From 1ad2ef7beae84013c088c17a91eb7c5f5773d16d Mon Sep 17 00:00:00 2001 From: "alida.avola@icloud.com" Date: Wed, 16 Oct 2024 11:55:58 +0100 Subject: [PATCH 1/3] Obsolete neuronal brush cells and adjust logical definition of tanycyte Fixes #2514 #2634 --- src/ontology/cl-edit.owl | 12 +-- src/ontology/imports/merged_import.owl | 116 +++++++++++++------------ 2 files changed, 67 insertions(+), 61 deletions(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 588dbc3bf..e246ebd82 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -3330,7 +3330,7 @@ AnnotationAssertion(rdfs:label obo:IAO_0000115 "definition") AnnotationAssertion(rdfs:label obo:IAO_0000424 "expand expression to") -# Annotation Property: obo:IAO_0000700 (preferred_root) +# Annotation Property: obo:IAO_0000700 (has ontology root term) AnnotationAssertion(rdfs:label obo:IAO_0000700 "preferred_root") @@ -3424,11 +3424,11 @@ AnnotationAssertion(rdfs:label oboInOwl:hasBroadSynonym "has_broad_synonym") AnnotationAssertion(rdfs:label oboInOwl:hasDbXref "database_cross_reference") -# Annotation Property: oboInOwl:hasExactSynonym (has_exact_synonym) +# Annotation Property: oboInOwl:hasExactSynonym (has exact synonym) AnnotationAssertion(rdfs:label oboInOwl:hasExactSynonym "has_exact_synonym") -# Annotation Property: oboInOwl:hasNarrowSynonym (has_narrow_synonym) +# Annotation Property: oboInOwl:hasNarrowSynonym (has narrow synonym) AnnotationAssertion(rdfs:label oboInOwl:hasNarrowSynonym "has_narrow_synonym") @@ -8218,10 +8218,9 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") obo:IAO_0000115 obo AnnotationAssertion(rdfs:label obo:CL_0000554 "gastrin stimulating hormone secreting cell") SubClassOf(obo:CL_0000554 obo:CL_0000167) -# Class: obo:CL_0000555 (neuronal brush cell) +# Class: obo:CL_0000555 (obsolete neuronal brush cell) -AnnotationAssertion(rdfs:label obo:CL_0000555 "neuronal brush cell") -SubClassOf(obo:CL_0000555 obo:CL_0000117) +AnnotationAssertion(rdfs:label obo:CL_0000555 "obsolete neuronal brush cell") # Class: obo:CL_0000556 (megakaryocyte) @@ -14590,6 +14589,7 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002085 "BTO:0001953") AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002085 "FMA:54560") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:29351662") oboInOwl:hasExactSynonym obo:CL_0002085 "stretch cell") AnnotationAssertion(rdfs:label obo:CL_0002085 "tanycyte") +SubClassOf(obo:CL_0002085 obo:CL_0000065) SubClassOf(obo:CL_0002085 obo:CL_0000683) SubClassOf(obo:CL_0002085 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004670)) diff --git a/src/ontology/imports/merged_import.owl b/src/ontology/imports/merged_import.owl index d1e2a21f9..36a4260a5 100644 --- a/src/ontology/imports/merged_import.owl +++ b/src/ontology/imports/merged_import.owl @@ -14325,8 +14325,8 @@ We don't have definitions of 'meaning' or 'expression' or 'property'. For 'refer Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with."@en) -AnnotationAssertion(rdfs:label "definition"@en) AnnotationAssertion(rdfs:label "definition") +AnnotationAssertion(rdfs:label "definition"@en) # Annotation Property: (editor note) @@ -14347,8 +14347,8 @@ AnnotationAssertion( "true"^^xsd:boolean) AnnotationAssertion( "term_tracker_item") AnnotationAssertion(rdfs:comment "The 'tracker item' can associate a tracker with a specific ontology term."@en) -AnnotationAssertion(rdfs:label "term tracker item"@en) AnnotationAssertion(rdfs:label "term tracker item") +AnnotationAssertion(rdfs:label "term tracker item"@en) # Annotation Property: (expand expression to) @@ -14363,15 +14363,15 @@ AnnotationAssertion( "has_ontology_root_term") AnnotationAssertion( "true"^^xsd:boolean) AnnotationAssertion( "has_ontology_root_term") -AnnotationAssertion(rdfs:label "has ontology root term"@en) AnnotationAssertion(rdfs:label "has ontology root term") +AnnotationAssertion(rdfs:label "has ontology root term"@en) # Annotation Property: (term replaced by) AnnotationAssertion( "Use on obsolete terms, relating the term to another term that can be