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Class: RetrievalSource

Description: Provides information about how a particular InformationResource served as a source from which knowledge expressed in an Edge, or data used to generate this knowledge, was retrieved.
classDiagram class RetrievalSource InformationContentEntity <|-- RetrievalSource RetrievalSource : category RetrievalSource : creation_date RetrievalSource : deprecated RetrievalSource : description RetrievalSource : format RetrievalSource : full_name RetrievalSource : has_attribute RetrievalSource --|> Attribute : has_attribute RetrievalSource : id RetrievalSource : iri RetrievalSource : license RetrievalSource : name RetrievalSource : provided_by RetrievalSource : resource_id RetrievalSource : resource_role RetrievalSource --|> ResourceRoleEnum : resource_role RetrievalSource : rights RetrievalSource : source_record_urls RetrievalSource : synonym RetrievalSource : type RetrievalSource : upstream_resource_ids RetrievalSource : xref

Inheritance

Slots

Name Cardinality and Range Inheritance Examples
resource_id:
The InformationResource that served as a source for the knowledge expressed in an Edge, or data used to generate this knowledge.
1
Uriorcurie
direct
resource_role:
The role of the InformationResource in the retrieval of the knowledge expressed in an Edge, or data used to generate this knowledge.
1
ResourceRoleEnum
direct
upstream_resource_ids:
A list of upstream InformationResources from which the resource being described directly retrieved a record of the knowledge expressed in the Edge, or data used to generate this knowledge.
*
Uriorcurie
direct
source_record_urls:
One or more URLs that link to a specific web page or document provided by the InformationResource, that contains a record of the knowledge expressed in the Edge.
*
Uriorcurie
direct
xref:
A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references.
*
Uriorcurie
direct
license:
None
0..1
String
InformationContentEntity
rights:
None
0..1
String
InformationContentEntity
format:
None
0..1
String
InformationContentEntity
creation_date:
date on which an entity was created. This can be applied to nodes or edges
0..1
Date
InformationContentEntity
provided_by:
The value in this node property represents the knowledge provider that created or assembled the node and all of its attributes. Used internally to represent how a particular node made its way into a knowledge provider or graph.
*
String
NamedThing
full_name:
a long-form human readable name for a thing
0..1
LabelType
NamedThing
synonym:
Alternate human-readable names for a thing
*
LabelType
NamedThing
id:
A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI
1
String
Entity
iri:
An IRI for an entity. This is determined by the id using expansion rules.
0..1
IriType
Entity
category:
Name of the high level ontology class in which this entity is categorized. Corresponds to the label for the biolink entity type class. In a neo4j database this MAY correspond to the neo4j label tag. In an RDF database it should be a biolink model class URI. This field is multi-valued. It should include values for ancestors of the biolink class; for example, a protein such as Shh would have category values biolink:Protein, biolink:GeneProduct, biolink:MolecularEntity. In an RDF database, nodes will typically have an rdf:type triples. This can be to the most specific biolink class, or potentially to a class more specific than something in biolink. For example, a sequence feature f may have a rdf:type assertion to a SO class such as TF_binding_site, which is more specific than anything in biolink. Here we would have categories {biolink:GenomicEntity, biolink:MolecularEntity, biolink:NamedThing}
1..*
Uriorcurie
Entity
type:
None
*
String
Entity
name:
A human-readable name for an attribute or entity.
0..1
LabelType
Entity
description:
a human-readable description of an entity
0..1
NarrativeText
Entity
has_attribute:
connects any entity to an attribute
*
Attribute
Entity
deprecated:
A boolean flag indicating that an entity is no longer considered current or valid.
0..1
Boolean
Entity

Usages

used by used in type used
RetrievalSource resource_id domain RetrievalSource
RetrievalSource resource_role domain RetrievalSource
RetrievalSource upstream_resource_ids domain RetrievalSource
RetrievalSource source_record_urls domain RetrievalSource
Association sources range RetrievalSource
Association retrieval_source_ids range RetrievalSource
DiseaseAssociatedWithResponseToChemicalEntityAssociation sources range RetrievalSource
DiseaseAssociatedWithResponseToChemicalEntityAssociation retrieval_source_ids range RetrievalSource
ChemicalEntityAssessesNamedThingAssociation sources range RetrievalSource
ChemicalEntityAssessesNamedThingAssociation retrieval_source_ids range RetrievalSource
ContributorAssociation sources range RetrievalSource
ContributorAssociation retrieval_source_ids range RetrievalSource
GenotypeToGenotypePartAssociation sources range RetrievalSource
GenotypeToGenotypePartAssociation retrieval_source_ids range RetrievalSource
GenotypeToGeneAssociation sources range RetrievalSource
GenotypeToGeneAssociation retrieval_source_ids range RetrievalSource
GenotypeToVariantAssociation sources range RetrievalSource
GenotypeToVariantAssociation retrieval_source_ids range RetrievalSource
GeneToGeneAssociation sources range RetrievalSource
GeneToGeneAssociation retrieval_source_ids range RetrievalSource
GeneToGeneHomologyAssociation sources range RetrievalSource
GeneToGeneHomologyAssociation retrieval_source_ids range RetrievalSource
GeneToGeneFamilyAssociation sources range RetrievalSource
GeneToGeneFamilyAssociation retrieval_source_ids range RetrievalSource
GeneToGeneCoexpressionAssociation sources range RetrievalSource
GeneToGeneCoexpressionAssociation retrieval_source_ids range RetrievalSource
PairwiseGeneToGeneInteraction sources range RetrievalSource
PairwiseGeneToGeneInteraction retrieval_source_ids range RetrievalSource
PairwiseMolecularInteraction sources range RetrievalSource
PairwiseMolecularInteraction retrieval_source_ids range RetrievalSource
CellLineToDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
CellLineToDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
ChemicalToChemicalAssociation sources range RetrievalSource
ChemicalToChemicalAssociation retrieval_source_ids range RetrievalSource
ReactionToParticipantAssociation sources range RetrievalSource
ReactionToParticipantAssociation retrieval_source_ids range RetrievalSource
ReactionToCatalystAssociation sources range RetrievalSource
ReactionToCatalystAssociation retrieval_source_ids range RetrievalSource
ChemicalToChemicalDerivationAssociation sources range RetrievalSource
ChemicalToChemicalDerivationAssociation retrieval_source_ids range RetrievalSource
ChemicalToDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
ChemicalToDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
ChemicalOrDrugOrTreatmentSideEffectDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
ChemicalOrDrugOrTreatmentSideEffectDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
GeneToPathwayAssociation sources range RetrievalSource
GeneToPathwayAssociation retrieval_source_ids range RetrievalSource
MolecularActivityToPathwayAssociation sources range RetrievalSource
MolecularActivityToPathwayAssociation retrieval_source_ids range RetrievalSource
ChemicalToPathwayAssociation sources range RetrievalSource
ChemicalToPathwayAssociation retrieval_source_ids range RetrievalSource
NamedThingAssociatedWithLikelihoodOfNamedThingAssociation sources range RetrievalSource
NamedThingAssociatedWithLikelihoodOfNamedThingAssociation retrieval_source_ids range RetrievalSource
ChemicalGeneInteractionAssociation sources range RetrievalSource
ChemicalGeneInteractionAssociation retrieval_source_ids range RetrievalSource
GeneRegulatesGeneAssociation sources range RetrievalSource
GeneRegulatesGeneAssociation retrieval_source_ids range RetrievalSource
ProcessRegulatesProcessAssociation sources range RetrievalSource
ProcessRegulatesProcessAssociation retrieval_source_ids range RetrievalSource
ChemicalAffectsGeneAssociation sources range RetrievalSource
ChemicalAffectsGeneAssociation retrieval_source_ids range RetrievalSource
GeneAffectsChemicalAssociation sources range RetrievalSource
