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cob.owl
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<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/cob.owl#"
xml:base="http://purl.obolibrary.org/obo/cob.owl"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xml="http://www.w3.org/XML/1998/namespace"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:skos="http://www.w3.org/2004/02/skos/core#"
xmlns:dcterms="http://purl.org/dc/terms/">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/cob.owl">
<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/cob/releases/2024-09-20/cob.owl"/>
<dcterms:description xml:lang="en">COB brings together key terms from a wide range of OBO projects to improve interoperability.</dcterms:description>
<dcterms:license rdf:resource="https://creativecommons.org/publicdomain/zero/1.0/"/>
<dcterms:title xml:lang="en">Core Ontology for Biology and Biomedicine</dcterms:title>
<rdfs:comment xml:lang="en">This version of COB includes native OBO URIs, only using COB IRIs where equivalent natives could not be found. To see the edition that includes native IRIs, consult cob-edit.owl.</rdfs:comment>
<owl:versionInfo>2024-09-20</owl:versionInfo>
</owl:Ontology>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/IAO_0000115 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
<rdfs:label>definition</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000116 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000116"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000117 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
<!-- http://purl.org/dc/elements/1.1/date -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/date"/>
<!-- http://purl.org/dc/elements/1.1/description -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/description"/>
<!-- http://purl.org/dc/elements/1.1/title -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/title"/>
<!-- http://purl.org/dc/terms/date -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/date"/>
<!-- http://purl.org/dc/terms/description -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/description"/>
<!-- http://purl.org/dc/terms/license -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/license"/>
<!-- http://purl.org/dc/terms/title -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/title"/>
<!-- http://www.w3.org/2004/02/skos/core#exactMatch -->
<owl:AnnotationProperty rdf:about="http://www.w3.org/2004/02/skos/core#exactMatch"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000050 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000050">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<rdfs:label>part of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000051 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000051">
<rdfs:label>has part</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000054 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000054">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000055"/>
<rdfs:label xml:lang="en">realized in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000055 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000055">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<rdfs:label>realizes</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000066 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000066">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000067"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:label>occurs in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000067 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000067">
<rdfs:label xml:lang="en">contains process</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000016 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000016">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/STATO_0000102"/>
<rdfs:label xml:lang="en">executed by</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000081 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000081">
<rdfs:label>intended to realize</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000084 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000084">
<rdfs:label>has plan</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000085 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000085">
<rdfs:label>intended plan process type</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000136 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000136">
<rdfs:label>is about</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000293 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000295"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:label xml:lang="en">has specified input</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000295 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000295">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<rdfs:label xml:lang="en">is specified input of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000299 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:label xml:lang="en">has specified output</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000312 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<rdfs:label xml:lang="en">is specified output of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000052 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000052">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<rdfs:label xml:lang="en">characteristic of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000053 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000053">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#InverseFunctionalProperty"/>
<rdfs:domain rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<rdfs:label>has characteristic</rdfs:label>
<rdfs:seeAlso>https://github.com/oborel/obo-relations/pull/284</rdfs:seeAlso>
</owl:ObjectProperty>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<owl:annotatedProperty rdf:resource="http://www.w3.org/2000/01/rdf-schema#domain"/>
<owl:annotatedTarget rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<obo:IAO_0000116>Anything can have a characteristic</obo:IAO_0000116>
</owl:Axiom>
<!-- http://purl.obolibrary.org/obo/RO_0000056 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000056">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<rdfs:label xml:lang="en">participates in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000057 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000057">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:label>has participant</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000058 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000058">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000059"/>
