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general_import.owl
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<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/ro_example/imports/general_import.owl#"
xml:base="http://purl.obolibrary.org/obo/ro_example/imports/general_import.owl"
xmlns:mondo="http://purl.obolibrary.org/obo/mondo#"
xmlns:chebi="http://purl.obolibrary.org/obo/chebi/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"
xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:skos="http://www.w3.org/2004/02/skos/core#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:core="http://purl.obolibrary.org/obo/uberon/core#"
xmlns:chebi2="http://purl.obolibrary.org/obo/chebi#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:terms="http://purl.org/dc/terms/"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:foaf="http://xmlns.com/foaf/0.1/"
xmlns:dc="http://purl.org/dc/elements/1.1/">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/ro_example/imports/general_import.owl"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000602">
<rdfs:label xml:lang="en">has associated axiom(fol)</rdfs:label>
<obo:IAO_0000600 xml:lang="en">An axiom expressed in first order logic using CLIF syntax</obo:IAO_0000600>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has associated axiom(fol)</obo:IAO_0000111>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000601">
<rdfs:label xml:lang="en">has associated axiom(nl)</rdfs:label>
<obo:IAO_0000600 xml:lang="en">An axiom associated with a term expressed using natural language</obo:IAO_0000600>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has associated axiom(nl)</obo:IAO_0000111>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001900">
<rdfs:label xml:lang="en">temporal interpretation</rdfs:label>
<foaf:page rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://github.com/oborel/obo-relations/wiki/ROAndTime</foaf:page>
<obo:IAO_0000115>An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context.</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002422"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000600">
<rdfs:label xml:lang="en">elucidation</rdfs:label>
<obo:IAO_0000119 xml:lang="en">Person:Barry Smith</obo:IAO_0000119>
<obo:IAO_0000600 xml:lang="en">Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms</obo:IAO_0000600>
<obo:IAO_0000111 xml:lang="en">elucidation</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">person:Alan Ruttenberg</obo:IAO_0000117>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_related_synonym</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/UBPROP_0000008">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">taxon_notes</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Notes on the how instances of this class vary across species.</obo:IAO_0000115>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UBPROP:0000008</oboInOwl:hasDbXref>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">taxon_notes</oboInOwl:shorthand>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">taxon_notes</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/UBPROP_0000003">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">homology_notes</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Notes on the homology status of this class.</obo:IAO_0000115>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This annotation property may be replaced with an annotation property from an external ontology such as IAO</rdfs:comment>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UBPROP:0000003</oboInOwl:hasDbXref>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">homology_notes</oboInOwl:shorthand>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">homology_notes</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/UBPROP_0000002">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">axiom_lost_from_external_ontology</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A textual description of an axiom loss in this ontology compared to an external ontology.</obo:IAO_0000115>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This annotation property may be replaced with an annotation property from an external ontology such as IAO</rdfs:comment>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UBPROP:0000002</oboInOwl:hasDbXref>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">axiom_lost_from_external_ontology</oboInOwl:shorthand>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">axiom_lost_from_external_ontology</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/UBPROP_0000001">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_definition</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An alternate textual definition for a class taken unmodified from an external source. This definition may have been used to derive a generalized definition for the new class.</obo:IAO_0000115>
<rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This annotation property may be replaced with an annotation property from an external ontology such as IAO</rdfs:comment>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UBPROP:0000001</oboInOwl:hasDbXref>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_definition</oboInOwl:shorthand>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_definition</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/chebi/charge"/>
<owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/homepage"/>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/subject">
<rdfs:label>Subject and Keywords</rdfs:label>
<rdfs:label xml:lang="en-us">Subject and Keywords</rdfs:label>
<rdfs:comment xml:lang="en-us">The topic of the content of the resource.</rdfs:comment>
<dc:description xml:lang="en-us">Typically, a Subject will be expressed as keywords,
key phrases or classification codes that describe a topic
of the resource. Recommended best practice is to select
a value from a controlled vocabulary or formal
classification scheme.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002161"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_narrow_synonym</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#inSubset">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">in_subset</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/date">
<rdfs:label>Date</rdfs:label>
<rdfs:label xml:lang="en-us">Date</rdfs:label>
<rdfs:comment xml:lang="en-us">A date associated with an event in the life cycle of the
resource.</rdfs:comment>
<dc:description xml:lang="en-us">Typically, Date will be associated with the creation or
availability of the resource. Recommended best practice
for encoding the date value is defined in a profile of
ISO 8601 [W3CDTF] and follows the YYYY-MM-DD format.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002200">
<rdfs:label xml:lang="en">has phenotype</rdfs:label>
<obo:IAO_0000115>A relationship that holds between a biological entity and a phenotype. Here a phenotype is construed broadly as any kind of quality of an organism part, a collection of these qualities, or a change in quality or qualities (e.g. abnormally increased temperature). The subject of this relationship can be an organism (where the organism has the phenotype, i.e. the qualities inhere in parts of this organism), a genomic entity such as a gene or genotype (if modifications of the gene or the genotype causes the phenotype), or a condition such as a disease (such that if the condition inheres in an organism, then the organism has the phenotype).</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Chris Mungall</obo:IAO_0000117>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/ro/subsets#ro-eco"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/UPHENO_0001001"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/page"/>
<owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/depicted_by">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">depicted by</rdfs:label>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">depicted_by</oboInOwl:id>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">depicted_by</oboInOwl:shorthand>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
<oboInOwl:hasDbXref rdf:resource="http://xmlns.com/foaf/0.1/depicted_by"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/contributor">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">contributor</rdfs:label>
<rdfs:label>Contributor</rdfs:label>
<rdfs:label xml:lang="en-us">Contributor</rdfs:label>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">dc-contributor</oboInOwl:id>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">dc-contributor</oboInOwl:shorthand>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
<rdfs:comment xml:lang="en-us">An entity responsible for making contributions to the
content of the resource.</rdfs:comment>
<dc:description xml:lang="en-us">Examples of a Contributor include a person, an
organisation, or a service. Typically, the name of a
Contributor should be used to indicate the entity.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
<oboInOwl:hasDbXref rdf:resource="http://purl.org/dc/elements/1.1/contributor"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000118">
<rdfs:label xml:lang="en">alternative term</rdfs:label>
<obo:IAO_0000115 xml:lang="en">An alternative name for a class or property which means the same thing as the preferred name (semantically equivalent)</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">alternative term</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117">
<rdfs:label xml:lang="en">term editor</rdfs:label>
<obo:IAO_0000116 xml:lang="en">20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.</obo:IAO_0000116>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000115 xml:lang="en">Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">term editor</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000119">
<rdfs:label xml:lang="en">definition source</rdfs:label>
<obo:IAO_0000119 xml:lang="en">Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w</obo:IAO_0000119>
<obo:IAO_0000115 xml:lang="en">Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">definition source</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0040042">
<rdfs:label>is homeomorphic for</rdfs:label>
<oboInOwl:creation_date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2018-10-21T19:46:34Z</oboInOwl:creation_date>
<oboInOwl:created_by rdf:datatype="http://www.w3.org/2001/XMLSchema#string">cjm</oboInOwl:created_by>
<obo:IAO_0000115>R is homemorphic for C iff (1) there exists some x,y such that x R y, and x and y instantiate C and (2) for all x, if x is an instance of C, and there exists some y some such that x R y, then it follows that y is an instance of C.</obo:IAO_0000115>
<rdfs:comment>R homeomorphic-for C expands to: C SubClassOf R only C. Additionally, for any class D that is disjoint with C, we can also expand to C DisjointWith R some D, D DisjointWith R some C.</rdfs:comment>
<obo:IAO_0000112>part-of is homeomorphic for independent continuants.</obo:IAO_0000112>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002422"/>
<rdfs:seeAlso rdf:resource="https://github.com/oborel/obo-relations/issues/164"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000114">
<rdfs:label xml:lang="en">has curation status</rdfs:label>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Bill Bug</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie Courtot</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has curation status</obo:IAO_0000111>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000116">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">editor note</rdfs:label>
<rdfs:label xml:lang="en">editor note</rdfs:label>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO:0000116</oboInOwl:hasDbXref>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">editor_note</oboInOwl:id>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">editor_note</oboInOwl:shorthand>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
<obo:IAO_0000115 xml:lang="en">An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology.</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obofoundry.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">editor note</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">definition</rdfs:label>
<rdfs:label>definition</rdfs:label>
<rdfs:label xml:lang="en">definition</rdfs:label>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">definition</obo:IAO_0000111>
<obo:IAO_0000116 xml:lang="en">2012-04-05:
Barry Smith
The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.
