https://github.com/obophenotype/uberon
Tip revision: be703994bbefaff07c14e021ab73f58a4177b289 authored by paulacalipho on 24 July 2023, 13:05:15 UTC
Update uberon-edit.obo
Update uberon-edit.obo
Tip revision: be70399
project.owl
<?xml version="1.0"?>
<!DOCTYPE rdf:RDF [
<!ENTITY ns "http://usefulinc.com/ns/" >
<!ENTITY foaf "http://xmlns.com/foaf/0.1/" >
<!ENTITY doap "http://usefulinc.com/ns/doap#" >
<!ENTITY owl "http://www.w3.org/2002/07/owl#" >
<!ENTITY obo "http://purl.obolibrary.org/obo/" >
<!ENTITY group "http://groups.google.com/group/" >
<!ENTITY dc "http://purl.org/dc/elements/1.1/" >
<!ENTITY xsd "http://www.w3.org/2001/XMLSchema#" >
<!ENTITY iao "http://purl.obolibrary.org/obo/iao/" >
<!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#" >
<!ENTITY wgs84_pos "http://www.w3.org/2003/01/geo/wgs84_pos#" >
<!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#" >
<!ENTITY contact "http://www.w3.org/2000/10/swap/pim/contact#" >
<!ENTITY oboInOwl "http://www.geneontology.org/formats/oboInOwl#" >
<!ENTITY vs "http://www.w3.org/2003/06/sw-vocab-status/ns#" >
<!ENTITY protege "http://protege.stanford.edu/plugins/owl/protege#" >
]>
<rdf:RDF xmlns="&ns;doap##"
xml:base="&ns;doap#"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:ns="http://usefulinc.com/ns/"
xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
xmlns:wgs84_pos="http://www.w3.org/2003/01/geo/wgs84_pos#"
xmlns:foaf="http://xmlns.com/foaf/0.1/"
xmlns:iao="&obo;iao/"
xmlns:vs="http://www.w3.org/2003/06/sw-vocab-status/ns#"
xmlns:contact="http://www.w3.org/2000/10/swap/pim/contact#"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:doap="&ns;doap#"
xmlns:group="http://groups.google.com/group/"
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
<owl:Ontology rdf:about="&obo;uberon/project.owl"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://protege.stanford.edu/plugins/owl/protege#defaultLanguage -->
<owl:AnnotationProperty rdf:about="&protege;defaultLanguage"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000111 -->
<owl:AnnotationProperty rdf:about="&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="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000112 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000112">
<rdfs:label xml:lang="en">example of usage</rdfs:label>
<obo:IAO_0000115 xml:lang="en">A phrase describing how a class name should be used. May also include other kinds of examples that facilitate immediate understanding of a class semantics, such as widely known prototypical subclasses or instances of the class. Although essential for high level terms, examples for low level terms (e.g., Affymetrix HU133 array) are not</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</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000113 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000113">
<rdfs:label xml:lang="en">in branch</rdfs:label>
<obo:IAO_0000115 xml:lang="en">An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">GROUP:OBI</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">OBI_0000277</obo:IAO_0000119>
<obo:IAO_0000111 xml:lang="en">in branch</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000114 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000114">
<rdfs:label xml:lang="en">has curation status</rdfs:label>
<obo:IAO_0000119 xml:lang="en">OBI_0000281</obo:IAO_0000119>
<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>
<!-- http://purl.obolibrary.org/obo/IAO_0000115 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000115">
<rdfs:label xml:lang="en">definition</rdfs:label>
<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="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000116 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000116">
<rdfs:label xml:lang="en">editor note</rdfs:label>
<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.obfoundry.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="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000117 -->
<owl:AnnotationProperty rdf:about="&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 http://code.google.com/p/information-artifact-ontology/issues/detail?id=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="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000118 -->
<owl:AnnotationProperty rdf:about="&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="&obo;IAO_0000125"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000119 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000119">
<rdfs:label xml:lang="en">definition source</rdfs:label>
<obo:IAO_0000119 rdf:datatype="&xsd;string">Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w</obo:IAO_0000119>