<rdfs:label xml:lang="en">is concretized as</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000059 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000059">
<rdfs:label>concretizes</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002333 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002333">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<rdfs:label>enabled by</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/STATO_0000102 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/STATO_0000102">
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000055"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/RO_0000059"/>
</owl:propertyChainAxiom>
<rdfs:label>executes</rdfs:label>
</owl:ObjectProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Data properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/COB_0000511 -->
<owl:DatatypeProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000511">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:IAO_0000116>The range of this property should be a user-defined unit datatype, e.g 182^:cm</obo:IAO_0000116>
<rdfs:label>has quantity</rdfs:label>
<rdfs:seeAlso>https://github.com/OBOFoundry/COB/issues/35</rdfs:seeAlso>
</owl:DatatypeProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000800 -->
<owl:DatatypeProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000800">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/COB_0000011"/>
<rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#nonNegativeInteger"/>
<obo:IAO_0000115>Number of protons in an atomic nucleus</obo:IAO_0000115>
<obo:IAO_0000116>We are undecided as to whether to ultimately model this as a data property of object property + cardinality, but for now we are using DPs as these are faster for reasoning</obo:IAO_0000116>
<rdfs:label xml:lang="en">has atomic number</rdfs:label>
</owl:DatatypeProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000801 -->
<owl:DatatypeProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000801">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#nonNegativeInteger"/>
<rdfs:label xml:lang="en">has number of atomic nuclei</rdfs:label>
</owl:DatatypeProperty>
<!-- http://purl.obolibrary.org/obo/COB_0000803 -->
<owl:DatatypeProperty rdf:about="http://purl.obolibrary.org/obo/COB_0000803">
<rdfs:subPropertyOf rdf:resource="http://www.w3.org/2002/07/owl#topDataProperty"/>
<rdfs:label xml:lang="en">has inchi string</rdfs:label>
</owl:DatatypeProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000015 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000015">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:allValuesFrom rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:label xml:lang="en">process</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000016 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000016">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<rdfs:label xml:lang="en">disposition</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000017 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000017">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<rdfs:label xml:lang="en">realizable</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000020 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000020">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:someValuesFrom rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:allValuesFrom rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:label xml:lang="en">characteristic</rdfs:label>
<rdfs:seeAlso>https://github.com/OBOFoundry/COB/issues/65</rdfs:seeAlso>
<rdfs:seeAlso>https://github.com/oborel/obo-relations/pull/284</rdfs:seeAlso>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000023 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000023">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<rdfs:label xml:lang="en">role</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000029 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000029">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
<rdfs:label>site</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000034 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000034">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000016"/>
<rdfs:label xml:lang="en">function</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000040 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000040">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:label xml:lang="en">material entity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/BFO_0000141 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000141">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<rdfs:label xml:lang="en">immaterial entity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CARO_0001008 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CARO_0001008">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<obo:IAO_0000115>A part of a multicellular organism that is a collection of cell components that are not all contained in one cell.</obo:IAO_0000115>
<obo:IAO_0000116>Bodily fluids, such as urine, are currently defined as anatomical entities in UBERON. We should make sure there is a proper home for these here.</obo:IAO_0000116>
<rdfs:label xml:lang="en">gross anatomical part</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CARO_0010004 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CARO_0010004">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0100026"/>
<rdfs:label xml:lang="en">cellular organism</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_10545 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_10545">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_36342"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/COB_0000801"/>
<owl:hasValue rdf:datatype="http://www.w3.org/2001/XMLSchema#integer">0</owl:hasValue>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:label xml:lang="en">electron</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_24636 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_24636">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_36342"/>
<rdfs:label xml:lang="en">proton</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_24867 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_24867">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000011"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/CHEBI_33250"/>
<rdfs:label>monoatomic ion</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_30222 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_30222">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_36342"/>
<rdfs:label xml:lang="en">neutron</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_33250 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_33250">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000011"/>
