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ConstructGenomicEntityAssociation

An association class to capture the identity of a construct component that is a known genomic entity with a curie and any accompanying meta data about the relationship between the construct and that genomic entity component

classDiagram ConstructAssociation <|-- ConstructGenomicEntityAssociation ConstructGenomicEntityAssociation : construct_association_subject ConstructGenomicEntityAssociation : construct_genomic_entity_association_object ConstructGenomicEntityAssociation : created_by ConstructGenomicEntityAssociation : date_created ConstructGenomicEntityAssociation : date_updated ConstructGenomicEntityAssociation : db_date_created ConstructGenomicEntityAssociation : db_date_updated ConstructGenomicEntityAssociation : evidence ConstructGenomicEntityAssociation : internal ConstructGenomicEntityAssociation : obsolete ConstructGenomicEntityAssociation : related_notes ConstructGenomicEntityAssociation : relation ConstructGenomicEntityAssociation : updated_by

URI: alliance:ConstructGenomicEntityAssociation

Parent Classes

Slots

Name Description
construct_association_subject None
construct_genomic_entity_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.
internal Classifies the entity as private (for internal use) or not (for public use).
obsolete Entity is no longer current.
related_notes Holds between an object and a list of related Note objects.
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:ConstructGenomicEntityAssociation']
native ['alliance:ConstructGenomicEntityAssociation']

LinkML Specification

Direct

name: ConstructGenomicEntityAssociation
description: An association class to capture the identity of a construct component
  that is a known genomic entity with a curie and any accompanying meta data about
  the relationship between the construct and that genomic entity component
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: ConstructAssociation
slots:
- related_notes
slot_usage:
  relation:
    name: relation
    notes:
    - 'The relation should be a VocabularyTerm with one of the following values -
      expresses (RO:0002292) / is_regulated_by (RO:0002334) / targets (RO:0002436).
      CV: ''Construct Genomic Entity Association Relation'''
    range: VocabularyTerm
  related_notes:
    name: related_notes
    required: false
attributes:
  construct_genomic_entity_association_object:
    name: construct_genomic_entity_association_object
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/reagent.yaml
    domain_of:
    - ConstructGenomicEntityAssociation
    range: GenomicEntity
    required: true

Induced

name: ConstructGenomicEntityAssociation
description: An association class to capture the identity of a construct component
  that is a known genomic entity with a curie and any accompanying meta data about
  the relationship between the construct and that genomic entity component
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: ConstructAssociation
slot_usage:
  relation:
    name: relation
    notes:
    - 'The relation should be a VocabularyTerm with one of the following values -
      expresses (RO:0002292) / is_regulated_by (RO:0002334) / targets (RO:0002436).
      CV: ''Construct Genomic Entity Association Relation'''
    range: VocabularyTerm
  related_notes:
    name: related_notes
    required: false
attributes:
  construct_genomic_entity_association_object:
    name: construct_genomic_entity_association_object
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/reagent.yaml
    alias: construct_genomic_entity_association_object
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - ConstructGenomicEntityAssociation
    range: GenomicEntity
    required: true
  related_notes:
    name: related_notes
    description: Holds between an object and a list of related Note objects.
    notes:
    - The original name suggested for this slot was simply notes, but I think that
      label is reserved in LinkML for internal descriptions of objects, hence the
      related_notes label used here.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: related_notes
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - Allele
    - Gene
    - GeneChangeEventSlotAnnotation
    - ExpressionExperiment
    - Reagent
    - ConstructComponentSlotAnnotation
    - ConstructGenomicEntityAssociation
    - ConstructCassetteAssociation
    - CassetteComponentSlotAnnotation
    - CassetteGenomicEntityAssociation
    - CassetteTransgenicToolAssociation
    - CassetteStrAssociation
    - Annotation
    - HTPExpressionDatasetSampleAnnotation
    - Variant
    range: Note
    required: false
    multivalued: true
  construct_association_subject:
    name: construct_association_subject
    from_schema: https://github.com/alliance-genome/agr_curation_schema/src/schema/reagent.yaml
    alias: construct_association_subject
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - ConstructAssociation
    range: Construct
    required: true
  evidence:
    name: evidence
    description: The evidence that supports some assertion.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: evidence
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - Note
    - SlotAnnotation
    - EvidenceAssociation
    range: InformationContentEntity
    multivalued: true
  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.
    notes:
    - 'The relation should be a VocabularyTerm with one of the following values -
      expresses (RO:0002292) / is_regulated_by (RO:0002334) / targets (RO:0002436).
      CV: ''Construct Genomic Entity Association Relation'''
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    exact_mappings:
    - biolink:predicate
    is_a: association_slot
    alias: relation
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - Association
    - ConstructComponentSlotAnnotation
    - CassetteComponentSlotAnnotation
    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
    alias: created_by
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - AuditedObject
    range: Person
    multivalued: false
  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: ConstructGenomicEntityAssociation
    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
    alias: updated_by
    owner: ConstructGenomicEntityAssociation
    domain_of:
    - AuditedObject
    range: Person
    multivalued: false
  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: ConstructGenomicEntityAssociation
    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: ConstructGenomicEntityAssociation
    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: ConstructGenomicEntityAssociation
    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: ConstructGenomicEntityAssociation
    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: ConstructGenomicEntityAssociation
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean