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Addresses #2044 retina cell type syns #2046

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Jun 29, 2023
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Addresses #2044 retina cell type syns #2046

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274e25f
Addresses #2044 retina cell type syns
Jun 29, 2023
50ed3e7
add doi dbxrefs
Jun 29, 2023
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18 changes: 16 additions & 2 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -4610,6 +4610,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000126 "BTO:0000771")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000126 "CALOHA:TS-2027")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000126 "FMA:54538")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000126 "macrogliocyte")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "GSE148077") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000126 "macroglia")
AnnotationAssertion(rdfs:label obo:CL_0000126 "macroglial cell")
SubClassOf(obo:CL_0000126 obo:CL_0000125)
SubClassOf(obo:CL_0000126 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000339))
Expand Down Expand Up @@ -4650,9 +4651,9 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000129 "FMA:54539")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000129 "FMA:54540")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000129 "brain-resident macrophage")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://www.copewithcytokines.de/") oboInOwl:hasExactSynonym obo:CL_0000129 "hortega cells")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000129 "microglia")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://www.copewithcytokines.de/") oboInOwl:hasExactSynonym obo:CL_0000129 "microgliocyte")
AnnotationAssertion(oboInOwl:hasRelatedSynonym obo:CL_0000129 "MF.microglia.CNS")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000129 "microglia")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:23616747") rdfs:comment obo:CL_0000129 "Unlike macroglial cells, microglial cells arise from hematopoietic stem cells in the yolk sac during early embryogenesis that populate the central nervous system. They derive from embryonic mesoderm and are not from neuroectoderm where glioblast develops from. Markers: Mouse: CD11b+, F4/80+, CD68+. They represent ~12% of the cells in the CNS, but they are not uniformly distributed within the CNS. A normal adult mouse brain has approximately 3.5x10e6 microglia. Microglia are also reportedly CD3-negative, CD4-positive, CD8-negative, CD11b-positive, CD11c-high, CD14-negative, CD19-negative, CD45-low, CD56-negative, CD163-negative, CD200R-positive, CD281-positive, CD282-positive, CD283-positive, CD284-positive, CD285-positive, CD286-positive, CD287-positive, CD288-positive, CD289-positive, Gr1-negative, nestin-positive, and PU.1-positive.")
AnnotationAssertion(rdfs:label obo:CL_0000129 "microglial cell")
EquivalentClasses(obo:CL_0000129 ObjectIntersectionOf(obo:CL_0000125 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001017) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001012) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001813) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002064) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045087)))
Expand Down Expand Up @@ -8184,6 +8185,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000561 "BTO:0004044")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000561 "FMA:67766")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000561 "amacrine neuron")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000561 "ACs")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0000561 "AC")
AnnotationAssertion(rdfs:label obo:CL_0000561 "amacrine cell")
SubClassOf(obo:CL_0000561 obo:CL_0000099)
SubClassOf(obo:CL_0000561 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000966))
Expand Down Expand Up @@ -8296,6 +8299,7 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "MESH:D017949") obo:IAO_000011
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000573 "BTO:0001036")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000573 "CALOHA:TS-0866")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000573 "FMA:67748")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") oboInOwl:hasRelatedSynonym obo:CL_0000573 "cone")
AnnotationAssertion(rdfs:label obo:CL_0000573 "retinal cone cell")
SubClassOf(obo:CL_0000573 obo:CL_0010009)
SubClassOf(obo:CL_0000573 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002672))
Expand Down Expand Up @@ -8589,6 +8593,7 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "MESH:D017948") obo:IAO_000011
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000604 "BTO:0001024")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000604 "CALOHA:TS-0870")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000604 "FMA:67747")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "GSE148077") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") oboInOwl:hasRelatedSynonym obo:CL_0000604 "rod")
AnnotationAssertion(rdfs:label obo:CL_0000604 "retinal rod cell")
SubClassOf(obo:CL_0000604 obo:CL_0010009)
SubClassOf(obo:CL_0000604 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002672))
Expand Down Expand Up @@ -8876,6 +8881,7 @@ SubClassOf(obo:CL_0000635 obo:CL_0002165)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:NV") Annotation(oboInOwl:hasDbXref "PMID:21911394") obo:IAO_0000115 obo:CL_0000636 "Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer.")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000636 "BTO:0003064")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "E-MTAB-7316") Annotation(oboInOwl:hasDbXref "doi:10.21769/BioProtoc.4179") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon/core#MISSPELLING>) oboInOwl:hasExactSynonym obo:CL_0000636 "Muller cell")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000636 "Muller glia")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000636 "Müller cell")
AnnotationAssertion(rdfs:label obo:CL_0000636 "Mueller cell")
Expand Down Expand Up @@ -9754,9 +9760,10 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:dph") obo:IAO_0000115 obo
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000740 "BTO:0001800")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000740 "FMA:67765")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000740 "MESH:D012165")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000740 "RGC")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000740 "gangliocyte")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000740 "ganglion cell of retina")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0000740 "RGC")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000740 "RGCs")
AnnotationAssertion(rdfs:label obo:CL_0000740 "retinal ganglion cell")
SubClassOf(obo:CL_0000740 obo:CL_0000117)
SubClassOf(obo:CL_0000740 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000966))
Expand Down Expand Up @@ -9793,6 +9800,8 @@ SubClassOf(obo:CL_0000744 obo:CL_0000138)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ISBN:0195088433") obo:IAO_0000115 obo:CL_0000745 "A neuron that laterally connects other neurons in the inner nuclear layer of the retina.")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000745 "BTO:0004120")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000745 "horizontal cell")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000745 "HCs")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0000745 "HC")
AnnotationAssertion(rdfs:label obo:CL_0000745 "retina horizontal cell")
SubClassOf(obo:CL_0000745 obo:CL_0000099)
SubClassOf(obo:CL_0000745 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0003902))
Expand Down Expand Up @@ -9827,6 +9836,9 @@ SubClassOf(obo:CL_0000747 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0005005))
# Class: obo:CL_0000748 (retinal bipolar neuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:14689473") obo:IAO_0000115 obo:CL_0000748 "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE137537") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000748 "BPs")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0000748 "BC")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/uberon#PLURAL>) oboInOwl:hasRelatedSynonym obo:CL_0000748 "BCs")
AnnotationAssertion(rdfs:label obo:CL_0000748 "retinal bipolar neuron")
EquivalentClasses(obo:CL_0000748 ObjectIntersectionOf(obo:CL_0000103 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0000966)))
SubClassOf(obo:CL_0000748 obo:CL_0009004)
Expand Down Expand Up @@ -21429,6 +21441,7 @@ AnnotationAssertion(<http://purl.org/dc/terms/contributor> obo:CL_0004217 "https
AnnotationAssertion(<http://purl.org/dc/terms/contributor> obo:CL_0004217 "https://orcid.org/0000-0002-5260-9315")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0004217 "A Horizontal Cell")
AnnotationAssertion(oboInOwl:hasOBONamespace obo:CL_0004217 "cell")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE148077") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0004217 "H1")
AnnotationAssertion(oboInOwl:id obo:CL_0004217 "CL:0004217")
AnnotationAssertion(rdfs:label obo:CL_0004217 "H1 horizontal cell")
SubClassOf(obo:CL_0004217 obo:CL_0000745)
Expand All @@ -21441,6 +21454,7 @@ AnnotationAssertion(<http://purl.org/dc/terms/contributor> obo:CL_0004218 "https
AnnotationAssertion(<http://purl.org/dc/terms/contributor> obo:CL_0004218 "https://orcid.org/0000-0002-5260-9315")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0004218 "B Horizontal Cell")
AnnotationAssertion(oboInOwl:hasOBONamespace obo:CL_0004218 "cell")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GSE148077") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41598-020-66092-9") Annotation(oboInOwl:hasSynonymType <http://purl.obolibrary.org/obo/cl#abbreviation>) oboInOwl:hasRelatedSynonym obo:CL_0004218 "H2")
AnnotationAssertion(oboInOwl:id obo:CL_0004218 "CL:0004218")
AnnotationAssertion(rdfs:label obo:CL_0004218 "H2 horizontal cell")
SubClassOf(obo:CL_0004218 obo:CL_0000745)
Expand Down