<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_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_0000114 rdf:resource="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000231 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000231">
<rdfs:label xml:lang="en">has obsolescence reason</rdfs:label>
<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_0000115 xml:lang="en">Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification.</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">has obsolescence reason</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000232 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000232">
<rdfs:label xml:lang="en">curator note</rdfs:label>
<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="&obo;IAO_0000122"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000411 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000411">
<rdfs:label rdf:datatype="&xsd;string">is denotator type</rdfs:label>
<obo:IAO_0000117 rdf:datatype="&xsd;string">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000116 rdf:datatype="&xsd;string">In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')</obo:IAO_0000116>
<obo:IAO_0000115 rdf:datatype="&xsd;string">relates an class defined in an ontology, to the type of it's denotator</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">is denotator type</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000412 -->
<owl:AnnotationProperty rdf:about="&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="&obo;IAO_0000125"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000424 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000424">
<rdfs:label xml:lang="en">expand expression to</rdfs:label>
<obo:IAO_0000117 rdf:datatype="&xsd;string">Chris Mungall</obo:IAO_0000117>
<obo:IAO_0000115 xml:lang="en">A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones</obo:IAO_0000115>
<obo:IAO_0000112 xml:lang="en">ObjectProperty: RO_0002104
Label: has plasma membrane part
Annotations: IAO_0000424 "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"
</obo:IAO_0000112>
<obo:IAO_0000111 xml:lang="en">expand expression to</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000425 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000425">
<rdfs:label xml:lang="en">expand assertion to</rdfs:label>
<obo:IAO_0000115 xml:lang="en">A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Chris Mungall</obo:IAO_0000117>
<obo:IAO_0000112 xml:lang="en">ObjectProperty: RO???
Label: spatially disjoint from
Annotations: expand_assertion_to "DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)"
</obo:IAO_0000112>
<obo:IAO_0000111 xml:lang="en">expand assertion to</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000426 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000426">
<rdfs:label xml:lang="en">first order logic expression</rdfs:label>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">first order logic expression</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000427 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000427">
<rdfs:label xml:lang="en">antisymmetric property</rdfs:label>
<obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">antisymmetric property</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">part_of antisymmetric property xsd:true</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">use boolean value xsd:true to indicate that the property is an antisymmetric property</obo:IAO_0000115>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000589 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000589">
<rdfs:label xml:lang="en">OBO foundry unique label</rdfs:label>
<obo:IAO_0000116 rdf:datatype="&xsd;string">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_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_0000114 rdf:resource="&obo;IAO_0000125"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000596 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000596">
<rdfs:label xml:lang="en">has ID digit count</rdfs:label>
<obo:IAO_0000115>Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix" annotation property value concatenated with an integer in the id range (left padded with "0"s to make this many digits)</obo:IAO_0000115>
<obo:IAO_0000117>Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000112>Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': "http://purl.obolibrary.org/obo/RO_"
'has ID digit count' : 7,
rdfs:label "RO id policy"
'has ID policy for': "RO"</obo:IAO_0000112>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000597 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000597">
<rdfs:label xml:lang="en">has ID range allocated to</rdfs:label>
<obo:IAO_0000112>Datatype: idrange:1
Annotations: 'has ID range allocated to': "Chris Mungall"
EquivalentTo: xsd:integer[> 2151 , <= 2300]
</obo:IAO_0000112>
