present_in_taxon species added

Cellular-Semantics · Jul 31, 2024 · 4359fb3 · 4359fb3
1 parent a192fdb
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Showing 17 changed files with 6,529 additions and 158 deletions.
diff --git a/clm-base.json b/clm-base.json
@@ -16,9 +16,9 @@
         "val" : "Cell Markers Ontology"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2024-07-30"
+        "val" : "2024-07-31"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-07-30/clm-base.json"
+      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-07-31/clm-base.json"
     },
     "nodes" : [ {
       "id" : "http://identifiers.org/ensembl/ENSG00000038945",
@@ -57,31 +57,51 @@
       "id" : "http://purl.obolibrary.org/obo/CL_0000583",
       "type" : "CLASS",
       "meta" : {
-        "comments" : [ "A alveolar macrophage in the Human Lung has the gene markers MSR1, FABP4 with a NS-Forest FBeta value of 0.8." ]
+        "comments" : [ "A alveolar macrophage in the Human Lung has the gene markers MSR1, FABP4 with a NS-Forest FBeta value of 0.8." ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
+        } ]
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CL_4028004",
       "type" : "CLASS",
       "meta" : {
-        "comments" : [ "A alveolar type 1 fibroblast cell in the Human Lung has the gene markers AOC3, LUM with a NS-Forest FBeta value of 0.7." ]
+        "comments" : [ "A alveolar type 1 fibroblast cell in the Human Lung has the gene markers AOC3, LUM with a NS-Forest FBeta value of 0.7." ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
+        } ]
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CL_4028006",
       "type" : "CLASS",
       "meta" : {
-        "comments" : [ "A alveolar adventitial fibroblast in the Human Lung has the gene markers SCARA5, CD248 with a NS-Forest FBeta value of 0.85." ]
+        "comments" : [ "A alveolar adventitial fibroblast in the Human Lung has the gene markers SCARA5, CD248 with a NS-Forest FBeta value of 0.85." ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
+        } ]
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CL_4033041",
       "type" : "CLASS",
       "meta" : {
-        "comments" : [ "A CCL3-positive alveolar macrophage in the Human Lung has the gene markers TNIP3, CXCL5 with a NS-Forest FBeta value of 0.67." ]
+        "comments" : [ "A CCL3-positive alveolar macrophage in the Human Lung has the gene markers TNIP3, CXCL5 with a NS-Forest FBeta value of 0.67." ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
+        } ]
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CL_4033042",
       "type" : "CLASS",
       "meta" : {
-        "comments" : [ "A metallothionein-positive alveolar macrophage in the Human Lung has the gene markers HMOX1, HPGD with a NS-Forest FBeta value of 0.41." ]
+        "comments" : [ "A metallothionein-positive alveolar macrophage in the Human Lung has the gene markers HMOX1, HPGD with a NS-Forest FBeta value of 0.41." ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
+        } ]
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CL_4037001",
@@ -145,6 +165,10 @@
       "lbl" : "has characterizing marker set",
       "type" : "PROPERTY",
       "propertyType" : "OBJECT"
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/RO_0002175",
+      "type" : "PROPERTY",
+      "propertyType" : "ANNOTATION"
     }, {
       "id" : "http://purl.obolibrary.org/obo/STATO_0000663",
       "type" : "PROPERTY",

diff --git a/clm-base.obo b/clm-base.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: clm/releases/2024-07-30/clm-base.owl
+data-version: clm/releases/2024-07-31/clm-base.owl
 idspace: dce http://purl.org/dc/elements/1.1/ 
 idspace: dcterms http://purl.org/dc/terms/ 
 idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# 
@@ -8,32 +8,37 @@ property_value: dce:type IAO:8000001
 property_value: dcterms:description "None" xsd:string
 property_value: dcterms:license https://creativecommons.org/licenses/unspecified
 property_value: dcterms:title "Cell Markers Ontology" xsd:string
-property_value: owl:versionInfo "2024-07-30" xsd:string
+property_value: owl:versionInfo "2024-07-31" xsd:string
 
