing an infectious structure host role.
http://purl.obolibrary.org/obo/BFO_0000008,temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,,,,,,,,,,,,Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002]),,,,,,,,,,,,,,,,,,,,BFO:0000008,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000409,definitive host role,,Symbiont host role borne by an organism iwhose partner in symbiosis reaches developmental maturity or reproduces sexually in the host.,false,,,http://purl.obolibrary.org/obo/IDO_0000408,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000409,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,definitive host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Symbiont host role borne by an organism iwhose partner in symbiosis reaches developmental maturity or reproduces sexually in the host.
http://purl.obolibrary.org/obo/IDO_0000616,infectious agent colony,,Colony whose members are infectious agents.,false,,,http://purl.obolibrary.org/obo/IDO_0000615,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000616,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,infectious agent colony,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Colony whose members are infectious agents.
http://purl.obolibrary.org/obo/IDO_0000588,collective resistance disposition,,Collective disposition the realization of which mitigates the damaging effects of some entity on members of the collection.,false,,,http://purl.obolibrary.org/obo/IDO_0000455,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000588,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,collective resistance disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Collective disposition the realization of which mitigates the damaging effects of some entity on members of the collection.
http://purl.obolibrary.org/obo/IDO_0001355,incubation start process boundary,,Process boundary marking the start of an incubation interval.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001355,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,incubation start process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001348,,,,,,,,,,,,,,,,,,,,Process boundary marking the start of an incubation interval.
http://purl.obolibrary.org/obo/IDO_0000549,toxin,,Molecular entity that has a toxin disposition.,false,,,http://purl.obolibrary.org/obo/CHEBI_23367,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000549,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,toxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Molecular entity that has a toxin disposition.
http://purl.obolibrary.org/obo/IDO_0001343,latency interval,,One-dimensional temporal region beginning with the establishing of an infection in a host and ending when the host becomes contagious.,false,,,http://purl.obolibrary.org/obo/BFO_0000038,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0001348,,,,,,,http://purl.obolibrary.org/obo/IDO_0000519,IDO:0001343,http://purl.obolibrary.org/obo/IDO_0000519,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,latency interval,,,,,,,,,,,,,,,,,,,,,,,,,,One-dimensional temporal region beginning with the establishing of an infection in a host and ending when the host becomes contagious.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001130,pathogen vector role,,A pathogen transporter role that is borne by an organism active in the transfer of an infectious agent or infectious structure to an organism of another species in which it can realize its infectious disposition.|The role is realized in a process that transfers an infectious organism from one location to another.,false,,,http://purl.obolibrary.org/obo/IDO_0001096,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,The role is realized in a process that transfers an infectious organism from one location to another.,,,,,,,,,,,,,,pathogen vector role,,,,,,,,,,,,,,,,,,,,,,,,,,A pathogen transporter role that is borne by an organism active in the transfer of an infectious agent or infectious structure to an organism of another species in which it can realize its infectious disposition.
http://purl.obolibrary.org/obo/IDO_0001356,communicability start process boundary,,Process boundary marking the start of a communicability interval.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001356,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability start process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001353,,,,,,http://purl.obolibrary.org/obo/IDO_0001345,,,,,,,,,,,,,,Process boundary marking the start of a communicability interval.
http://purl.obolibrary.org/obo/BFO_0000148,zero-dimensional temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000008,,,,,,,,,,,,,,,,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.,,,,,,(forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001] ,,,,,,,,,,,,,,,,,,,,,BFO:0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,zero-dimensional temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000511,infected population,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members have an infection.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000511,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,infected population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members have an infection.
http://purl.obolibrary.org/obo/IDO_0001164,neurotoxin disposition,,Toxin disposition realized in damaging or interfering with the function of nerve tissue.,false,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001164,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,neurotoxin disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Toxin disposition realized in damaging or interfering with the function of nerve tissue.
http://purl.obolibrary.org/obo/IDO_0000463,infectious pathogen transmissibility,,Quality that inheres in an infectious agent or infectious structure and is the likelihood that the agent or structure will undergo a horizontal transmission process.|The transmissibility quality varies with both the type of organism being transmitted and the type of organism to which transmission is happening.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000463,,,,,,,,,,,,,,,,,,,,,,,,,,,,,The transmissibility quality varies with both the type of organism being transmitted and the type of organism to which transmission is happening.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000596,,,,,,infectious pathogen transmissibility,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an infectious agent or infectious structure and is the likelihood that the agent or structure will undergo a horizontal transmission process.
http://purl.obolibrary.org/obo/TRANS_0000008,droplet pathogen transmission process,,Indirect pathogen transmission process in which a pathogen is transmitted from a host expelling respiratory droplets to another host.,false,,,http://purl.obolibrary.org/obo/TRANS_0000002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,TRANS:0000008,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/trans.owl,,,,,,,,droplet pathogen transmission process,,,,,,,,,,,,,,,,,,,,,,,,,,Indirect pathogen transmission process in which a pathogen is transmitted from a host expelling respiratory droplets to another host.
http://purl.obolibrary.org/obo/GO_0048519,negative regulation of biological process,,"Process that stops, prevents, or reduces the frequency, rate or extent of a biological process.",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0048519,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,negative regulation of biological process,,,,,,,,,,,,,,,,,,,,,,,,,,"Process that stops, prevents, or reduces the frequency, rate or extent of a biological process."
http://purl.obolibrary.org/obo/OBI_0000086,reagent role,,"Role inhering in a molecular entity when the molecular entity is used to produce a chemical reaction to detect, measure, or produce other substances.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,reagent role,,,,,,,,,,,,,,,,,,,,,,,,,,"Role inhering in a molecular entity when the molecular entity is used to produce a chemical reaction to detect, measure, or produce other substances."
http://purl.obolibrary.org/obo/IDO_0000651,primary immunodeficiency,congenital immunodeficiency,Immunodeficiency that exists in an organism because of a genetic predisposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000617,,congenital immunodeficiency,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000651,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,primary immunodeficiency,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alex Diehl,,,Immunodeficiency that exists in an organism because of a genetic predisposition.
http://purl.obolibrary.org/obo/APOLLO_SV_00000174,disease transmission model,,Algorithm that models the progress of a transmissible disease in a population.,false,,,http://purl.obolibrary.org/obo/IAO_0000064,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000174,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,disease transmission model,,,,,,,,,,,,,,,,,,,,,,,,,,Algorithm that models the progress of a transmissible disease in a population.
http://purl.obolibrary.org/obo/BFO_0000016,disposition,,,false,,,http://purl.obolibrary.org/obo/BFO_0000017,,,,,,,,,,,,,,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,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,disposition,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,pathogenesis,,Process that generates the ability of a pathogen to induce disorder in an organism.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,"Process that is the realization of a pathogenic disposition inhering in an pathogen or pathogen population, having at least the proper process parts: (1) pathogen transmission, (2) establishment of localization in host, (3) process of establishing an infection, and (4) appearance of disorder.",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,pathogenesis,,,,,,,,,,,,,,,,,,,,,,,,,,Process that generates the ability of a pathogen to induce disorder in an organism.
http://purl.obolibrary.org/obo/IDO_0000481,infectious disease incidence proportion,cumulative incidence of infectious disease,Quality that inheres in an organism population and is the proportion of members of the population not experiencing an infectious disease course at the beginning of a specified period of time and in whom the infectious disease begins during the specified period of time.|An instance of infectious disease incidence proportion is measured by dividing a measure of an instance of infectious disease incidence by the number of members of the population in which the infectious disease course had not begun at the beginning of the specified period of time over which the incidence was measured.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,cumulative incidence of infectious disease,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000481,,,,,,,,,,,,,,,,,,,,,,,,,,,,,An instance of infectious disease incidence proportion is measured by dividing a measure of an instance of infectious disease incidence by the number of members of the population in which the infectious disease course had not begun at the beginning of the specified period of time over which the incidence was measured.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease incidence proportion,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the proportion of members of the population not experiencing an infectious disease course at the beginning of a specified period of time and in whom the infectious disease begins during the specified period of time.
http://purl.obolibrary.org/obo/IDO_0000551,enterotoxin,,Exotoxin bearing an enterotoxin disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000550,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000427,,,,,,,,,,,,,,,,,IDO:0000551,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,enterotoxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Exotoxin bearing an enterotoxin disposition.
http://purl.obolibrary.org/obo/IDO_0000657,process that results in death,,Process that results in death.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000657,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,process that results in death,,,,,,,,,,,,,,,,,,,,,,,Lindsay Cowell|Alex Diehl,,,Process that results in death.
http://purl.obolibrary.org/obo/BFO_0000017,realizable entity,,"A specifically dependent continuant  that inheres in continuant  entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances.",false,,,http://purl.obolibrary.org/obo/BFO_0000020,,,,,,,,,,,,,,,,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,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000017,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,realizable entity,,,,,,,,,,,,,,,,,,,,,,,,,,"A specifically dependent continuant  that inheres in continuant  entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."
http://purl.obolibrary.org/obo/IDO_0000436,infectious disease,tranmissible disease,Disease whose physical basis is an infectious disorder.,false,,,http://purl.obolibrary.org/obo/OGMS_0000031,,tranmissible disease,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000436,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious disease,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disease whose physical basis is an infectious disorder.
http://purl.obolibrary.org/obo/IDO_0000581,antibiotic resistance,,Resistance to drug that mitigates the damaging effects of an antibiotic.,false,,,http://purl.obolibrary.org/obo/IDO_0000445,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000581,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,antibiotic resistance,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Resistance to drug that mitigates the damaging effects of an antibiotic.
http://purl.obolibrary.org/obo/IDO_0001348,infection start temporal region,,Zero-dimensional temporal region occupied by an infection start process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001348,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection start temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by an infection start process boundary.
http://purl.obolibrary.org/obo/IDO_0000515,normal resident microbiota population,normal resident microflora population,"http://purl.obolibrary.org/obo/ido.owl|Organism population whose members are participating in non-parasitic symbiosis with a particular host.|An infectious organism population (IDO:0000513) (1) that is not part of any infection (IDO:0000586), (2) whose members are participating in a process of symbiosis (GO:0044403) with the same host, and (3) whose members are organisms of types among the normal resident microbiota for the type of host organism.",false,,,http://purl.obolibrary.org/obo/IDO_0000509,,normal resident microflora population,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000515,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"An infectious organism population (IDO:0000513) (1) that is not part of any infection (IDO:0000586), (2) whose members are participating in a process of symbiosis (GO:0044403) with the same host, and (3) whose members are organisms of types among the normal resident microbiota for the type of host organism.",,,,,,,,,,,,,,normal resident microbiota population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members are participating in non-parasitic symbiosis with a particular host.
http://purl.obolibrary.org/obo/GO_0048525,negative regulation of viral process,,"Process that stops, prevents, or reduces the frequency, rate or extent of a multi-organism process in which a virus is a participant.",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0048525,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,negative regulation of viral process,,,,,,,,,,,,,,,,,,,,,,,,,,"Process that stops, prevents, or reduces the frequency, rate or extent of a multi-organism process in which a virus is a participant."
