From bf069491532c1ccc7493f209add5e4f5da7df5ec Mon Sep 17 00:00:00 2001 From: bvarner-ebi <95643797+bvarner-ebi@users.noreply.github.com> Date: Fri, 13 Oct 2023 15:55:49 +0100 Subject: [PATCH 1/4] Addresses #1281 NTR 'ureteric bud cell' --- src/ontology/cl-edit.owl | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 934a3c23d..fd35fefda 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -2937,6 +2937,7 @@ Declaration(Class(obo:CL_4030055)) Declaration(Class(obo:CL_4030056)) Declaration(Class(obo:CL_4030057)) Declaration(Class(obo:CL_4030058)) +Declaration(Class(obo:CL_4030066)) Declaration(Class(obo:CL_4032000)) Declaration(Class(obo:CL_4032001)) Declaration(Class(obo:CL_4033000)) @@ -31035,6 +31036,15 @@ AnnotationAssertion(Annotation(oboInOwl:SynonymTypeProperty obo:OMO_0003000) Ann AnnotationAssertion(rdfs:label obo:CL_4030058 "TCR-positive macrophage") EquivalentClasses(obo:CL_4030058 ObjectIntersectionOf(obo:CL_0000235 ObjectSomeValuesFrom(obo:RO_0002104 obo:GO_0042101))) +# Class: obo:CL_4030066 (ureteric bud cell) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650
") Annotation(oboInOwl:hasDbXref "PMID:9374839
") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") +AnnotationAssertion( obo:CL_4030066 "https://orcid.org/0000-0002-1425-877X") +AnnotationAssertion( obo:CL_4030066 "2023-10-13T11:22:42Z"^^xsd:dateTime) +AnnotationAssertion(rdfs:label obo:CL_4030066 "ureteric bud cell") +EquivalentClasses(obo:CL_4030066 ObjectIntersectionOf(obo:CL_0000066 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000084))) +SubClassOf(Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:CL_4030066 ObjectSomeValuesFrom(obo:RO_0000056 obo:GO_2001013)) + # Class: obo:CL_4032000 (club-like cell of the urethral epithelium) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:30566875") Annotation(oboInOwl:hasDbXref "PMID:32497356") obo:IAO_0000115 obo:CL_4032000 "An epithelial cell of the urethra that has an expression profile similar to lung club cells. Club-like cells of the urethra epithelium are similar to lung club cells in their expression of SCGB1A1 and in their enrichment of immunomodulatory programs.") From 0aa7f2e0675eb29cd88848256969fa4e6fce09d0 Mon Sep 17 00:00:00 2001 From: bvarner-ebi <95643797+bvarner-ebi@users.noreply.github.com> Date: Fri, 13 Oct 2023 16:23:08 +0100 Subject: [PATCH 2/4] Update cl-edit.owl remove inadvertently pasted line separator. Thanks, @gouttegd and Mark Miller! --- 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 3ac51e1d7..ba7ac925b 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -31108,7 +31108,7 @@ EquivalentClasses(obo:CL_4030065 ObjectIntersectionOf(obo:CL_4023040 ObjectSomeV # Class: obo:CL_4030066 (ureteric bud cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650
") Annotation(oboInOwl:hasDbXref "PMID:9374839
") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") AnnotationAssertion( obo:CL_4030066 "https://orcid.org/0000-0002-1425-877X") AnnotationAssertion( obo:CL_4030066 "2023-10-13T11:22:42Z"^^xsd:dateTime) AnnotationAssertion(rdfs:label obo:CL_4030066 "ureteric bud cell") From 6d7c1b5f64a97585a162e07a21b4089c986fc2ed Mon Sep 17 00:00:00 2001 From: bvarner-ebi <95643797+bvarner-ebi@users.noreply.github.com> Date: Mon, 16 Oct 2023 13:42:34 +0100 Subject: [PATCH 3/4] Update cl-edit.owl add synonym --- src/ontology/cl-edit.owl | 1 + 1 file changed, 1 insertion(+) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index ba7ac925b..17f14a2ac 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -31111,6 +31111,7 @@ EquivalentClasses(obo:CL_4030065 ObjectIntersectionOf(obo:CL_4023040 ObjectSomeV AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") AnnotationAssertion( obo:CL_4030066 "https://orcid.org/0000-0002-1425-877X") AnnotationAssertion( obo:CL_4030066 "2023-10-13T11:22:42Z"^^xsd:dateTime) +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4030066 "UB cell") AnnotationAssertion(rdfs:label obo:CL_4030066 "ureteric bud cell") EquivalentClasses(obo:CL_4030066 ObjectIntersectionOf(obo:CL_0000066 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000084))) SubClassOf(Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:CL_4030066 ObjectSomeValuesFrom(obo:RO_0000056 obo:GO_2001013)) From d5a2942728e80ec9900a594e29c9d4b8d54c5543 Mon Sep 17 00:00:00 2001 From: bvarner-ebi <95643797+bvarner-ebi@users.noreply.github.com> Date: Mon, 16 Oct 2023 15:23:26 +0100 Subject: [PATCH 4/4] Update cl-edit.owl update text def --- 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 17f14a2ac..4ec004360 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -31108,7 +31108,7 @@ EquivalentClasses(obo:CL_4030065 ObjectIntersectionOf(obo:CL_4023040 ObjectSomeV # Class: obo:CL_4030066 (ureteric bud cell) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17133361") Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasDbXref "PMID:9374839") obo:IAO_0000115 obo:CL_4030066 "An epithelial cell that is part of a ureteric bud. A ureteric bud cell has the potential to induce metanephric mesenchymal cells to proliferate and convert to epithelia that form renal tubules via: (1) the secretion of multiple diffusible growth factors that rescue renal progenitors from apoptosis and stimulate them to proliferate and (2) contact-dependent mechanisms that induce mesenchymal-epithelial conversion.") AnnotationAssertion( obo:CL_4030066 "https://orcid.org/0000-0002-1425-877X") AnnotationAssertion( obo:CL_4030066 "2023-10-13T11:22:42Z"^^xsd:dateTime) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:24183650") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4030066 "UB cell")