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mge-derived-cortical-interneuron-hierarchy #2536

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merged 16 commits into from
Sep 24, 2024
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mge-derived-cortical-interneuron-hierarchy #2536

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mge-derived-cortical-interneuron-hierarchy
AvolaAmg Sep 2, 2024
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Merge branch 'master' into mge-derived-cortical-interneuron-hierarchy
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AvolaAmg Sep 16, 2024
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AvolaAmg Sep 16, 2024
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AvolaAmg Sep 17, 2024
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MGE neurons from asserted to inferred classificatoni
dosumis Sep 17, 2024
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dosumis Sep 17, 2024
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AvolaAmg Sep 23, 2024
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AvolaAmg Sep 23, 2024
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Update cl-edit.owl
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12 changes: 9 additions & 3 deletions src/ontology/cl-edit.owl
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Expand Up @@ -29306,12 +29306,13 @@ SubClassOf(obo:CL_4023016 obo:CL_4023064)
# Class: obo:CL_4023017 (sst GABAergic cortical interneuron)

AnnotationAssertion(obo:IAO_0000028 obo:CL_4023017 "sst cortical interneuron")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") Annotation(oboInOwl:hasDbXref "PMID:37824655") obo:IAO_0000115 obo:CL_4023017 "A GABAergic neuron located in the cerebral cortex that expresses somatostatin (sst)")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") Annotation(oboInOwl:hasDbXref "PMID:37824655") obo:IAO_0000115 obo:CL_4023017 "A GABAergic neuron that develops from medial ganglionic eminence and is located in the cerebral cortex. The interneuron expresses somatostatin (sst) and secretes gamma-aminobutyric acid.")
AnnotationAssertion(terms:contributor obo:CL_4023017 <https://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023017 "ILX:0770152")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023017 cl:BDS_subset)
AnnotationAssertion(rdfs:label obo:CL_4023017 "sst GABAergic cortical interneuron")
EquivalentClasses(obo:CL_4023017 ObjectIntersectionOf(obo:CL_0000099 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000015665)))
EquivalentClasses(obo:CL_4023017 ObjectIntersectionOf(obo:CL_4023069 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000015665)))
SubClassOf(obo:CL_4023017 ObjectSomeValuesFrom(obo:RO_0002202 obo:UBERON_0004024))

# Class: obo:CL_4023018 (pvalb GABAergic cortical interneuron)

Expand All @@ -29321,7 +29322,8 @@ AnnotationAssertion(terms:contributor obo:CL_4023018 <https://orcid.org/0000-000
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023018 "ILX:0770154")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023018 cl:BDS_subset)
AnnotationAssertion(rdfs:label obo:CL_4023018 "pvalb GABAergic cortical interneuron")
EquivalentClasses(obo:CL_4023018 ObjectIntersectionOf(obo:CL_0000099 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000013502)))
EquivalentClasses(obo:CL_4023018 ObjectIntersectionOf(obo:CL_4023069 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000013502)))
SubClassOf(obo:CL_4023018 ObjectSomeValuesFrom(obo:RO_0002202 obo:UBERON_0004024))

# Class: obo:CL_4023019 (L5/6 cck, VIP GABAergic interneuron (Mmus))

Expand Down Expand Up @@ -29532,6 +29534,7 @@ AnnotationAssertion(oboInOwl:inSubset obo:CL_4023036 cl:BDS_subset)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:27477017") rdfs:comment obo:CL_4023036 "In mice, Chandelier PV cells have soma found in in upper L2/3, with some in deep L5 and exhibit fast-spiking but lower firing rate compared to basket cells, and have practically absent hyperpolarization sag.")
AnnotationAssertion(rdfs:label obo:CL_4023036 "chandelier pvalb GABAergic cortical interneuron")
SubClassOf(obo:CL_4023036 obo:CL_0000099)
SubClassOf(obo:CL_4023036 obo:CL_4023018)
SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0070011))
SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956))
SubClassOf(obo:CL_4023036 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534))
Expand Down Expand Up @@ -29874,6 +29877,7 @@ AnnotationAssertion(terms:contributor obo:CL_4023069 <https://orcid.org/0000-000
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023069 "MGE cortical interneuron")
AnnotationAssertion(rdfs:label obo:CL_4023069 "medial ganglionic eminence derived GABAergic cortical interneuron")
EquivalentClasses(obo:CL_4023069 ObjectIntersectionOf(obo:CL_0000099 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956) ObjectSomeValuesFrom(obo:RO_0002202 obo:UBERON_0004024) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534)))
SubClassOf(obo:CL_4023069 obo:CL_4023063)

# Class: obo:CL_4023070 (obsolete caudal ganglionic eminence derived GABAergic cortical interneuron)

Expand Down Expand Up @@ -30321,7 +30325,9 @@ AnnotationAssertion(terms:contributor obo:CL_4023121 <https://orcid.org/0000-000
AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4023121 "long-range GABAergic interneuron")
AnnotationAssertion(rdfs:label obo:CL_4023121 "sst chodl GABAergic cortical interneuron")
SubClassOf(obo:CL_4023121 obo:CL_0000099)
SubClassOf(obo:CL_4023121 obo:CL_4023069)
SubClassOf(obo:CL_4023121 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000956))
SubClassOf(obo:CL_4023121 ObjectSomeValuesFrom(obo:RO_0002202 obo:UBERON_0004024))
SubClassOf(obo:CL_4023121 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534))
SubClassOf(obo:CL_4023121 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000005444))
SubClassOf(obo:CL_4023121 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000015665))
Expand Down
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