http://purl.obolibrary.org/obo/IDO_0000451,invasive disposition,,Disposition borne by a pathogen that is the disposition to penetrate the epithelial barriers of an organism of another species.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000451,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,invasive disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition borne by a pathogen that is the disposition to penetrate the epithelial barriers of an organism of another species.
http://purl.obolibrary.org/obo/IDO_0000459,colonized host,,Host that contains a colony in or on its extended organism.,false,,,http://purl.obolibrary.org/obo/IDO_0000531,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000459,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,colonized host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host that contains a colony in or on its extended organism.
http://purl.obolibrary.org/obo/IDO_0001000,infection incidence profile,,,false,,,http://purl.obolibrary.org/obo/BFO_0000144,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection incidence profile,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,
http://www.ontologyrepository.com/CommonCoreOntologies/DivisionOfGeopoliticalEntity,division of geopolitical entity,,A Geospatial Region that is a fiat division of a Geopolitical Entity and not a Geopolitical Entity.,false,,,http://www.ontologyrepository.com/CommonCoreOntologies/GeospatialRegion,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,division of geopolitical entity,,,,,,,,,,,,,,,,,,,,,,,,,,A Geospatial Region that is a fiat division of a Geopolitical Entity and not a Geopolitical Entity.
http://purl.obolibrary.org/obo/IDO_0001096,pathogen transporter role,,"Role borne by a material entity in or on which a pathogen is located, from which the pathogen may be transmitted to a new host.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001096,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,pathogen transporter role,,,,,,,,,,,,,,,,,,,,,,,,,,"Role borne by a material entity in or on which a pathogen is located, from which the pathogen may be transmitted to a new host."
http://purl.obolibrary.org/obo/GO_0065007,biological regulation,,"Process that modulates a measurable attribute of any biological process, quality or function.",false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,biological regulation,,,,,,,,,,,,,,,,,,,,,,,,,,"Process that modulates a measurable attribute of any biological process, quality or function."
http://purl.obolibrary.org/obo/IDO_0000407,primary infectious disposition,,Infectious disposition to become part of a disorder in immunocompetent organisms.|A pathogen with a primary infectious disposition can cause disease or death in both immunocompromised and immunocompetent hosts.,false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000407,,,,,,,,,,,,,,,,,,,,,,,,,,,,,A pathogen with a primary infectious disposition can cause disease or death in both immunocompromised and immunocompetent hosts.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,primary infectious disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disposition to become part of a disorder in immunocompetent organisms.
http://purl.obolibrary.org/obo/APOLLO_SV_00000550,contact tracing,,Infectious disease control strategy that identifies and treats contacted organisms in a host population.,false,,,http://purl.obolibrary.org/obo/APOLLO_SV_00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000550,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,contact tracing,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious disease control strategy that identifies and treats contacted organisms in a host population.
http://purl.obolibrary.org/obo/IDO_0001028,bacteriostatic disposition,,Disposition to inhibit the reproduction of bacteria.,false,,,http://purl.obolibrary.org/obo/IDO_0001091,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001028,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,bacteriostatic disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to inhibit the reproduction of bacteria.
http://purl.obolibrary.org/obo/IDO_0000424,reservoir of pathogen role,,"Role borne by a material entity in which pathogens can persist, and from which they can be transmitted to hosts.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000424,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,reservoir of pathogen role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Role borne by a material entity in which pathogens can persist, and from which they can be transmitted to hosts."
http://purl.obolibrary.org/obo/IDO_0001377,pathogen surveillance,,"Surveillance process aiming to produce information about one or several objects, in the form of microorganisms, which have the role of pathogen.",false,,,http://purl.obolibrary.org/obo/VSMO_,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001377,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen surveillance,,,,,,,,,,,,,,,,,,,,,,,,,,"Surveillance process aiming to produce information about one or several objects, in the form of microorganisms, which have the role of pathogen."
http://purl.obolibrary.org/obo/IDO_0000630,hospital-acquired infection,nosocomial infection,Infection resulting from a transmission process that unfolds in a hospital.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,nosocomial infection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000630,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,hospital-acquired infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection resulting from a transmission process that unfolds in a hospital.
http://purl.obolibrary.org/obo/IDO_0000663,negative regulation of life-sustaining process,,"Process that stops, prevents, or reduces the frequency, rate or extent of a life-sustaining process.",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000663,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,negative regulation of life-sustaining process,,,,,,,,,,,,,,,,,,,,,,,Lindsay Cowell|Alex Diehl,,,"Process that stops, prevents, or reduces the frequency, rate or extent of a life-sustaining process."
http://purl.obolibrary.org/obo/BFO_0000029,site,,,false,,,http://purl.obolibrary.org/obo/BFO_0000141,,,,,,,,,,,,,,,,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 Grand Canyon|a hole in the interior of a portion of cheese|an air traffic control region defined in the airspace above an airport|the lumen of your gut|the interior of a kangaroo pouch|the cockpit of an aircraft,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000029,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,site,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000449,sterilizing immunity to infectious agent,,Immunity to pathogen that results in elimination of the infectious agent from the host.|Sterilizing immunity is typically conferred by neutralizing antibodies.,false,,,http://purl.obolibrary.org/obo/IDO_0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000449,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Sterilizing immunity is typically conferred by neutralizing antibodies.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,sterilizing immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunity to pathogen that results in elimination of the infectious agent from the host.
http://purl.obolibrary.org/obo/IDO_0000458,contagiousness,,"Disposition that inheres in a pathogen host and is a disposition to horizontally transmit that pathogen to organisms of the same species as the host, through casual contact, with a high likelihood of realization.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000458,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,contagiousness,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Disposition that inheres in a pathogen host and is a disposition to horizontally transmit that pathogen to organisms of the same species as the host, through casual contact, with a high likelihood of realization."
http://purl.obolibrary.org/obo/IDO_0000513,infectious agent population,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members each have an infectious disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000513,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,infectious agent population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members each have an infectious disposition.
http://purl.obolibrary.org/obo/IDO_0000570,subclinical infection,,Infection that is part of an asymptomatic carrier.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000570,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,subclinical infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection that is part of an asymptomatic carrier.
http://purl.obolibrary.org/obo/IDO_0000544,fomite,,Pathogen vehicle bearing a fomite role.,false,,,http://purl.obolibrary.org/obo/IDO_0000543,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000544,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,fomite,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen vehicle bearing a fomite role.
http://purl.obolibrary.org/obo/IDO_0001134,symptomatic carrier,,Pathogen host with infection as part that exhibits symptoms.,false,,,http://purl.obolibrary.org/obo/IDO_0000538,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001134,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symptomatic carrier,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen host with infection as part that exhibits symptoms.
http://purl.obolibrary.org/obo/IDO_0000626,appearance of disorder,,Process by which a disorder comes into existence.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,IDO:0000626,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,appearance of disorder,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Process by which a disorder comes into existence.
http://purl.obolibrary.org/obo/BFO_0000182,history,,,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,"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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,history,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/GO_0042101,T cell receptor complex,,"Protein complex that contains a disulfide-linked heterodimer of T cell receptor (TCR) chains, which are members of the immunoglobulin superfamily, and mediates antigen recognition, ultimately resulting in T cell activation. The TCR heterodimer is associated with the CD3 complex, which consists of the nonpolymorphic polypeptides gamma, delta, epsilon, zeta, and, in some cases, eta (an RNA splice variant of zeta) or Fc epsilon chains.",false,,,http://purl.obolibrary.org/obo/GO_0032991,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0042101,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,T cell receptor complex,,,,,,,,,,,,,,,,,,,,,,,,,,"Protein complex that contains a disulfide-linked heterodimer of T cell receptor (TCR) chains, which are members of the immunoglobulin superfamily, and mediates antigen recognition, ultimately resulting in T cell activation. The TCR heterodimer is associated with the CD3 complex, which consists of the nonpolymorphic polypeptides gamma, delta, epsilon, zeta, and, in some cases, eta (an RNA splice variant of zeta) or Fc epsilon chains."
http://purl.obolibrary.org/obo/OBI_0000070,assay,,Planned process with the objective to produce information about some evaluant.,false,,,http://purl.obolibrary.org/obo/OBI_0000094,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000070,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,assay,,,,,,,,,,,,,,,,,,,,,,,,,,Planned process with the objective to produce information about some evaluant.
http://purl.obolibrary.org/obo/IDO_0001008,negative regulation of replication,,"Process that stops, prevents, or reduces the frequency, rate or extent of a replication process.",false,,,http://purl.obolibrary.org/obo/IDO_0001007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001008,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,negative regulation of replication,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,"Process that stops, prevents, or reduces the frequency, rate or extent of a replication process."
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,zero-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000623,communicability,,Infectious disposition to be transmitted from one organism to another of the same species by horizontal transmission.,false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000623,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disposition to be transmitted from one organism to another of the same species by horizontal transmission.
http://www.ontologyrepository.com/CommonCoreOntologies/GeospatialRegion,geospatial region,,A site at or near the surface of the Earth.,false,,,http://purl.obolibrary.org/obo/BFO_0000029,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies,,,,,,,,geospatial region,,,,,,,,,,,,,,,,,,,,,,,,,,A site at or near the surface of the Earth.
http://purl.obolibrary.org/obo/IDO_0000523,obligatory symbiont,,"Organism that can only reach developmental maturity, replicate, or persist in symbiosis.",false,,,http://purl.obolibrary.org/obo/IDO_0000522,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000400,,,,,IDO:0000523,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,obligatory symbiont,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Organism that can only reach developmental maturity, replicate, or persist in symbiosis."
http://purl.obolibrary.org/obo/IDO_0000642,simple infection,,Infection comprised of infectious organisms or structures all of the same Species.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000642,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,simple infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection comprised of infectious organisms or structures all of the same Species.
http://purl.obolibrary.org/obo/OBI_0100026,organism,,"Object 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_0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,organism,,,,,,,,,,,,,,,,,,,,,,,,,,"Object 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://purl.obolibrary.org/obo/IDO_0000643,re-emerging pathogen,,"Pathogen whose infection incidence is increasing in a host population as a result of changes in the biology of the host or pathogen, or changes in their interactions.",false,,,http://purl.obolibrary.org/obo/IDO_0000528,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000643,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,re-emerging pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Pathogen whose infection incidence is increasing in a host population as a result of changes in the biology of the host or pathogen, or changes in their interactions."
http://purl.obolibrary.org/obo/IDO_0000471,complex infection,,Infection comprised of infectious organisms from different species.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000471,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,complex infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection comprised of infectious organisms from different species.
http://purl.obolibrary.org/obo/IDO_0000633,metastatic infection,,Infection established as a result of spread from another infection in a non-adjacent location in the extended organism of the host.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000633,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,metastatic infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection established as a result of spread from another infection in a non-adjacent location in the extended organism of the host.
http://purl.obolibrary.org/obo/BFO_0000003,occurrent,,"An entity that has temporal parts and that happens, unfolds or develops through time.",false,,,http://purl.obolibrary.org/obo/BFO_0000001,,,,,,,,,,,,,,"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.",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000003,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,occurrent,,,,,,,,,,,,,,,,,,,,,,,,,,"An entity that has temporal parts and that happens, unfolds or develops through time."