<obo:IAO_0000115>Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms</obo:IAO_0000115>
<obo:IAO_0000117>Person:Alan Ruttenberg</obo:IAO_0000117>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000598 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000598">
<rdfs:label>has ID policy for</rdfs:label>
<obo:IAO_0000112>Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': "http://purl.obolibrary.org/obo/RO_"
'has ID digit count' : 7,
rdfs:label "RO id policy"
'has ID policy for': "RO"</obo:IAO_0000112>
<obo:IAO_0000117>Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000115>Relating an ontology used to record id policy to the ontology namespace whose policy it manages</obo:IAO_0000115>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000600 -->
<owl:AnnotationProperty rdf:about="&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>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000601 -->
<owl:AnnotationProperty rdf:about="&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_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000111 xml:lang="en">has associated axiom(nl)</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000602 -->
<owl:AnnotationProperty rdf:about="&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>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000603 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0000603">
<rdfs:label xml:lang="en">is allocated id range</rdfs:label>
<obo:IAO_0000115 xml:lang="en">Add as annotation triples in the granting ontology</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000115 xml:lang="en">Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. "IAO_0020000-IAO_0020999"</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">is allocated id range</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0010000 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0010000">
<rdfs:label xml:lang="en">has axiom label</rdfs:label>
<obo:IAO_0000600 xml:lang="en">A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI</obo:IAO_0000600>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000111 xml:lang="en">has axiom id</obo:IAO_0000111>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0100001 -->
<owl:AnnotationProperty rdf:about="&obo;IAO_0100001">
<rdfs:label xml:lang="en">term replaced by</rdfs:label>
<obo:IAO_0000115 xml:lang="en">Add as annotation triples in the granting ontology</obo:IAO_0000115>
<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_0000115 xml:lang="en">Use on obsolete terms, relating the term to another term that can be used as a substitute</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">term replaced by</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="&obo;IAO_0000125"/>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/OBOM_0000003 -->
<owl:AnnotationProperty rdf:about="&obo;OBOM_0000003">
<rdfs:label xml:lang="en">OBO namespace</rdfs:label>
<obo:IAO_0000112 xml:lang="en">AERO for the Adverse Event Reporting Ontology</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">GO for the Gene ontology</obo:IAO_0000112>
<obo:IAO_0000116 xml:lang="en">Must case-sensitive match the part of the OBO ID before the ':'</obo:IAO_0000116>
<obo:IAO_0000112 xml:lang="en">OBI for the Ontology of Biomedical Investigations</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">The OBO namespace that has been allocated to the resource</obo:IAO_0000115>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/iao/IAO_0000599 -->
<owl:AnnotationProperty rdf:about="&obo;iao/IAO_0000599">
<rdfs:label xml:lang="en">has ID prefix</rdfs:label>
<obo:IAO_0000112>Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': "http://purl.obolibrary.org/obo/RO_"
'has ID digit count' : 7,
rdfs:label "RO id policy"
'has ID policy for': "RO"</obo:IAO_0000112>
<obo:IAO_0000117>Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000115>Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with "0"s to make this many digits) to construct an ID for a term being created.</obo:IAO_0000115>
</owl:AnnotationProperty>
<!-- http://purl.org/dc/elements/1.1/description -->
<owl:AnnotationProperty rdf:about="&dc;description"/>
<!-- http://purl.org/dc/elements/1.1/title -->
<owl:AnnotationProperty rdf:about="&dc;title"/>
<!-- http://www.geneontology.org/formats/oboInOwl#hasURI -->
<owl:AnnotationProperty rdf:about="&oboInOwl;hasURI"/>
<!-- http://www.w3.org/2000/01/rdf-schema#isDefinedBy -->
<owl:AnnotationProperty rdf:about="&rdfs;isDefinedBy"/>
<!-- http://www.w3.org/2003/06/sw-vocab-status/ns#term_status -->
<owl:AnnotationProperty rdf:about="&vs;term_status"/>
<!-- http://xmlns.com/foaf/0.1/homepage -->
<owl:AnnotationProperty rdf:about="&foaf;homepage"/>
<!-- http://xmlns.com/foaf/0.1/mbox -->
<rdf:Description rdf:about="&foaf;mbox">