 [Term]
 id: CL:0000583
 comment: A alveolar macrophage in the Human Lung has the gene markers MSR1, FABP4 with a NS-Forest FBeta value of 0.8. {xref="https://doi.org/10.5281/zenodo.11165918"}
 relationship: RO:0015004 CL:4037003 ! has characterizing marker set NS forest marker set of alveolar macrophage (Human Lung).
+property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
 id: CL:4028004
 comment: A alveolar type 1 fibroblast cell in the Human Lung has the gene markers AOC3, LUM with a NS-Forest FBeta value of 0.7. {xref="https://doi.org/10.5281/zenodo.11165918"}
 relationship: RO:0015004 CL:4037002 ! has characterizing marker set NS forest marker set of alveolar type 1 fibroblast cell (Human Lung).
+property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
 id: CL:4028006
 comment: A alveolar adventitial fibroblast in the Human Lung has the gene markers SCARA5, CD248 with a NS-Forest FBeta value of 0.85. {xref="https://doi.org/10.5281/zenodo.11165918"}
 relationship: RO:0015004 CL:4037001 ! has characterizing marker set NS forest marker set of alveolar adventitial fibroblast (Human Lung).
+property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
 id: CL:4033041
 comment: A CCL3-positive alveolar macrophage in the Human Lung has the gene markers TNIP3, CXCL5 with a NS-Forest FBeta value of 0.67. {xref="https://doi.org/10.5281/zenodo.11165918"}
 relationship: RO:0015004 CL:4037004 ! has characterizing marker set NS forest marker set of CCL3-positive alveolar macrophage (Human Lung).
+property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
 id: CL:4033042
 comment: A metallothionein-positive alveolar macrophage in the Human Lung has the gene markers HMOX1, HPGD with a NS-Forest FBeta value of 0.41. {xref="https://doi.org/10.5281/zenodo.11165918"}
 relationship: RO:0015004 CL:4037005 ! has characterizing marker set NS forest marker set of metallothionein-positive alveolar macrophage (Human Lung).
+property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
 id: CL:4037001

diff --git a/clm-base.owl b/clm-base.owl
@@ -11,12 +11,12 @@
      xmlns:dcterms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/clm/clm-base.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-07-30/clm-base.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-07-31/clm-base.owl"/>
         <dce:type rdf:resource="http://purl.obolibrary.org/obo/IAO_8000001"/>
         <dcterms:description>None</dcterms:description>
         <dcterms:license rdf:resource="https://creativecommons.org/licenses/unspecified"/>
         <dcterms:title>Cell Markers Ontology</dcterms:title>
-        <owl:versionInfo>2024-07-30</owl:versionInfo>
+        <owl:versionInfo>2024-07-31</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -32,6 +32,12 @@
 
 
 
+    <!-- http://purl.obolibrary.org/obo/RO_0002175 -->
+
+    <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002175"/>
+
+
+
     <!-- http://purl.obolibrary.org/obo/STATO_0000663 -->
 
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/STATO_0000663"/>
@@ -185,6 +191,7 @@
                 <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CL_4037003"/>
             </owl:Restriction>
         </rdfs:subClassOf>
+        <obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
         <rdfs:comment>A alveolar macrophage in the Human Lung has the gene markers MSR1, FABP4 with a NS-Forest FBeta value of 0.8.</rdfs:comment>
     </owl:Class>
     <owl:Axiom>
@@ -205,6 +212,7 @@
                 <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CL_4037002"/>
             </owl:Restriction>
         </rdfs:subClassOf>
+        <obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
         <rdfs:comment>A alveolar type 1 fibroblast cell in the Human Lung has the gene markers AOC3, LUM with a NS-Forest FBeta value of 0.7.</rdfs:comment>
     </owl:Class>
     <owl:Axiom>
@@ -225,6 +233,7 @@
                 <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CL_4037001"/>
             </owl:Restriction>
         </rdfs:subClassOf>
+        <obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
         <rdfs:comment>A alveolar adventitial fibroblast in the Human Lung has the gene markers SCARA5, CD248 with a NS-Forest FBeta value of 0.85.</rdfs:comment>
     </owl:Class>
     <owl:Axiom>
@@ -245,6 +254,7 @@
                 <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CL_4037004"/>
             </owl:Restriction>
         </rdfs:subClassOf>
+        <obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
         <rdfs:comment>A CCL3-positive alveolar macrophage in the Human Lung has the gene markers TNIP3, CXCL5 with a NS-Forest FBeta value of 0.67.</rdfs:comment>
     </owl:Class>
     <owl:Axiom>
@@ -265,6 +275,7 @@
                 <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/CL_4037005"/>
             </owl:Restriction>
         </rdfs:subClassOf>
+        <obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
         <rdfs:comment>A metallothionein-positive alveolar macrophage in the Human Lung has the gene markers HMOX1, HPGD with a NS-Forest FBeta value of 0.41.</rdfs:comment>
     </owl:Class>
     <owl:Axiom>