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Merge pull request #2186 from EBISPOT/obsolete_duplicates_PSA_issue-2147
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obsoleted 2 terms, replaced by OBA
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@ar-ibrahim
ar-ibrahim authored Feb 22, 2024
2 parents 85a86b4 + cac8532 commit 20e888e
Showing 1 changed file with 23 additions and 21 deletions.
44 changes: 23 additions & 21 deletions src/ontology/efo-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -29544,7 +29544,7 @@ AnnotationAssertion(rdfs:label obo:RO_0001025 "located_in")

AnnotationAssertion(rdfs:label obo:RO_0002104 "has_plasma_membrane_part")

# Object Property: obo:RO_0002160 (only_in_taxon)
# Object Property: obo:RO_0002160 (only in taxon)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:20973947") obo:IAO_0000115 obo:RO_0002160 "S only_in_taxon T iff: S SubClassOf in_taxon only T")
AnnotationAssertion(oboInOwl:hasDbXref obo:RO_0002160 "RO:0002160")
Expand Down Expand Up @@ -88588,9 +88588,9 @@ SubClassOf(efo:EFO_0001203 ObjectSomeValuesFrom(obo:RO_0001000 ObjectIntersectio
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0001205 "James Malone")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0001205 "CLO:0007631")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0001205 "RRID:CVCL_0617")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDA-MB-134VI")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDA-134")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDA-MB-134")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDA-MB-134VI")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDAMB134")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0001205 "MDAMB134VI")
AnnotationAssertion(rdfs:label efo:EFO_0001205 "MDAMB134VI")
Expand Down Expand Up @@ -95469,10 +95469,10 @@ AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002156 "James Malone")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002156 "BTO:0005135")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002156 "CLO:0002673")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002156 "RRID:CVCL_1155")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "HTB-185")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "D-283 Med-C")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "D283")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "H283")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "HTB-185")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002156 "Med 283")
AnnotationAssertion(rdfs:label efo:EFO_0002156 "D283Med")
SubClassOf(efo:EFO_0002156 obo:CL_0000010)
Expand All @@ -95493,9 +95493,9 @@ SubClassOf(efo:EFO_0002157 ObjectSomeValuesFrom(obo:RO_0001000 ObjectIntersectio

AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002158 "Ele Holloway")
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002158 "James Malone")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002158 "SNOMEDCT:259042002")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002158 "CLO:0002709")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002158 "RRID:CVCL_1168")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002158 "SNOMEDCT:259042002")
AnnotationAssertion(rdfs:label efo:EFO_0002158 "DB")
SubClassOf(efo:EFO_0002158 obo:CL_0000010)
SubClassOf(efo:EFO_0002158 ObjectSomeValuesFrom(obo:RO_0000053 efo:EFO_0001642))
Expand Down Expand Up @@ -95629,9 +95629,9 @@ AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002170 "James Malone")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002170 "BTO:0000834")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002170 "CLO:0002752")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002170 "RRID:CVCL_1171")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002170 "Detroit 562")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002170 "D562")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002170 "Det562")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002170 "Detroit 562")
AnnotationAssertion(rdfs:label efo:EFO_0002170 "Detroit562")
SubClassOf(efo:EFO_0002170 obo:CL_0000010)
SubClassOf(efo:EFO_0002170 ObjectSomeValuesFrom(obo:RO_0000053 efo:EFO_0000574))
Expand Down Expand Up @@ -97552,9 +97552,9 @@ AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002357 "Ele Holloway")
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002357 "James Malone")
AnnotationAssertion(efo:definition_citation efo:EFO_0002357 "https://www.atcc.org/products/all/CRL-2959.aspx")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002357 "RRID:CVCL_2206")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002357 "SU-DHL-6")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002357 "DHL-6")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002357 "DHL6")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002357 "SU-DHL-6")
AnnotationAssertion(rdfs:label efo:EFO_0002357 "SUDHL6")
SubClassOf(efo:EFO_0002357 obo:CL_0000010)
SubClassOf(efo:EFO_0002357 ObjectSomeValuesFrom(obo:RO_0000053 efo:EFO_0000574))
Expand Down Expand Up @@ -100796,8 +100796,8 @@ AnnotationAssertion(obo:IAO_0000117 efo:EFO_0002714 "James Malone")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002714 "BTO:0002864")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002714 "CLO:0050113")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0002714 "RRID:CVCL_4056")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002714 "T3M4")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002714 "T3M-4")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0002714 "T3M4")
AnnotationAssertion(rdfs:label efo:EFO_0002714 "Panc89")
SubClassOf(efo:EFO_0002714 obo:CL_0000010)
SubClassOf(efo:EFO_0002714 ObjectSomeValuesFrom(obo:RO_0000053 obo:MONDO_0005184))
Expand Down Expand Up @@ -104623,12 +104623,12 @@ AnnotationAssertion(owl:deprecated efo:EFO_0003071 "true"^^xsd:boolean)
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0003072 "James Malone")
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0003072 "Tomasz Adamusiak")
AnnotationAssertion(efo:definition_citation efo:EFO_0003072 "http://www.atcc.org/products/all/HTB-11.aspx")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0003072 "MCC:0000430")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0003072 "BTO:0001620")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0003072 "CLO:0009059")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0003072 "MCC:0000430")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0003072 "RRID:CVCL_0531")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0003072 "SKNSH")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0003072 "NSH")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0003072 "SKNSH")
AnnotationAssertion(rdfs:label efo:EFO_0003072 "SK-N-SH")
SubClassOf(efo:EFO_0003072 obo:CL_0000010)
SubClassOf(efo:EFO_0003072 ObjectSomeValuesFrom(obo:RO_0000053 efo:EFO_0000621))
Expand Down Expand Up @@ -121837,21 +121837,20 @@ SubClassOf(efo:EFO_0004623 efo:EFO_0004747)
SubClassOf(efo:EFO_0004623 ObjectSomeValuesFrom(obo:IAO_0000136 obo:CHEBI_36080))
SubClassOf(efo:EFO_0004623 ObjectSomeValuesFrom(obo:IAO_0000136 efo:EFO_0001941))

