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kidney afferent arteriole cell and 2 subclasses text def added #2466

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merged 5 commits into from
Aug 13, 2024
Merged

kidney afferent arteriole cell and 2 subclasses text def added #2466

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52bba85
text def added
JABelfiore Jul 25, 2024
c1e6ef2
subclass text defs refined
JABelfiore Aug 8, 2024
8f59459
removed 'type' and glomerulus specification in general def
JABelfiore Aug 8, 2024
03bfc6c
plurals removed for alignment
JABelfiore Aug 8, 2024
4706e52
Merge branch 'master' into 2264-text-def-kidney-afferent-arteriole-cell
Caroline-99 Aug 9, 2024
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6 changes: 5 additions & 1 deletion src/ontology/cl-edit.owl
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Expand Up @@ -27138,6 +27138,8 @@ EquivalentClasses(obo:CL_1001005 ObjectIntersectionOf(obo:CL_1000892 ObjectSomeV

# Class: obo:CL_1001006 (kidney afferent arteriole cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:16990493") Annotation(oboInOwl:hasDbXref "PMID:22733355") Annotation(oboInOwl:hasDbXref "PMID:24066938") Annotation(oboInOwl:hasDbXref "PMID:25834230") obo:IAO_0000115 obo:CL_1001006 "A cell typically found in renal vasculature which is primarily responsible for maintaining renal blood flow and glomerular filtration rate. This cell type regulates blood pressure and fluid balance by controlling the expansion or contraction of the arteriole before the glomerulus through autoregulation mechanisms such as the myogenic response and tubuloglomerular feedback.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:16990493") Annotation(oboInOwl:hasDbXref "PMID:22733355") Annotation(oboInOwl:hasDbXref "PMID:24066938") Annotation(oboInOwl:hasDbXref "PMID:25834230") dc:description obo:CL_1001006 "Additionally, these cells interact with renin-containing juxtaglomerular cells to initiate the renin-angiotensin-aldosterone system, which increases blood volume and pressure.")
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AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001006 "KUPO:0001038")
AnnotationAssertion(rdfs:label obo:CL_1001006 "kidney afferent arteriole cell")
EquivalentClasses(obo:CL_1001006 ObjectIntersectionOf(obo:CL_1000891 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004639)))
Expand Down Expand Up @@ -27225,6 +27227,7 @@ SubClassOf(obo:CL_1001068 obo:CL_1000893)

# Class: obo:CL_1001096 (kidney afferent arteriole endothelial cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:16990493") Annotation(oboInOwl:hasDbXref "PMID:22733355") Annotation(oboInOwl:hasDbXref "PMID:24066938") Annotation(oboInOwl:hasDbXref "PMID:25834230") obo:IAO_0000115 obo:CL_1001096 "An endothelial cell typically found in renal vasculature which is primarily responsible for maintaining renal blood flow and glomerular filtration rate. This cell type regulates blood pressure and fluid balance by controlling the expansion or contraction of the arteriole before the glomerulus through autoregulation mechanisms such as the myogenic response and tubuloglomerular feedback.")
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References all good!
Just as a suggestion I would change a bit the text definition and remove 'typically found' but substitute it with cell location
for instance:

An endothelial cell which is part of the arteriole in the renal vasculature
or something similar

AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001096 "KUPO:0001039")
AnnotationAssertion(rdfs:label obo:CL_1001096 "kidney afferent arteriole endothelial cell")
EquivalentClasses(obo:CL_1001096 ObjectIntersectionOf(obo:CL_0000115 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004639)))
Expand All @@ -27234,6 +27237,7 @@ SubClassOf(obo:CL_1001096 obo:CL_1001006)

# Class: obo:CL_1001097 (kidney afferent arteriole smooth muscle cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:16990493") Annotation(oboInOwl:hasDbXref "PMID:22733355") Annotation(oboInOwl:hasDbXref "PMID:24066938") Annotation(oboInOwl:hasDbXref "PMID:25834230") obo:IAO_0000115 obo:CL_1001097 "A smooth muscle cell typically found in renal vasculature which is primarily responsible for maintaining renal blood flow and glomerular filtration rate. This cell type regulates blood pressure and fluid balance by controlling the expansion or contraction of the arteriole before the glomerulus through autoregulation mechanisms such as the myogenic response and tubuloglomerular feedback.")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001097 "KUPO:0001040")
AnnotationAssertion(rdfs:label obo:CL_1001097 "kidney afferent arteriole smooth muscle cell")
EquivalentClasses(obo:CL_1001097 ObjectIntersectionOf(obo:CL_0000192 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004639)))
Expand Down Expand Up @@ -30948,7 +30952,7 @@ SubClassOf(obo:CL_4030039 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0070006))

# Class: obo:CL_4030040 (endometrial ciliated epithelial cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31290979") Annotation(oboInOwl:hasDbXref "PMID:37999981") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41591-020-1040-z") Annotation(oboInOwl:hasDbXref "https://www.proteinatlas.org/humanproteome/single+cell+type/Glandular+epithelial+cells#endometrialciliatedcells") Annotation(oboInOwl:hasDbXref "doi:10.1016/j.coemr.2024.100503") obo:IAO_0000115 obo:CL_4030040 "A multi-ciliated cell of the endometrial epithelium. This cell is characterized by the presence of 9+2 motile cilia on its apical surface, which facilitates the movement of mucus across the endometrial surface.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31290979") Annotation(oboInOwl:hasDbXref "PMID:37999981") Annotation(oboInOwl:hasDbXref "doi:10.1016/j.coemr.2024.100503") Annotation(oboInOwl:hasDbXref "doi:10.1038/s41591-020-1040-z") Annotation(oboInOwl:hasDbXref "https://www.proteinatlas.org/humanproteome/single+cell+type/Glandular+epithelial+cells#endometrialciliatedcells") obo:IAO_0000115 obo:CL_4030040 "A multi-ciliated cell of the endometrial epithelium. This cell is characterized by the presence of 9+2 motile cilia on its apical surface, which facilitates the movement of mucus across the endometrial surface.")
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you can change this reference DOI: 10.1016/j.coemr.2024.100503 for its respective PMID: 38293616 and this reference DOI: 10.1038/s41591-020-1040-z for its respective PMID: 32929266

AnnotationAssertion(terms:date obo:CL_4030040 "2023-02-09T11:25:14Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4030040 "ciliated cell of the uterus")
AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_4030040 "uterine ciliated cell")
Expand Down
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