This updates the biomedical schema to make a new parent class "Associ…

…ation" (subClassOf: schema:Thing), of which all association type nodes are a subclass. At this time this includes the classes: ChemicalCompoundAssociation, DiseaseAssociation, and GeneticAssociation. All node types in BMDC that are association nodes are subclasses of one or more of these three association subtypes. The superclass ensures that all of these Association nodes are identifiable.

PiperOrigin-RevId: 698153887

biomedical_schema/chemical_compound.mcf

@@ -18,6 +18,12 @@ typeOf: schema:Class
 subClassOf: dcs:Protein
 description: "An antibody is a kind of protective protein which is produced by the immune system when substances from the outer source invade the living organisms. The process of producing the antibodies is called immune response."
 
+Node: dcid:Association
+name: "Association"
+typeOf: schema:Class
+subClassOf: schema:Thing
+description: "An observed association between two entities."
+
 Node: dcid:BiomedicalEntity
 name: "BiomedicalEntity"
 typeOf: schema:Class
@@ -34,7 +40,7 @@ descriptionUrl: "https://www.ebi.ac.uk/chembl/"
 Node: dcid:ChemicalCompoundAssociation
 name: "ChemicalCompoundAssociation"
 typeOf: schema:Class
-subClassOf: dcs:ChemicalCompound
+subClassOf: dcs:Association,dcs:ChemicalCompound
 description: "Observed association between a chemical compound and another entity type."
 
 Node: dcid:ChemicalCompoundChemicalCompoundAssociation

biomedical_schema/disease.mcf

@@ -8,7 +8,7 @@ descriptionUrl: "https://disease-ontology.org/"
 Node: dcid:DiseaseAssociation
 name: "DiseaseAssociation"
 typeOf: schema:Class
-subClassOf: dcs:Disease
+subClassOf: dcs:Association,dcs:Disease
 description: "The association between a disease and a second type of entity."
 
 Node: dcid:DiseaseDiseaseAssociation
@@ -20,13 +20,13 @@ description: "The association between two diseases."
 Node: dcid:DiseaseGeneAssociation
 name: "DiseaseGeneAssociation"
 typeOf: schema:Class
-subClassOf: dcs:DiseaseAssociation
+subClassOf: dcs:DiseaseAssociation,dcs:GeneticAssociation
 description: "The association of a disease with a gene."
 
 Node: dcid:DiseaseGeneticVariantAssociation
 name: "DiseaseGeneticVariantAssociation"
 typeOf: schema:Class
-subClassOf: dcs:DiseaseAssociation
+subClassOf: dcs:DiseaseAssociation,dcs:GeneticAssociation
 description: "The association between a disease and a genetic variant."
 
 Node: dcid:MeSHConcept

biomedical_schema/genome_annotation.mcf

@@ -38,7 +38,7 @@ description: "The association between a gene and a genetic variant. This associa
 Node: dcid:GeneticAssociation
 name: "GeneticAssociation"
 typeOf: schema:Class
-subClassOf: dcs:GenomeAnnotation
+subClassOf: dcs:Association,dcs:GenomeAnnotation
 description: "Association between a genome annotation and another entity type."
 
 Node: dcid:GeneticVariant