# Class: efo:EFO_0004624 (prostate specific antigen measurement)
# Class: efo:EFO_0004624 (obsolete_prostate specific antigen measurement)

AnnotationAssertion(obo:IAO_0000115 efo:EFO_0004624 "A PSA measurement is the quantification of prostate specific antigen typically in blood used in the diagnosis of prostate cancer.")
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0004624 "Helen Parkinson")
AnnotationAssertion(obo:IAO_0100001 efo:EFO_0004624 "http://purl.obolibrary.org/obo/OBA_2050200")
AnnotationAssertion(efo:obsoleted_in_version efo:EFO_0004624 "3.64.0")
AnnotationAssertion(efo:reason_for_obsolescence efo:EFO_0004624 "Duplication")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0004624 "NCIt:C17634")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0004624 "SNOMEDCT:63476009")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0004624 "PSA levels")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0004624 "PSA measurement")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0004624 "prostate specific antigen levels")
AnnotationAssertion(rdfs:label efo:EFO_0004624 "prostate specific antigen measurement")
SubClassOf(efo:EFO_0004624 efo:EFO_0001444)
SubClassOf(efo:EFO_0004624 efo:EFO_0004747)
SubClassOf(efo:EFO_0004624 efo:EFO_0005127)
SubClassOf(efo:EFO_0004624 ObjectSomeValuesFrom(obo:IAO_0000136 obo:UBERON_0002367))
SubClassOf(efo:EFO_0004624 ObjectSomeValuesFrom(obo:IAO_0000136 ObjectIntersectionOf(efo:EFO_0001663 ObjectSomeValuesFrom(obo1:has_role obo:CHEBI_59163))))
AnnotationAssertion(rdfs:label efo:EFO_0004624 "obsolete_prostate specific antigen measurement")
AnnotationAssertion(owl:deprecated efo:EFO_0004624 "true"^^xsd:boolean)

# Class: efo:EFO_0004625 (progranulin measurement)

Expand Down Expand Up @@ -128999,9 +128998,9 @@ SubClassOf(efo:EFO_0005456 ObjectSomeValuesFrom(obo:RO_0001000 ObjectIntersectio
# Class: efo:EFO_0005457 (SK-MM-1)

AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0005457 "RRID:CVCL_A478")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0005457 "SKMM1")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0005457 "SK-MY-1")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0005457 "SK-My-1")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0005457 "SKMM1")
AnnotationAssertion(rdfs:label efo:EFO_0005457 "SK-MM-1")
SubClassOf(efo:EFO_0005457 obo:CL_0000010)
SubClassOf(efo:EFO_0005457 ObjectSomeValuesFrom(obo:RO_0000053 efo:EFO_0006475))
Expand Down Expand Up @@ -139178,8 +139177,8 @@ AnnotationAssertion(obo:IAO_0000115 efo:EFO_0006711 "human B-cell non-Hodgkin ly
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0006711 "Laura Huerta")
AnnotationAssertion(efo:definition_citation efo:EFO_0006711 "http://www.dsmz.de/catalogues/details/culture/ACC-688.html")
AnnotationAssertion(efo:definition_citation efo:EFO_0006711 "https://www.dsmz.de/catalogues/details/culture/ACC-688.html")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0006711 "PMID:11807979")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0006711 "BTO:0006414")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0006711 "PMID:11807979")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0006711 "RRID:CVCL_1881")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0006711 "LY7")
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0006711 "OCI-Ly07")
Expand Down Expand Up @@ -187269,13 +187268,16 @@ AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0020659 "PMID:28240269")
AnnotationAssertion(rdfs:label efo:EFO_0020659 "prostaglandin g/h synthase 2 measurement")
SubClassOf(efo:EFO_0020659 efo:EFO_0004747)

# Class: efo:EFO_0020660 (prostate-specific antigen measurement)
# Class: efo:EFO_0020660 (obsolete_prostate-specific antigen measurement)

AnnotationAssertion(obo:IAO_0000115 efo:EFO_0020660 "The determination of the amount of prostate-specific antigen in a sample")
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0020660 "Annalisa Buniello")
AnnotationAssertion(obo:IAO_0100001 efo:EFO_0020660 "http://purl.obolibrary.org/obo/OBA_2050200")
AnnotationAssertion(efo:obsoleted_in_version efo:EFO_0020660 "3.64.0")
AnnotationAssertion(efo:reason_for_obsolescence efo:EFO_0020660 "Duplication")
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0020660 "PMID:28240269")
AnnotationAssertion(rdfs:label efo:EFO_0020660 "prostate-specific antigen measurement")
SubClassOf(efo:EFO_0020660 efo:EFO_0004747)
AnnotationAssertion(rdfs:label efo:EFO_0020660 "obsolete_prostate-specific antigen measurement")
AnnotationAssertion(owl:deprecated efo:EFO_0020660 "true"^^xsd:boolean)

# Class: efo:EFO_0020661 (proteasome activator complex subunit 1 measurement)

Expand Down

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