AlleleVariantAssociation

The relationship between an allele and a variant is many to many. An Allele may have many variants and a variant can be present in many alleles.

classDiagram AlleleGenomicEntityAssociation <|-- AlleleVariantAssociation AlleleVariantAssociation : allele_association_subject AlleleVariantAssociation : allele_variant_association_object AlleleVariantAssociation : created_by AlleleVariantAssociation : date_created AlleleVariantAssociation : date_updated AlleleVariantAssociation : db_date_created AlleleVariantAssociation : db_date_updated AlleleVariantAssociation : evidence AlleleVariantAssociation : evidence_code AlleleVariantAssociation : internal AlleleVariantAssociation : obsolete AlleleVariantAssociation : related_note AlleleVariantAssociation : relation AlleleVariantAssociation : updated_by

URI: alliance:AlleleVariantAssociation

Parent Classes

AuditedObject
- Association
  - EvidenceAssociation
    - AlleleAssociation
      - AlleleGenomicEntityAssociation
        
        AlleleVariantAssociation

Slots

Name	Description
allele_association_subject	None
allele_variant_association_object	None
created_by	The individual that created the entity.
date_created	The date on which an entity was created. This can be applied to nodes or edges.
date_updated	Date on which an entity was last modified.
db_date_created	The date on which an entity was created in the Alliance database. This is distinct from date_created, which represents the date when the entity was originally created (i.e. at the MOD for imported data).
db_date_updated	Date on which an entity was last modified in the Alliance database. This is distinct from date_updated, which represents the date when the entity was last modified and may predate import into the Alliance database.
evidence	The evidence that supports some assertion.
evidence_code	None
internal	Classifies the entity as private (for internal use) or not (for public use).
obsolete	Entity is no longer current.
related_note	Holds between an object and a Note object.
relation	A high-level grouping for the relationship type. This is analogous to category for nodes. In RDF, this corresponds to rdf:predicate and in Neo4j this corresponds to the relationship type.
updated_by	The individual that last modified the entity.

Mappings

Mapping Type	Mapped Value
self	['alliance:AlleleVariantAssociation']
native	['alliance:AlleleVariantAssociation']

LinkML Specification

Direct

name: AlleleVariantAssociation
description: The relationship between an allele and a variant is many to many. An
  Allele may have many variants and a variant can be present in many alleles.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AlleleGenomicEntityAssociation
attributes:
  allele_variant_association_object:
    name: allele_variant_association_object
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/allele.yaml
    range: Variant
    required: true

Induced

name: AlleleVariantAssociation
description: The relationship between an allele and a variant is many to many. An
  Allele may have many variants and a variant can be present in many alleles.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AlleleGenomicEntityAssociation
attributes:
  allele_variant_association_object:
    name: allele_variant_association_object
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/allele.yaml
    alias: allele_variant_association_object
    owner: AlleleVariantAssociation
    domain_of:
    - AlleleVariantAssociation
    range: Variant
    required: true
  evidence_code:
    name: evidence_code
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: evidence_code
    owner: AlleleVariantAssociation
    domain_of:
    - AlleleGenomicEntityAssociation
    - GeneToGeneOrthologyCurated
    range: ECOTerm
  related_note:
    name: related_note
    description: Holds between an object and a Note object.
    notes:
    - Singular version of related_notes
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: related_note
    owner: AlleleVariantAssociation
    domain_of:
    - AlleleGenomicEntityAssociation
    - HTPExpressionDatasetAnnotation
    - GeneCluster
    - GeneCollection
    - GeneNomenclatureSet
    - Operon
    range: Note
  allele_association_subject:
    name: allele_association_subject
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/allele.yaml
    alias: allele_association_subject
    owner: AlleleVariantAssociation
    domain_of:
    - AlleleAssociation
    range: Allele
    required: true
  evidence:
    name: evidence
    description: The evidence that supports some assertion.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: true
    alias: evidence
    owner: AlleleVariantAssociation
    domain_of:
    - Note
    - SlotAnnotation
    - EvidenceAssociation
    range: InformationContentEntity
    required: false
  relation:
    name: relation
    description: A high-level grouping for the relationship type. This is analogous
      to category for nodes. In RDF, this corresponds to rdf:predicate and in Neo4j
      this corresponds to the relationship type.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    is_a: association_slot
    alias: relation
    owner: AlleleVariantAssociation
    domain_of:
    - ConstructComponentSlotAnnotation
    - Association
    range: VocabularyTerm
    required: true
  created_by:
    name: created_by
    description: The individual that created the entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObject
    multivalued: false
    alias: created_by
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    range: Person
  date_created:
    name: date_created
    description: The date on which an entity was created. This can be applied to nodes
      or edges.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    aliases:
    - creation_date
    exact_mappings:
    - dct:createdOn
    - WIKIDATA_PROPERTY:P577
    alias: date_created
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  updated_by:
    name: updated_by
    description: The individual that last modified the entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObject
    multivalued: false
    alias: updated_by
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    range: Person
  date_updated:
    name: date_updated
    description: Date on which an entity was last modified.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    aliases:
    - date_last_modified
    alias: date_updated
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  db_date_created:
    name: db_date_created
    description: The date on which an entity was created in the Alliance database.  This
      is distinct from date_created, which represents the date when the entity was
      originally created (i.e. at the MOD for imported data).
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: db_date_created
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  db_date_updated:
    name: db_date_updated
    description: Date on which an entity was last modified in the Alliance database.  This
      is distinct from date_updated, which represents the date when the entity was
      last modified and may predate import into the Alliance database.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: db_date_updated
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  internal:
    name: internal
    description: Classifies the entity as private (for internal use) or not (for public
      use).
    notes:
    - Default value is true.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: internal
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean
    required: true
  obsolete:
    name: obsolete
    description: Entity is no longer current.
    notes:
    - Obsolete entities are preserved in the database for posterity but should not
      be publicly displayed.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: obsolete
    owner: AlleleVariantAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean