Fixes #2524 Added intercalated cell of salivary gland and striated ce…

…ll of salivary gland (#2559) * Added two cell terms -Imported two uberon terms UBERON_0014727 and UBERON_0014729 -Added two cell types with textual and logical defs, synonyms and references * Update cl-edit.owl * GO terms imported and added to striated cell of salivary gland GO terms imported and added to striated cell of salivary gland * added synonyms * Update cl-edit.owl --------- Co-authored-by: Alida Avola <[email protected]>
obophenotype · Sep 17, 2024 · 9e065f8 · 9e065f8
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Showing 6 changed files with 1,324 additions and 10 deletions.
diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl
@@ -3072,6 +3072,8 @@ Declaration(Class(obo:CL_4047051))
 Declaration(Class(obo:CL_4047052))
 Declaration(Class(obo:CL_4052001))
 Declaration(Class(obo:CL_4052002))
+Declaration(Class(obo:CL_4052048))
+Declaration(Class(obo:CL_4052049))
 Declaration(Class(obo:CP_0000000))
 Declaration(Class(obo:CP_0000025))
 Declaration(Class(obo:CP_0000027))
@@ -3085,18 +3087,21 @@ Declaration(Class(obo:D96882F1-8709-49AB-BCA9-772A67EA6C33))
 Declaration(Class(obo:GO_0005903))
 Declaration(Class(obo:GO_0031045))
 Declaration(Class(obo:GO_0036053))
+Declaration(Class(obo:GO_0036376))
 Declaration(Class(obo:GO_0042599))
 Declaration(Class(obo:GO_0044316))
 Declaration(Class(obo:GO_0070278))
 Declaration(Class(obo:GO_0070483))
 Declaration(Class(obo:GO_0097729))
 Declaration(Class(obo:GO_0098594))
+Declaration(Class(obo:GO_1990573))
 Declaration(Class(obo:NCBITaxon_4896))
 Declaration(Class(obo:NCBITaxon_6157))
 Declaration(Class(obo:NCBITaxon_6237))
 Declaration(Class(obo:NCBITaxon_9789))
 Declaration(Class(obo:PATO_0000405))
 Declaration(Class(obo:PATO_0001377))
+Declaration(Class(obo:PATO_0001408))
 Declaration(Class(obo:PATO_0001870))
 Declaration(Class(obo:PATO_0001979))
 Declaration(Class(obo:PATO_0002064))
@@ -3188,6 +3193,8 @@ Declaration(Class(obo:UBERON_0011949))
 Declaration(Class(obo:UBERON_0012398))
 Declaration(Class(obo:UBERON_0012399))
 Declaration(Class(obo:UBERON_0012419))
+Declaration(Class(obo:UBERON_0014727))
+Declaration(Class(obo:UBERON_0014729))
 Declaration(Class(obo:UBERON_0027368))
 Declaration(Class(obo:UBERON_0027371))
 Declaration(Class(obo:UBERON_8400006))
@@ -21997,7 +22004,7 @@ SubClassOf(obo:CL_0005011 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0046717))
 
 # Class: obo:CL_0005012 (multi-ciliated epithelial cell)
 
-AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CL:CVS") Annotation(oboInOwl:hasDbXref "PMID:28400610") Annotation(oboInOwl:hasDbXref "PMID:38032388") Annotation(oboInOwl:hasDbXref "PMID:30422572") obo:IAO_0000115 obo:CL_0005012 "A columnar/cuboidal epithelial cell with multiple motile cilia on its apical surface. These cells facilitate the movement of liquids such as mucus or cerebrospinal fluid across the epithelial surface.")
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CL:CVS") Annotation(oboInOwl:hasDbXref "PMID:28400610") Annotation(oboInOwl:hasDbXref "PMID:30422572") Annotation(oboInOwl:hasDbXref "PMID:38032388") obo:IAO_0000115 obo:CL_0005012 "A columnar/cuboidal epithelial cell with multiple motile cilia on its apical surface. These cells facilitate the movement of liquids such as mucus or cerebrospinal fluid across the epithelial surface.")
 AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_0005012 "multi-ciliated cell"@en)
 AnnotationAssertion(oboInOwl:hasBroadSynonym obo:CL_0005012 "multiciliated cell"@en)
 AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0005012 "multiciliated epithelial cell"@en)
@@ -27994,6 +28001,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001596 "CALOHA:TS-1282")
 AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1282") oboInOwl:hasRelatedSynonym obo:CL_1001596 "salivary gland glandular cells")
 AnnotationAssertion(rdfs:label obo:CL_1001596 "salivary gland glandular cell")
 EquivalentClasses(obo:CL_1001596 ObjectIntersectionOf(obo:CL_0000150 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001044)))
+SubClassOf(obo:CL_1001596 obo:CL_0009005)
 SubClassOf(obo:CL_1001596 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004809))
 
