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VIVO-435 changed domain/range of cites/citedBy and removed odd individuals that came in with the ISF

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brianjlowe 2013-11-14 09:52:11 -05:00
parent 65b13dc91d
commit 15c59932dd
3 changed files with 4 additions and 152 deletions
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8
rdf/tbox/filegraph/object-properties.owl
View file

@ -1141,8 +1141,8 @@ there is a measurement process p that has specified output m, a measurement datu
<!-- http://purl.org/ontology/bibo/citedBy --> <!-- http://purl.org/ontology/bibo/citedBy -->
<owl:ObjectProperty rdf:about="http://purl.org/ontology/bibo/citedBy"> <owl:ObjectProperty rdf:about="http://purl.org/ontology/bibo/citedBy">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/> <rdfs:domain rdf:resource="http://purl.org/ontology/bibo/Document"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/> <rdfs:range rdf:resource="http://purl.org/ontology/bibo/Document"/>
</owl:ObjectProperty> </owl:ObjectProperty>
@ -1150,8 +1150,8 @@ there is a measurement process p that has specified output m, a measurement datu
<!-- http://purl.org/ontology/bibo/cites --> <!-- http://purl.org/ontology/bibo/cites -->
<owl:ObjectProperty rdf:about="http://purl.org/ontology/bibo/cites"> <owl:ObjectProperty rdf:about="http://purl.org/ontology/bibo/cites">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/> <rdfs:domain rdf:resource="http://purl.org/ontology/bibo/Document"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/> <rdfs:range rdf:resource="http://purl.org/ontology/bibo/Document"/>
</owl:ObjectProperty> </owl:ObjectProperty>

91
rdf/tbox/filegraph/research-resource-iao.owl
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@ -240,36 +240,6 @@ this case we explicitly refer to the singular form</obo:IAO_0000116>
<!-- http://purl.obolibrary.org/obo/IAO_0000078 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000078">
<owl:equivalentClass>
<owl:Class>
<owl:oneOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000124"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000423"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000125"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000122"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000123"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000428"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000120"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000121"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000002"/>
</owl:oneOf>
</owl:Class>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000102"/>
<obo:IAO_0000116 xml:lang="en">Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)</obo:IAO_0000116>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:&lt;http://purl.obolibrary.org/obo/obi&gt;</obo:IAO_0000119>
<obo:IAO_0000119 xml:lang="en">OBI_0000266</obo:IAO_0000119>
<obo:IAO_0000117 xml:lang="en">PERSON:Bill Bug</obo:IAO_0000117>
<obo:IAO_0000115 xml:lang="en">The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">curation status specification</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/IAO_0000102 --> <!-- http://purl.obolibrary.org/obo/IAO_0000102 -->
@ -335,31 +305,6 @@ this case we explicitly refer to the singular form</obo:IAO_0000116>
<!-- http://purl.obolibrary.org/obo/IAO_0000225 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000225">
<owl:equivalentClass>
<owl:Class>
<owl:oneOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000227"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000228"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000226"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000103"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000229"/>
</owl:oneOf>
</owl:Class>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000102"/>
<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_0000116 xml:lang="en">The creation of this class has been inspired in part by Werner Ceusters&apos; paper, Applying evolutionary terminology auditing to the Gene Ontology.</obo:IAO_0000116>
<obo:IAO_0000115 xml:lang="en">The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value.</obo:IAO_0000115>
<obo:IAO_0000111 xml:lang="en">obsolescence reason specification</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
</owl:Class>
<!-- http://purl.obolibrary.org/obo/IAO_0000300 --> <!-- http://purl.obolibrary.org/obo/IAO_0000300 -->
@ -377,27 +322,6 @@ this case we explicitly refer to the singular form</obo:IAO_0000116>
<!-- http://purl.obolibrary.org/obo/IAO_0000409 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000409">
<owl:equivalentClass>
<owl:Class>
<owl:oneOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000410"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000420"/>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000421"/>
</owl:oneOf>
</owl:Class>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000102"/>
<obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A denotator type indicates how a term should be interpreted from an ontological perspective.</obo:IAO_0000115>
<obo:IAO_0000117 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Barry Smith, Werner Ceusters</obo:IAO_0000119>
<obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are &quot;natural kinds&quot; and the latter arbitrary collections of entities.</obo:IAO_0000112>
</owl:Class>
<!-- http://purl.org/ontology/bibo/Document --> <!-- http://purl.org/ontology/bibo/Document -->
@ -421,21 +345,6 @@ this case we explicitly refer to the singular form</obo:IAO_0000116>
<!-- http://www.geneontology.org/formats/oboInOwl#Subset -->
<owl:Class rdf:about="http://www.geneontology.org/formats/oboInOwl#Subset">
<owl:equivalentClass>
<owl:Class>
<owl:oneOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/IAO_0000224"/>
</owl:oneOf>
</owl:Class>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000102"/>
</owl:Class>
<!-- http://www.geneontology.org/formats/oboInOwl#Synonym --> <!-- http://www.geneontology.org/formats/oboInOwl#Synonym -->
<owl:Class rdf:about="http://www.geneontology.org/formats/oboInOwl#Synonym"> <owl:Class rdf:about="http://www.geneontology.org/formats/oboInOwl#Synonym">