<rdfs:label>uncharged atom</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_33252 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_33252">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_36342"/>
<obo:IAO_0000116>Some people may be uncomfortable calling every proton an atomic nucleus</obo:IAO_0000116>
<obo:IAO_0000116>This is equivalent to CHEBI:33252</obo:IAO_0000116>
<rdfs:label xml:lang="en">atomic nucleus</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_33696 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_33696">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000013"/>
<rdfs:label>nucleic acid polymer</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CHEBI_36342 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_36342">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:label xml:lang="en">subatomic particle</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CL_0000000 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0000000">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<obo:IAO_0000115>A material entity that has a plasma membrane and results from cellular division.</obo:IAO_0000115>
<obo:IAO_0000116>CL and GO definitions of cell differ based on inclusive or exclusive of cell wall, etc.</obo:IAO_0000116>
<obo:IAO_0000116>We struggled with this definition. We are worried about circularity. We also considered requiring the capability of metabolism.</obo:IAO_0000116>
<rdfs:label xml:lang="en">cell</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CL_0000003 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0000003">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CL_0000000"/>
<rdfs:label xml:lang="en">native cell</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/CL_0001034 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0001034">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CL_0000000"/>
<rdfs:label xml:lang="en">cell in vitro</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000005 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000005">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<obo:IAO_0000116>no longer needed</obo:IAO_0000116>
<rdfs:label xml:lang="en">obsolete_elementary charge</rdfs:label>
<owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000011 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000011">
<owl:equivalentClass>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/COB_0000801"/>
<owl:hasValue rdf:datatype="http://www.w3.org/2001/XMLSchema#integer">1</owl:hasValue>
</owl:Restriction>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CHEBI_33252"/>
</owl:Restriction>
</rdfs:subClassOf>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/COB_0000013"/>
<obo:IAO_0000115>A material entity consisting of exactly one atomic nucleus and the electron(s) orbiting it.</obo:IAO_0000115>
<obo:IAO_0000116>This atom is closely related to ChEBI's atom, but not exactly equivalent to.</obo:IAO_0000116>
<rdfs:label xml:lang="en">atom</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000013 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000013">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/COB_0000011"/>
</owl:Restriction>
</rdfs:subClassOf>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/COB_0000080"/>
<obo:IAO_0000115>A material entity that consists of two or more atoms that are all connected via covalent bonds such that any atom can be transitively connected with any other atom.</obo:IAO_0000115>
<obo:IAO_0000116>This molecular entity is different than ChEBI's 'molecular entity'.</obo:IAO_0000116>
<obo:IAO_0000116>We would like to have cardinality restrictions on the logic, but there are some technical limitations.</obo:IAO_0000116>
<rdfs:label xml:lang="en">molecular entity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000014 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000014">
<rdfs:subClassOf rdf:resource="http://www.w3.org/2002/07/owl#Thing"/>
<obo:IAO_0000115>A material entity consisting of multiple atoms that are completely connected by covalent bonds and structured in subunits, and where the most determinate class identity of the macromolecule is not necessarily changed when there is an addition or subtraction of atoms or bonds.</obo:IAO_0000115>
<obo:IAO_0000116>Terms moved to 'molecular entity', see https://github.com/OBOFoundry/Experimental-OBO-Core/issues/33</obo:IAO_0000116>
<rdfs:label xml:lang="en">obsolete macromolecular entity</rdfs:label>
<owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000020 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000020">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/COB_0000013"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>A material entity consisting of at least two macromolecular entities derived from a cell as parts, and that has a function for the cell.</obo:IAO_0000115>
<obo:IAO_0000116>Components are larger than individual macromolecular entities. It is tricky to define distinction between 'cell component' and 'macromolecular entity', e.g. ribosome. We would like to exclude most protein complexes.</obo:IAO_0000116>
<obo:IAO_0000116>Overlaps with some cellular components from GO</obo:IAO_0000116>
<rdfs:label xml:lang="en">subcellular structure</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000032 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000032">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
<rdfs:label xml:lang="en">geographical location</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000056 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000056">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
<rdfs:label>immaterial anatomical entity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000073 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000073">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000013"/>
<rdfs:label>gene product</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000077 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000077">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000033"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/COB_0000077"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:label>action specification</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000080 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000080">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/COB_0000013"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>A complex of two or more molecular entities that are not covalently bound.</obo:IAO_0000115>
<obo:IAO_0000116>>=2 parts (not we cannot use cardinality with transitive properties)</obo:IAO_0000116>
<rdfs:label>complex of molecular entities</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000082 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000082">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000055"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/SEPIO_0000048"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/COB_0000081"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0000260"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>A process that is initiated by an agent who intends to carry out a plan to achieve an objective through one or more actions as described in a plan specification.</obo:IAO_0000115>
<rdfs:label>planned process</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000083 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000083">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000082"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:label>failed planned process</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000116 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000116">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000020"/>
<rdfs:label xml:lang="en">cellular membrane</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0000122 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0000122">
<owl:equivalentClass>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000059"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:label>physical information carrier</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0001000 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0001000">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<obo:IAO_0000115>A process during which an organism comes into contact with another entity.</obo:IAO_0000115>
<rdfs:label xml:lang="en">exposure of organism</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/COB_0001300 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/COB_0001300">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000047"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0000094"/>
</owl:Restriction>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/BFO_0000034"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115 xml:lang="en">A processed material entity which is designed to perform a function.</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">In this definition we assume devices are made of processed material, not natural artifacts, so we involve artifactual function rather than biological function, but align with a general BFO function sense where functions such as pumping, lifting can occur in both contexts. Thus we can compare a biological arm with a robotic arm device.
We say "designed" to emphasize a device's primary function rather than all the other possible dispositions a device may have that may also be useful. E.g. one can use a hammer for a paper weight.
Regarding usage then, we don't say a naturally formed rock is a hammering device - it wasn't designed to bear a hammering function per se. However, a given rock may still happen to have the disposition to bear a hammering function, and so we could say it is a hammering "tool", which does not necessarily convey intentional design.
Example of use: A whole device like an engine; a component like a bolt is also a device.</obo:IAO_0000116>
<obo:IAO_0000117 rdf:resource="https://orcid.org/0000-0002-8844-9165"/>
<dcterms:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2023-03-24T16:04:27+00:00</dcterms:date>
<rdfs:label xml:lang="en">device</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/DRON_00000005 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/DRON_00000005">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000047"/>
<obo:IAO_0000115>A processed material entity created to be administered to an individual with the intent to improve health.</obo:IAO_0000115>
<rdfs:label>drug product</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/ENVO_01000813 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/ENVO_01000813">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:label>geophysical entity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/ENVO_01001110 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/ENVO_01001110">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000040"/>
<rdfs:label>ecosystem</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/ENVO_02500000 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/ENVO_02500000">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/GO_0003674"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/GO_0008150"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/MOP_0000543"/>
<rdfs:label>environmental process</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/GO_0003674 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/GO_0003674">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0002333"/>
<owl:someValuesFrom>
<owl:Class>
<owl:unionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/COB_0000073"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/GO_0032991"/>
</owl:unionOf>
</owl:Class>
</owl:someValuesFrom>
</owl:Restriction>
</rdfs:subClassOf>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/GO_0008150"/>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/MOP_0000543"/>
<obo:IAO_0000116>This is the same as GO molecular function</obo:IAO_0000116>
<rdfs:label xml:lang="en">gene product or complex activity</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/GO_0005634 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/GO_0005634">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000020"/>
<rdfs:label xml:lang="en">cell nucleus</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/GO_0008150 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/GO_0008150">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:subClassOf>
<owl:Class>
<owl:unionOf rdf:parseType="Collection">
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000066"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0100026"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0100026"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0100026"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</owl:unionOf>
</owl:Class>
</rdfs:subClassOf>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/GO_0003674"/>
</owl:Restriction>
</rdfs:subClassOf>
<owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/MOP_0000543"/>
<obo:IAO_0000115>A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective.</obo:IAO_0000115>
<obo:IAO_0000116>A biological process is an evolved process</obo:IAO_0000116>
<rdfs:label xml:lang="en">biological process</rdfs:label>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/GO_0032991 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/GO_0032991">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/COB_0000080"/>
<rdfs:subClassOf>
<owl:Restriction>