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])|A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything.",false,,,http://purl.obolibrary.org/obo/BFO_0000002,,,,,IndependentContinuant,ic,,,,,,,,,,,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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,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])|A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything."
http://purl.obolibrary.org/obo/IDO_0000659,susceptible organism,,Organism that is not infected with an infectious agent and lacks protective immunity to the infectious agent.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000659,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,susceptible organism,,,,,,,,,,,,,,,,,,,,,,,Lindsay Cowell|Alex Diehl,,,Organism that is not infected with an infectious agent and lacks protective immunity to the infectious agent.
http://purl.obolibrary.org/obo/IAO_0000005,objective specification,,Directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved.|http://purl.obolibrary.org/obo/iao.owl,false,,,http://www.ontologyrepository.com/CommonCoreOntologies/DirectiveInformationContentEntity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/iao.owl,,,,,,,,,,,,,,objective specification,,,,,,,,,,,,,,,,,,,,,,,,,,Directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved.
http://purl.obolibrary.org/obo/OBI_0000047,processed material,,Material entity that is created or changed during material processing.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000047,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,processed material,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity that is created or changed during material processing.
http://purl.obolibrary.org/obo/IDO_0000474,systematic infection,,Infection for which the infectious agents or structures that are part of the infection are distributed throughout the host.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000474,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,systematic infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection for which the infectious agents or structures that are part of the infection are distributed throughout the host.
http://purl.obolibrary.org/obo/IDO_0000519,incubation interval,,One-dimensional temporal region beginning with the extablishment of an infectious agent or structure in a host and ending with the onset of symptoms in the host.,false,,,http://purl.obolibrary.org/obo/BFO_0000038,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0001348,,,,,,,,IDO:0000519,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,incubation interval,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,One-dimensional temporal region beginning with the extablishment of an infectious agent or structure in a host and ending with the onset of symptoms in the host.
http://purl.obolibrary.org/obo/IDO_0000617,immunodeficiency,,Disorder of an immune system component that results in defective functioning of the immune system.,false,,,http://purl.obolibrary.org/obo/OGMS_0000045,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000617,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunodeficiency,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disorder of an immune system component that results in defective functioning of the immune system.
http://purl.obolibrary.org/obo/IDO_0001172,infectious structure aggregate,,http://purl.obolibrary.org/obo/ido.owl|Acellular structure aggregate whose members are infectious structures.,false,,,http://purl.obolibrary.org/obo/IDO_0001065,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001172,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,infectious structure aggregate,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl|Acellular structure aggregate whose members are infectious structures.
http://purl.obolibrary.org/obo/IDO_0001089,cidal agent,,"Material entity with a cidal agent disposition that is realized in a process of killing bacteria, fungi, parasites, or viruses.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001089,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,cidal agent,,,,,,,,,,,,,,,,,,,,,,,,,,"Material entity with a cidal agent disposition that is realized in a process of killing bacteria, fungi, parasites, or viruses."
http://purl.obolibrary.org/obo/IDO_0000535,dead-end host,incidental host,Host bearing a dead-end host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000531,,incidental host,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000535,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,dead-end host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host bearing a dead-end host role.
http://purl.obolibrary.org/obo/IDO_0001094,infectious structure host role,,Pathogen host role borne by an object or organism whose extended organism contains an infectious structure.,false,,,http://purl.obolibrary.org/obo/IDO_0000415,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001094,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious structure host role,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen host role borne by an object or organism whose extended organism contains an infectious structure.
http://purl.obolibrary.org/obo/GO_0019815,B cell receptor complex,,"Immunoglobulin complex present in the plasma membrane of B cells and that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains and a signaling subunit, a heterodimer of the Ig-alpha and Ig-beta proteins.",false,,,http://purl.obolibrary.org/obo/GO_0032991,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0019815,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,B cell receptor complex,,,,,,,,,,,,,,,,,,,,,,,,,,"Immunoglobulin complex present in the plasma membrane of B cells and that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains and a signaling subunit, a heterodimer of the Ig-alpha and Ig-beta proteins."
http://purl.obolibrary.org/obo/GO_0019814,immunoglobulin complex,,"Protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph.",false,,,http://purl.obolibrary.org/obo/GO_0032991,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0019814,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,immunoglobulin complex,,,,,,,,,,,,,,,,,,,,,,,,,,"Protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph."
http://purl.obolibrary.org/obo/IDO_0000472,extracellular infection,,Infection in which pathogen parts persist in the extracellular space of the host.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000472,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,extracellular infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection in which pathogen parts persist in the extracellular space of the host.
http://purl.obolibrary.org/obo/IDO_0000479,infectious disease incidence,,"Quality that inheres in an organism population and is the number of realizations of an infectious disease for which the infectious disease course begins during a specified period of time.|A particular instance of infectious disease incidence will depend on a type of infectious disease, a population, and a period of time.  Incidence is used as a measure of risk.  Actual measures of incidence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.  These constraints will vary with the context of the incidence measure.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000479,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"A particular instance of infectious disease incidence will depend on a type of infectious disease, a population, and a period of time.  Incidence is used as a measure of risk.  Actual measures of incidence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.  These constraints will vary with the context of the incidence measure.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease incidence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the number of realizations of an infectious disease for which the infectious disease course begins during a specified period of time.
http://purl.obolibrary.org/obo/GO_0002443,leukocyte mediated immunity,,Process involved in the carrying out of an immune response by a leukocyte.,false,,,http://purl.obolibrary.org/obo/GO_0006955,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0002443,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,leukocyte mediated immunity,,,,,,,,,,,,,,,,,,,,,,,,,,Process involved in the carrying out of an immune response by a leukocyte.
http://purl.obolibrary.org/obo/IDO_0000635,source of infection role,,Role borne by a material entity that contains a site from which an infectious agent is transmitted.,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000635,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,source of infection role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Role borne by a material entity that contains a site from which an infectious agent is transmitted.
http://purl.obolibrary.org/obo/IDO_0000403,parasite role,,"Symbiont role borne by an organism that derives a growth, survival, or fitness advantage from symbiosis while the other symbiont's growth, survival, or fitness is reduced.",false,,,http://purl.obolibrary.org/obo/IDO_0000400,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000403,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,parasite role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Symbiont role borne by an organism that derives a growth, survival, or fitness advantage from symbiosis while the other symbiont's growth, survival, or fitness is reduced."
http://purl.obolibrary.org/obo/IAO_0000030,information content entity,,,false,,,http://purl.obolibrary.org/obo/BFO_0000031,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,information content entity,,,,,,,,,,,,,,,,,,,,,,,,,,
http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity,descriptive information content entity,,Information Content Entity that consists of a set of propositions that describe some Entity.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,descriptive information content entity,,,,,,,,,,,,,,,,,,,,,,,,,,Information Content Entity that consists of a set of propositions that describe some Entity.
http://purl.obolibrary.org/obo/IDO_0000410,intermediate host role,,"Symbiont host role borne by an organism whose partner in symbiosis utilizes the host to undergo a developmental stage transition, and the host is required for continuation of the partner's life cycle.",false,,,http://purl.obolibrary.org/obo/IDO_0000408,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000410,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,intermediate host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Symbiont host role borne by an organism whose partner in symbiosis utilizes the host to undergo a developmental stage transition, and the host is required for continuation of the partner's life cycle."
http://purl.obolibrary.org/obo/IDO_0000537,infectious agent host,,Pathogen host bearing an infectious agent host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000538,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000537,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious agent host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen host bearing an infectious agent host role.
http://purl.obolibrary.org/obo/BFO_0000034,function,,,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,"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.",,,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,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000034,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,function,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,infectious disposition,,Pathogenic disposition borne by a pathogen to be transmitted to a host and become part of an infection in that host or immunocompetent members of the same species as the host.,false,,,http://purl.obolibrary.org/obo/IDO_0000450,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogenic disposition borne by a pathogen to be transmitted to a host and become part of an infection in that host or immunocompetent members of the same species as the host.
http://purl.obolibrary.org/obo/IDO_0001065,acellular structure aggregate,,http://purl.obolibrary.org/obo/ido.owl|Aggregate of acellular structures.,false,,,http://purl.obolibrary.org/obo/BFO_0000027,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001065,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,acellular structure aggregate,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl|Aggregate of acellular structures.
http://purl.obolibrary.org/obo/IDO_0000446,resistance to pathogen,,Protective resistance that inheres in an organism and mitigates the damaging effects of a pathogen.,false,,,http://purl.obolibrary.org/obo/IDO_0000444,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000446,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,resistance to pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Protective resistance that inheres in an organism and mitigates the damaging effects of a pathogen.
http://purl.obolibrary.org/obo/IDO_0000430,pathogen portal of entry role,,Role borne by an anatomical entity that serves as the site through which a pathogen enters a host.,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000430,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of entry role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Role borne by an anatomical entity that serves as the site through which a pathogen enters a host.
http://purl.obolibrary.org/obo/IDO_0000464,infectivity,,Quality that inheres in a pathogen and is the liklihood that the infectious disposition will be realized upon exposure of a susceptible organism.|This quality is measured by the proportion of exposed who become infected.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000464,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This quality is measured by the proportion of exposed who become infected.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectivity,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in a pathogen and is the liklihood that the infectious disposition will be realized upon exposure of a susceptible organism.
http://purl.obolibrary.org/obo/IDO_0000593,transmission interval,,One-dimensional temporal region during which a transmission process occurs.,false,,,http://purl.obolibrary.org/obo/BFO_0000038,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000593,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This should be imported from: http://purl.obolibrary.org/obo/trans.owl,,,,,,,,transmission interval,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,One-dimensional temporal region during which a transmission process occurs.
http://purl.obolibrary.org/obo/GEO_000000372,geographical region,,Geographical entity that is demarcated at least in part by one or more closed fiat boundaries all of whose lines are part of the planetary surface.,false,,,http://purl.obolibrary.org/obo/GEO_000000370,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GEO:000000372,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/GEO,,,,,,,,geographical region,,,,,,,,,,,,,,,,,,,,,,,,,,Geographical entity that is demarcated at least in part by one or more closed fiat boundaries all of whose lines are part of the planetary surface.
http://purl.obolibrary.org/obo/IDO_0000550,exotoxin,,Toxin bearing an exotoxin disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000549,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000550,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,exotoxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Toxin bearing an exotoxin disposition.
http://purl.obolibrary.org/obo/GO_0032991,macromolecular complex,,"Stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0032991,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,macromolecular complex,,,,,,,,,,,,,,,,,,,,,,,,,,"Stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together."
http://purl.obolibrary.org/obo/OBI_0000094,material processing,,Planned process which results in physical changes in a specified input material.,false,,,http://purl.obolibrary.org/obo/OBI_0000011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000094,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,material processing,,,,,,,,,,,,,,,,,,,,,,,,,,Planned process which results in physical changes in a specified input material.
http://purl.obolibrary.org/obo/BFO_0000027,object aggregate,,,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,ObjectAggregate,object-aggregate,,,,,,,,"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).",,,"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",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000027,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,object aggregate,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/GO_0045087,innate immune response,,Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.,false,,,http://purl.obolibrary.org/obo/GO_0006955,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0045087,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,innate immune response,,,,,,,,,,,,,,,,,,,,,,,,,,Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
http://purl.obolibrary.org/obo/IDO_0000485,infectious disease prevalence,,"Quality that inheres in an organism population and is the number of realizations of an infectious disease in the population at a specified time.|Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious disease prevalence will depend on a type of infectious disease, a population, and a period of time.  Actual measures of prevalence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000485,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious disease prevalence will depend on a type of infectious disease, a population, and a period of time.  Actual measures of prevalence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease prevalence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the number of realizations of an infectious disease in the population at a specified time.