<rdfs:label>personal mailbox</rdfs:label>
<vs:term_status>stable</vs:term_status>
<rdfs:comment>A personal mailbox, ie. an Internet mailbox associated with exactly one owner, the first owner of this mailbox. This is a 'static inverse functional property', in that there is (across time and change) at most one individual that ever has any particular value for foaf:mbox.</rdfs:comment>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
</rdf:Description>
<!-- http://xmlns.com/foaf/0.1/name -->
<owl:AnnotationProperty rdf:about="&foaf;name">
<rdfs:label>name</rdfs:label>
<rdfs:comment>A name for some thing.</rdfs:comment>
<vs:term_status>testing</vs:term_status>
<rdfs:subPropertyOf rdf:resource="&rdfs;label"/>
<rdfs:domain rdf:resource="&owl;Thing"/>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
</owl:AnnotationProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/OBOM_0000011 -->
<owl:ObjectProperty rdf:about="&obo;OBOM_0000011">
<rdfs:label xml:lang="en">OBO contact</rdfs:label>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#browse -->
<owl:ObjectProperty rdf:about="&ns;doap#browse">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#bug-database -->
<owl:ObjectProperty rdf:about="&ns;doap#bug-database">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#file-release -->
<owl:ObjectProperty rdf:about="&ns;doap#file-release">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#homepage -->
<owl:ObjectProperty rdf:about="&ns;doap#homepage">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#mailing-list -->
<owl:ObjectProperty rdf:about="&ns;doap#mailing-list">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#release -->
<owl:ObjectProperty rdf:about="&ns;doap#release">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#repository -->
<owl:ObjectProperty rdf:about="&ns;doap#repository">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://usefulinc.com/ns/doap#wiki -->
<owl:ObjectProperty rdf:about="&ns;doap#wiki">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:ObjectProperty>
<!-- http://xmlns.com/foaf/0.1/mbox -->
<owl:ObjectProperty rdf:about="&foaf;mbox">
<rdf:type rdf:resource="&owl;InverseFunctionalProperty"/>
<rdfs:label>personal mailbox</rdfs:label>
<vs:term_status>stable</vs:term_status>
<rdfs:comment>A personal mailbox, ie. an Internet mailbox associated with exactly one owner, the first owner of this mailbox. This is a 'static inverse functional property', in that there is (across time and change) at most one individual that ever has any particular value for foaf:mbox.</rdfs:comment>
<rdfs:range rdf:resource="&owl;Thing"/>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
</owl:ObjectProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Data properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://usefulinc.com/ns/doap#revision -->
<owl:DatatypeProperty rdf:about="&ns;doap#revision">
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:DatatypeProperty>
<!-- http://xmlns.com/foaf/0.1/firstName -->
<owl:DatatypeProperty rdf:about="&foaf;firstName">
<rdfs:label>firstName</rdfs:label>
<vs:term_status>testing</vs:term_status>
<rdfs:comment>The first name of a person.</rdfs:comment>
<rdfs:range rdf:resource="&rdfs;Literal"/>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
<rdfs:domain rdf:resource="&foaf;Person"/>
</owl:DatatypeProperty>
<!-- http://xmlns.com/foaf/0.1/lastName -->
<owl:DatatypeProperty rdf:about="&foaf;lastName">
<rdfs:label>lastName</rdfs:label>
<vs:term_status>testing</vs:term_status>
<rdfs:comment>The last name of a person.</rdfs:comment>
<rdfs:range rdf:resource="&rdfs;Literal"/>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
<rdfs:domain rdf:resource="&foaf;Person"/>
</owl:DatatypeProperty>
<!-- http://xmlns.com/foaf/0.1/name -->
<owl:DatatypeProperty rdf:about="&foaf;name">
<rdfs:label>name</rdfs:label>
<rdfs:comment>A name for some thing.</rdfs:comment>
<vs:term_status>testing</vs:term_status>
<rdfs:range rdf:resource="&rdfs;Literal"/>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
</owl:DatatypeProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000031 -->
<owl:Class rdf:about="&obo;BFO_0000031"/>
<!-- http://purl.obolibrary.org/obo/BFO_0000040 -->
<owl:Class rdf:about="&obo;BFO_0000040"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000030 -->
<owl:Class rdf:about="&obo;IAO_0000030">
<rdfs:label xml:lang="en">information content entity</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;BFO_0000031"/>
<obo:IAO_0000412 xml:lang="en">http://purl.oblibary.org/obo/iao.owl</obo:IAO_0000412>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/OBOM_0000001 -->
<owl:Class rdf:about="&obo;OBOM_0000001">