 # Class: obo:CL_1001597 (seminal vesicle glandular cell)
@@ -32450,6 +32458,35 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:9067520") Annotation(obo
 AnnotationAssertion(rdfs:label obo:CL_4052002 "syncytial cell")
 EquivalentClasses(obo:CL_4052002 ObjectIntersectionOf(obo:CL_0000000 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001908) ObjectSomeValuesFrom(obo:RO_0000056 obo:GO_0000768)))
 
+# Class: obo:CL_4052048 (intercalated cell of salivary gland)
+
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30855909") Annotation(oboInOwl:hasDbXref "PMID:35799078") Annotation(oboInOwl:hasDbXref "PMID:36726292") Annotation(oboInOwl:hasDbXref "PMID:37724716") obo:IAO_0000115 obo:CL_4052048 "A cuboidal epithelial cell that is part of the intercalated duct of salivary gland. This cell expresses proteins commonly associated with acinar cells and displays calcium signaling characteristics similar to secretory cells, indicating an active role in the secretory process rather than ion reabsorption.")
+AnnotationAssertion(terms:contributor obo:CL_4052048 <https://orcid.org/0000-0003-4389-9821>)
+AnnotationAssertion(terms:contributor obo:CL_4052048 <https://orcid.org/0009-0000-8480-9277>)
+AnnotationAssertion(terms:date obo:CL_4052048 "2024-09-11T09:55:55Z"^^xsd:dateTime)
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37724716") oboInOwl:hasBroadSynonym obo:CL_4052048 "intercalated duct cell")
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37724716") oboInOwl:hasExactSynonym obo:CL_4052048 "salivary intercalated duct cells")
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:35799078") oboInOwl:hasRelatedSynonym obo:CL_4052048 "Id cell")
+AnnotationAssertion(rdfs:label obo:CL_4052048 "intercalated cell of salivary gland")
+SubClassOf(obo:CL_4052048 obo:CL_1001596)
+SubClassOf(obo:CL_4052048 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0014727))
+SubClassOf(obo:CL_4052048 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0015766))
+
+# Class: obo:CL_4052049 (striated cell of salivary gland)
+
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30855909") Annotation(oboInOwl:hasDbXref "PMID:34147989") Annotation(oboInOwl:hasDbXref "PMID:36726292") obo:IAO_0000115 obo:CL_4052049 "An columnar/cuboidal epithelial cell that is part of the striated duct of salivary gland, characterized by basal striations formed by infoldings of the plasma membrane. This cell play a crucial role in modifying the electrolyte composition and concentration of saliva through active ion transport, particularly the absorption of sodium and secretion of potassium.")
+AnnotationAssertion(terms:contributor obo:CL_4052049 <https://orcid.org/0000-0003-4389-9821>)
+AnnotationAssertion(terms:contributor obo:CL_4052049 <https://orcid.org/0009-0000-8480-9277>)
+AnnotationAssertion(terms:date obo:CL_4052049 "2024-09-11T10:00:25Z"^^xsd:dateTime)
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:11590591") oboInOwl:hasBroadSynonym obo:CL_4052049 "SD cells")
+AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:11590591") oboInOwl:hasBroadSynonym obo:CL_4052049 "striated duct cells")
+AnnotationAssertion(rdfs:label obo:CL_4052049 "striated cell of salivary gland")
+EquivalentClasses(obo:CL_4052049 ObjectIntersectionOf(obo:CL_0000075 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0014729)))
+SubClassOf(obo:CL_4052049 obo:CL_1001596)
+SubClassOf(obo:CL_4052049 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0015766))
+SubClassOf(obo:CL_4052049 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0036376))
+SubClassOf(obo:CL_4052049 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_1990573))
+
 # Class: obo:CP_0000000 (obsolete CP:0000000)
 
 AnnotationAssertion(obo:IAO_0100001 obo:CP_0000000 obo:CL_0017500)

diff --git a/src/ontology/imports/go_terms.txt b/src/ontology/imports/go_terms.txt
@@ -9,4 +9,6 @@ GO:0099096
 GO:0004990
 GO:0070278
 GO:0000279
-GO:0036053
+GO:0036053
+GO:0036376
+GO:1990573