add enums for response target

biolink-model.yaml

@@ -1165,15 +1165,22 @@ slots:
  description: >-
  a biological response (general, study, cohort, etc.) with a specific set of characteristics to constrain 
  an association.
- is_a: qualifier
+ is_a: context qualifier
  range: ResponseEnum
 
+ response target context qualifier:
+ description: >-
+ a biological response target (a patient, a cohort, a model system, a cell line, a sample of biological material, 
+ etc.)
+ is_a: context qualifier
+ range: ResponseTargetEnum
+
  population context qualifier:
  description: >-
  a biological population (general, study, cohort, etc.) with a specific
  set of characteristics to constrain an association.
  is_a: qualifier
- range: population of individual organisms
+ range: population of individual organisms # TODO: harmonize with 'response target context qualifier'
 
  temporal context qualifier:
  description: >-
@@ -9396,6 +9403,30 @@ classes:
  - owl:Axiom
 
 
+ disease associated with response to chemical entity association:
+ description: >-
+ A statistical association between a disease and a chemical entity where the
+ chemical entity has a therapeutic or adverse effect on the disease progression, symptoms or outcomes
+ in a patient, cell line, or any model system.
+ is_a: association
+ slots:
+ - response context qualifier
+ - response target context qualifier
+ defining_slots:
+ - subject
+ - predicate
+ - object
+ - response context qualifier
+ - response target context qualifier
+ slot_usage:
+ subject:
+ range: disease
+ object:
+ range: chemical entity
+ predicate:
+ subproperty_of: associated with response to
+
+
  chemical entity assesses named thing association:
  is_a: association
  slot_usage:
@@ -11536,6 +11567,23 @@ enums:
  description: >-
  A negative response to a treatment or intervention
 
+ ResponseTargetEnum:
+ description: >-
+ The target of a treatment or intervention
+ permissible_values:
+ cohort:
+ description: >-
+ A group of individuals that are the target of a treatment or intervention
+ cell line:
+ description: >-
+ A cell line that is the target of a treatment or intervention
+ individual:
+ description: >-
+ An individual that is the target of a treatment or intervention
+ sample:
+ description: >-
+ A biological materialsample that is the target of a treatment or intervention
+
  ApprovalStatusEnum:
  description: >-
  permissible_values:

project/graphql/biolink_model.graphql

@@ -1990,6 +1990,50 @@ type Disease
  inTaxonLabel: LabelType
  }
 
+type DiseaseAssociatedWithResponseToChemicalEntityAssociation
+ {
+ id: String!
+ iri: IriType
+ name: LabelType
+ description: NarrativeText
+ hasAttribute: [Attribute]
+ deprecated: Boolean
+ negated: Boolean
+ qualifier: String
+ qualifiers: [OntologyClass]
+ publications: [Publication]
+ hasEvidence: [EvidenceType]
+ knowledgeSource: String
+ primaryKnowledgeSource: String
+ aggregatorKnowledgeSource: [String]
+ knowledgeLevel: KnowledgeLevelEnum!
+ agentType: AgentTypeEnum!
+ timepoint: TimeType
+ originalSubject: String
+ originalPredicate: Uriorcurie
+ originalObject: String
+ subjectCategory: OntologyClass
+ objectCategory: OntologyClass
+ subjectClosure: [String]
+ objectClosure: [String]
+ subjectCategoryClosure: [OntologyClass]
+ objectCategoryClosure: [OntologyClass]
+ subjectNamespace: String
+ objectNamespace: String
+ subjectLabelClosure: [String]
+ objectLabelClosure: [String]
+ retrievalSourceIds: [RetrievalSource]
+ pValue: Float
+ adjustedPValue: Float
+ type: [String]
+ category: [Uriorcurie]
+ responseContextQualifier: ResponseEnum
+ responseTargetContextQualifier: ResponseTargetEnum
+ subject: Disease!
+ object: ChemicalEntity!
+ predicate: PredicateType!
+ }
+
 type DiseaseOrPhenotypicFeature
  {
  id: String!

project/jsonld/biolink_model.context.jsonld

@@ -1,7 +1,7 @@
 {
  "comments": {
  "description": "Auto generated by LinkML jsonld context generator",
- "generation_date": "2024-09-23T15:28:36",
+ "generation_date": "2024-09-23T15:50:25",
  "source": "biolink_model.yaml"
  },
  "@context": {
@@ -2134,6 +2134,15 @@
  "@type": "@id",
  "@id": "response_increased_by"
  },
+ "response_target_context_qualifier": {
+ "@context": {
+ "@vocab": "@null",
+ "text": "skos:notation",
+ "description": "skos:prefLabel",
+ "meaning": "@id"
+ },
+ "@id": "response_target_context_qualifier"
+ },
  "retrieval_source_ids": {
  "@type": "@id",
  "@id": "retrieval_source_ids"
@@ -2708,6 +2717,9 @@
  "Disease": {
  "@id": "Disease"
  },
+ "DiseaseAssociatedWithResponseToChemicalEntityAssociation": {
+ "@id": "DiseaseAssociatedWithResponseToChemicalEntityAssociation"
+ },
  "DiseaseOrPhenotypicFeature": {
  "@id": "DiseaseOrPhenotypicFeature"
  },