57
rdf/tbox/firsttime/initialTBoxAnnotations.n3
View file

@ -275,9 +275,6 @@ vivo:Licensure
vivo:inPress vivo:inPress
rdfs:label "in press"@en-US . rdfs:label "in press"@en-US .
obo:IAO_0000078
rdfs:label "Curation Status Specification"@en-US .
vivo:placeOfPublication vivo:placeOfPublication
rdfs:label "place of publication"@en-US ; rdfs:label "place of publication"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -293,9 +290,6 @@ vivo:placeOfPublication
vitro:publicDescriptionAnnot vitro:publicDescriptionAnnot
"City in which the publication was done."^^xsd:string . "City in which the publication was done."^^xsd:string .
obo:IAO_0000125
rdfs:label "pending final vetting"@en-US .
vivo:hasCollaborator vivo:hasCollaborator
rdfs:label "collaborator"@en-US ; rdfs:label "collaborator"@en-US ;
vitro:customEntryFormAnnot vitro:customEntryFormAnnot
@ -502,9 +496,6 @@ owl:sameAs
vitro:stubObjectPropertyAnnot vitro:stubObjectPropertyAnnot
"true"^^xsd:boolean . "true"^^xsd:boolean .
obo:IAO_0000123
rdfs:label "metadata incomplete"@en-US .
vcard:hasTimeZone vcard:hasTimeZone
rdfs:label "has time zone"@en-US . rdfs:label "has time zone"@en-US .
@ -560,9 +551,6 @@ geo:territory
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000122
rdfs:label "ready for release"@en-US .
vcard:OrganizationName vcard:OrganizationName
rdfs:label "Organization Name"@en-US . rdfs:label "Organization Name"@en-US .
@ -722,9 +710,6 @@ bibo:Issue
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000121
rdfs:label "organizational term"@en-US .
vcard:uid vcard:uid
rdfs:label "uid"@en-US . rdfs:label "uid"@en-US .
@ -816,9 +801,6 @@ geo:codeFAOSTAT
vitro:selectFromExistingAnnot vitro:selectFromExistingAnnot
"true"^^xsd:boolean . "true"^^xsd:boolean .
obo:IAO_0000120
rdfs:label "metadata complete"@en-US .
vivo:AttendeeRole vivo:AttendeeRole
rdfs:label "Attendee Role"@en-US ; rdfs:label "Attendee Role"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -1754,9 +1736,6 @@ geo:nameCurrencyFR
obo:BFO_0000017 obo:BFO_0000017
rdfs:label "Realizable Entity"@en-US . rdfs:label "Realizable Entity"@en-US .
obo:IAO_0000410
rdfs:label "universal"@en-US .
vivo:hasGoverningAuthority vivo:hasGoverningAuthority
rdfs:label "governing authority"@en-US ; rdfs:label "governing authority"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -2009,9 +1988,6 @@ vcard:note
obo:ERO_0000779 obo:ERO_0000779
rdfs:label "Permanent Resident Role"@en-US . rdfs:label "Permanent Resident Role"@en-US .
obo:IAO_0000226
rdfs:label "placeholder removed"@en-US .
bibo:issue bibo:issue
rdfs:label "issue"@en-US ; rdfs:label "issue"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -2267,9 +2243,6 @@ vivo:description
vitro:publicDescriptionAnnot vitro:publicDescriptionAnnot
"An account of the resource."^^xsd:string . "An account of the resource."^^xsd:string .
obo:IAO_0000224
rdfs:label "core"@en-US .
geo:hasCode geo:hasCode
rdfs:label "has code"@en-US ; rdfs:label "has code"@en-US ;
vitro:hiddenFromDisplayBelowRoleLevelAnnot vitro:hiddenFromDisplayBelowRoleLevelAnnot
@ -2401,9 +2374,6 @@ vivo:hasSubjectArea
obo:ARG_2000083 obo:ARG_2000083
rdfs:label "American Board of Plastic Surgery"@en-US . rdfs:label "American Board of Plastic Surgery"@en-US .
obo:IAO_0000225
rdfs:label "Obsolescence Reason Specification"@en-US .
obo:ERO_0000398 obo:ERO_0000398
rdfs:label "is performed by"@en-US . rdfs:label "is performed by"@en-US .
@ -2715,9 +2685,6 @@ vivo:ClinicalOrganization
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000229