Can you fix to something like:
A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.
Alan Ruttenberg
Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria.
On the specifics of the proposed definition:
We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition.
Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable.
We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. </obo:IAO_0000116>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000115 xml:lang="en">The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">definition</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasDbXref">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">database_cross_reference</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000180">
<rdfs:label xml:lang="en">BFO CLIF specification label</rdfs:label>
<obo:IAO_0000119>Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000232 xml:lang="en">Really of interest to developers only</obo:IAO_0000232>
<obo:IAO_0000115 xml:lang="en">Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://www.w3.org/2000/01/rdf-schema#label"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112">
<rdfs:label xml:lang="en">example of usage</rdfs:label>
<obo:IAO_0000115 xml:lang="en">A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold.</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">example of usage</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000233">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">term tracker item</rdfs:label>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO:0000233</oboInOwl:hasDbXref>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external</oboInOwl:hasOBONamespace>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">term_tracker_item</oboInOwl:id>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">term_tracker_item</oboInOwl:shorthand>
<oboInOwl:is_class_level rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_class_level>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000232">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">curator notes</rdfs:label>
<rdfs:label xml:lang="en">curator note</rdfs:label>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO:0000232</oboInOwl:hasDbXref>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">curator_notes</oboInOwl:id>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">curator_notes</oboInOwl:shorthand>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
<obo:IAO_0000115 xml:lang="en">An administrative note of use for a curator but of no use for a user</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">curator note</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
<rdfs:label xml:lang="en">editor preferred term</rdfs:label>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000115 xml:lang="en">The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">editor preferred term</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#id"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_broad_synonym</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/chebi/smiles"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasOBONamespace">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_obo_namespace</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasExactSynonym">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_exact_synonym</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#shorthand">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">shorthand</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2004/02/skos/core#closeMatch"/>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#label">
<rdfs:label>label</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/mondo#excluded_from_qc_check">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">excluded from QC check</rdfs:label>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">excluded_from_qc_check</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002233">
<rdfs:label xml:lang="en">has input</rdfs:label>
<obo:IAO_0000117>Chris Mungall</obo:IAO_0000117>
<obo:IAO_0000115>p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p.</obo:IAO_0000115>
<obo:IAO_0000118>consumes</obo:IAO_0000118>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_annotation_extension"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_ontology"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_gocam"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/ro/subsets#ro-eco"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/creator">
<rdfs:label>Creator</rdfs:label>
<rdfs:label xml:lang="en-us">Creator</rdfs:label>
<rdfs:comment xml:lang="en-us">An entity primarily responsible for making the content
of the resource.</rdfs:comment>
<dc:description xml:lang="en-us">Examples of a Creator include a person, an organisation,
or a service. Typically, the name of a Creator should
be used to indicate the entity.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/OBI_9991118">
<rdfs:label>IEDB alternative term</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An alternative term used by the IEDB.</obo:IAO_0000115>
<obo:IAO_0000119 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IEDB</obo:IAO_0000119>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000111>IEDB alternative term</obo:IAO_0000111>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000118"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/conformsTo"/>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/mondo#excluded_subClassOf">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">excluded subClassOf</rdfs:label>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">excluded_subClassOf</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#isDefinedBy"/>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002416">
<rdfs:label xml:lang="en">logical macro assertion</rdfs:label>
<foaf:page rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://github.com/oborel/obo-relations/wiki/ShortcutRelations</foaf:page>
<obo:IAO_0000115>An assertion that involves at least one OWL object that is intended to be expanded into one or more logical axioms. The logical expansion can yield axioms expressed using any formal logical system, including, but not limited to OWL2-DL.</obo:IAO_0000115>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000589">
<rdfs:label xml:lang="en">OBO foundry unique label</rdfs:label>
<obo:IAO_0000115 xml:lang="en">An alternative name for a class or property which is unique across the OBO Foundry.</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBO Foundry <http://obofoundry.org/></obo:IAO_0000119>
<obo:IAO_0000111 xml:lang="en">OBO foundry unique label</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Chris Mungall</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie Courtot</obo:IAO_0000117>
<obo:IAO_0000116 xml:lang="en">The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools .</obo:IAO_0000116>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000179">
<rdfs:label xml:lang="en">BFO OWL specification label</rdfs:label>
<obo:IAO_0000232 xml:lang="en">Really of interest to developers only</obo:IAO_0000232>
<obo:IAO_0000115 xml:lang="en">Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification.</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://www.w3.org/2000/01/rdf-schema#label"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#seeAlso"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#is_class_level"/>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2004/02/skos/core#exactMatch"/>
<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#comment"/>
<owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/mbox"/>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/title"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#is_metadata_tag"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#created_by"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#creation_date"/>
<owl:AnnotationProperty rdf:about="http://www.geneontology.org/formats/oboInOwl#hasAlternativeId">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_alternative_id</rdfs:label>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/chebi/formula"/>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002422">
<rdfs:label xml:lang="en">logical macro assertion on an object property</rdfs:label>
<obo:IAO_0000115>Used to annotate object properties to describe a logical meta-property or characteristic of the object property.</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002421"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002421">
<rdfs:label xml:lang="en">logical macro assertion on a property</rdfs:label>
<obo:IAO_0000115>A logical macro assertion whose domain is an IRI for a property</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002416"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/license">
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2018-05-11T13:47:29Z</dc:date>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Mark Miller</obo:IAO_0000117>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/format">
<rdfs:label>Format</rdfs:label>
<rdfs:label xml:lang="en-us">Format</rdfs:label>
<rdfs:comment xml:lang="en-us">The physical or digital manifestation of the resource.</rdfs:comment>
<dc:description xml:lang="en-us">Typically, Format may include the media-type or dimensions of
the resource. Format may be used to determine the software,
hardware or other equipment needed to display or operate the
resource. Examples of dimensions include size and duration.
Recommended best practice is to select a value from a
controlled vocabulary (for example, the list of Internet Media
Types [MIME] defining computer media formats).</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
<rdfs:label xml:lang="en">imported from</rdfs:label>
<obo:IAO_0000115 xml:lang="en">For external terms/classes, the ontology from which the term was imported</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie Courtot</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">imported from</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/source">
<rdfs:label>Source</rdfs:label>
<rdfs:label xml:lang="en-us">Source</rdfs:label>
<rdfs:comment xml:lang="en-us">A reference to a resource from which the present resource
is derived.</rdfs:comment>
<dc:description xml:lang="en-us">The present resource may be derived from the Source resource
in whole or in part. Recommended best practice is to reference
the resource by means of a string or number conforming to a
formal identification system.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/UBPROP_0000012">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_ontology_notes</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Notes on how similar or equivalent classes are represented in other ontologies.</obo:IAO_0000115>
<obo:IAO_0000116 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This annotation property may be replaced with an annotation property from an external ontology such as IAO</obo:IAO_0000116>
<oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">UBPROP:0000012</oboInOwl:hasDbXref>
<oboInOwl:shorthand rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_ontology_notes</oboInOwl:shorthand>
<oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">external_ontology_notes</oboInOwl:id>
<oboInOwl:is_metadata_tag rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</oboInOwl:is_metadata_tag>
<oboInOwl:hasOBONamespace rdf:datatype="http://www.w3.org/2001/XMLSchema#string">uberon</oboInOwl:hasOBONamespace>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/description">
<rdfs:label>Description</rdfs:label>
<rdfs:label xml:lang="en-us">Description</rdfs:label>
<rdfs:comment xml:lang="en-us">An account of the content of the resource.</rdfs:comment>
<dc:description xml:lang="en-us">Description may include but is not limited to: an abstract,
table of contents, reference to a graphical representation
of content or a free-text account of the content.</dc:description>
<rdfs:isDefinedBy rdf:resource="http://purl.org/dc/elements/1.1/"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/chebi/monoisotopicmass"/>
<owl:AnnotationProperty rdf:about="http://protege.stanford.edu/plugins/owl/protege#defaultLanguage"/>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0001847">
<rdfs:label xml:lang="en">ISA alternative term</rdfs:label>
<obo:IAO_0000119>ISA tools project (http://isa-tools.org)</obo:IAO_0000119>
<obo:IAO_0000117>Person: Philippe Rocca-Serra</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">ISA alternative term</obo:IAO_0000111>
<obo:IAO_0000117>Person: Alejandra Gonzalez-Beltran</obo:IAO_0000117>
<obo:IAO_0000116>Requested by Alejandra Gonzalez-Beltran
https://sourceforge.net/tracker/?func=detail&aid=3603413&group_id=177891&atid=886178</obo:IAO_0000116>