<rdfs:label>ontology</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<obo:IAO_0000115 xml:lang="en">An ontology is a document modeling knowledge of a domain in a logical way.</obo:IAO_0000115>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/OBOM_0000006 -->
<owl:Class rdf:about="&obo;OBOM_0000006">
<rdfs:label xml:lang="en">mailing-list</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<obo:IAO_0000115 xml:lang="en">A mailing list is a collection of names and addresses used by an individual or an organization to send material to multiple recipients.</obo:IAO_0000115>
<obo:IAO_0000119 xml:lang="en">http://en.wikipedia.org/wiki/Mailing_list</obo:IAO_0000119>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/OBOM_0000007 -->
<owl:Class rdf:about="&obo;OBOM_0000007">
<rdfs:label xml:lang="en">electronic mailing-list</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;OBOM_0000006"/>
<obo:IAO_0000115 xml:lang="en">An electronic mailing-list is a mailing-list which allows internet users whose address is subscribed to the electronic mailing-list to receive emails.</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">email list</obo:IAO_0000118>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/OBOM_0000009 -->
<owl:Class rdf:about="&obo;OBOM_0000009">
<rdfs:label xml:lang="en">issue tracker</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<obo:IAO_0000115 xml:lang="en">An issue tracker is a system allowing for recording of issues and features requests for a project. It usually allows tracking through time of progress made toward resolution of each item or ticket.</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">issue list</obo:IAO_0000118>
</owl:Class>
<!-- http://usefulinc.com/ns/doap#Project -->
<owl:Class rdf:about="&ns;doap#Project">
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:Class>
<!-- http://usefulinc.com/ns/doap#SVNRepository -->
<owl:Class rdf:about="&ns;doap#SVNRepository">
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:Class>
<!-- http://usefulinc.com/ns/doap#Version -->
<owl:Class rdf:about="&ns;doap#Version">
<rdfs:subClassOf rdf:resource="&obo;IAO_0000030"/>
<rdfs:isDefinedBy rdf:resource="&ns;doap"/>
</owl:Class>
<!-- http://xmlns.com/foaf/0.1/Person -->
<owl:Class rdf:about="&foaf;Person">
<rdfs:label>Person</rdfs:label>
<rdfs:subClassOf rdf:resource="&obo;BFO_0000040"/>
<rdfs:comment>A person.</rdfs:comment>
<vs:term_status>stable</vs:term_status>
<rdfs:isDefinedBy rdf:resource="http://xmlns.com/foaf/0.1/"/>
</owl:Class>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Individuals
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://lists.sourceforge.net/lists/listinfo/obo-anatomy -->
<owl:NamedIndividual rdf:about="http://lists.sourceforge.net/lists/listinfo/obo-anatomy">
<rdf:type rdf:resource="&obo;OBOM_0000007"/>
<rdfs:label>OBO anatomy mailing-list</rdfs:label>
</owl:NamedIndividual>
<!-- http://orcid.org/0000-0002-6601-2165 -->
<owl:NamedIndividual rdf:about="http://orcid.org/0000-0002-6601-2165">
<rdf:type rdf:resource="&foaf;Person"/>
<rdfs:label xml:lang="en">Chris Mungall</rdfs:label>
<foaf:firstName xml:lang="en">Christopher</foaf:firstName>
<foaf:lastName xml:lang="en">Mungall</foaf:lastName>
<foaf:homepage xml:lang="en">http://berkeleybop.org/person/chris-mungall</foaf:homepage>
<foaf:mbox xml:lang="en">mailto:cmungall@gmail.com</foaf:mbox>
</owl:NamedIndividual>
<!-- http://purl.obolibrary.org/obo/uberon -->
<owl:NamedIndividual rdf:about="&obo;uberon">
<rdf:type rdf:resource="&ns;doap#Project"/>
<rdfs:label xml:lang="en">Uberon project</rdfs:label>
<foaf:homepage rdf:datatype="&xsd;anyURI">http://uberon.org</foaf:homepage>
<dc:description xml:lang="en">Uberon is an integrated cross-species anatomy ontology representing a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. The ontology includes comprehensive relationships to taxon-specific anatomical ontologies, allowing integration of functional, phenotype and expression data.</dc:description>
<doap:mailing-list rdf:resource="http://lists.sourceforge.net/lists/listinfo/obo-anatomy"/>
<obo:OBOM_0000011 rdf:resource="http://orcid.org/0000-0002-6601-2165"/>
<doap:file-release rdf:resource="&obo;uberon.owl"/>
<doap:bug-database rdf:resource="&obo;uberon/tracker"/>
</owl:NamedIndividual>
<!-- http://purl.obolibrary.org/obo/uberon.owl -->
<owl:NamedIndividual rdf:about="&obo;uberon.owl"/>
<!-- http://purl.obolibrary.org/obo/uberon/tracker -->
<owl:NamedIndividual rdf:about="&obo;uberon/tracker">
<rdfs:label xml:lang="en">Uberon issue tracker</rdfs:label>
<oboInOwl:hasURI xml:lang="en">http://purl.obolibrary.org/obo/uberon/tracker</oboInOwl:hasURI>
</owl:NamedIndividual>
<!-- http://usefulinc.com/ns/doap -->
<owl:Thing rdf:about="&ns;doap">
<rdf:type rdf:resource="&owl;NamedIndividual"/>
</owl:Thing>
</rdf:RDF>
<!-- Generated by the OWL API (version 3.4.2) http://owlapi.sourceforge.net -->
