Class: Sample (Sample)

A functionally equivalent specimen taken from a participant or processed from such a sample.

 classDiagram
    class Sample
    click Sample href "../Sample/"
      Record <|-- Sample
        click Record href "../Record/"

      Sample : access_policy_id





        Sample --> "0..1" AccessPolicy : access_policy_id
        click AccessPolicy href "../AccessPolicy/"



      Sample : availability_status





        Sample --> "0..1" EnumAvailabilityStatus : availability_status
        click EnumAvailabilityStatus href "../EnumAvailabilityStatus/"



      Sample : biospecimen_collection_id





        Sample --> "0..1" BiospecimenCollection : biospecimen_collection_id
        click BiospecimenCollection href "../BiospecimenCollection/"



      Sample : external_id

      Sample : parent_sample_id





        Sample --> "0..1" Sample : parent_sample_id
        click Sample href "../Sample/"



      Sample : processing

      Sample : quantity_number

      Sample : quantity_unit





        Sample --> "0..1" Concept : quantity_unit
        click Concept href "../Concept/"



      Sample : sample_id

      Sample : sample_type

      Sample : storage_method

      Sample : study_id





        Sample --> "0..1" Study : study_id
        click Study href "../Study/"

Inheritance

Sample [ Record]

Slots

Name	Cardinality and Range	Description	Inheritance
sample_id	1 BsGlobalID	The unique identifier for this Sample	direct
biospecimen_collection_id	0..1 BiospecimenCollection	Biospecimen Collection during which this sample was generated	direct
parent_sample_id	0..1 Sample	Sample from which this sample is derived	direct
sample_type	1 Uriorcurie	Type of material of which this Sample is comprised	direct
processing	* Uriorcurie	Processing that was applied to the Parent Sample or from the Biospecimen Coll...	direct
availability_status	0..1 EnumAvailabilityStatus	Can this Sample be requested for further analysis?	direct
storage_method	* Uriorcurie	Sample storage method, eg, Frozen or with additives	direct
quantity_number	0..1 Float	The total quantity of the specimen	direct
quantity_unit	0..1 Concept	The structured term defining the units of the quantity	direct
external_id	* Uriorcurie	Other identifiers for this entity, eg, from the submitting study or in system...	Record
access_policy_id	0..1 AccessPolicy	Global identifier for the access policy that applies to this row of data	Record
study_id	0..1 Study	INCLUDE Global ID for the study	Record

Usages

used by	used in	type	used
Sample	parent_sample_id	range	Sample
Aliquot	sample_id	range	Sample
File	sample_id	range	Sample
Assay	sample_id	range	Sample

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: Sample
description: A functionally equivalent specimen taken from a participant or processed
  from such a sample.
title: Sample
from_schema: https://includedcc.org/include-access-model
mixins:
- Record
slots:
- sample_id
- biospecimen_collection_id
- parent_sample_id
- sample_type
- processing
- availability_status
- storage_method
- quantity_number
- quantity_unit
slot_usage:
  sample_id:
    name: sample_id
    identifier: true
    range: bsGlobalID
    required: true
  biospecimen_collection_id:
    name: biospecimen_collection_id
    description: Biospecimen Collection during which this sample was generated.

Induced

name: Sample
description: A functionally equivalent specimen taken from a participant or processed
  from such a sample.
title: Sample
from_schema: https://includedcc.org/include-access-model
mixins:
- Record
slot_usage:
  sample_id:
    name: sample_id
    identifier: true
    range: bsGlobalID
    required: true
  biospecimen_collection_id:
    name: biospecimen_collection_id
    description: Biospecimen Collection during which this sample was generated.
attributes:
  sample_id:
    name: sample_id
    description: The unique identifier for this Sample.
    title: Sample ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    identifier: true
    owner: Sample
    domain_of:
    - Sample
    - Aliquot
    - File
    - Assay
    range: bsGlobalID
    required: true
  biospecimen_collection_id:
    name: biospecimen_collection_id
    description: Biospecimen Collection during which this sample was generated.
    title: Biospecimen Collection ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    - BiospecimenCollection
    range: BiospecimenCollection
  parent_sample_id:
    name: parent_sample_id
    description: Sample from which this sample is derived
    title: Parent Sample ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    range: Sample
    inlined: false
  sample_type:
    name: sample_type
    description: Type of material of which this Sample is comprised. UBERON is recommended.
    title: Sample Type
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    range: uriorcurie
    required: true
  processing:
    name: processing
    description: Processing that was applied to the Parent Sample or from the Biospecimen
      Collection that yielded this distinct sample. OBI is recommended.
    title: Sample Processing
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    range: uriorcurie
    multivalued: true
  availability_status:
    name: availability_status
    description: Can this Sample be requested for further analysis?
    title: Sample Availability
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    - Aliquot
    range: EnumAvailabilityStatus
  storage_method:
    name: storage_method
    description: Sample storage method, eg, Frozen or with additives. OBI may be suitable,
      or ChEBI for additives.
    title: Sample Storage Method
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    range: uriorcurie
    multivalued: true
  quantity_number:
    name: quantity_number
    description: The total quantity of the specimen
    title: Quantity
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    - Aliquot
    range: float
  quantity_unit:
    name: quantity_unit
    description: The structured term defining the units of the quantity.
    title: Quantity Units
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Sample
    - Aliquot
    range: Concept
  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
    owner: Sample
    domain_of:
    - Record
    range: uriorcurie
    required: false
    multivalued: true
  access_policy_id:
    name: access_policy_id
    description: Global identifier for the access policy that applies to this row
      of data.
    title: Access Policy ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Record
    - AccessPolicy
    range: AccessPolicy
  study_id:
    name: study_id
    description: INCLUDE Global ID for the study
    title: Study ID
    from_schema: https://includedcc.org/include-access-model
    rank: 1000
    owner: Sample
    domain_of:
    - Record
    - StudyMetadata
    range: Study
    multivalued: false