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Merge branch 'master' into dosumis-patch-2
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dosumis authored Nov 21, 2023
2 parents 72f99db + 9c84e84 commit d5aab33
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Showing 3 changed files with 19 additions and 4 deletions.
2 changes: 1 addition & 1 deletion .github/workflows/ontobot.yml
Original file line number Diff line number Diff line change
Expand Up @@ -71,7 +71,7 @@ jobs:

- name: Create Pull Request
uses: peter-evans/create-pull-request@v5
# if: ${{ env.PR_TITLE}}
if: ${{ env.PR_TITLE}}
with:
branch-suffix: short-commit-hash
labels: Automated
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19 changes: 17 additions & 2 deletions src/ontology/cl-edit.owl
Original file line number Diff line number Diff line change
Expand Up @@ -2945,6 +2945,7 @@ Declaration(Class(obo:CL_4030063))
Declaration(Class(obo:CL_4030064))
Declaration(Class(obo:CL_4030065))
Declaration(Class(obo:CL_4030066))
Declaration(Class(obo:CL_4030067))
Declaration(Class(obo:CL_4032000))
Declaration(Class(obo:CL_4032001))
Declaration(Class(obo:CL_4033000))
Expand Down Expand Up @@ -4300,6 +4301,7 @@ AnnotationAssertion(oboInOwl:hasRelatedSynonym obo:CL_0000092 "chondroclast")
AnnotationAssertion(rdfs:comment obo:CL_0000092 "Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid.")
AnnotationAssertion(rdfs:label obo:CL_0000092 "osteoclast")
EquivalentClasses(obo:CL_0000092 ObjectIntersectionOf(obo:CL_0000766 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001474) ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_000001850) ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_000001937) ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_000001944) ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_000007597) ObjectSomeValuesFrom(obo:BFO_0000051 obo:PR_000011178) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001954) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000002062) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045453)))
SubClassOf(obo:CL_0000092 obo:CL_0000518)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000092 obo:CL_0000766)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000092 obo:CL_0001035)
SubClassOf(obo:CL_0000092 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000576))
Expand Down Expand Up @@ -4500,6 +4502,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000113 "BTO:0001433")
AnnotationAssertion(rdfs:label obo:CL_0000113 "mononuclear phagocyte")
EquivalentClasses(obo:CL_0000113 ObjectIntersectionOf(obo:CL_0000518 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001407)))
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000113 obo:CL_0000518)
SubClassOf(obo:CL_0000113 obo:CL_0000842)

# Class: obo:CL_0000114 (surface ectodermal cell)

Expand Down Expand Up @@ -5643,6 +5646,7 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000235 "histiocyte")
AnnotationAssertion(rdfs:comment obo:CL_0000235 "Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid.")
AnnotationAssertion(rdfs:label obo:CL_0000235 "macrophage")
EquivalentClasses(obo:CL_0000235 ObjectIntersectionOf(obo:CL_0000766 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002504) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0006909) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0031268)))
SubClassOf(obo:CL_0000235 obo:CL_0000113)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000235 obo:CL_0000766)
SubClassOf(obo:CL_0000235 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000576))

Expand Down Expand Up @@ -7206,6 +7210,7 @@ AnnotationAssertion(oboInOwl:hasRelatedSynonym obo:CL_0000451 "interdigitating c
AnnotationAssertion(oboInOwl:hasRelatedSynonym obo:CL_0000451 "veiled cell")
AnnotationAssertion(rdfs:label obo:CL_0000451 "dendritic cell")
EquivalentClasses(obo:CL_0000451 ObjectIntersectionOf(obo:CL_0000738 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0042613) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001002) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001003) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001020) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001024) ObjectSomeValuesFrom(obo:CL_4030046 obo:PR_000001289) ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001407) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0001816) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002504) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0019882) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045580)))
SubClassOf(obo:CL_0000451 obo:CL_0000113)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000451 obo:CL_0000738)
DisjointClasses(obo:CL_0000451 obo:CL_0000542)

Expand Down Expand Up @@ -8294,6 +8299,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000576 "FMA:62864")
AnnotationAssertion(rdfs:comment obo:CL_0000576 "Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid.")
AnnotationAssertion(rdfs:label obo:CL_0000576 "monocyte")
EquivalentClasses(obo:CL_0000576 ObjectIntersectionOf(obo:CL_0000766 ObjectSomeValuesFrom(obo:RO_0000053 obo:PATO_0001407) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0030225) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0030316) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0043011)))
SubClassOf(obo:CL_0000576 obo:CL_0000113)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000576 obo:CL_0000766)
SubClassOf(obo:CL_0000576 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000559))

Expand Down Expand Up @@ -26250,7 +26256,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000454 "FMA:70982")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1000454 "KUPO:0001059")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "FMA:70982") oboInOwl:hasExactSynonym obo:CL_1000454 "epithelial cell of renal collecting tubule")
AnnotationAssertion(rdfs:label obo:CL_1000454 "kidney collecting duct epithelial cell")
EquivalentClasses(obo:CL_1000454 ObjectIntersectionOf(obo:CL_0000072 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001232)))
EquivalentClasses(obo:CL_1000454 ObjectIntersectionOf(obo:CL_0000066 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001232)))
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000454 obo:CL_0000072)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000454 obo:CL_0002518)
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_1000454 obo:CL_1001225)
Expand Down Expand Up @@ -29441,7 +29447,7 @@ AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023043 "L5/6 NP M1")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4023043 "L5/6 NP MOp")
AnnotationAssertion(oboInOwl:inSubset obo:CL_4023043 <http://purl.obolibrary.org/obo/cl#BDS_subset>)
AnnotationAssertion(rdfs:label obo:CL_4023043 "L5/6 near-projecting glutamatergic neuron of the primary motor cortex")
EquivalentClasses(obo:CL_4023043 ObjectIntersectionOf(obo:CL_4023012 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384) ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_8440002)))
EquivalentClasses(obo:CL_4023043 ObjectIntersectionOf(obo:CL_4030067 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001384)))

# Class: obo:CL_4023044 (non-medulla, extratelencephalic-projecting glutamatergic neuron of the primary motor cortex)

Expand Down Expand Up @@ -31135,6 +31141,15 @@ 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_4030067 (L5/6 near-projecting glutamatergic neuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasDbXref "PMID:37292694") obo:IAO_0000115 obo:CL_4030067 "A near-projecting glutamatergic neuron with a soma found in cortical layer 5/6.")
AnnotationAssertion(<http://purl.org/dc/terms/contributor> obo:CL_4030067 <https://orcid.org/0000-0003-4389-9821>)
AnnotationAssertion(<http://purl.org/dc/terms/date> obo:CL_4030067 "2023-11-17T11:35:06Z"^^xsd:dateTime)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34004146") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4030067 "L5/6 NP")
AnnotationAssertion(rdfs:label obo:CL_4030067 "L5/6 near-projecting glutamatergic neuron")
EquivalentClasses(obo:CL_4030067 ObjectIntersectionOf(obo:CL_4023012 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_8440002)))

# 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.")
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2 changes: 1 addition & 1 deletion src/ontology/cl-idranges.owl
Original file line number Diff line number Diff line change
Expand Up @@ -447,7 +447,7 @@ Datatype: idrange:64

Datatype: idrange:65
Annotations:
allocatedto: "B Varner"
allocatedto: "ad hoc EBI editor"
EquivalentTo:
xsd:integer[>4030000, <= 4031999]

Expand Down

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