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,one-dimensional spatial region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/UBERON_0000178,blood,,A fluid that is composed of blood plasma and erythrocytes.,false,,,http://purl.obolibrary.org/obo/CARO_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,UBERON:0000178,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/uberon.owl,,,,,,,,blood,,,,,,,,,,,,,,,,,,,,,,,,,,A fluid that is composed of blood plasma and erythrocytes.
http://purl.obolibrary.org/obo/IDO_0001027,bactericidal disposition,,Disposition to kill bacteria.,false,,,http://purl.obolibrary.org/obo/IDO_0001092,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001027,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,bactericidal disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to kill bacteria.
http://purl.obolibrary.org/obo/IDO_0001351,communicability end temporal region,,Zero-dimensional temporal region occupied by a communicability end process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001351,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability end temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by a communicability end process boundary.
http://purl.obolibrary.org/obo/IDO_0000589,immunodeficient organism,immunocompromised organism,Organism that has an immunodeficiency.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,immunocompromised organism,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000589,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunodeficient organism,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Organism that has an immunodeficiency.
http://purl.obolibrary.org/obo/IDO_0000406,opportunistic infectious disposition,,Infectious disposition to become part of a disorder only in organisms whose defenses are compromised.,false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001157,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000406,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,opportunistic infectious disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disposition to become part of a disorder only in organisms whose defenses are compromised.
http://purl.obolibrary.org/obo/BFO_0000030,object,,,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,"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.",,,organism|organelle|cell|atom|cells and organisms|molecule|grain of sand|planet|solid portions of matter|engineered artifacts|star,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,object,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000612,pathologic immunosuppression,,Immunosuppression process which arises as the result of a disorder.,false,,,http://purl.obolibrary.org/obo/IDO_0000610,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000612,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathologic immunosuppression,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunosuppression process which arises as the result of a disorder.
http://purl.obolibrary.org/obo/IDO_0000419,mechanical vector role,passive carrier,A pathogen vector role borne by an organism in virtue of the fact that the pathogen does not multiply in or on the vector.,false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001130,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000419,,,,,,,,,,,,,,,,,,,,,,,passive carrier,,,,,,,,,,,,,,,,,,,,mechanical vector role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A pathogen vector role borne by an organism in virtue of the fact that the pathogen does not multiply in or on the vector.
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,,,,,,,,,,,,,,,,,"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",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000144,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,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])
http://purl.obolibrary.org/obo/IDO_0000487,infectious disease lifetime prevalence,,"Quality that inheres in an organism population and is the number of organisms in the population who have, at any point during their lives, been bearers of an infectious disease and experienced realization of the disease.|Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious disease lifetime prevalence will depend on a type of infectious disease and a population.  Actual measures of prevalence are based only on reported cases and usually specify a geographic location.  Other constraints may include population demographics.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000487,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious disease lifetime prevalence will depend on a type of infectious disease and a population.  Actual measures of prevalence are based only on reported cases and usually specify a geographic location.  Other constraints may include population demographics.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease lifetime prevalence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Quality that inheres in an organism population and is the number of organisms in the population who have, at any point during their lives, been bearers of an infectious disease and experienced realization of the disease."
http://purl.obolibrary.org/obo/IAO_0000007,action specification,,Directive information entity that describes an action the bearer will take|http://purl.obolibrary.org/obo/iao.owl,false,,,http://www.ontologyrepository.com/CommonCoreOntologies/DirectiveInformationContentEntity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/iao.owl,,,,,,,,,,,,,,action specification,,,,,,,,,,,,,,,,,,,,,,,,,,Directive information entity that describes an action the bearer will take
http://purl.obolibrary.org/obo/IDO_0000665,source of infection,,Material entity bearing a source of infection role.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000665,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,source of infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alex Diehl,,,Material entity bearing a source of infection role.
http://purl.obolibrary.org/obo/IDO_0001090,static agent,,Material entity bearing a static agent disposition.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001090,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,static agent,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity bearing a static agent disposition.
http://purl.obolibrary.org/obo/IDO_0000455,collective disposition,,Disposition that inheres in a collection of entities in virtue of the individual dispositions of the constituents of that collection.|This should be pushed up to: http://purl.obolibrary.org/obo/bfo.owl,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000455,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This should be pushed up to: http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,,collective disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition that inheres in a collection of entities in virtue of the individual dispositions of the constituents of that collection.
http://purl.obolibrary.org/obo/BFO_0000019,quality,,,false,,,http://purl.obolibrary.org/obo/BFO_0000020,,,,,,,,,,,,,,,,"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,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,quality,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000584,cytotoxin,,Toxin bearing a cytotoxin disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000549,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,IDO:0000584,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,cytotoxin,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Toxin bearing a cytotoxin disposition.
http://purl.obolibrary.org/obo/IDO_0001007,negative regulation of production,,"Process that stops, prevents, or reduces the frequency, rate or extent of a production process.",false,,,http://purl.obolibrary.org/obo/GO_0065007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001007,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,negative regulation of production,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,"Process that stops, prevents, or reduces the frequency, rate or extent of a production process."
http://purl.obolibrary.org/obo/CHEBI_33839,macromolecule,,"Molecular entity of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.",false,,,http://purl.obolibrary.org/obo/CHEBI_23367,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:33839,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,macromolecule,,,,,,,,,,,,,,,,,,,,,,,,,,"Molecular entity of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass."
http://purl.obolibrary.org/obo/APOLLO_SV_00000230,case isolation control strategy,,Infectious disease control strategy that has an action specification that is realized in isolating organsims who are infectious.,false,,,http://purl.obolibrary.org/obo/APOLLO_SV_00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000230,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,case isolation control strategy,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious disease control strategy that has an action specification that is realized in isolating organsims who are infectious.
http://purl.obolibrary.org/obo/IDO_0000509,organism population,,http://purl.obolibrary.org/obo/ido.owl|Aggregate of organisms of the same species.|The organism population may be delineated by spatio-temporal proximity or by demographic criteria such as age.,false,,,http://purl.obolibrary.org/obo/BFO_0000027,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,The organism population may be delineated by spatio-temporal proximity or by demographic criteria such as age.,,,,,,,,,,,,,,organism population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Aggregate of organisms of the same species.
http://purl.obolibrary.org/obo/IDO_0000607,production,,Process in which an entity comes into being as a result of the process.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000607,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,production,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Process in which an entity comes into being as a result of the process.
http://purl.obolibrary.org/obo/IDO_0001092,cidal agent disposition,,"Disposition to kill bacteria, fungi, parasites, or viruses.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001092,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,cidal agent disposition,,,,,,,,,,,,,,,,,,,,,,,,,,"Disposition to kill bacteria, fungi, parasites, or viruses."
http://purl.obolibrary.org/obo/IDO_0000579,leukocyte-mediated immunity to infectious agent,,Immunity to pathogen that inheres in an organism in virtue of its leukocytes.,false,,,http://purl.obolibrary.org/obo/IDO_0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000579,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,leukocyte-mediated immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunity to pathogen that inheres in an organism in virtue of its leukocytes.
http://purl.obolibrary.org/obo/IDO_0000532,definitive host,primary host,Host bearing a definitive host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000531,,primary host,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000532,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,definitive host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host bearing a definitive host role.
http://purl.obolibrary.org/obo/IDO_0000503,infectious disease pandemic,,"Process in which multiple infectious disease epidemics of the same type of infectious disease unfold over overlapping periods of time and affect organism populations located in different geographic regions, including different countries and continents.",false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000503,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious disease pandemic,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Process in which multiple infectious disease epidemics of the same type of infectious disease unfold over overlapping periods of time and affect organism populations located in different geographic regions, including different countries and continents."
http://purl.obolibrary.org/obo/IDO_0001054,infectious structure,,Acellular structure that has an infectious disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0001088,,,,,,,,,,,,,,This is an inferred subclass of pathogen.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001054,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious structure,,,,,,,,,,,,,,,,,,,,,,,,,,Acellular structure that has an infectious disposition.
http://purl.obolibrary.org/obo/IDO_0000639,infectious human pathogen,,Pathogen disposed to infect human hosts.,false,,,http://purl.obolibrary.org/obo/IDO_0000528,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000639,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious human pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen disposed to infect human hosts.
http://purl.obolibrary.org/obo/APOLLO_SV_00000541,disease surveillance objective specification,,Objective specification whose endpoint is human awareness of the level of a particular disease in a particular population of a given biological taxon during some time interval.|http://purl.obolibrary.org/obo/apollo-sv.owl,false,,,http://purl.obolibrary.org/obo/IAO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000541,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,,,,,,,disease surveillance objective specification,,,,,,,,,,,,,,,,,,,,,,,,,,Objective specification whose endpoint is human awareness of the level of a particular disease in a particular population of a given biological taxon during some time interval.
http://purl.obolibrary.org/obo/IDO_0000531,host,,Object bearing a host role.,false,,,http://purl.obolibrary.org/obo/BFO_0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000531,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"http://purl.obolibrary.org/obo/ido.owl
This should be pushed to an upper-level ontology.",,,,,,,,host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Object bearing a host role.
http://purl.obolibrary.org/obo/IDO_0001345,latency end process boundary,,Process boundary marking the end of a latency period.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001345,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,latency end process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001350,,,,,,http://purl.obolibrary.org/obo/IDO_0001354,,,,,,,,,,,,,,Process boundary marking the end of a latency period.
http://purl.obolibrary.org/obo/IDO_0000469,drug susceptibility,,Susceptibility that is the degree to which an entity can be harmed or inhibited from surviving by a drug.,false,,,http://purl.obolibrary.org/obo/IDO_0000467,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000469,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,drug susceptibility,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Susceptibility that is the degree to which an entity can be harmed or inhibited from surviving by a drug.
http://purl.obolibrary.org/obo/IDO_0000585,collective pathogenic disposition,,Collective disposition to initiate processes that result in a disorder.,false,,,http://purl.obolibrary.org/obo/IDO_0000455,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000585,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,collective pathogenic disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Collective disposition to initiate processes that result in a disorder.
http://purl.obolibrary.org/obo/IDO_0000470,drug susceptibility of infectious agent,,Drug susceptibility that inheres in an infectious agent and is the degree to which the infectious agent can be harmed or inhibited from surviving by a drug.,false,,,http://purl.obolibrary.org/obo/IDO_0000469,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000470,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000596,,,,,,drug susceptibility of infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Drug susceptibility that inheres in an infectious agent and is the degree to which the infectious agent can be harmed or inhibited from surviving by a drug.