used as a substitute"@en) AnnotationAssertion(rdfs:comment "Add as annotation triples in the granting ontology"@en) -AnnotationAssertion(rdfs:label "term replaced by"@en) AnnotationAssertion(rdfs:label "term replaced by") +AnnotationAssertion(rdfs:label "term replaced by"@en) # Annotation Property: (defined by construct) @@ -14870,12 +14870,12 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "part_of") -AnnotationAssertion(rdfs:label "part of"@en) AnnotationAssertion(rdfs:label "part of") +AnnotationAssertion(rdfs:label "part of"@en) AnnotationAssertion(rdfs:seeAlso ) AnnotationAssertion(rdfs:seeAlso ) -AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Part_of"^^xsd:anyURI) AnnotationAssertion(rdfs:seeAlso "http://www.obofoundry.org/ro/#OBO_REL:part_of") +AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Part_of"^^xsd:anyURI) SubObjectPropertyOf( ) InverseObjectProperties( ) TransitiveObjectProperty() @@ -14895,8 +14895,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "has_part") -AnnotationAssertion(rdfs:label "has part"@en) AnnotationAssertion(rdfs:label "has part") +AnnotationAssertion(rdfs:label "has part"@en) SubObjectPropertyOf( ) TransitiveObjectProperty() @@ -14909,8 +14909,8 @@ AnnotationAssertion( "preceded_by") AnnotationAssertion( ) AnnotationAssertion( "preceded_by") -AnnotationAssertion(rdfs:label "preceded by"@en) AnnotationAssertion(rdfs:label "preceded by") +AnnotationAssertion(rdfs:label "preceded by"@en) SubObjectPropertyOf( ) InverseObjectProperties( ) TransitiveObjectProperty() @@ -14925,8 +14925,8 @@ AnnotationAssertion( "precedes") AnnotationAssertion( ) AnnotationAssertion( "precedes") -AnnotationAssertion(rdfs:label "precedes"@en) AnnotationAssertion(rdfs:label "precedes") +AnnotationAssertion(rdfs:label "precedes"@en) SubObjectPropertyOf( ) TransitiveObjectProperty() ObjectPropertyDomain( ) @@ -14943,8 +14943,8 @@ AnnotationAssertion( ) AnnotationAssertion( "occurs_in") AnnotationAssertion(rdfs:comment "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant") -AnnotationAssertion(rdfs:label "occurs in"@en) AnnotationAssertion(rdfs:label "occurs in") +AnnotationAssertion(rdfs:label "occurs in"@en) AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Occurs_in"^^xsd:anyURI) InverseObjectProperties( ) ObjectPropertyDomain( ) @@ -14992,8 +14992,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "bearer_of") AnnotationAssertion( "bearer_of") -AnnotationAssertion(rdfs:label "has characteristic"@en) AnnotationAssertion(rdfs:label "bearer of") +AnnotationAssertion(rdfs:label "has characteristic"@en) InverseFunctionalObjectProperty() ObjectPropertyRange( ) @@ -15004,8 +15004,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "participates_in") AnnotationAssertion( "participates_in") -AnnotationAssertion(rdfs:label "participates in"@en) AnnotationAssertion(rdfs:label "participates in") +AnnotationAssertion(rdfs:label "participates in"@en) InverseObjectProperties( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15018,8 +15018,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "has_participant") AnnotationAssertion( "has_participant") -AnnotationAssertion(rdfs:label "has participant"@en) AnnotationAssertion(rdfs:label "has participant") +AnnotationAssertion(rdfs:label "has participant"@en) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15126,8 +15126,8 @@ AnnotationAssertion( ) AnnotationAssertion( "bounding_layer_of") AnnotationAssertion(rdfs:comment "A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane.") -AnnotationAssertion(rdfs:label "bounding layer of"@en) AnnotationAssertion(rdfs:label "bounding layer of") +AnnotationAssertion(rdfs:label "bounding layer of"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) ObjectPropertyRange( ) @@ -15172,8 +15172,8 @@ AnnotationAssertion( "immediately_preceded_by") AnnotationAssertion( "immediately_preceded_by") AnnotationAssertion(rdfs:comment "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)"@en) -AnnotationAssertion(rdfs:label "immediately preceded by"@en) AnnotationAssertion(rdfs:label "immediately preceded by") +AnnotationAssertion(rdfs:label "immediately preceded by"@en) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15185,8 +15185,8 @@ AnnotationAssertion( ) AnnotationAssertion( "immediately_precedes") AnnotationAssertion(rdfs:comment "X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)"@en) -AnnotationAssertion(rdfs:label "immediately precedes"@en) AnnotationAssertion(rdfs:label "immediately precedes") +AnnotationAssertion(rdfs:label "immediately precedes"@en) SubObjectPropertyOf( ) # Object Property: (has soma location) @@ -15292,8 +15292,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "overlaps") -AnnotationAssertion(rdfs:label "overlaps"@en) AnnotationAssertion(rdfs:label "overlaps") +AnnotationAssertion(rdfs:label "overlaps"@en) SubObjectPropertyOf( ) SymmetricObjectProperty() @@ -15414,8 +15414,8 @@ AnnotationAssertion( "has_component") AnnotationAssertion( ) AnnotationAssertion( "has_component") -AnnotationAssertion(rdfs:label "has component"@en) AnnotationAssertion(rdfs:label "has component") +AnnotationAssertion(rdfs:label "has component"@en) AnnotationAssertion(rdfs:seeAlso ) SubObjectPropertyOf( ) @@ -15479,8 +15479,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "regulates") -AnnotationAssertion(rdfs:label "regulates"@en) AnnotationAssertion(rdfs:label "regulates") +AnnotationAssertion(rdfs:label "regulates"@en) SubObjectPropertyOf( ) InverseObjectProperties( ) TransitiveObjectProperty() @@ -15498,8 +15498,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "negatively_regulates") -AnnotationAssertion(rdfs:label "negatively regulates"@en) AnnotationAssertion(rdfs:label "negatively regulates") +AnnotationAssertion(rdfs:label "negatively regulates"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15514,8 +15514,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "positively_regulates") -AnnotationAssertion(rdfs:label "positively regulates"@en) AnnotationAssertion(rdfs:label "positively regulates") +AnnotationAssertion(rdfs:label "positively regulates"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15529,8 +15529,8 @@ AnnotationAssertion( "capable_of") AnnotationAssertion( ) AnnotationAssertion( "capable_of") -AnnotationAssertion(rdfs:label "capable of"@en) AnnotationAssertion(rdfs:label "capable of") +AnnotationAssertion(rdfs:label "capable of"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15542,8 +15542,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "capable_of_part_of") AnnotationAssertion( "capable_of_part_of") -AnnotationAssertion(rdfs:label "capable of part of"@en) AnnotationAssertion(rdfs:label "capable of part of") +AnnotationAssertion(rdfs:label "capable of part of"@en) AnnotationAssertion(rdfs:seeAlso ) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -15566,8 +15566,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "adjacent_to") -AnnotationAssertion(rdfs:label "adjacent to"@en) AnnotationAssertion(rdfs:label "adjacent to") +AnnotationAssertion(rdfs:label "adjacent to"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15604,8 +15604,8 @@ AnnotationAssertion( "starts_with") AnnotationAssertion( ) AnnotationAssertion( "starts_with") -AnnotationAssertion(rdfs:label "starts with"@en) AnnotationAssertion(rdfs:label "starts with") +AnnotationAssertion(rdfs:label "starts with"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) TransitiveObjectProperty() @@ -15640,8 +15640,8 @@ AnnotationAssertion( "ends_with") AnnotationAssertion( ) AnnotationAssertion( "ends_with") -AnnotationAssertion(rdfs:label "ends with"@en) AnnotationAssertion(rdfs:label "ends with") +AnnotationAssertion(rdfs:label "ends with"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) TransitiveObjectProperty() @@ -15654,8 +15654,8 @@ AnnotationAssertion( "has_start_location") AnnotationAssertion( ) AnnotationAssertion( "has_start_location") -AnnotationAssertion(rdfs:label "has start location"@en) AnnotationAssertion(rdfs:label "has start location") +AnnotationAssertion(rdfs:label "has start location"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15668,8 +15668,8 @@ AnnotationAssertion( "has_end_location") AnnotationAssertion( ) AnnotationAssertion( "has_end_location") -AnnotationAssertion(rdfs:label "has end location"@en) AnnotationAssertion(rdfs:label "has end location") +AnnotationAssertion(rdfs:label "has end location"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15685,8 +15685,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "has_input") -AnnotationAssertion(rdfs:label "has input"@en) AnnotationAssertion(rdfs:label "has input") +AnnotationAssertion(rdfs:label "has input"@en) AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Has_input"^^xsd:anyURI) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15703,8 +15703,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "has_output") -AnnotationAssertion(rdfs:label "has output"@en) AnnotationAssertion(rdfs:label "has output") +AnnotationAssertion(rdfs:label "has output"@en) AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Has_output"^^xsd:anyURI) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15818,8 +15818,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "results_in_developmental_progression_of") AnnotationAssertion( "results_in_developmental_progression_of") -AnnotationAssertion(rdfs:label "results in developmental progression of"@en) AnnotationAssertion(rdfs:label "results in developmental progression of") +AnnotationAssertion(rdfs:label "results in developmental progression of"@en) AnnotationAssertion(rdfs:seeAlso ) SubObjectPropertyOf( ) ObjectPropertyDomain( ) @@ -15835,8 +15835,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_development_of") -AnnotationAssertion(rdfs:label "results in development of"@en) AnnotationAssertion(rdfs:label "results in development of") +AnnotationAssertion(rdfs:label "results in development of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -15849,8 +15849,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_formation_of") -AnnotationAssertion(rdfs:label "results in formation of anatomical entity"@en) AnnotationAssertion(rdfs:label "results in formation of") +AnnotationAssertion(rdfs:label "results in formation of anatomical entity"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -15865,8 +15865,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_morphogenesis_of") -AnnotationAssertion(rdfs:label "results in morphogenesis of"@en) AnnotationAssertion(rdfs:label "results in morphogenesis of") +AnnotationAssertion(rdfs:label "results in morphogenesis of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -15880,8 +15880,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_maturation_of") -AnnotationAssertion(rdfs:label "results in maturation of"@en) AnnotationAssertion(rdfs:label "results in maturation of") +AnnotationAssertion(rdfs:label "results in maturation of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -15933,8 +15933,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_acquisition_of_features_of") -AnnotationAssertion(rdfs:label "results in acquisition of features of"@en) AnnotationAssertion(rdfs:label "results in acquisition of features of") +AnnotationAssertion(rdfs:label "results in acquisition of features of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) ObjectPropertyRange( ) @@ -15979,8 +15979,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "regulates_levels_of") AnnotationAssertion( "regulates_levels_of") -AnnotationAssertion(rdfs:label "regulates levels of"@en) AnnotationAssertion(rdfs:label "regulates levels of") +AnnotationAssertion(rdfs:label "regulates levels of"@en) SubObjectPropertyOf( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -15993,8 +15993,8 @@ AnnotationAssertion( "regulated_by") AnnotationAssertion( ) AnnotationAssertion( "regulated_by") -AnnotationAssertion(rdfs:label "regulated by"@en) AnnotationAssertion(rdfs:label "regulated by") +AnnotationAssertion(rdfs:label "regulated by"@en) SubObjectPropertyOf( ) TransitiveObjectProperty() ObjectPropertyDomain( ) @@ -16008,8 +16008,8 @@ AnnotationAssertion( "negatively_regulated_by") AnnotationAssertion( ) AnnotationAssertion( "negatively_regulated_by") -AnnotationAssertion(rdfs:label "negatively regulated by"@en) AnnotationAssertion(rdfs:label "negatively regulated by") +AnnotationAssertion(rdfs:label "negatively regulated by"@en) SubObjectPropertyOf( ) # Object Property: (positively regulated by) @@ -16020,8 +16020,8 @@ AnnotationAssertion( "positively_regulated_by") AnnotationAssertion( ) AnnotationAssertion( "positively_regulated_by") -AnnotationAssertion(rdfs:label "positively regulated by"@en) AnnotationAssertion(rdfs:label "positively regulated by") +AnnotationAssertion(rdfs:label "positively regulated by"@en) SubObjectPropertyOf( ) # Object Property: (related via localization to) @@ -16041,8 +16041,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "has_target_start_location") -AnnotationAssertion(rdfs:label "has target start location"@en) AnnotationAssertion(rdfs:label "has target start location") +AnnotationAssertion(rdfs:label "has target start location"@en) SubObjectPropertyOf( ) # Object Property: (has target end location) @@ -16055,8 +16055,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "has_target_end_location") -AnnotationAssertion(rdfs:label "has target end location"@en) AnnotationAssertion(rdfs:label "has target end location") +AnnotationAssertion(rdfs:label "has target end location"@en) SubObjectPropertyOf( ) # Object Property: (results in transport along) @@ -16066,8 +16066,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "results_in_transport_along") AnnotationAssertion( "results_in_transport_along") -AnnotationAssertion(rdfs:label "results in transport along"@en) AnnotationAssertion(rdfs:label "results in transport along") +AnnotationAssertion(rdfs:label "results in transport along"@en) SubObjectPropertyOf( ) # Object Property: (results in transport across) @@ -16078,8 +16078,8 @@ AnnotationAssertion( "results_in_transport_across") AnnotationAssertion( ) AnnotationAssertion( "results_in_transport_across") -AnnotationAssertion(rdfs:label "results in transport across"@en) AnnotationAssertion(rdfs:label "results in transport across") +AnnotationAssertion(rdfs:label "results in transport across"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -16089,8 +16089,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "results_in_growth_of") AnnotationAssertion( "results_in_growth_of") -AnnotationAssertion(rdfs:label "results in growth of"@en) AnnotationAssertion(rdfs:label "results in growth of") +AnnotationAssertion(rdfs:label "results in growth of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -16100,8 +16100,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "results_in_transport_to_from_or_in") AnnotationAssertion( "results_in_transport_to_from_or_in") -AnnotationAssertion(rdfs:label "results in transport to from or in"@en) AnnotationAssertion(rdfs:label "results in transport to from or in") +AnnotationAssertion(rdfs:label "results in transport to from or in"@en) SubObjectPropertyOf( ) # Object Property: (member of) @@ -16135,8 +16135,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "output_of") -AnnotationAssertion(rdfs:label "output of"@en) AnnotationAssertion(rdfs:label "output of") +AnnotationAssertion(rdfs:label "output of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -16254,8 +16254,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "causally_downstream_of") AnnotationAssertion( "causally_downstream_of") -AnnotationAssertion(rdfs:label "causally downstream of"@en) AnnotationAssertion(rdfs:label "causally downstream of") +AnnotationAssertion(rdfs:label "causally downstream of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -16289,8 +16289,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "causally_upstream_of") -AnnotationAssertion(rdfs:label "causally upstream of"@en) AnnotationAssertion(rdfs:label "causally upstream of") +AnnotationAssertion(rdfs:label "causally upstream of"@en) SubObjectPropertyOf( ) SubObjectPropertyOf( ) TransitiveObjectProperty() @@ -16645,8 +16645,8 @@ AnnotationAssertion( ) AnnotationAssertion( "produces") AnnotationAssertion(rdfs:comment "Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue.") -AnnotationAssertion(rdfs:label "produces"@en) AnnotationAssertion(rdfs:label "produces") +AnnotationAssertion(rdfs:label "produces"@en) InverseObjectProperties( ) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -16659,8 +16659,8 @@ AnnotationAssertion( "produced_by") AnnotationAssertion( ) AnnotationAssertion( "produced_by") -AnnotationAssertion(rdfs:label "produced by"@en) AnnotationAssertion(rdfs:label "produced by") +AnnotationAssertion(rdfs:label "produced by"@en) ObjectPropertyDomain( ) ObjectPropertyRange( ) @@ -16740,8 +16740,8 @@ AnnotationAssertion( "external") AnnotationAssertion( "has_small_molecule_activator") AnnotationAssertion( "has_small_molecule_activator") -AnnotationAssertion(rdfs:label "has small molecule activator"@en) AnnotationAssertion(rdfs:label "has small molecule activator") +AnnotationAssertion(rdfs:label "has small molecule activator"@en) SubObjectPropertyOf( ) InverseObjectProperties( ) @@ -16757,8 +16757,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "acts_on_population_of") -AnnotationAssertion(rdfs:label "acts on population of"@en) AnnotationAssertion(rdfs:label "acts on population of") +AnnotationAssertion(rdfs:label "acts on population of"@en) SubObjectPropertyOf( ) # Object Property: (is small molecule regulator of) @@ -16790,8 +16790,8 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "results_in_fusion_of") -AnnotationAssertion(rdfs:label "results in fusion of"@en) AnnotationAssertion(rdfs:label "results in fusion of") +AnnotationAssertion(rdfs:label "results in fusion of"@en) SubObjectPropertyOf( ) # Object Property: (has synaptic IO in region) @@ -17074,12 +17074,18 @@ SubClassOf( ) -# Class: () +# Class: (cell) DisjointClasses( ) DisjointClasses( ) DisjointClasses( ) +# Class: (obsolete neuronal brush cell) + +AnnotationAssertion( ) +AnnotationAssertion(rdfs:comment "https://github.com/obophenotype/cell-ontology/issues/2634") +AnnotationAssertion(owl:deprecated "true"^^xsd:boolean) + # Class: (vacuole inheritance) AnnotationAssertion(Annotation( "GOC:mcc") Annotation( "PMID:10873824") Annotation( "PMID:14616069") "The distribution of vacuoles into daughter cells after mitosis or meiosis, mediated by interactions between vacuoles and the cytoskeleton.") From 9f91f3e35b52bab4412516e628925658df608a6a Mon Sep 17 00:00:00 2001 From: "alida.avola@icloud.com" Date: Wed, 16 Oct 2024 12:02:06 +0100 Subject: [PATCH 2/3] Update cl-edit.owl --- src/ontology/cl-edit.owl | 1 - 1 file changed, 1 deletion(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index e246ebd82..4fa8a920e 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -14590,7 +14590,6 @@ AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002085 "FMA:54560") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:29351662") oboInOwl:hasExactSynonym obo:CL_0002085 "stretch cell") AnnotationAssertion(rdfs:label obo:CL_0002085 "tanycyte") SubClassOf(obo:CL_0002085 obo:CL_0000065) -SubClassOf(obo:CL_0002085 obo:CL_0000683) SubClassOf(obo:CL_0002085 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004670)) # Class: obo:CL_0002086 (specialized cardiac myocyte) From 23fd4b8732734980952debc0a00caa8b315c6b05 Mon Sep 17 00:00:00 2001 From: "alida.avola@icloud.com" Date: Wed, 16 Oct 2024 12:10:37 +0100 Subject: [PATCH 3/3] Update merged_import.owl --- src/ontology/imports/merged_import.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/imports/merged_import.owl b/src/ontology/imports/merged_import.owl index 36a4260a5..ce9391f0e 100644 --- a/src/ontology/imports/merged_import.owl +++ b/src/ontology/imports/merged_import.owl @@ -17082,7 +17082,7 @@ DisjointClasses( (obsolete neuronal brush cell) -AnnotationAssertion( ) +AnnotationAssertion( ) AnnotationAssertion(rdfs:comment "https://github.com/obophenotype/cell-ontology/issues/2634") AnnotationAssertion(owl:deprecated "true"^^xsd:boolean)