BioSampleAgeDTO

An object that holds the temporal aspect of a sample.

classDiagram SubmittedObjectDTO <|-- BioSampleAgeDTO BioSampleAgeDTO : age BioSampleAgeDTO : created_by_curie BioSampleAgeDTO : data_provider_dto BioSampleAgeDTO : date_created BioSampleAgeDTO : date_updated BioSampleAgeDTO : db_date_created BioSampleAgeDTO : db_date_updated BioSampleAgeDTO : internal BioSampleAgeDTO : mod_internal_id BioSampleAgeDTO : obsolete BioSampleAgeDTO : primary_external_id BioSampleAgeDTO : stage_dto BioSampleAgeDTO : updated_by_curie BioSampleAgeDTO : when_expressed_stage_name

URI: alliance:BioSampleAgeDTO

Parent Classes

AuditedObjectDTO
- SubmittedObjectDTO
  - BioSampleAgeDTO

Slots

Name	Description
age	free text for the age of the sample
created_by_curie	Curie of the Person object representing the individual that created the entity
data_provider_dto	Ingest object representing the organization (e.g. MOD) from which the data was sourced and a CrossReference to that organisation's site
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.
internal	Classifies the entity as private (for internal use) or not (for public use).
mod_internal_id	The model organism database (MOD) internal identifier for the object
obsolete	Entity is no longer current.
primary_external_id	The primary external (non-Alliance) database identifier/curie for the object. Note that this may be an external (non-Alliance member) identifier for an object, like a UniProt ID for a protein, and may act as the MOD's/Alliance member's primary key for the entity.
stage_dto	The life stage of an organism or biosample as expressed by a TemporalContext entity
updated_by_curie	Curie of the Person object representing the individual that updated the entity
when_expressed_stage_name	A human-readable stage name. To be used when an ontology term for the relevant stage is not available.

Mappings

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

LinkML Specification

Direct

name: BioSampleAgeDTO
description: An object that holds the temporal aspect of a sample.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: SubmittedObjectDTO
slots:
- stage_dto
- age
- when_expressed_stage_name
slot_usage:
  age:
    name: age
    description: free text for the age of the sample
    domain_of:
    - BioSampleAge
    - BioSampleAgeDTO
    - TemporalContext
    - TemporalContextDTO

Induced

name: BioSampleAgeDTO
description: An object that holds the temporal aspect of a sample.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: SubmittedObjectDTO
slot_usage:
  age:
    name: age
    description: free text for the age of the sample
    domain_of:
    - BioSampleAge
    - BioSampleAgeDTO
    - TemporalContext
    - TemporalContextDTO
attributes:
  stage_dto:
    name: stage_dto
    description: The life stage of an organism or biosample as expressed by a TemporalContext
      entity
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: BioSampleAgeDTO
    alias: stage_dto
    owner: BioSampleAgeDTO
    domain_of:
    - BioSampleAgeDTO
    range: TemporalContextDTO
    inlined: true
  age:
    name: age
    description: free text for the age of the sample
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: age
    owner: BioSampleAgeDTO
    domain_of:
    - BioSampleAge
    - BioSampleAgeDTO
    - TemporalContext
    - TemporalContextDTO
    range: string
  when_expressed_stage_name:
    name: when_expressed_stage_name
    description: A human-readable stage name. To be used when an ontology term for
      the relevant stage is not available.
    notes:
    - Corresponds to whenExpressed.stageName in frozen JSON schema.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: when_expressed_stage_name
    owner: BioSampleAgeDTO
    domain_of:
    - BioSampleAge
    - BioSampleAgeDTO
    - ExpressionAnnotation
    range: string
  primary_external_id:
    name: primary_external_id
    description: The primary external (non-Alliance) database identifier/curie for
      the object. Note that this may be an external (non-Alliance member) identifier
      for an object, like a UniProt ID for a protein, and may act as the MOD's/Alliance
      member's primary key for the entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: primary_external_id
    owner: BioSampleAgeDTO
    domain_of:
    - SubmittedObject
    - SubmittedObjectDTO
    - Person
    - Annotation
    - AnnotationDTO
    range: string
  mod_internal_id:
    name: mod_internal_id
    description: The model organism database (MOD) internal identifier for the object
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: mod_internal_id
    owner: BioSampleAgeDTO
    domain_of:
    - SubmittedObject
    - SubmittedObjectDTO
    - Annotation
    - AnnotationDTO
    range: string
  data_provider_dto:
    name: data_provider_dto
    description: Ingest object representing the organization (e.g. MOD) from which
      the data was sourced and a CrossReference to that organisation's site
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: data_provider_dto
    owner: BioSampleAgeDTO
    domain_of:
    - SubmittedObjectDTO
    - ChromosomeDTO
    - AssemblyComponentDTO
    - AnnotationDTO
    range: DataProviderDTO
    required: true
    inlined: true
  created_by_curie:
    name: created_by_curie
    description: Curie of the Person object representing the individual that created
      the entity
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObjectDTO
    alias: created_by_curie
    owner: BioSampleAgeDTO
    domain_of:
    - AuditedObjectDTO
    range: string
  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: BioSampleAgeDTO
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  updated_by_curie:
    name: updated_by_curie
    description: Curie of the Person object representing the individual that updated
      the entity
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObjectDTO
    alias: updated_by_curie
    owner: BioSampleAgeDTO
    domain_of:
    - AuditedObjectDTO
    range: string
  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: BioSampleAgeDTO
    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: BioSampleAgeDTO
    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: BioSampleAgeDTO
    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: BioSampleAgeDTO
    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: BioSampleAgeDTO
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean