From 704205ead6fc39f4e4eebd9418c1b998afade4f5 Mon Sep 17 00:00:00 2001 From: JABelfiore Date: Thu, 5 Dec 2024 11:12:59 +0000 Subject: [PATCH 1/4] Smooth muscle cell of stomach definition, description and refs added --- src/ontology/cl-edit.owl | 12 +++++++++++- 1 file changed, 11 insertions(+), 1 deletion(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index ecb95e708..8770e04ca 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -3104,6 +3104,7 @@ Declaration(Class(obo:CL_4047025)) Declaration(Class(obo:CL_4047029)) Declaration(Class(obo:CL_4047030)) Declaration(Class(obo:CL_4047032)) +Declaration(Class(obo:CL_4047034)) Declaration(Class(obo:CL_4047051)) Declaration(Class(obo:CL_4047052)) Declaration(Class(obo:CL_4047101)) @@ -31164,8 +31165,8 @@ EquivalentClasses(obo:CL_4030033 ObjectIntersectionOf(obo:CL_0000115 ObjectSomeV AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18757316") Annotation(oboInOwl:hasDbXref "PMID:21364219") Annotation(oboInOwl:hasDbXref "PMID:34044844") Annotation(oboInOwl:hasDbXref "PMID:37834236") obo:IAO_0000115 obo:CL_4030034 "A multiciliated epithelial cell located in the respiratory tract epithelium, characterized by a columnar shape and motile cilia on its apical surface. This cell develops through a highly orchestrated process, transitioning from a basal progenitor via an intermediate deuterosomal cell stage that generates centrioles essential for ciliogenesis.") AnnotationAssertion(terms:date obo:CL_4030034 "2023-01-25T11:06:01Z"^^xsd:dateTime) AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "ciliated cell of the respiratory tract") -AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "respiratory multiciliated cell") AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "respiratory ciliated cell") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4030034 "respiratory multiciliated cell") AnnotationAssertion(rdfs:label obo:CL_4030034 "respiratory tract multiciliated cell") EquivalentClasses(obo:CL_4030034 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004802) ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0031514) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0010007))) SubClassOf(obo:CL_4030034 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_4033044)) @@ -33012,6 +33013,15 @@ SubClassOf(obo:CL_4047032 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0001816)) SubClassOf(obo:CL_4047032 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0032940)) SubClassOf(obo:CL_4047032 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045765)) +# Class: obo:CL_4047034 (smooth muscle cell of stomach) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:https://doi.org/10.1186/s13619-020-00061-5") Annotation(oboInOwl:hasDbXref "PMID:21443757") Annotation(oboInOwl:hasDbXref "PMID:33630273") obo:IAO_0000115 obo:CL_4047034 "A specialized, non-striated contractile cell located in the muscularis externa of the stomach wall. It is characterized by its fusiform shape, involuntary control, and ability to generate slow, sustained contractions. This cell is organized in distinct layers and is essential for gastric motility and digestion.") +AnnotationAssertion(terms:contributor obo:CL_4047034 ) +AnnotationAssertion(terms:date obo:CL_4047034 "2024-12-05T11:10:18Z"^^xsd:dateTime) +AnnotationAssertion(rdfs:label obo:CL_4047034 "smooth muscle cell of stomach"@en) +SubClassOf(obo:CL_4047034 obo:CL_0000192) +SubClassOf(obo:CL_4047034 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004222)) + # Class: obo:CL_4047051 (small intestine BEST4+ enterocyte) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24223998") Annotation(oboInOwl:hasDbXref "PMID:34497389") obo:IAO_0000115 obo:CL_4047051 "An enterocyte of the human small intestine expressing bestrophin-4 (BEST4) calcium-activated ion channels. These enterocytes have a disinctive transcriptomic profile and are scattered through the small intestine epithelium.") From 29dab1e74bc8664d791736c11d29c4f65bf9204e Mon Sep 17 00:00:00 2001 From: JABelfiore Date: Thu, 5 Dec 2024 11:14:00 +0000 Subject: [PATCH 2/4] ref edit --- src/ontology/cl-edit.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 8770e04ca..b12a75d93 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -33015,7 +33015,7 @@ SubClassOf(obo:CL_4047032 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045765)) # Class: obo:CL_4047034 (smooth muscle cell of stomach) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "DOI:https://doi.org/10.1186/s13619-020-00061-5") Annotation(oboInOwl:hasDbXref "PMID:21443757") Annotation(oboInOwl:hasDbXref "PMID:33630273") obo:IAO_0000115 obo:CL_4047034 "A specialized, non-striated contractile cell located in the muscularis externa of the stomach wall. It is characterized by its fusiform shape, involuntary control, and ability to generate slow, sustained contractions. This cell is organized in distinct layers and is essential for gastric motility and digestion.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:21443757") Annotation(oboInOwl:hasDbXref "PMID:33630273") obo:IAO_0000115 obo:CL_4047034 "A specialized, non-striated contractile cell located in the muscularis externa of the stomach wall. It is characterized by its fusiform shape, involuntary control, and ability to generate slow, sustained contractions. This cell is organized in distinct layers and is essential for gastric motility and digestion.") AnnotationAssertion(terms:contributor obo:CL_4047034 ) AnnotationAssertion(terms:date obo:CL_4047034 "2024-12-05T11:10:18Z"^^xsd:dateTime) AnnotationAssertion(rdfs:label obo:CL_4047034 "smooth muscle cell of stomach"@en) From 6adfbb358fff46a2a7cbb94aee8bffb3a69c7b47 Mon Sep 17 00:00:00 2001 From: JABelfiore Date: Thu, 5 Dec 2024 12:04:20 +0000 Subject: [PATCH 3/4] style update --- src/ontology/cl-edit.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index b12a75d93..a9d5695ee 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -33015,7 +33015,7 @@ SubClassOf(obo:CL_4047032 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045765)) # Class: obo:CL_4047034 (smooth muscle cell of stomach) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:21443757") Annotation(oboInOwl:hasDbXref "PMID:33630273") obo:IAO_0000115 obo:CL_4047034 "A specialized, non-striated contractile cell located in the muscularis externa of the stomach wall. It is characterized by its fusiform shape, involuntary control, and ability to generate slow, sustained contractions. This cell is organized in distinct layers and is essential for gastric motility and digestion.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:21443757") Annotation(oboInOwl:hasDbXref "PMID:33630273") obo:IAO_0000115 obo:CL_4047034 "A smooth muscle cell that is part of the muscularis externa of the stomach wall. It is characterized by its fusiform shape, involuntary control, and ability to generate slow, sustained contractions. This cell is organized in distinct layers and is essential for gastric motility and digestion.") AnnotationAssertion(terms:contributor obo:CL_4047034 ) AnnotationAssertion(terms:date obo:CL_4047034 "2024-12-05T11:10:18Z"^^xsd:dateTime) AnnotationAssertion(rdfs:label obo:CL_4047034 "smooth muscle cell of stomach"@en) From 86f32c0b46b169e42b7d11442f3522b848a2c45e Mon Sep 17 00:00:00 2001 From: JABelfiore Date: Thu, 5 Dec 2024 12:11:50 +0000 Subject: [PATCH 4/4] partonomy update to stomach muscularis externa --- src/ontology/cl-edit.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index a9d5695ee..401e04824 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -33020,7 +33020,7 @@ AnnotationAssertion(terms:contributor obo:CL_4047034