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Class: DataSubstrate

Represents a data substrate for Bridge2AI data. This may be a high-level data structure or a specific implementation of that structure. Interpret as "data, in this form or format", as compared to DataStandard, which refers to the set of rules defining a standard. For example, data in TSV format is represented as a DataSubstrate but the concept of TSV format is a DataStandard.

URI: https://w3id.org/bridge2ai/standards-schema-all/:DataSubstrate

classDiagram class DataSubstrate NamedThing <|-- DataSubstrate DataSubstrate : category DataSubstrate : contribution_date DataSubstrate : contributor_github_name DataSubstrate : contributor_name DataSubstrate : contributor_orcid DataSubstrate : description DataSubstrate : edam_id DataSubstrate : file_extensions DataSubstrate : id DataSubstrate : limitations DataSubstrate : mesh_id DataSubstrate : metadata_storage DataSubstrate : name DataSubstrate : ncit_id DataSubstrate : related_to DataSubstrate ..> NamedThing : related_to DataSubstrate : subclass_of DataSubstrate ..> NamedThing : subclass_of

Inheritance

Slots

Name Cardinality and Range Description Inheritance
edam_id 0..1
EdamIdentifier		 Unique EDAM identifier direct
mesh_id 0..1
MeshIdentifier		 Unique MeSH identifier direct
ncit_id 0..1
NcitIdentifier		 Unique NCIt Identifier direct
metadata_storage 0..*
String		 Data Substrate in which metadata is stored direct
file_extensions 0..*
String		 Commonly used file extensions for this substrate direct
limitations 0..*
String		 Potential obstacles particular to this substrate or implementation direct
id 1..1
Uriorcurie		 A unique identifier for a thing NamedThing
category 0..1
CategoryType		 Name of the high level ontology class in which this entity is categorized NamedThing
name 0..1
String		 A human-readable name for a thing NamedThing
description 0..1
String		 A human-readable description for a thing NamedThing
subclass_of 0..*
NamedThing		 Holds between two classes where the domain class is a specialization of the r... NamedThing
related_to 0..*
NamedThing		 A relationship that is asserted between two named things NamedThing
contributor_name 0..1
String		 The name of the person who added this node NamedThing
contributor_github_name 0..1
String		 The name of the github user who added this node NamedThing
contributor_orcid 0..1
Uriorcurie		 The ORCiD of the person who added this node NamedThing
contribution_date 0..1
Date		 The date on which the node was added NamedThing

Usages

used by used in type used
UseCase data_substrates range DataSubstrate
DataSubstrateContainer data_substrates_collection range DataSubstrate

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/bridge2ai/standards-schema-all

Mappings

Mapping Type Mapped Value
self https://w3id.org/bridge2ai/standards-schema-all/:DataSubstrate
native https://w3id.org/bridge2ai/standards-schema-all/:DataSubstrate

LinkML Source

Direct

name: DataSubstrate
description: Represents a data substrate for Bridge2AI data. This may be a high-level
  data structure or a specific implementation of that structure. Interpret as "data,
  in this form or format", as compared to DataStandard, which refers to the set of
  rules defining a standard. For example, data in TSV format is represented as a DataSubstrate
  but the concept of TSV format is a DataStandard.
from_schema: https://w3id.org/bridge2ai/standards-schema-all
rank: 1000
is_a: NamedThing
slots:
- edam_id
- mesh_id
- ncit_id
- metadata_storage
- file_extensions
- limitations

Induced

name: DataSubstrate
description: Represents a data substrate for Bridge2AI data. This may be a high-level
  data structure or a specific implementation of that structure. Interpret as "data,
  in this form or format", as compared to DataStandard, which refers to the set of
  rules defining a standard. For example, data in TSV format is represented as a DataSubstrate
  but the concept of TSV format is a DataStandard.
from_schema: https://w3id.org/bridge2ai/standards-schema-all
rank: 1000
is_a: NamedThing
attributes:
  edam_id:
    name: edam_id
    description: Unique EDAM identifier
    examples:
    - value: edam.data:0006
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    values_from:
    - edam.data
    - edam.format
    - edam.operation
    - edam.topic
    alias: edam_id
    owner: DataSubstrate
    domain_of:
    - DataTopic
    - DataSubstrate
    range: edam_identifier
  mesh_id:
    name: mesh_id
    description: Unique MeSH identifier
    examples:
    - value: MeSH:D014831
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    values_from:
    - MeSH
    alias: mesh_id
    owner: DataSubstrate
    domain_of:
    - DataTopic
    - DataSubstrate
    range: mesh_identifier
  ncit_id:
    name: ncit_id
    description: Unique NCIt Identifier
    examples:
    - value: NCIT:C92692
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    values_from:
    - NCIT
    alias: ncit_id
    owner: DataSubstrate
    domain_of:
    - DataTopic
    - DataSubstrate
    range: ncit_identifier
  metadata_storage:
    name: metadata_storage
    description: Data Substrate in which metadata is stored.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    multivalued: true
    alias: metadata_storage
    owner: DataSubstrate
    domain_of:
    - DataSubstrate
    range: string
    any_of:
    - range: DataSubstrate
    - equals_string: file headers
  file_extensions:
    name: file_extensions
    description: Commonly used file extensions for this substrate.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    multivalued: true
    alias: file_extensions
    owner: DataSubstrate
    domain_of:
    - DataSubstrate
    range: string
  limitations:
    name: limitations
    description: 'Potential obstacles particular to this substrate or implementation. '
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    multivalued: true
    alias: limitations
    owner: DataSubstrate
    domain_of:
    - DataSubstrate
    range: string
  id:
    name: id
    description: A unique identifier for a thing.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    slot_uri: schema:identifier
    identifier: true
    alias: id
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: uriorcurie
    required: true
  category:
    name: category
    description: Name of the high level ontology class in which this entity is categorized.
      Corresponds to the label for the entity type class, e.g., "BiomedicalStandard".
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: type
    domain: NamedThing
    designates_type: true
    alias: category
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: category_type
  name:
    name: name
    description: A human-readable name for a thing.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    slot_uri: schema:name
    alias: name
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: string
  description:
    name: description
    description: A human-readable description for a thing.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    slot_uri: schema:description
    alias: description
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: string
  subclass_of:
    name: subclass_of
    description: Holds between two classes where the domain class is a specialization
      of the range class.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    exact_mappings:
    - rdfs:subClassOf
    - MESH:isa
    narrow_mappings:
    - rdfs:subPropertyOf
    rank: 1000
    is_a: related_to
    domain: NamedThing
    multivalued: true
    inherited: true
    alias: subclass_of
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: NamedThing
  related_to:
    name: related_to
    description: A relationship that is asserted between two named things.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    domain: NamedThing
    multivalued: true
    inherited: true
    alias: related_to
    owner: DataSubstrate
    domain_of:
    - NamedThing
    - Organization
    symmetric: true
    range: NamedThing
  contributor_name:
    name: contributor_name
    description: The name of the person who added this node.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    alias: contributor_name
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: string
  contributor_github_name:
    name: contributor_github_name
    description: The name of the github user who added this node.
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    alias: contributor_github_name
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: string
  contributor_orcid:
    name: contributor_orcid
    description: The ORCiD of the person who added this node.
    examples:
    - value: ORCID:0000-0001-1234-5678
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    alias: contributor_orcid
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: uriorcurie
  contribution_date:
    name: contribution_date
    description: The date on which the node was added.
    examples:
    - value: '2023-03-20'
    from_schema: https://w3id.org/bridge2ai/standards-schema-all
    rank: 1000
    is_a: node_property
    domain: NamedThing
    alias: contribution_date
    owner: DataSubstrate
    domain_of:
    - NamedThing
    range: date