Class: Dataset

A dataset containing metabolomics and proteomics data.

classDiagram class Dataset click Dataset href "../Dataset" Dataset : active Dataset : additional_brcs Dataset --> "*" BRCEnum : additional_brcs click BRCEnum href "../BRCEnum" Dataset : alert Dataset : analysisType Dataset : bibliographicCitation Dataset : brc Dataset --> "1" BRCEnum : brc click BRCEnum href "../BRCEnum" Dataset : contributors Dataset --> "*" Contributor : contributors click Contributor href "../Contributor" Dataset : creator Dataset --> "1..*" Individual : creator click Individual href "../Individual" Dataset : dataset_url Dataset : datasetName Dataset : datasetType Dataset --> "0..1" DatasetTypeCodes : datasetType click DatasetTypeCodes href "../DatasetTypeCodes" Dataset : date Dataset : description Dataset : funding Dataset --> "*" Funding : funding click Funding href "../Funding" Dataset : has_related_ids Dataset : id Dataset : identifier Dataset : keywords Dataset : plasmid_features Dataset --> "*" Plasmid : plasmid_features click Plasmid href "../Plasmid" Dataset : relatedItem Dataset --> "*" RelatedItem : relatedItem click RelatedItem href "../RelatedItem" Dataset : repository Dataset --> "0..1" RepositoryEnum : repository click RepositoryEnum href "../RepositoryEnum" Dataset : species Dataset --> "*" Organism : species click Organism href "../Organism" Dataset : title

Slots

Name	Cardinality and Range	Description	Inheritance
id	0..1 Uriorcurie	Unique identifier for the dataset, assigned prior to inclusion in bioenergy	direct
active	0..1 Boolean	Indicates whether the dataset is active or inactive	direct
alert	0..1 Boolean	Indicates whether availability of the dataset has encountered some inconsiste...	direct
title	1 String	The title of the dataset	direct
date	1 date	The date the dataset was created or published	direct
creator	1..* Individual	List of creators involved in the dataset, where one must be the primary conta...	direct
contributors	* Contributor	Contributors to the dataset who are not necessarily authors	direct
brc	1 BRCEnum	The primary Bioenergy Research Center affiliation	direct
additional_brcs	* BRCEnum	Additional Bioenergy Research Center affiliations	direct
repository	0..1 RepositoryEnum	The repository where the dataset is stored	direct
bibliographicCitation	0..1 Uri	Citation for the dataset	direct
identifier	1 String	Unique identifier for the dataset	direct
has_related_ids	* Uriorcurie	"Related identifiers for the dataset	direct
species	* Organism	Species information for the organism(s) studied	direct
plasmid_features	* Plasmid	Description of plasmid features, if applicable	direct
analysisType	0..1 String or AnalysisType or String	The type of analysis performed on the dataset	direct
datasetType	0..1 DatasetTypeCodes	High-level type of the main content of the dataset	direct
description	0..1 String	A detailed description of the dataset	direct
relatedItem	* RelatedItem	Related publications or items	direct
keywords	* String	Keywords associated with the dataset	direct
datasetName	0..1 String	"Name of a overall dataset to which this data entry belongs	direct
funding	* Funding	Funding source(s) for the dataset	direct
dataset_url	0..1 Uri	URL for the dataset landing page	direct

Usages

used by	used in	type	used
DatasetCollection	datasets	range	Dataset

Identifier and Mapping Information

Valid ID Prefixes

Instances of this class should have identifiers with one of the following prefixes:

cabbi
cbi
glbrc
jbei

Schema Source

from schema: https://w3id.org/brc/brc_schema

Mappings

Mapping Type	Mapped Value
self	schema:Dataset
native	brc:Dataset
exact	dcat:Dataset, bald:Container
close	dcat:Catalog

LinkML Source

Direct

name: Dataset
id_prefixes:
- cabbi
- cbi
- glbrc
- jbei
description: A dataset containing metabolomics and proteomics data.
from_schema: https://w3id.org/brc/brc_schema
exact_mappings:
- dcat:Dataset
- bald:Container
close_mappings:
- dcat:Catalog
attributes:
  id:
    name: id
    description: Unique identifier for the dataset, assigned prior to inclusion in
      bioenergy.org.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: schema:identifier
    domain_of:
    - Dataset
    range: uriorcurie
    required: false
  active:
    name: active
    description: Indicates whether the dataset is active or inactive. This is a boolean
      field - true indicates active, false indicates inactive.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: 'True'
    domain_of:
    - Dataset
    range: boolean
  alert:
    name: alert
    description: Indicates whether availability of the dataset has encountered some
      inconsistency. This is a boolean field - true indicates alert, false indicates
      no alert. For example, if we have a Dataset object but the Dataset is missing
      from its source feed, this should be set to true.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: 'False'
    domain_of:
    - Dataset
    range: boolean
  title:
    name: title
    description: The title of the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:title
    rank: 1000
    slot_uri: dcterms:title
    domain_of:
    - Dataset
    - RelatedItem
    range: string
    required: true
  date:
    name: date
    description: The date the dataset was created or published.
    from_schema: https://w3id.org/brc/brc_schema
    close_mappings:
    - schema:datePublished
    - osti:publication_date
    rank: 1000
    slot_uri: dcterms:date
    domain_of:
    - Dataset
    range: date
    required: true
  creator:
    name: creator
    description: List of creators involved in the dataset, where one must be the primary
      contact.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: dcterms:creator
    domain_of:
    - Dataset
    range: Individual
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  contributors:
    name: contributors
    description: Contributors to the dataset who are not necessarily authors.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: Contributor
    multivalued: true
    inlined: true
    inlined_as_list: true
  brc:
    name: brc
    description: The primary Bioenergy Research Center affiliation. This is a single
      BRC name.
    from_schema: https://w3id.org/brc/brc_schema
    broad_mappings:
    - osti:originating_research_org
    rank: 1000
    slot_uri: prov:wasAttributedTo
    domain_of:
    - Dataset
    range: BRCEnum
    required: true
  additional_brcs:
    name: additional_brcs
    description: Additional Bioenergy Research Center affiliations. This is a list
      of one or more additional BRC names, for instances in which the dataset is associated
      with multiple centers.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: prov:wasAttributedTo
    domain_of:
    - Dataset
    range: BRCEnum
    multivalued: true
  repository:
    name: repository
    description: The repository where the dataset is stored.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: RepositoryEnum
  bibliographicCitation:
    name: bibliographicCitation
    description: Citation for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: dcterms:bibliographicCitation
    domain_of:
    - Dataset
    range: uri
  identifier:
    name: identifier
    description: Unique identifier for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: schema:identifier
    domain_of:
    - Dataset
    range: string
    required: true
  has_related_ids:
    name: has_related_ids
    id_prefixes:
    - BIOPROJECT
    - BIOSAMPLE
    - INSDC.SRA
    description: '"Related identifiers for the dataset. These should be identifiers
      to records in other repositories, and these records may be the same data or
      components of the dataset."'
    from_schema: https://w3id.org/brc/brc_schema
    close_mappings:
    - osti:related_identifiers
    rank: 1000
    domain_of:
    - Dataset
    range: uriorcurie
    multivalued: true
  species:
    name: species
    description: Species information for the organism(s) studied.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: Organism
    multivalued: true
  plasmid_features:
    name: plasmid_features
    description: Description of plasmid features, if applicable. This is a multivalued
      field.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: Plasmid
    multivalued: true
  analysisType:
    name: analysisType
    description: The type of analysis performed on the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: string(not specified)
    domain_of:
    - Dataset
    any_of:
    - range: AnalysisType
    - range: string
  datasetType:
    name: datasetType
    description: High-level type of the main content of the dataset.
    examples:
    - value: GD
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: DatasetTypeCodes
  description:
    name: description
    description: A detailed description of the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:description
    rank: 1000
    slot_uri: dcterms:description
    domain_of:
    - Dataset
    - Plasmid
    range: string
  relatedItem:
    name: relatedItem
    description: Related publications or items.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: RelatedItem
    multivalued: true
  keywords:
    name: keywords
    description: Keywords associated with the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - schema:keywords
    - osti:keywords
    rank: 1000
    slot_uri: dcat:keyword
    domain_of:
    - Dataset
    range: string
    multivalued: true
  datasetName:
    name: datasetName
    description: '"Name of a overall dataset to which this data entry belongs."'
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: string
  funding:
    name: funding
    description: Funding source(s) for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    domain_of:
    - Dataset
    range: Funding
    multivalued: true
  dataset_url:
    name: dataset_url
    description: URL for the dataset landing page.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:site_url
    rank: 1000
    slot_uri: schema:url
    domain_of:
    - Dataset
    range: uri
class_uri: schema:Dataset

Induced

name: Dataset
id_prefixes:
- cabbi
- cbi
- glbrc
- jbei
description: A dataset containing metabolomics and proteomics data.
from_schema: https://w3id.org/brc/brc_schema
exact_mappings:
- dcat:Dataset
- bald:Container
close_mappings:
- dcat:Catalog
attributes:
  id:
    name: id
    description: Unique identifier for the dataset, assigned prior to inclusion in
      bioenergy.org.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: schema:identifier
    alias: id
    owner: Dataset
    domain_of:
    - Dataset
    range: uriorcurie
    required: false
  active:
    name: active
    description: Indicates whether the dataset is active or inactive. This is a boolean
      field - true indicates active, false indicates inactive.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: 'True'
    alias: active
    owner: Dataset
    domain_of:
    - Dataset
    range: boolean
  alert:
    name: alert
    description: Indicates whether availability of the dataset has encountered some
      inconsistency. This is a boolean field - true indicates alert, false indicates
      no alert. For example, if we have a Dataset object but the Dataset is missing
      from its source feed, this should be set to true.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: 'False'
    alias: alert
    owner: Dataset
    domain_of:
    - Dataset
    range: boolean
  title:
    name: title
    description: The title of the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:title
    rank: 1000
    slot_uri: dcterms:title
    alias: title
    owner: Dataset
    domain_of:
    - Dataset
    - RelatedItem
    range: string
    required: true
  date:
    name: date
    description: The date the dataset was created or published.
    from_schema: https://w3id.org/brc/brc_schema
    close_mappings:
    - schema:datePublished
    - osti:publication_date
    rank: 1000
    slot_uri: dcterms:date
    alias: date
    owner: Dataset
    domain_of:
    - Dataset
    range: date
    required: true
  creator:
    name: creator
    description: List of creators involved in the dataset, where one must be the primary
      contact.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: dcterms:creator
    alias: creator
    owner: Dataset
    domain_of:
    - Dataset
    range: Individual
    required: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  contributors:
    name: contributors
    description: Contributors to the dataset who are not necessarily authors.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: contributors
    owner: Dataset
    domain_of:
    - Dataset
    range: Contributor
    multivalued: true
    inlined: true
    inlined_as_list: true
  brc:
    name: brc
    description: The primary Bioenergy Research Center affiliation. This is a single
      BRC name.
    from_schema: https://w3id.org/brc/brc_schema
    broad_mappings:
    - osti:originating_research_org
    rank: 1000
    slot_uri: prov:wasAttributedTo
    alias: brc
    owner: Dataset
    domain_of:
    - Dataset
    range: BRCEnum
    required: true
  additional_brcs:
    name: additional_brcs
    description: Additional Bioenergy Research Center affiliations. This is a list
      of one or more additional BRC names, for instances in which the dataset is associated
      with multiple centers.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: prov:wasAttributedTo
    alias: additional_brcs
    owner: Dataset
    domain_of:
    - Dataset
    range: BRCEnum
    multivalued: true
  repository:
    name: repository
    description: The repository where the dataset is stored.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: repository
    owner: Dataset
    domain_of:
    - Dataset
    range: RepositoryEnum
  bibliographicCitation:
    name: bibliographicCitation
    description: Citation for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: dcterms:bibliographicCitation
    alias: bibliographicCitation
    owner: Dataset
    domain_of:
    - Dataset
    range: uri
  identifier:
    name: identifier
    description: Unique identifier for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    slot_uri: schema:identifier
    alias: identifier
    owner: Dataset
    domain_of:
    - Dataset
    range: string
    required: true
  has_related_ids:
    name: has_related_ids
    id_prefixes:
    - BIOPROJECT
    - BIOSAMPLE
    - INSDC.SRA
    description: '"Related identifiers for the dataset. These should be identifiers
      to records in other repositories, and these records may be the same data or
      components of the dataset."'
    from_schema: https://w3id.org/brc/brc_schema
    close_mappings:
    - osti:related_identifiers
    rank: 1000
    alias: has_related_ids
    owner: Dataset
    domain_of:
    - Dataset
    range: uriorcurie
    multivalued: true
  species:
    name: species
    description: Species information for the organism(s) studied.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: species
    owner: Dataset
    domain_of:
    - Dataset
    range: Organism
    multivalued: true
  plasmid_features:
    name: plasmid_features
    description: Description of plasmid features, if applicable. This is a multivalued
      field.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: plasmid_features
    owner: Dataset
    domain_of:
    - Dataset
    range: Plasmid
    multivalued: true
  analysisType:
    name: analysisType
    description: The type of analysis performed on the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    ifabsent: string(not specified)
    alias: analysisType
    owner: Dataset
    domain_of:
    - Dataset
    range: string
    any_of:
    - range: AnalysisType
    - range: string
  datasetType:
    name: datasetType
    description: High-level type of the main content of the dataset.
    examples:
    - value: GD
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: datasetType
    owner: Dataset
    domain_of:
    - Dataset
    range: DatasetTypeCodes
  description:
    name: description
    description: A detailed description of the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:description
    rank: 1000
    slot_uri: dcterms:description
    alias: description
    owner: Dataset
    domain_of:
    - Dataset
    - Plasmid
    range: string
  relatedItem:
    name: relatedItem
    description: Related publications or items.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: relatedItem
    owner: Dataset
    domain_of:
    - Dataset
    range: RelatedItem
    multivalued: true
  keywords:
    name: keywords
    description: Keywords associated with the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - schema:keywords
    - osti:keywords
    rank: 1000
    slot_uri: dcat:keyword
    alias: keywords
    owner: Dataset
    domain_of:
    - Dataset
    range: string
    multivalued: true
  datasetName:
    name: datasetName
    description: '"Name of a overall dataset to which this data entry belongs."'
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: datasetName
    owner: Dataset
    domain_of:
    - Dataset
    range: string
  funding:
    name: funding
    description: Funding source(s) for the dataset.
    from_schema: https://w3id.org/brc/brc_schema
    rank: 1000
    alias: funding
    owner: Dataset
    domain_of:
    - Dataset
    range: Funding
    multivalued: true
  dataset_url:
    name: dataset_url
    description: URL for the dataset landing page.
    from_schema: https://w3id.org/brc/brc_schema
    exact_mappings:
    - osti:site_url
    rank: 1000
    slot_uri: schema:url
    alias: dataset_url
    owner: Dataset
    domain_of:
    - Dataset
    range: uri
class_uri: schema:Dataset