BioSampleGenomicInformation
A basic entry for defining a biosample's genomic information
classDiagram
AuditedObject <|-- BioSampleGenomicInformation
BioSampleGenomicInformation : biosample_agm
BioSampleGenomicInformation : biosample_agm_type
BioSampleGenomicInformation : biosample_allele
BioSampleGenomicInformation : biosample_text
BioSampleGenomicInformation : created_by
BioSampleGenomicInformation : date_created
BioSampleGenomicInformation : date_updated
BioSampleGenomicInformation : db_date_created
BioSampleGenomicInformation : db_date_updated
BioSampleGenomicInformation : internal
BioSampleGenomicInformation : obsolete
BioSampleGenomicInformation : updated_by
URI: alliance:BioSampleGenomicInformation
Parent Classes
- AuditedObject
- BioSampleGenomicInformation
Slots
Name | Description |
---|---|
biosample_agm | An affected genomic model (AGM) from which a biosample has been derived |
biosample_agm_type | Indicates the type of AGM biosample; enum: fish, genotype, strain |
biosample_allele | An allele of focus for a particular biosample |
biosample_text | The free text of the biosample genomic information if no biosample is available |
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. |
internal | Classifies the entity as private (for internal use) or not (for public use). |
obsolete | Entity is no longer current. |
updated_by | The individual that last modified the entity. |
Mappings
Mapping Type | Mapped Value |
---|---|
self | ['alliance:BioSampleGenomicInformation'] |
native | ['alliance:BioSampleGenomicInformation'] |
LinkML Specification
Direct
name: BioSampleGenomicInformation
description: A basic entry for defining a biosample's genomic information
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AuditedObject
slots:
- biosample_allele
- biosample_agm
- biosample_agm_type
- biosample_text
rules:
- postconditions:
description: Either biosample_text, biosample_allele or biosample_agm are required
any_of:
- slot_conditions:
biosample_text:
name: biosample_text
required: true
- slot_conditions:
biosample_allele:
name: biosample_allele
required: true
- slot_conditions:
biosample_agm:
name: biosample_agm
required: true
Induced
name: BioSampleGenomicInformation
description: A basic entry for defining a biosample's genomic information
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AuditedObject
attributes:
biosample_allele:
name: biosample_allele
description: An allele of focus for a particular biosample
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: biosample_allele
owner: BioSampleGenomicInformation
domain_of:
- BioSampleGenomicInformation
range: Allele
biosample_agm:
name: biosample_agm
description: An affected genomic model (AGM) from which a biosample has been derived
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: biosample_agm
owner: BioSampleGenomicInformation
domain_of:
- BioSampleGenomicInformation
range: AffectedGenomicModel
biosample_agm_type:
name: biosample_agm_type
description: 'Indicates the type of AGM biosample; enum: fish, genotype, strain'
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
domain: BioSampleGenomicInformation
alias: biosample_agm_type
owner: BioSampleGenomicInformation
domain_of:
- BioSampleGenomicInformation
range: VocabularyTerm
biosample_text:
name: biosample_text
description: The free text of the biosample genomic information if no biosample
is available
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
domain: BioSampleGenomicInformation
alias: biosample_text
owner: BioSampleGenomicInformation
domain_of:
- BioSampleGenomicInformation
- BioSampleGenomicInformationDTO
range: string
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
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: BioSampleGenomicInformation
domain_of:
- AuditedObject
- AuditedObjectDTO
range: boolean
rules:
- postconditions:
description: Either biosample_text, biosample_allele or biosample_agm are required
any_of:
- slot_conditions:
biosample_text:
name: biosample_text
required: true
- slot_conditions:
biosample_allele:
name: biosample_allele
required: true
- slot_conditions:
biosample_agm:
name: biosample_agm
required: true