<obo:IAO_0000115>An alternative term used by the ISA tools project (http://isa-tools.org).</obo:IAO_0000115>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000118"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002211">
<rdfs:label xml:lang="en">regulates</rdfs:label>
<obo:IAO_0000600 rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">false</obo:IAO_0000600>
<obo:IAO_0000117>David Hill</obo:IAO_0000117>
<obo:IAO_0000117>Tanya Berardini</obo:IAO_0000117>
<obo:IAO_0000117>Chris Mungall</obo:IAO_0000117>
<obo:IAO_0000232>Regulation precludes parthood; the regulatory process may not be within the regulated process.</obo:IAO_0000232>
<obo:IAO_0000589>regulates (processual)</obo:IAO_0000589>
<obo:IAO_0000119>GO</obo:IAO_0000119>
<obo:IAO_0000116>We use 'regulates' here to specifically imply control. However, many colloquial usages of the term correctly correspond to the weaker relation of 'causally upstream of or within' (aka influences). Consider relabeling to make things more explicit</obo:IAO_0000116>
<obo:IAO_0000115>process(P1) regulates process(P2) iff: P1 results in the initiation or termination of P2 OR affects the frequency of its initiation or termination OR affects the magnitude or rate of output of P2.</obo:IAO_0000115>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_annotation_extension"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_ontology"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_gocam"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
<obo:IAO_0000119 rdf:resource="http://purl.obolibrary.org/obo/ro/docs/causal-relations"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/chebi/mass"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Datatypes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://www.w3.org/2001/XMLSchema#date -->
<rdfs:Datatype rdf:about="http://www.w3.org/2001/XMLSchema#date"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000050 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000050">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">part of</rdfs:label>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">part_of</rdfs:label>
<rdfs:label>part_of</rdfs:label>
<rdfs:label>part of</rdfs:label>
<rdfs:label xml:lang="en">part of</rdfs:label>
<obo:IAO_0000116 xml:lang="en">Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime</obo:IAO_0000116>
<rdfs:seeAlso>http://www.obofoundry.org/ro/#OBO_REL:part_of</rdfs:seeAlso>
<obo:IAO_0000116 xml:lang="en">Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)
A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a core relation that holds between a part and its whole</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">is part of</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">my brain is part of my body (continuant parthood, two material entities)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)</obo:IAO_0000112>
<obo:IAO_0000118 xml:lang="en">part_of</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this day is part of this year (occurrent parthood)</obo:IAO_0000112>
<rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections"/>
<rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Submissions:PartOf"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_annotation_extension"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_gp2term"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_ontology"/>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_gocam"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000019"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:RO_0040042 rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000051 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000051">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has part</rdfs:label>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_part</rdfs:label>
<rdfs:label xml:lang="en">has part</rdfs:label>
<obo:IAO_0000116 xml:lang="en">Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part.</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)
A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a core relation that holds between a whole and its part</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">has part</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">has_part</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">my body has part my brain (continuant parthood, two material entities)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this year has part this day (occurrent parthood)</obo:IAO_0000112>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000054 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000054">
<rdfs:label xml:lang="en">realized in</rdfs:label>
<rdfs:comment>Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process</rdfs:comment>
<obo:IAO_0000600 xml:lang="en">[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])</obo:IAO_0000600>
<obo:IAO_0000118 xml:lang="en">is realized by</obo:IAO_0000118>
<obo:IAO_0000111 xml:lang="en">realized in</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">realized_in</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this disease is realized in this disease course</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this fragility is realized in this shattering</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigator role is realized in this investigation</obo:IAO_0000112>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000055"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000055 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000055">
<rdfs:label xml:lang="en">realizes</rdfs:label>
<rdfs:comment>Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process</rdfs:comment>
<obo:IAO_0000111 xml:lang="en">realizes</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this disease course realizes this disease</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigation realizes this investigator role</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this shattering realizes this fragility</obo:IAO_0000112>
<obo:IAO_0000600 xml:lang="en">to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])</obo:IAO_0000600>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000136 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000136">
<rdfs:label xml:lang="en">is about</rdfs:label>
<obo:IAO_0000116 xml:lang="en">7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of "mentions" relation. Weaken the is_about relationship to be primitive.
We will try to build it back up by elaborating the various subproperties that are more precisely defined.
Some currently missing phenomena that should be considered "about" are predications - "The only person who knows the answer is sitting beside me" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">A (currently) primitive relation that relates an information artifact to an entity.</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">Smith, Ceusters, Ruttenberg, 2000 years of philosophy</obo:IAO_0000119>
<obo:IAO_0000112 xml:lang="en">This document is about information artifacts and their representations</obo:IAO_0000112>
<obo:IAO_0000117 xml:lang="en">person:Alan Ruttenberg</obo:IAO_0000117>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000293 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
<rdfs:label xml:lang="en">has_specified_input</rdfs:label>
<obo:IAO_0000116 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works.</obo:IAO_0000116>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry Hunter</obo:IAO_0000117>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie Coutot</obo:IAO_0000117>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_specified_input</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON: Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has_specified_input</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">see is_input_of example_of_usage</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000295"/>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
<owl:equivalentProperty>
<rdf:Description>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000295"/>
</rdf:Description>
</owl:equivalentProperty>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000295 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000295">
<rdfs:label xml:lang="en">is_specified_input_of</rdfs:label>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON:Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">is_specified_input_of</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000112 xml:lang="en">some Autologous EBV(Epstein-Barr virus)-transformed B-LCL (B lymphocyte cell line) is_input_for instance of Chromum Release Assay described at https://wiki.cbil.upenn.edu/obiwiki/index.php/Chromium_Release_assay</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000299 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
<rdfs:label xml:lang="en">has_specified_output</rdfs:label>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry Hunter</obo:IAO_0000117>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie Courtot</obo:IAO_0000117>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has_specified_output</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON: Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has_specified_output</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
<owl:equivalentProperty>
<rdf:Description>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
</rdf:Description>
</owl:equivalentProperty>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000312 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
<rdfs:label xml:lang="en">is_specified_output_of</rdfs:label>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON:Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">is_specified_output_of</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">is_specified_output_of</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
<owl:equivalentProperty>
<rdf:Description>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000299"/>
</rdf:Description>
</owl:equivalentProperty>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000417 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000417">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">achieves_planned_objective</rdfs:label>
<obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A cell sorting process achieves the objective specification 'material separation objective'</obo:IAO_0000112>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">BP, AR, PPPB branch</obo:IAO_0000117>
<obo:IAO_0000119 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PPPB branch derived</obo:IAO_0000119>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process.</obo:IAO_0000115>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">achieves_planned_objective</obo:IAO_0000111>
<obo:IAO_0000232 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">modified according to email thread from 1/23/09 in accordince with DT and PPPB branch</obo:IAO_0000232>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000833"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000833 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000833">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">objective_achieved_by</rdfs:label>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process.</obo:IAO_0000115>
<obo:IAO_0000111 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">objective_achieved_by</obo:IAO_0000111>
<obo:IAO_0000119>OBI</obo:IAO_0000119>
<obo:IAO_0000117>OBI</obo:IAO_0000117>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000052 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000052">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">inheres in</rdfs:label>
<rdfs:label xml:lang="en">inheres in</rdfs:label>
<obo:IAO_0000116 xml:lang="en">A dependent inheres in its bearer at all times for which the dependent exists.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">inheres in</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">inheres_in</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this fragility inheres in this vase</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this red color inheres in this apple</obo:IAO_0000112>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000053 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000053">
<rdfs:label xml:lang="en">bearer of</rdfs:label>
<obo:IAO_0000116 xml:lang="en">A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between an independent continuant (the bearer) and a specifically dependent continuant (the dependent), in which the dependent specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">bearer of</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">bearer_of</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">is bearer of</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this apple is bearer of this red color</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this vase is bearer of this fragility</obo:IAO_0000112>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000056 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000056">
<rdfs:label xml:lang="en">participates in</rdfs:label>
<obo:IAO_0000115 xml:lang="en">a relation between a continuant and a process, in which the continuant is somehow involved in the process</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">participates in</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">participates_in</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this blood clot participates in this blood coagulation</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this input material (or this output material) participates in this process</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigator participates in this investigation</obo:IAO_0000112>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000057 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000057">
<rdfs:label xml:lang="en">has participant</rdfs:label>
<obo:IAO_0000116 xml:lang="en">Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between a process and a continuant, in which the continuant is somehow involved in the process</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">has participant</obo:IAO_0000111>
<dc:source>http://www.obofoundry.org/ro/#OBO_REL:has_participant</dc:source>
<obo:IAO_0000118 xml:lang="en">has_participant</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this blood coagulation has participant this blood clot</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigation has participant this investigator</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this process has participant this input material (or this output material)</obo:IAO_0000112>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000059 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000059">
<rdfs:label xml:lang="en">concretizes</rdfs:label>
<obo:IAO_0000112 xml:lang="en">A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant.</obo:IAO_0000115>
<obo:IAO_0000112 xml:lang="en">An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).</obo:IAO_0000112>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000080 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000080">
<rdfs:label xml:lang="en">quality of</rdfs:label>
<obo:IAO_0000116 xml:lang="en">A quality inheres in its bearer at all times for which the quality exists.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">is quality of</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">quality_of</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this red color is a quality of this apple</obo:IAO_0000112>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000086"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000086 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000086"/>
<!-- http://purl.obolibrary.org/obo/RO_0000087 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000087">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">has role</rdfs:label>
<rdfs:label xml:lang="en">has role</rdfs:label>
<obo:IAO_0000116 xml:lang="en">A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">has_role</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">this person has role this investigator role (more colloquially: this person has this role of investigator)</obo:IAO_0000112>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000023"/>
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/obi.owl"/>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0001025 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001025">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">located_in</rdfs:label>
<rdfs:label xml:lang="en">located in</rdfs:label>
<dc:source>http://www.obofoundry.org/ro/#OBO_REL:located_in</dc:source>
<obo:IAO_0000116 xml:lang="en">Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">a relation between two independent continuants, the target and the location, in which the target is entirely within the location</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">located in</obo:IAO_0000111>
<obo:IAO_0000118 xml:lang="en">located_in</obo:IAO_0000118>
<obo:IAO_0000112 xml:lang="en">my brain is located in my head</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this rat is located in this cage</obo:IAO_0000112>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/valid_for_go_gp2term"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
<rdfs:range>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
<owl:Class>
<owl:complementOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
</owl:Class>
</owl:intersectionOf>
</owl:Class>
</rdfs:range>
<rdfs:domain>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
<owl:Class>
<owl:complementOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
</owl:Class>
</owl:intersectionOf>
</owl:Class>
</rdfs:domain>
<owl:propertyChainAxiom rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/RO_0001025"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000050"/>
</owl:propertyChainAxiom>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002025 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002025"/>
<!-- http://purl.obolibrary.org/obo/RO_0002176 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002176">
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">connects</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002200 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002200">
<rdfs:label xml:lang="en">has phenotype</rdfs:label>
<obo:IAO_0000115>A relationship that holds between a biological entity and a phenotype. Here a phenotype is construed broadly as any kind of quality of an organism part, a collection of these qualities, or a change in quality or qualities (e.g. abnormally increased temperature). The subject of this relationship can be an organism (where the organism has the phenotype, i.e. the qualities inhere in parts of this organism), a genomic entity such as a gene or genotype (if modifications of the gene or the genotype causes the phenotype), or a condition such as a disease (such that if the condition inheres in an organism, then the organism has the phenotype).</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Chris Mungall</obo:IAO_0000117>
<oboInOwl:inSubset rdf:resource="http://purl.oboInOwllibrary.org/oboInOwl/ro/subsets#ro-eco"/>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002201"/>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
<rdfs:domain>
<owl:Class>
<owl:unionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000031"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/CARO_0000006"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/OGMS_0000031"/>
</owl:unionOf>
</owl:Class>
</rdfs:domain>
</owl:ObjectProperty>