Merge pull request #3 from brain-bican/ontology_url

Symbols added
brain-bican · Feb 10, 2025 · 8a5c734 · 8a5c734
2 parents bcc5332 + 705c4d3
commit 8a5c734
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Showing 23 changed files with 110,781 additions and 85,970 deletions.
diff --git a/dmbao-base.json b/dmbao-base.json
diff --git a/dmbao-base.obo b/dmbao-base.obo
diff --git a/dmbao-base.owl b/dmbao-base.owl
diff --git a/dmbao-full.json b/dmbao-full.json
diff --git a/dmbao-full.obo b/dmbao-full.obo
diff --git a/dmbao-full.owl b/dmbao-full.owl
diff --git a/dmbao-simple-non-classified.json b/dmbao-simple-non-classified.json
diff --git a/dmbao-simple-non-classified.obo b/dmbao-simple-non-classified.obo
diff --git a/dmbao-simple-non-classified.owl b/dmbao-simple-non-classified.owl
diff --git a/dmbao-simple.json b/dmbao-simple.json
@@ -3,21 +3,25 @@
     "id" : "https://purl.brain-bican.org/ontology/dmbao/dmbao-simple.json",
     "meta" : {
       "basicPropertyValues" : [ {
+        "pred" : "http://purl.org/dc/terms/description",
+        "val" : "An application ontology built by combining ontologised versions of the Allen Institute Developing Mouse Brain Atlas (DMBA) StructureGraph mapped to Uberon."
+      }, {
         "pred" : "http://purl.org/dc/terms/license",
         "val" : "https://creativecommons.org/licenses/by/4.0/"
       }, {
         "pred" : "http://purl.org/dc/terms/title",
         "val" : "Developing Mouse Brain Atlas Ontology"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2024-07-10"
+        "val" : "2025-02-10"
       } ],
-      "version" : "https://purl.brain-bican.org/ontology/dmbao/releases/2024-07-10/dmbao-simple.json"
+      "version" : "https://purl.brain-bican.org/ontology/dmbao/releases/2025-02-10/dmbao-simple.json"
     },
     "nodes" : [ {
       "id" : "http://purl.obolibrary.org/obo/BFO_0000050",
-      "lbl" : "part_of",
+      "lbl" : "part of",
       "type" : "PROPERTY",
+      "propertyType" : "OBJECT",
       "meta" : {
         "definition" : {
           "val" : "a core relation that holds between a part and its whole"
@@ -44,9 +48,6 @@
         }, {
           "pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
           "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'."
-        }, {
-          "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace",
-          "val" : "quality"
         }, {
           "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace",
           "val" : "spatial"
@@ -70,14 +71,56 @@
           "val" : "https://wiki.geneontology.org/Part_of"
         } ]
       }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000028",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000112",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000115",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000116",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000233",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/IAO_0000589",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/valid_for_go_gp2term",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/valid_for_go_ontology",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/valid_for_gocam",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
     }, {
       "id" : "http://purl.org/dc/terms/description",
       "lbl" : "description",
-      "type" : "PROPERTY"
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
     }, {
       "id" : "http://purl.org/dc/terms/license",
       "lbl" : "license",
       "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION",
       "meta" : {
         "xrefs" : [ {
           "val" : "http://purl.org/dc/terms/license"
@@ -96,11 +139,25 @@
     }, {
       "id" : "http://purl.org/dc/terms/title",
       "lbl" : "title",
-      "type" : "PROPERTY"
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#SubsetProperty",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#SynonymTypeProperty",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#hasDbXref",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
     }, {
       "id" : "http://www.geneontology.org/formats/oboInOwl#hasExactSynonym",
       "lbl" : "has_exact_synonym",
       "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION",
       "meta" : {
         "definition" : {
           "val" : "An alternative label for a class or property which has the exact same meaning than the preferred name/primary label."
@@ -113,6 +170,38 @@
           "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/20"
         } ]
       }
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#id",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#inSubset",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#is_metadata_tag",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#shorthand",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#source",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.geneontology.org/formats/oboInOwl#status",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
+    }, {
+      "id" : "http://www.w3.org/2004/02/skos/core#prefLabel",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
     } ]
   } ]
 }
diff --git a/dmbao-simple.obo b/dmbao-simple.obo
@@ -1,13 +1,17 @@
 format-version: 1.2
-data-version: https://purl.brain-bican.org/ontology/dmbao/releases/2024-07-10/dmbao-simple.owl
+data-version: https://purl.brain-bican.org/ontology/dmbao/releases/2025-02-10/dmbao-simple.owl
 subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension ""
 subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term ""
 subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology ""
 subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam ""
+idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# 
+idspace: skos http://www.w3.org/2004/02/skos/core# 
+idspace: terms http://purl.org/dc/terms/ 
 ontology: https://purl.brain-bican.org/ontology/dmbao/dmbao-simple.owl
 property_value: dcterms-license https://creativecommons.org/licenses/by/4.0/
-property_value: http://purl.org/dc/terms/title "Developing Mouse Brain Atlas Ontology" xsd:string
-property_value: owl:versionInfo "2024-07-10" xsd:string
+property_value: owl:versionInfo "2025-02-10" xsd:string
+property_value: terms:description "An application ontology built by combining ontologised versions of the Allen Institute Developing Mouse Brain Atlas (DMBA) StructureGraph mapped to Uberon." xsd:string
+property_value: terms:title "Developing Mouse Brain Atlas Ontology" xsd:string
 