rdfs:label "term split"@en-US .
vivo:Program vivo:Program
rdfs:label "Program"@en-US ; rdfs:label "Program"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -2831,9 +2798,6 @@ obo:ERO_0000777
obo:ARG_2000067 obo:ARG_2000067
rdfs:label "American Board of Colon and Rectal Surgery"@en-US . rdfs:label "American Board of Colon and Rectal Surgery"@en-US .
obo:IAO_0000228
rdfs:label "term imported"@en-US .
bibo:Thesis bibo:Thesis
rdfs:label "Thesis"@en-US ; rdfs:label "Thesis"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -4430,9 +4394,6 @@ vivo:FacultyMember
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000428
rdfs:label "requires discussion"@en-US .
vivo:hideFromDisplay vivo:hideFromDisplay
rdfs:label "hide from display"@en-US ; rdfs:label "hide from display"@en-US ;
vitro:displayRankAnnot vitro:displayRankAnnot
@ -4598,9 +4559,6 @@ vivo:Internship
obo:ARG_2000379 obo:ARG_2000379
rdfs:label "Contact"@en-US . rdfs:label "Contact"@en-US .
obo:IAO_0000409
rdfs:label "Denotator Type"@en-US .
vcard:RelatedType vcard:RelatedType
rdfs:label "Relation Type"@en-US . rdfs:label "Relation Type"@en-US .
@ -4807,9 +4765,6 @@ vivo:InvestigatorRole
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000423
rdfs:label "to be replaced with external ontology term"@en-US .
bibo:BookSection bibo:BookSection
rdfs:label "Book Section"@en-US ; rdfs:label "Book Section"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -5563,9 +5518,6 @@ geo:special_group
vitro:prohibitedFromUpdateBelowRoleLevelAnnot vitro:prohibitedFromUpdateBelowRoleLevelAnnot
<http://vitro.mannlib.cornell.edu/ns/vitro/role#public> . <http://vitro.mannlib.cornell.edu/ns/vitro/role#public> .
obo:IAO_0000420
rdfs:label "Defined Class"@en-US .
geo:countryAreaUnit geo:countryAreaUnit
rdfs:label "country area unit"@en-US ; rdfs:label "country area unit"@en-US ;
vitro:hiddenFromDisplayBelowRoleLevelAnnot vitro:hiddenFromDisplayBelowRoleLevelAnnot
@ -5789,9 +5741,6 @@ bibo:eanucc13
vitro:publicDescriptionAnnot vitro:publicDescriptionAnnot
"EAN International-Uniform Code Council (EAN-UCC) was a supply chain standards family name, formally the EAN.UCC System, that included product barcodes which are printed on the great majority of products available in stores worldwide and electronic commerce standards."^^xsd:string . "EAN International-Uniform Code Council (EAN-UCC) was a supply chain standards family name, formally the EAN.UCC System, that included product barcodes which are printed on the great majority of products available in stores worldwide and electronic commerce standards."^^xsd:string .
obo:IAO_0000421
rdfs:label "Named Class Expression"@en-US .
bibo:EditedBook bibo:EditedBook
rdfs:label "Edited Book"@en-US ; rdfs:label "Edited Book"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot
@ -6576,9 +6525,6 @@ vivo:dateTimeInterval
vitro:selectFromExistingAnnot vitro:selectFromExistingAnnot
"true"^^xsd:boolean . "true"^^xsd:boolean .
obo:IAO_0000103
rdfs:label "Failed Exploratory Term"@en-US .
vcard:formattedName vcard:formattedName
rdfs:label "has formatted name"@en-US . rdfs:label "has formatted name"@en-US .
@ -6613,9 +6559,6 @@ obo:ARG_2000076
obo:BFO_0000034 obo:BFO_0000034
rdfs:label "Function"@en-US . rdfs:label "Function"@en-US .
obo:IAO_0000002
rdfs:label "example to be eventually removed"@en-US .
vivo:EmeritusProfessor vivo:EmeritusProfessor
rdfs:label "Professor Emeritus"@en-US ; rdfs:label "Professor Emeritus"@en-US ;
vitro:displayLimitAnnot vitro:displayLimitAnnot