Class: BiospecimenCollection (BiospecimenCollection)

A biospecimen collection event which yields one or more Samples.

classDiagram class BiospecimenCollection click BiospecimenCollection href "../BiospecimenCollection/" Record <|-- BiospecimenCollection click Record href "../Record/" BiospecimenCollection : age_at_collection BiospecimenCollection : biospecimen_collection_id BiospecimenCollection : encounter_id BiospecimenCollection --> "0..1" Encounter : encounter_id click Encounter href "../Encounter/" BiospecimenCollection : external_id BiospecimenCollection : laterality BiospecimenCollection --> "0..1" EnumLaterality : laterality click EnumLaterality href "../EnumLaterality/" BiospecimenCollection : method BiospecimenCollection --> "0..1" EnumSampleCollectionMethod : method click EnumSampleCollectionMethod href "../EnumSampleCollectionMethod/" BiospecimenCollection : site BiospecimenCollection --> "0..1" EnumSite : site click EnumSite href "../EnumSite/" BiospecimenCollection : spatial_qualifier BiospecimenCollection --> "0..1" EnumSpatialQualifiers : spatial_qualifier click EnumSpatialQualifiers href "../EnumSpatialQualifiers/"

Inheritance

Record
- BiospecimenCollection

Slots

Name	Cardinality and Range	Description	Inheritance
biospecimen_collection_id	1 String	Unique identifier for this Biospecimen Collection	direct
age_at_collection	0..1 Float	The age at which this biospecimen was collected in decimal years	direct
method	0..1 EnumSampleCollectionMethod	The approach used to collect the biospecimen	direct
site	0..1 EnumSite	The location of the specimen collection	direct
spatial_qualifier	0..1 EnumSpatialQualifiers	Qualifier that further refine the specific location of biospecimen collection	direct
laterality	0..1 EnumLaterality	Laterality that further refine the specific location of biospecimen collectio...	direct
encounter_id	0..1 Encounter	Unique identifier for this Encounter	direct
external_id	* Uriorcurie	Other identifiers for this entity, eg, from the submitting study or in system...	Record

Usages

used by	used in	type	used
Sample	biospecimen_collection_id	range	BiospecimenCollection

Identifier and Mapping Information

Schema Source

from schema: https://includedcc.org/include-access-model

Mappings

Mapping Type	Mapped Value
self	includedcc:BiospecimenCollection
native	includedcc:BiospecimenCollection

LinkML Source

Direct

name: BiospecimenCollection
description: A biospecimen collection event which yields one or more Samples.
title: BiospecimenCollection
from_schema: https://includedcc.org/include-access-model
is_a: Record
slots:
- biospecimen_collection_id
- age_at_collection
- method
- site
- spatial_qualifier
- laterality
- encounter_id
slot_usage:
  biospecimen_collection_id:
    name: biospecimen_collection_id
    identifier: true
    range: string
    required: true

Induced

name: BiospecimenCollection
description: A biospecimen collection event which yields one or more Samples.
title: BiospecimenCollection
from_schema: https://includedcc.org/include-access-model
is_a: Record
slot_usage:
  biospecimen_collection_id:
    name: biospecimen_collection_id
    identifier: true
    range: string
    required: true
attributes:
  biospecimen_collection_id:
    name: biospecimen_collection_id
    description: Unique identifier for this Biospecimen Collection.
    title: Biospecimen Collection ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    identifier: true
    alias: biospecimen_collection_id
    owner: BiospecimenCollection
    domain_of:
    - Sample
    - BiospecimenCollection
    range: string
    required: true
  age_at_collection:
    name: age_at_collection
    description: The age at which this biospecimen was collected in decimal years.
    title: Age at Biospecimen Collection
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: age_at_collection
    owner: BiospecimenCollection
    domain_of:
    - BiospecimenCollection
    range: float
    unit:
      ucum_code: a
  method:
    name: method
    description: The approach used to collect the biospecimen.
    title: Biospecimen Collection Method
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: method
    owner: BiospecimenCollection
    domain_of:
    - BiospecimenCollection
    range: EnumSampleCollectionMethod
  site:
    name: site
    description: The location of the specimen collection.
    title: Biospecimen Collection Site
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: site
    owner: BiospecimenCollection
    domain_of:
    - BiospecimenCollection
    range: EnumSite
  spatial_qualifier:
    name: spatial_qualifier
    description: Qualifier that further refine the specific location of biospecimen
      collection
    title: Spatial Qualifier
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: spatial_qualifier
    owner: BiospecimenCollection
    domain_of:
    - BiospecimenCollection
    range: EnumSpatialQualifiers
  laterality:
    name: laterality
    description: Laterality that further refine the specific location of biospecimen
      collection
    title: Location Laterality
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: laterality
    owner: BiospecimenCollection
    domain_of:
    - BiospecimenCollection
    range: EnumLaterality
  encounter_id:
    name: encounter_id
    description: Unique identifier for this Encounter.
    title: Encounter ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: encounter_id
    owner: BiospecimenCollection
    domain_of:
    - SubjectAssertion
    - BiospecimenCollection
    - Encounter
    range: Encounter
  external_id:
    name: external_id
    description: Other identifiers for this entity, eg, from the submitting study
      or in systems like dbGaP
    title: External Identifiers
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    alias: external_id
    owner: BiospecimenCollection
    domain_of:
    - Record
    range: uriorcurie
    required: false
    multivalued: true