 [Typedef]
 id: dcterms-license
@@ -19,8 +23,6 @@ is_metadata_tag: true
 [Typedef]
 id: part_of
 name: part of
-name: part_of
-namespace: quality
 namespace: spatial
 namespace: uberon
 def: "a core relation that holds between a part and its whole" []

diff --git a/dmbao-simple.owl b/dmbao-simple.owl
@@ -11,10 +11,11 @@
      xmlns:terms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="https://purl.brain-bican.org/ontology/dmbao/dmbao-simple.owl">
-        <owl:versionIRI rdf:resource="https://purl.brain-bican.org/ontology/dmbao/releases/2024-07-10/dmbao-simple.owl"/>
+        <owl:versionIRI rdf:resource="https://purl.brain-bican.org/ontology/dmbao/releases/2025-02-10/dmbao-simple.owl"/>
+        <terms:description>An application ontology built by combining ontologised versions of the Allen Institute Developing Mouse Brain Atlas (DMBA) StructureGraph mapped to Uberon.</terms:description>
         <terms:license rdf:resource="https://creativecommons.org/licenses/by/4.0/"/>
         <terms:title>Developing Mouse Brain Atlas Ontology</terms:title>
-        <owl:versionInfo>2024-07-10</owl:versionInfo>
+        <owl:versionInfo>2025-02-10</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -30,6 +31,12 @@
 
 
 
+    <!-- http://purl.obolibrary.org/obo/IAO_0000028 -->
+
+    <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000028"/>
+
+
+
     <!-- http://purl.obolibrary.org/obo/IAO_0000112 -->
 
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
@@ -224,7 +231,6 @@
 
 A continuant cannot be part of an occurrent: use &apos;participates in&apos;. An occurrent cannot be part of a continuant: use &apos;has participant&apos;. A material entity cannot be part of an immaterial entity: use &apos;has location&apos;. A specifically dependent continuant cannot be part of an independent continuant: use &apos;inheres in&apos;. An independent continuant cannot be part of a specifically dependent continuant: use &apos;bearer of&apos;.</obo:IAO_0000116>
         <oboInOwl:hasDbXref>BFO:0000050</oboInOwl:hasDbXref>
-        <oboInOwl:hasOBONamespace>quality</oboInOwl:hasOBONamespace>
         <oboInOwl:hasOBONamespace>spatial</oboInOwl:hasOBONamespace>
         <oboInOwl:hasOBONamespace>uberon</oboInOwl:hasOBONamespace>
         <oboInOwl:id>part_of</oboInOwl:id>
@@ -235,32 +241,14 @@ A continuant cannot be part of an occurrent: use &apos;participates in&apos;. An
         <oboInOwl:shorthand>part_of</oboInOwl:shorthand>
         <rdfs:label xml:lang="en">part of</rdfs:label>
         <rdfs:label>part of</rdfs:label>
-        <rdfs:label>part_of</rdfs:label>
         <rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections"/>
         <rdfs:seeAlso rdf:resource="http://ontologydesignpatterns.org/wiki/Submissions:PartOf"/>
         <rdfs:seeAlso rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://wiki.geneontology.org/Part_of</rdfs:seeAlso>
         <rdfs:seeAlso>http://www.obofoundry.org/ro/#OBO_REL:part_of</rdfs:seeAlso>
     </owl:ObjectProperty>
-
-
-
-    <!-- 
-    ///////////////////////////////////////////////////////////////////////////////////////
-    //
-    // Classes
-    //
-    ///////////////////////////////////////////////////////////////////////////////////////
-     -->
-
-
-
-
-    <!-- https://purl.brain-bican.org/ontology/DMBAO_0000000 -->
-
-    <owl:Class rdf:about="https://purl.brain-bican.org/ontology/DMBAO_0000000"/>
 </rdf:RDF>
 
 
 
-<!-- Generated by the OWL API (version 4.5.26) https://github.com/owlcs/owlapi -->
+<!-- Generated by the OWL API (version 4.5.29) https://github.com/owlcs/owlapi -->