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Added L4 IT MOp #1011

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Added L4 IT MOp #1011

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8761b60
Added L4 IT MOp
shawntanzk Mar 22, 2021
2efb812
Merge branch 'master' into L4-IT-MOp-(Mus)
shawntanzk Mar 23, 2021
bb66f5f
Update cl-edit.owl
shawntanzk Mar 23, 2021
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77 changes: 35 additions & 42 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -2473,23 +2473,12 @@ Declaration(Class(obo:CL_4023038))
Declaration(Class(obo:CL_4023040))
Declaration(Class(obo:CL_4023041))
Declaration(Class(obo:CL_4023042))

Declaration(Class(obo:CL_4023046))


Declaration(Class(obo:CL_4023047))
Declaration(Class(obo:CL_4023048))
Declaration(Class(obo:CL_4023049))


Declaration(Class(obo:CL_4023050))


Declaration(Class(obo:CL_4023048))

Declaration(Class(obo:CL_4023047))




Declaration(Class(obo:CL_4023051))
Declaration(Class(obo:CP_0000000))
Declaration(Class(obo:CP_0000025))
Declaration(Class(obo:CP_0000027))
Expand Down Expand Up @@ -27748,7 +27737,6 @@ SubClassOf(obo:CL_4023042 obo:CL_4023013)

# Class: obo:CL_4023046 (L6b subplate glutamatergic neuron of the primary motor cortex (Mus musculus))


AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023046 "An excitatory glutamatergic neuron transcriptomically related to the CT subclass, with a soma preferentially located in the bottom of L6 of the primary motor cortex.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023046 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023046 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
Expand All @@ -27757,6 +27745,29 @@ SubClassOf(obo:CL_4023046 obo:CL_4023038)
SubClassOf(obo:CL_4023046 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023046 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))

# Class: obo:CL_4023047 (L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1101/2020.10.19.343129") obo:IAO_0000115 obo:CL_4023047 "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023047 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023047 "L2/3 IT MOp (Mus)")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023047 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023047 "L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)")
SubClassOf(obo:CL_4023047 obo:CL_4023040)
SubClassOf(obo:CL_4023047 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023047 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))

# Class: obo:CL_4023048 (L4/5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023048 "An intratelencephalic-projecting glutamatergic with a soma located in upper L5 of the primary motor cortex. These cells have thin untufted apical dendrites.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023048 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023048 "ILX:0770174")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023048 "L4/5 IT MOp (Mus)")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023048 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023048 "L4/5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)")
SubClassOf(obo:CL_4023048 obo:CL_4023040)
SubClassOf(obo:CL_4023048 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023048 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))

# Class: obo:CL_4023049 (L5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023049 "An intratelencephalic-projecting glutamatergic neuron with a soma found in L5 of the primary motor cortex.")
Expand All @@ -27771,7 +27782,6 @@ SubClassOf(obo:CL_4023049 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_1009

# Class: obo:CL_4023050 (L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))


AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:9236245") obo:IAO_0000115 obo:CL_4023050 "An intratelencephalic-projecting glutamatergic neuron with a soma found in L6 of the primary motor cortex. These cells are short untufted pyramidal cells, which could be stellate or inverted.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023050 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023050 "ILX:0770158")
Expand All @@ -27782,32 +27792,15 @@ SubClassOf(obo:CL_4023050 obo:CL_4023040)
SubClassOf(obo:CL_4023050 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023050 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))

# Class: obo:CL_4023048 (L4/5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023048 "An intratelencephalic-projecting glutamatergic with a soma located in upper L5 of the primary motor cortex. These cells have thin untufted apical dendrites.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023048 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023048 "ILX:0770174")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023048 "L4/5 IT MOp (Mus)")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023048 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023048 "L4/5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)")
SubClassOf(obo:CL_4023048 obo:CL_4023040)
SubClassOf(obo:CL_4023048 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023048 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))

# Class: obo:CL_4023047 (L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:10.1101/2020.10.19.343129") obo:IAO_0000115 obo:CL_4023047 "An intratelencephalic-projecting glutamatergic neuron with a soma found in cortical layer 2/3.")
AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023047 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023047 "L2/3 IT MOp (Mus)")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023047 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023047 "L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)")
SubClassOf(obo:CL_4023047 obo:CL_4023040)
SubClassOf(obo:CL_4023047 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384))
SubClassOf(obo:CL_4023047 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_10090))



# Class: obo:CL_4023051 (L4 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus))

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33184512") obo:IAO_0000115 obo:CL_4023051 "An intratelencephalic-projecting glutamatergic neuron that is located in the boundary between L2/3 and L5 of the primary motor cortex. These cells have diverse morphologies with some pyramidal and some stellate cells.")
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This strikes me as a heterogenous grouping class that only makes sense in the context of single cell transcriptomics clustering. I wonder whether we should make that explicit + define using markers (RF markers could work well for this). I think worth holding off for further discussion.

AnnotationAssertion(<http://purl.org/dc/elements/1.1/creator> obo:CL_4023051 <http://orcid.org/0000-0001-7258-9596>)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4023051 "ILX:0770172")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023051 "L4 IT MOp (Mus)")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023051 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023051 "L4 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)")
SubClassOf(obo:CL_4023051 obo:CL_4023040)

# Class: obo:CP_0000000 (neutrophillic cytoplasm)

Expand Down Expand Up @@ -27905,4 +27898,4 @@ SubClassOf(obo:D96882F1-8709-49AB-BCA9-772A67EA6C33 obo:GO_0005634)


SubClassOf(Annotation(oboInOwl:hasDbXref <https://github.com/obophenotype/cell-ontology/issues/757>) ObjectIntersectionOf(obo:CL_0000540 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_7742)) ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000031))
)
)