http://purl.obolibrary.org/obo/IDO_0000578,humoral immunity to infectious agent,,"Immunity to pathogen that inheres in an organism in virtue of components of its circulating body fluid, e.g. blood, lymph, hemolymph.|""Circulating body fluid"" refers to blood, lymph, and hemolymph.",false,,,http://purl.obolibrary.org/obo/IDO_0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000578,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"""Circulating body fluid"" refers to blood, lymph, and hemolymph.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,humoral immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Immunity to pathogen that inheres in an organism in virtue of components of its circulating body fluid, e.g. blood, lymph, hemolymph."
http://purl.obolibrary.org/obo/GO_0051234,establishment of localization,,"Process that localizes a substance or cellular component via movement, tethering or selective degradation.",false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,GO:0051234,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,establishment of localization,,,,,,,,,,,,,,,,,,,,,,,,,,"Process that localizes a substance or cellular component via movement, tethering or selective degradation."
http://purl.obolibrary.org/obo/OGMS_0000045,disorder,,Material entity that is a clinically abnormal part of an extended organism.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000045,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,disorder,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity that is a clinically abnormal part of an extended organism.
http://purl.obolibrary.org/obo/IDO_0000526,parasite,,Symbiont bearing a parasite role.,false,,,http://purl.obolibrary.org/obo/IDO_0000522,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000526,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,parasite,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Symbiont bearing a parasite role.
http://purl.obolibrary.org/obo/IDO_0000488,pathogen seroprevalence,,Quality that inheres in an organism population and is the number of organisms in the population that have antibody specific for a pathogen in their serum at a specified time.|Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious agent seroprevalence will depend on a type of infectious agent and a population.  Actual measures of seroprevalence are based only on tested individuals and usually specify a geographic location.  Other constraints may include population demographics.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000488,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infectious agent seroprevalence will depend on a type of infectious agent and a population.  Actual measures of seroprevalence are based only on tested individuals and usually specify a geographic location.  Other constraints may include population demographics.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,pathogen seroprevalence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the number of organisms in the population that have antibody specific for a pathogen in their serum at a specified time.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001026,fungistatic disposition,,Disposition to inhibit the reproduction of fungi.,false,,,http://purl.obolibrary.org/obo/IDO_0001091,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,fungistatic disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to inhibit the reproduction of fungi.
http://purl.obolibrary.org/obo/BFO_0000011,spatiotemporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000003,,,,,,,,,,,,,,,,,the spatiotemporal region occupied by a process of cellular meiosis.|the spatiotemporal region occupied by a human life,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,spatiotemporal region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000447,herd immunity to infectious organism,,Collective resistance disposition that inheres in an organism population where the proportion of the population with immunity to an infectious agent is high resulting in a low number of transmissions from hosts to susceptible individuals.,false,,,http://purl.obolibrary.org/obo/IDO_0000588,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000447,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,herd immunity to infectious organism,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Collective resistance disposition that inheres in an organism population where the proportion of the population with immunity to an infectious agent is high resulting in a low number of transmissions from hosts to susceptible individuals.
http://purl.obolibrary.org/obo/ido.owl/IDO_0001036,pathogen portal of entry site,,Anatomical space through which a pathogen enters an organism.,false,,,http://purl.obolibrary.org/obo/ido.owl/CARO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of entry site,,,,,,,,,,,,,,,,,,,,,,,,,,Anatomical space through which a pathogen enters an organism.
http://purl.obolibrary.org/obo/IDO_0000499,vaccination against infectious agent,,Active immunization that begins with exposure of an organism to a vaccine.,false,,,http://purl.obolibrary.org/obo/IDO_0000498,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000499,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,vaccination against infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Active immunization that begins with exposure of an organism to a vaccine.
http://purl.obolibrary.org/obo/APOLLO_SV_00000308,vector control strategy,,Infectious disease control strategy that has a vector control action specification as part.,false,,,http://purl.obolibrary.org/obo/APOLLO_SV_00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000308,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,vector control strategy,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious disease control strategy that has a vector control action specification as part.
http://purl.obolibrary.org/obo/APOLLO_SV_00000327,quarantine control strategy,,Infectious disease control strategy whereby organisms who have had contact with infectious organisms but are not symptomatic or otherwise known to be infectious are prevented from having contact with other susceptible organisms.,false,,,http://purl.obolibrary.org/obo/APOLLO_SV_00000086,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000327,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,quarantine control strategy,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious disease control strategy whereby organisms who have had contact with infectious organisms but are not symptomatic or otherwise known to be infectious are prevented from having contact with other susceptible organisms.
http://purl.obolibrary.org/obo/IDO_0000524,mutualist,,Symbiont bearing a mutualist role.,false,,,http://purl.obolibrary.org/obo/IDO_0000522,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000524,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,mutualist,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Symbiont bearing a mutualist role.
http://purl.obolibrary.org/obo/APOLLO_SV_00000075,infectious disease control objective specification,,Objective specification that is realized by processes that are able or likely to stop the spread of a disease in a population.|http://purl.obolibrary.org/obo/apollo-sv.owl,false,,,http://purl.obolibrary.org/obo/IAO_0000005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,APOLLO_SV:00000075,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/apollo-sv.owl,,,,,,,,,,,,,,infectious disease control objective specification,,,,,,,,,,,,,,,,,,,,,,,,,,Objective specification that is realized by processes that are able or likely to stop the spread of a disease in a population.
http://purl.obolibrary.org/obo/CHEBI_36080,protein,,Biological macromolecule consisting of one polypeptide chain synthesized at the ribosome.,false,,,http://purl.obolibrary.org/obo/CHEBI_33839,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:36080,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,protein,,,,,,,,,,,,,,,,,,,,,,,,,,Biological macromolecule consisting of one polypeptide chain synthesized at the ribosome.
http://purl.obolibrary.org/obo/IDO_0000502,infectious disease epidemic,,Process of infectious disease realizations and for which there is a statistically significant increase in the infectious disease incidence of a population.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000502,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious disease epidemic,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Process of infectious disease realizations and for which there is a statistically significant increase in the infectious disease incidence of a population.
http://purl.obolibrary.org/obo/IDO_0000553,pathogen portal of entry,,Anatomical entity bearing a pathogen portal of entry role.,false,,,http://purl.obolibrary.org/obo/CARO_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000553,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of entry,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Anatomical entity bearing a pathogen portal of entry role.
http://purl.obolibrary.org/obo/CHEBI_23367,molecular entity,,"Constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:23367,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,molecular entity,,,,,,,,,,,,,,,,,,,,,,,,,,"Constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc."
http://purl.obolibrary.org/obo/IDO_0001091,static agent disposition,,"Disposition to inhibit the reproduction of bacteria, fungi, or parasites, or inhibit the replication of viruses.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001091,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,static agent disposition,,,,,,,,,,,,,,,,,,,,,,,,,,"Disposition to inhibit the reproduction of bacteria, fungi, or parasites, or inhibit the replication of viruses."
http://purl.obolibrary.org/obo/IAO_0000104,plan specification,,"Directive information entity that when concretized it is realized in a process in which the bearer tries to achieve the objectives, in part by taking the actions specified. Plan specifications includes parts such as objective specification, action specifications and conditional specifications.",false,,,http://www.ontologyrepository.com/CommonCoreOntologies/DirectiveInformationContentEntity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IAO:0000104,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/iao.owl,,,,,,,,plan specification,,,,,,,,,,,,,,,,,,,,,,,,,,"Directive information entity that when concretized it is realized in a process in which the bearer tries to achieve the objectives, in part by taking the actions specified. Plan specifications includes parts such as objective specification, action specifications and conditional specifications."
http://purl.obolibrary.org/obo/IDO_0000606,establishment of a clinically abnormal colony,,Colonization of host process that results in a clinically abnormal colony.,false,,,http://purl.obolibrary.org/obo/IDO_0000604,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000606,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,establishment of a clinically abnormal colony,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Colonization of host process that results in a clinically abnormal colony.
http://purl.obolibrary.org/obo/IDO_0000566,primary infection,,Infectious disorder bearing a primary infection role.,false,,,http://purl.obolibrary.org/obo/IDO_0000504,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000566,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,primary infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disorder bearing a primary infection role.
http://purl.obolibrary.org/obo/IDO_0001127,asymptomatic infectious structure carrier,,Infectious structure host bearing an asymptomatic carrier role.,false,,,http://purl.obolibrary.org/obo/IDO_0001093,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001127,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,asymptomatic infectious structure carrier,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious structure host bearing an asymptomatic carrier role.
http://purl.obolibrary.org/obo/OBI_0000011,planned process,,Process that realizes a plan which is the concretization of a plan specification.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OBI:0000011,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/obi.owl,,,,,,,,planned process,,,,,,,,,,,,,,,,,,,,,,,,,,Process that realizes a plan which is the concretization of a plan specification.
http://purl.obolibrary.org/obo/IDO_0000587,genetic resistance to pathogen,,Resistance to pathogen that inheres in an organism due to an allele or combination of alleles in its genome.|The resistance of individuals to HIV invasion oonferred by particular CCR5 alleles is an example.  Resistance against malaria conferred by the sickle cell gene is another.,false,,,http://purl.obolibrary.org/obo/IDO_0000446,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000587,,,,,,,,,,,,,,,,,,,,,,,,,,,,,The resistance of individuals to HIV invasion oonferred by particular CCR5 alleles is an example.  Resistance against malaria conferred by the sickle cell gene is another.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,genetic resistance to pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Resistance to pathogen that inheres in an organism due to an allele or combination of alleles in its genome.
http://purl.obolibrary.org/obo/IDO_0000604,colonization of host,,Establishment of localization in host process in which an organism or acellular structure establishes a colony in or on a host.,false,,,http://purl.obolibrary.org/obo/IDO_0000625,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000604,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,colonization of host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Establishment of localization in host process in which an organism or acellular structure establishes a colony in or on a host.
http://purl.obolibrary.org/obo/GO_0032502,developmental process,,"Biological process whose specific outcome is the progression of a functional, integrated, unit.",false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0032502,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,developmental process,,,,,,,,,,,,,,,,,,,,,,,,,,"Biological process whose specific outcome is the progression of a functional, integrated, unit."
http://purl.obolibrary.org/obo/IDO_0000401,mutualist role,,"Symbiont role borne by an organism in which both symbionts derive a growth, survival, or fitness advantage from symbiosis.",false,,,http://purl.obolibrary.org/obo/IDO_0000400,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000401,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,mutualist role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Symbiont role borne by an organism in which both symbionts derive a growth, survival, or fitness advantage from symbiosis."
http://purl.obolibrary.org/obo/IDO_0000504,infectious disorder,,"Disorder that is part of an organism whose extended organism has some infectious agent or structure as part, which participates in the formation of infection.",false,,,http://purl.obolibrary.org/obo/OGMS_0000045,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000504,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious disorder,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Disorder that is part of an organism whose extended organism has some infectious agent or structure as part, which participates in the formation of infection."
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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,immaterial entity,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0000489,infectious disease mortality rate,,Quality that inheres in an organism population and is the per capita number of deaths in the population resulting from an infectious disease over a specified period of time.|A particular instance of infectious disease mortality rate will depend on a type of infectious disease and a population.  Actual measures of mortality rate are based only on reported cases and usually specify a geographic location.  Other constraints may include population demographics.  Mortality rate is typically expressed in units of deaths per 1000 individuals per year.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000489,,,,,,,,,,,,,,,,,,,,,,,,,,,,,A particular instance of infectious disease mortality rate will depend on a type of infectious disease and a population.  Actual measures of mortality rate are based only on reported cases and usually specify a geographic location.  Other constraints may include population demographics.  Mortality rate is typically expressed in units of deaths per 1000 individuals per year.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infectious disease mortality rate,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the per capita number of deaths in the population resulting from an infectious disease over a specified period of time.
http://purl.obolibrary.org/obo/IDO_0000543,pathogen vehicle,,Pathogen transporter bearing a pathogen vehicle role.,false,,,http://purl.obolibrary.org/obo/IDO_0001095,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000543,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen vehicle,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen transporter bearing a pathogen vehicle role.
http://www.ontologyrepository.com/CommonCoreOntologies/DesignativeInformationContentEntity,designative information content entity,,Information Content Entity that consists of a set of symbols that denote some Entity.,false,,,http://purl.obolibrary.org/obo/IAO_0000030,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,designative information content entity,,,,,,,,,,,,,,,,,,,,,,,,,,Information Content Entity that consists of a set of symbols that denote some Entity.
http://purl.obolibrary.org/obo/IDO_0000423,fomite role,,An infectious agent vehicle role borne by an entity in virtue of the fact that the entity is not alive.,false,,,http://purl.obolibrary.org/obo/IDO_0000421,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000423,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,fomite role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,An infectious agent vehicle role borne by an entity in virtue of the fact that the entity is not alive.
http://purl.obolibrary.org/obo/IDO_0000402,commensal role,,"Symbiont role borne by an organism that derives a growth, survival, or fitness advantage from symbiosis, while the other symbiont is neither advantaged nor disadvantaged.",false,,,http://purl.obolibrary.org/obo/IDO_0000400,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000402,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,commensal role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Symbiont role borne by an organism that derives a growth, survival, or fitness advantage from symbiosis, while the other symbiont is neither advantaged nor disadvantaged."
http://purl.obolibrary.org/obo/IDO_0000547,virulence factor,,A macromolecule produced by a pathogen and that has a virulence factor disposition.,false,,,http://purl.obolibrary.org/obo/CHEBI_33839,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000547,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,virulence factor,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A macromolecule produced by a pathogen and that has a virulence factor disposition.
http://purl.obolibrary.org/obo/IDO_0000538,pathogen host,,Host bearing a pathogen host role.,false,,,http://purl.obolibrary.org/obo/IDO_0000531,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000538,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen host,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Host bearing a pathogen host role.
http://purl.obolibrary.org/obo/IDO_0000420,biological vector role,,A pathogen vector role borne by an organism in virtue of the fact that the pathogen multiplies in the vector.,false,,,http://purl.obolibrary.org/obo/ido.owl/IDO_0001130,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000420,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,biological vector role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A pathogen vector role borne by an organism in virtue of the fact that the pathogen multiplies in the vector.
http://purl.obolibrary.org/obo/IDO_0000628,chronic infection,,Infection that persists for an extended period of time.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000628,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,,,,,,,,,chronic infection,,,,,,,,,,,,,,,,,,,,,,,,,,Infection that persists for an extended period of time.
http://purl.obolibrary.org/obo/IDO_0000653,reverse zoonosis,,Infectious disease inhering in an infectious disorder composed of pathogens bearing reverse zoonotic dispositions.,false,,,http://purl.obolibrary.org/obo/IDO_0000436,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000653,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,reverse zoonosis,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alex Diehl,,,Infectious disease inhering in an infectious disorder composed of pathogens bearing reverse zoonotic dispositions.
http://purl.obolibrary.org/obo/IDO_0000583,emerging pathogen,,Pathogen whose infection incidence is increasing following its first introduction into a new host Species.,false,,,http://purl.obolibrary.org/obo/IDO_0000528,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000583,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,emerging pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Pathogen whose infection incidence is increasing following its first introduction into a new host Species.
http://purl.obolibrary.org/obo/BFO_0000040,material entity,,An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time.,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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,material entity,,,,,,,,,,,,,,,,,,,,,,,,,,An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time.
http://purl.obolibrary.org/obo/NCBITaxon_9606,homo sapiens,,,false,,,http://purl.obolibrary.org/obo/NCBITaxon_2759,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,NCBITaxon:9606,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ncbitaxon.owl,,,,,,,,homo sapiens,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001029,parasiticidal disposition,,Disposition to kill parasites.,false,,,http://purl.obolibrary.org/obo/IDO_0001092,,,,,,,,,,,,,,We use parasite in the sense of organisms that are parasitic in humans.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001029,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,parasiticidal disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to kill parasites.
http://purl.obolibrary.org/obo/BFO_0000038,one-dimensional temporal region,,,false,,,http://purl.obolibrary.org/obo/BFO_0000008,,,,,,,,,,,,,,"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).",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000038,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,one-dimensional temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001199,biological vehicle,,Pathogen vehicle bearing a biological vehicle role.,false,,,http://purl.obolibrary.org/obo/IDO_0000543,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001199,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,biological vehicle,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen vehicle bearing a biological vehicle role.
http://purl.obolibrary.org/obo/IDO_0001357,communicability end process boundary,,Process boundary marking the end of a communicability interval.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001357,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,communicability end process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001351,,,,,,http://purl.obolibrary.org/obo/IDO_0001356,,,,,,,,,,,,,,Process boundary marking the end of a communicability interval.
http://purl.obolibrary.org/obo/BFO_0000002,continuant,,"An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts.",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://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,continuant,,,,,,,,,,,,,,,,,,,,,,,,,,"An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts."
http://purl.obolibrary.org/obo/IDO_0001197,biological vector,,Pathogen vector bearing a biological vector role.,false,,,http://purl.obolibrary.org/obo/IDO_0001196,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001197,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,biological vector,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen vector bearing a biological vector role.
http://purl.obolibrary.org/obo/IDO_0000621,acquired immunity to infectious agent,adaptive immunity to infectious agent,Immunity to pathogen that inheres in an organism in virtue of antigen receptors encoded by somatically diversified genes in the organism's genome and expressed by cells that have undergone selection during a primary immune response in that organism.,false,,,http://purl.obolibrary.org/obo/IDO_0000448,,adaptive immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000621,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,acquired immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunity to pathogen that inheres in an organism in virtue of antigen receptors encoded by somatically diversified genes in the organism's genome and expressed by cells that have undergone selection during a primary immune response in that organism.
http://purl.obolibrary.org/obo/UBERON_0000463,organism substance,,"Anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body.",false,,,http://purl.obolibrary.org/obo/CARO_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,UBERON:0000463,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/uberon.owl,,,,,,,,organism substance,,,,,,,,,,,,,,,,,,,,,,,,,,"Anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body."
http://purl.obolibrary.org/obo/IDO_0001349,infection end temporal region,,Zero-dimensional temporal region occupied by an infection end process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001349,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection end temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by an infection end process boundary.
http://purl.obolibrary.org/obo/IDO_0000586,infection,,"Part of an organism that itself is part of an extended organism with a pathogen as part, which participates in the formation of the infection.",false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Part of an organism that itself is part of an extended organism with a pathogen as part, which participates in the formation of the infection."
http://purl.obolibrary.org/obo/IDO_0000448,immunity to pathogen,,Resistance to pathogen that inheres in an organism due to immune system components in its extended organism.,false,,,http://purl.obolibrary.org/obo/IDO_0000446,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunity to pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Resistance to pathogen that inheres in an organism due to immune system components in its extended organism.
http://www.ontologyrepository.com/CommonCoreOntologies/Country,country,,"A Geopolitical Entity that delimits a Government with effective internal and external sovereignty over the region and its population, and which is not dependent on or subject to any other power or Geopolitical Entity.",false,,,http://www.ontologyrepository.com/CommonCoreOntologies/GeopoliticalEntity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.ontologyrepository.com/CommonCoreOntologies/,,,,,,,,country,,,,,,,,,,,,,,,,,,,,,,,,,,"A Geopolitical Entity that delimits a Government with effective internal and external sovereignty over the region and its population, and which is not dependent on or subject to any other power or Geopolitical Entity."
http://purl.obolibrary.org/obo/IDO_0000539,asymptomatic infectious agent carrier,,Infectious agent host bearing the infectious agent carrier role.,false,,,http://purl.obolibrary.org/obo/IDO_0000537,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000539,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,asymptomatic infectious agent carrier,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious agent host bearing the infectious agent carrier role.
http://purl.obolibrary.org/obo/BFO_0000031,generically dependent continuant,,Continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time.|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,,,,,,,,,,,,,,,,,"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.",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000031,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,generically dependent continuant,,,,,,,,,,,,,,,,,,,,,,,,,,Continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time.|b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])
http://purl.obolibrary.org/obo/IDO_0000495,infectious disease course,,Disease course that is the realization of an infectious disease.,false,,,http://purl.obolibrary.org/obo/OGMS_0000063,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000495,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,infectious disease course,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disease course that is the realization of an infectious disease.
http://purl.obolibrary.org/obo/IDO_0000484,infection incidence rate,,Quality that inheres in an organism population and is the infection incidence proportion per unit time.|An instance of infection incidence rate is measured by dividing a measure of an instance of infection incidence proportion by the length of the period of time over which the incidence was measured.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000484,,,,,,,,,,,,,,,,,,,,,,,,,,,,,An instance of infection incidence rate is measured by dividing a measure of an instance of infection incidence proportion by the length of the period of time over which the incidence was measured.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infection incidence rate,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the infection incidence proportion per unit time.
http://purl.obolibrary.org/obo/IDO_0001165,endotoxin disposition,,Toxin disposition that is a structural component of a pathogen and is realized only during cytolsis.,false,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001165,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,endotoxin disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Toxin disposition that is a structural component of a pathogen and is realized only during cytolsis.
http://purl.obolibrary.org/obo/IDO_0001350,latency end temporal region,,Zero-dimensional temporal region occupied by a latency end process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001350,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,latency end temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by a latency end process boundary.
http://purl.obolibrary.org/obo/IDO_0000611,physiologic immunosuppression,,Immunosuppression which unfolds as part of the natural self-regulation of an immune response.,false,,,http://purl.obolibrary.org/obo/IDO_0000610,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000611,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,physiologic immunosuppression,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunosuppression which unfolds as part of the natural self-regulation of an immune response.
http://purl.obolibrary.org/obo/IDO_0000629,host role,,"Role borne by an acellular structure containing a material entity other than the structure, or organism whose extended organism contains a material entity other than the organism, realized in use of that structure or organism as a site of reproduction or replication.",false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000629,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This should be pushed to: http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Role borne by an acellular structure containing a material entity other than the structure, or organism whose extended organism contains a material entity other than the organism, realized in use of that structure or organism as a site of reproduction or replication."
http://purl.obolibrary.org/obo/GO_0044406,adhesion of symbiont to host,,"Attachment of a symbiont to its host via adhesion molecules, general stickiness etc., either directly or indirectly.",false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0044406,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,adhesion of symbiont to host,,,,,,,,,,,,,,,,,,,,,,,,,,"Attachment of a symbiont to its host via adhesion molecules, general stickiness etc., either directly or indirectly."
http://purl.obolibrary.org/obo/GO_0044409,entry into host,,"Penetration by an organism into the body, tissues, or cells of the host organism.",false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0044409,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,entry into host,,,,,,,,,,,,,,,,,,,,,,,,,,"Penetration by an organism into the body, tissues, or cells of the host organism."
http://purl.obolibrary.org/obo/GO_0044403,symbiotic process,,Process carried out by gene products in an organism or acellular structure that enables the entity to engage in a symbiotic relationship with an organism.,false,,,http://purl.obolibrary.org/obo/GO_0008150,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0044403,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,symbiotic process,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,Process carried out by gene products in an organism or acellular structure that enables the entity to engage in a symbiotic relationship with an organism.
http://purl.obolibrary.org/obo/CHEBI_33696,nucleic acid,,Macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases.,false,,,http://purl.obolibrary.org/obo/CHEBI_33839,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CHEBI:33696,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/chebi.owl,,,,,,,,nucleic acid,,,,,,,,,,,,,,,,,,,,,,,,,,Macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases.
http://purl.obolibrary.org/obo/IDO_0000638,nursing-home acquired infection,,Infection resulting from a transmission process that unfolds in a nursing home.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000638,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,nursing-home acquired infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection resulting from a transmission process that unfolds in a nursing home.
http://purl.obolibrary.org/obo/IDO_0000528,pathogen,,Material entity bearing a pathogenic disposition.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000528,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Material entity bearing a pathogenic disposition.
http://purl.obolibrary.org/obo/IDO_0000427,exotoxin disposition,,Toxin disposition to damage cells or extracellular matrix by a direct enzymatic process.,false,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000427,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,exotoxin disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Toxin disposition to damage cells or extracellular matrix by a direct enzymatic process.
http://purl.obolibrary.org/obo/IDO_0000576,innate immunity to infectious agent,,Immunity to pathogen that inheres in an organism in virtue of germline encoded components that directly recognize components of potential pathogens.,false,,,http://purl.obolibrary.org/obo/IDO_0000448,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000576,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,innate immunity to infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunity to pathogen that inheres in an organism in virtue of germline encoded components that directly recognize components of potential pathogens.
http://purl.obolibrary.org/obo/IDO_0000627,acute infection,,Infectious disorder that is the physical basis for an unfolding acute infectious disease course.,false,,,http://purl.obolibrary.org/obo/IDO_0000504,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000627,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,acute infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disorder that is the physical basis for an unfolding acute infectious disease course.
http://purl.obolibrary.org/obo/IDO_0000426,toxin disposition,,"Disposition to cause I) malfunction of cells, ii) damage to extracellular matrix, or iii) damage of cells to a degree that can result in cell death.",false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000426,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,toxin disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,"Disposition to cause I) malfunction of cells, ii) damage to extracellular matrix, or iii) damage of cells to a degree that can result in cell death."
http://purl.obolibrary.org/obo/OGMS_0000063,disease course,,Totality of all processes through which a given disease instance is realized.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000063,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,disease course,,,,,,,,,,,,,,,,,,,,,,,,,,Totality of all processes through which a given disease instance is realized.
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,,,,,,,,,,,,,,,,,the boundary between the 2nd and 3rd year of your life.,,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,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])
http://purl.obolibrary.org/obo/IDO_0000456,immunosuppressed organism,,Organism that is experiencing immunosuppression.,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000456,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunosuppressed organism,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Organism that is experiencing immunosuppression.
http://purl.obolibrary.org/obo/IDO_0001110,infectious structure generative stage,,Pathogen generative stage that is a temporal subdivision of an infectious structure developmental process.,false,,,http://purl.obolibrary.org/obo/IDO_0001111,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001110,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious structure generative stage,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen generative stage that is a temporal subdivision of an infectious structure developmental process.
http://purl.obolibrary.org/obo/IDO_0001196,pathogen vector,,Pathogen transporter bearing a pathogen vector role.,false,,,http://purl.obolibrary.org/obo/IDO_0001095,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001196,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen vector,,,,,,,,,,,,,,,,,,,,,,,,,,Pathogen transporter bearing a pathogen vector role.
http://purl.obolibrary.org/obo/IDO_0000568,zoonosis,,Infectious disease inhering in an infectious disorder composed of pathogens having zoonotic dispositions.,false,,,http://purl.obolibrary.org/obo/IDO_0000436,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000568,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,zoonosis,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infectious disease inhering in an infectious disorder composed of pathogens having zoonotic dispositions.
http://purl.obolibrary.org/obo/IDO_0000445,resistance to drug,,Protective resistance that mitigates the damaging effects of a drug.,false,,,http://purl.obolibrary.org/obo/IDO_0000444,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000445,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,resistance to drug,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Protective resistance that mitigates the damaging effects of a drug.
http://purl.obolibrary.org/obo/IDO_0000486,infection prevalence,,"Quality that inheres in an organism population and is the number of organisms in the population infected with a pathogen at a specified time.|Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infection prevalence will depend on a type of infectious agent, a population, and a period of time.  Actual measures of prevalence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.",false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000486,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Prevalence is sometimes defined as a proportion with total population size in the denominator.  A particular instance of infection prevalence will depend on a type of infectious agent, a population, and a period of time.  Actual measures of prevalence are based only on reported cases and usually specify a time interval and geographic location.  Other constraints may include population demographics.",,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infection prevalence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the number of organisms in the population infected with a pathogen at a specified time.
http://purl.obolibrary.org/obo/IDO_0000482,infection incidence proportion,cumulative incidence of infection,Quality that inheres in an organism population and is the proportion of members of the population not infected at the beginning of a specified period of time who become infected during the specified period of time.|An instance of infection incidence proportion is measured by dividing a measure of an instance of infection incidence by the number of members of the population not infected at the beginning of the specified period of time over which the incidence was measured.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,cumulative incidence of infection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000482,,,,,,,,,,,,,,,,,,,,,,,,,,,,,An instance of infection incidence proportion is measured by dividing a measure of an instance of infection incidence by the number of members of the population not infected at the beginning of the specified period of time over which the incidence was measured.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,infection incidence proportion,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in an organism population and is the proportion of members of the population not infected at the beginning of a specified period of time who become infected during the specified period of time.
http://purl.obolibrary.org/obo/IDO_0000631,community-acquired infection,,Infection resulting from a transmission process that did not unfold in a health care facility.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000631,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,community-acquired infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection resulting from a transmission process that did not unfold in a health care facility.
http://purl.obolibrary.org/obo/IDO_0000450,pathogenic disposition,pathogenicity,Disposition borne by a material entity to establish localization in and result in formation of disorder in a host or immunocompetent members of the same species as the host.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,pathogenicity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000450,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogenic disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition borne by a material entity to establish localization in and result in formation of disorder in a host or immunocompetent members of the same species as the host.
http://purl.obolibrary.org/obo/IDO_0001344,infection start process boundary,,"Process boundary that marks the start of an infection, latency process, and incubation process.",false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001344,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infection start process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001348,,,,,,,,,,,,,,,,,,,,"Process boundary that marks the start of an infection, latency process, and incubation process."
http://purl.obolibrary.org/obo/IDO_0000656,horizontal pathogen transmission process,,"http://purl.obolibrary.org/obo/ido.owl|Pathogen transmission process in which a pathogen is transmitted from one host to another of the same species, and the two hosts are not in a parent-child relationship.",false,,,http://purl.obolibrary.org/obo/TRANS_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000656,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,horizontal pathogen transmission process,,,,,,,,,,,,,,,,,,,,,,,,,,"http://purl.obolibrary.org/obo/ido.owl|Pathogen transmission process in which a pathogen is transmitted from one host to another of the same species, and the two hosts are not in a parent-child relationship."
http://purl.obolibrary.org/obo/IDO_0000545,infectious agent reservoir,,Material entity bearing a pathogen reservoir role.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000545,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,infectious agent reservoir,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Material entity bearing a pathogen reservoir role.
http://purl.obolibrary.org/obo/OMRSE_00000063,hospital facility,,Facility that is run by a hospital organization and is the bearer of a hospital function.,false,,,http://purl.obolibrary.org/obo/OMRSE_00000102,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OMRSE:00000063,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OMRSE,,,,,,,,hospital facility,,,,,,,,,,,,,,,,,,,,,,,,,,Facility that is run by a hospital organization and is the bearer of a hospital function.
http://purl.obolibrary.org/obo/OMRSE_00000061,architectual structure,,Material entity that is a human made structure with firm connection between its foundation and the ground.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OMRSE:00000061,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OMRSE,,,,,,,,architectual structure,,,,,,,,,,,,,,,,,,,,,,,,,,Material entity that is a human made structure with firm connection between its foundation and the ground.
http://purl.obolibrary.org/obo/OMRSE_00000062,facility,,Architectural structure that bears some function.,false,,,http://purl.obolibrary.org/obo/OMRSE_00000061,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OMRSE:00000062,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OMRSE,,,,,,,,facility,,,,,,,,,,,,,,,,,,,,,,,,,,Architectural structure that bears some function.
http://purl.obolibrary.org/obo/IDO_0000498,active immunization against infectious agent,inoculation,Immunization that begins with exposure of an organism to antigen and results in immunity against an infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000497,,inoculation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000498,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,active immunization against infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Immunization that begins with exposure of an organism to antigen and results in immunity against an infectious agent.
http://purl.obolibrary.org/obo/IDO_0000557,adhesion factor,adhesion molecule|adhesin,Biological macromolecule that has an adhesion disposition.,false,,,http://purl.obolibrary.org/obo/CHEBI_33839,,adhesion molecule|adhesin,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000557,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,adhesion factor,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Biological macromolecule that has an adhesion disposition.
http://purl.obolibrary.org/obo/IDO_0000400,symbiont role,,A role borne by an organism in symbiosis.,false,,,http://purl.obolibrary.org/obo/BFO_0000023,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000400,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symbiont role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,A role borne by an organism in symbiosis.
http://purl.obolibrary.org/obo/ERO_0000006,reagent,,Processed material bearing a reagent role.,false,,,http://purl.obolibrary.org/obo/OBI_0000047,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,ERO:0000006,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ero.owl,,,,,,,,reagent,,,,,,,,,,,,,,,,,,,,,,,,,,Processed material bearing a reagent role.
http://purl.obolibrary.org/obo/IDO_0001030,parasitostatic disposition,,Disposition to inhibit the reproduction of parasites.,false,,,http://purl.obolibrary.org/obo/IDO_0001091,,,,,,,,,,,,,,'Parasite' is used in the sense of eukaryotic organisms that are parasitic in humans.,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001030,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,parasitostatic disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Disposition to inhibit the reproduction of parasites.
http://purl.obolibrary.org/obo/TRANS_0000000,pathogen transmission process,,Process in which a pathogen is transmitted directly or indirectly to a new host.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,"TRANS includes a sibling class of 'indirect' labeled 'direct', and these terms mirror standard definitions of 'direct transmission' and 'indirect transmission' in the literature. However, in the literature and in TRANS the definitions seem confused. For example, direct transmission is claimed to involve direct contact, yet respiratory droplet spread from a host - which plausibly involves a vehicle - is counted as direct rather than indirect transmission. We will follow standard use in part, adopting indirect transmission, but not direct, and defining a term for contact transmission.",,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,TRANS:0000000,http://www.informatics.jax.org/vocab/gene_ontology/GO:0009405,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/trans.owl,,,,,,,,pathogen transmission process,,,,,,,,,,,,,,,,,,,,,,,,,,Process in which a pathogen is transmitted directly or indirectly to a new host.
http://purl.obolibrary.org/obo/IDO_0000654,opportunistic pathogen,opportunist,Pathogen with an opportunistic infectious disposition.,false,,,http://purl.obolibrary.org/obo/IDO_0000528,,opportunist,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000654,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,opportunistic pathogen,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alex Diehl,,,Pathogen with an opportunistic infectious disposition.
http://purl.obolibrary.org/obo/IDO_0000437,adhesion disposition,,Disposition borne by a macromolecule that is the disposition to participate in adherence to a host.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000437,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,adhesion disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Disposition borne by a macromolecule that is the disposition to participate in adherence to a host.
http://purl.obolibrary.org/obo/IDO_0000571,resistant entity,,Material entity bearing protective resistance.,false,,,http://purl.obolibrary.org/obo/BFO_0000040,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000571,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,resistant entity,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Material entity bearing protective resistance.
http://purl.obolibrary.org/obo/IDO_0001083,pathogen birth temporal region,,Zero-dimensional temporal region occupied by a pathogen birth process boundary.,false,,,http://purl.obolibrary.org/obo/BFO_0000148,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001083,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen birth temporal region,,,,,,,,,,,,,,,,,,,,,,,,,,Zero-dimensional temporal region occupied by a pathogen birth process boundary.
http://purl.obolibrary.org/obo/GEO_000000371,geographical feature,,Geographical entity that has at least one bona fide boundary.,false,,,http://purl.obolibrary.org/obo/GEO_000000370,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GEO:000000371,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/GEO,,,,,,,,geographical feature,,,,,,,,,,,,,,,,,,,,,,,,,,Geographical entity that has at least one bona fide boundary.
http://purl.obolibrary.org/obo/IDO_0000497,immunization against infectious agent,,Process by which an organism acquires immunity to an infectious agent.,false,,,http://purl.obolibrary.org/obo/BFO_0000015,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000497,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,immunization against infectious agent,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Process by which an organism acquires immunity to an infectious agent.
http://purl.obolibrary.org/obo/IDO_0000496,long-term non-progressing infectious disease course,,Chronic infectious disease course that does not progress to severe stages for a long period of time.,false,,,http://purl.obolibrary.org/obo/IDO_0000590,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000496,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,long-term non-progressing infectious disease course,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Chronic infectious disease course that does not progress to severe stages for a long period of time.
http://purl.obolibrary.org/obo/IDO_0000473,intracellular infection,,Infection in which pathogen parts persist inside host cells.,false,,,http://purl.obolibrary.org/obo/IDO_0000586,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000473,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,intracellular infection,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Infection in which pathogen parts persist inside host cells.
http://purl.obolibrary.org/obo/IDO_0000655,transmissibility disposition,,Disposition to undergo a transmission process.,false,,,http://purl.obolibrary.org/obo/BFO_0000016,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000655,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This should be pushed to: http://purl.obolibrary.org/obo/trans.owl,,,,,,,,transmissibility disposition,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alex Diehl,,,Disposition to undergo a transmission process.
http://purl.obolibrary.org/obo/IDO_0000412,dead-end host role,,Symbiont host role borne by an organism whose partner in symbiosis has the infectious disposition but cannot be transmitted from the host to the partner's definitive host.,false,,,http://purl.obolibrary.org/obo/IDO_0000408,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000412,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,dead-end host role,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Symbiont host role borne by an organism whose partner in symbiosis has the infectious disposition but cannot be transmitted from the host to the partner's definitive host.
http://purl.obolibrary.org/obo/IDO_0000592,immune population,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members have acquired immunity to an infectious agent.,false,,,http://purl.obolibrary.org/obo/IDO_0000509,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000592,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,immune population,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,http://purl.obolibrary.org/obo/ido.owl|Organism population whose members have acquired immunity to an infectious agent.
http://purl.obolibrary.org/obo/IDO_0001163,cytotoxin disposition,,Toxin disposition realized in processes resulting in damage to host cells.,false,,,http://purl.obolibrary.org/obo/IDO_0000426,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001163,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,cytotoxin disposition,,,,,,,,,,,,,,,,,,,,,,,,,,Toxin disposition realized in processes resulting in damage to host cells.
http://purl.obolibrary.org/obo/IDO_0001167,symptomatic infectious structure carrier,,Infectious structure host bearing a symptomatic carrier role.,false,,,http://purl.obolibrary.org/obo/IDO_0001093,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001167,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,symptomatic infectious structure carrier,,,,,,,,,,,,,,,,,,,,,,,,,,Infectious structure host bearing a symptomatic carrier role.
http://purl.obolibrary.org/obo/NCBITaxon_2,bacteria,,,false,,,http://purl.obolibrary.org/obo/OBI_0100026,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,NCBITaxon:2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ncbitaxon.owl,,,,,,,,bacteria,,,,,,,,,,,,,,,,,,,,,,,,,,
http://purl.obolibrary.org/obo/IDO_0001111,pathogen generative stage,,Generative stage that is a temporal subdivision of a pathogen developmental process.,false,,,http://purl.obolibrary.org/obo/FBdv_00005259,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001111,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen generative stage,,,,,,,,,,,,,,,,,,,,,,,,,,Generative stage that is a temporal subdivision of a pathogen developmental process.
http://purl.obolibrary.org/obo/OGMS_0000087,extended organism,,"Object aggregate consisting of an organism and all material entities located within the organism, overlapping the organism, or occupying sites formed in part by the organism.",false,,,http://purl.obolibrary.org/obo/BFO_0000027,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OGMS:0000087,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ogms.owl,,,,,,,,extended organism,,,,,,,,,,,,,,,,,,,,,,,,,,"Object aggregate consisting of an organism and all material entities located within the organism, overlapping the organism, or occupying sites formed in part by the organism."
http://purl.obolibrary.org/obo/TRANS_0000002,indirect pathogen transmission process,,Pathogen transmission process in which a pathogen is indirectly transferred to a host by intermediary vehicles or vectors.,false,,,http://purl.obolibrary.org/obo/TRANS_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,TRANS:0000002,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/trans.owl,,,,,,,,indirect pathogen transmission process,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,Pathogen transmission process in which a pathogen is indirectly transferred to a host by intermediary vehicles or vectors.
http://purl.obolibrary.org/obo/OMRSE_00000102,healthcare facility,,Facility that is administered by a health care organization for the purpose of providing health care to a patient or patient population.,false,,,http://purl.obolibrary.org/obo/OMRSE_00000062,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,OMRSE:00000102,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/OMRSE,,,,,,,,healthcare facility,,,,,,,,,,,,,,,,,,,,,,,,,,Facility that is administered by a health care organization for the purpose of providing health care to a patient or patient population.
http://purl.obolibrary.org/obo/IDO_0001041,bactericidal,,Cidal agent with a bactericidal disposition that is realized in a process of killing bacteria.,false,,,http://purl.obolibrary.org/obo/IDO_0001089,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001041,,,,,,,,,,,,,,,,,,,,,,,,,,,,John Beverley,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,bactericidal,,,,,,,,,,,,,,,,,,,,,,,,,,Cidal agent with a bactericidal disposition that is realized in a process of killing bacteria.
http://purl.obolibrary.org/obo/BFO_0000020,specifically dependent continuant,,"A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same.|b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n &gt; 1 independent continuants c1, … cn which are not spatial regions are such that for all 1  i &lt; j  n, ci  and cj share no common parts, are such that for each 1  i  n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004])|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,,,,,,,,,,,,,,,,,"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|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",,,,,,,,,,,,,,,,,,,,,,,,,,,BFO:0000020,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/bfo.owl,,,,,,,,,,,,,specifically dependent continuant,,,,,,,,,,,,,,,,,,,,,,,,,,"A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same.|b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n &gt; 1 independent continuants c1, … cn which are not spatial regions are such that for all 1  i &lt; j  n, ci  and cj share no common parts, are such that for each 1  i  n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004])|b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"
http://purl.obolibrary.org/obo/GO_0044411,entry into host through host barriers,,Penetration by an organism into its host organism via active breaching of the physical barriers of the host organism.,false,,,http://purl.obolibrary.org/obo/GO_0044409,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,GO:0044411,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/go.owl,,,,,,,,entry into host through host barriers,,,,,,,,,,,,,,,,,,,,,,,,,,Penetration by an organism into its host organism via active breaching of the physical barriers of the host organism.
http://purl.obolibrary.org/obo/IDO_0000554,pathogen portal of exit,,Anatomical entity bearing a pathogen portal of exit role.,false,,,http://purl.obolibrary.org/obo/CARO_0000000,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000554,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen portal of exit,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Anatomical entity bearing a pathogen portal of exit role.
http://purl.obolibrary.org/obo/IDO_0000466,virulence,,Quality that inheres in a pathogen and is the degree to which realizations of the infectious disease caused by the pathogen become severe or fatal.|This quality is measured by the proportion of clinically apparent cases that are severe or fatal.,false,,,http://purl.obolibrary.org/obo/BFO_0000019,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0000466,,,,,,,,,,,,,,,,,,,,,,,,,,,,,This quality is measured by the proportion of clinically apparent cases that are severe or fatal.,,,,,,http://purl.obolibrary.org/obo/ido.owl,,http://purl.obolibrary.org/obo/IDO_0000596,,,,,,virulence,,,,,,,,,,,,,,,,,,,,,,,Albert Goldfain|Lindsay Cowell|Alexander Diehl,,,Quality that inheres in a pathogen and is the degree to which realizations of the infectious disease caused by the pathogen become severe or fatal.
http://purl.obolibrary.org/obo/IDO_0001010,pathogen death process boundary,,Process boundary that marks the end of the life cycle of a pathogen.,false,,,http://purl.obolibrary.org/obo/BFO_0000035,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001010,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,pathogen death process boundary,,,,,,http://purl.obolibrary.org/obo/IDO_0001085,,,,,,,,,,,,,,,,,John Beverley,,,Process boundary that marks the end of the life cycle of a pathogen.
http://purl.obolibrary.org/obo/IDO_0001005,pathologically immunosuppressed organism,,Immunosuppressed organism that is experiencing pathologic immunosuppression.,false,,,http://purl.obolibrary.org/obo/IDO_0000456,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,IDO:0001005,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,http://purl.obolibrary.org/obo/ido.owl,,,,,,,,negative regulation of establishment of localization|pathologically immunosuppressed organism,,,,,,,,,,,,,,,,,,,,,,,Lindsay Cowell|Alex Diehl,,,Immunosuppressed organism that is experiencing pathologic immunosuppression.