GeneAffectsChemicalAssociation retrieval_source_ids range RetrievalSource
DrugToGeneAssociation sources range RetrievalSource
DrugToGeneAssociation retrieval_source_ids range RetrievalSource
MaterialSampleDerivationAssociation sources range RetrievalSource
MaterialSampleDerivationAssociation retrieval_source_ids range RetrievalSource
MaterialSampleToDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
MaterialSampleToDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
DiseaseToExposureEventAssociation sources range RetrievalSource
DiseaseToExposureEventAssociation retrieval_source_ids range RetrievalSource
ExposureEventToOutcomeAssociation sources range RetrievalSource
ExposureEventToOutcomeAssociation retrieval_source_ids range RetrievalSource
PhenotypicFeatureToPhenotypicFeatureAssociation sources range RetrievalSource
PhenotypicFeatureToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
InformationContentEntityToNamedThingAssociation sources range RetrievalSource
InformationContentEntityToNamedThingAssociation retrieval_source_ids range RetrievalSource
DiseaseOrPhenotypicFeatureToLocationAssociation sources range RetrievalSource
DiseaseOrPhenotypicFeatureToLocationAssociation retrieval_source_ids range RetrievalSource
DiseaseOrPhenotypicFeatureToGeneticInheritanceAssociation sources range RetrievalSource
DiseaseOrPhenotypicFeatureToGeneticInheritanceAssociation retrieval_source_ids range RetrievalSource
GenotypeToPhenotypicFeatureAssociation sources range RetrievalSource
GenotypeToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
ExposureEventToPhenotypicFeatureAssociation sources range RetrievalSource
ExposureEventToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
DiseaseToPhenotypicFeatureAssociation sources range RetrievalSource
DiseaseToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
CaseToPhenotypicFeatureAssociation sources range RetrievalSource
CaseToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
CaseToDiseaseAssociation sources range RetrievalSource
CaseToDiseaseAssociation retrieval_source_ids range RetrievalSource
CaseToVariantAssociation sources range RetrievalSource
CaseToVariantAssociation retrieval_source_ids range RetrievalSource
CaseToGeneAssociation sources range RetrievalSource
CaseToGeneAssociation retrieval_source_ids range RetrievalSource
BehaviorToBehavioralFeatureAssociation sources range RetrievalSource
BehaviorToBehavioralFeatureAssociation retrieval_source_ids range RetrievalSource
GeneToDiseaseOrPhenotypicFeatureAssociation sources range RetrievalSource
GeneToDiseaseOrPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
GeneToPhenotypicFeatureAssociation sources range RetrievalSource
GeneToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
GeneToDiseaseAssociation sources range RetrievalSource
GeneToDiseaseAssociation retrieval_source_ids range RetrievalSource
CausalGeneToDiseaseAssociation sources range RetrievalSource
CausalGeneToDiseaseAssociation retrieval_source_ids range RetrievalSource
CorrelatedGeneToDiseaseAssociation sources range RetrievalSource
CorrelatedGeneToDiseaseAssociation retrieval_source_ids range RetrievalSource
DruggableGeneToDiseaseAssociation sources range RetrievalSource
DruggableGeneToDiseaseAssociation retrieval_source_ids range RetrievalSource
PhenotypicFeatureToDiseaseAssociation sources range RetrievalSource
PhenotypicFeatureToDiseaseAssociation retrieval_source_ids range RetrievalSource
VariantToGeneAssociation sources range RetrievalSource
VariantToGeneAssociation retrieval_source_ids range RetrievalSource
VariantToGeneExpressionAssociation sources range RetrievalSource
VariantToGeneExpressionAssociation retrieval_source_ids range RetrievalSource
VariantToPopulationAssociation sources range RetrievalSource
VariantToPopulationAssociation retrieval_source_ids range RetrievalSource
PopulationToPopulationAssociation sources range RetrievalSource
PopulationToPopulationAssociation retrieval_source_ids range RetrievalSource
VariantToPhenotypicFeatureAssociation sources range RetrievalSource
VariantToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
VariantToDiseaseAssociation sources range RetrievalSource
VariantToDiseaseAssociation retrieval_source_ids range RetrievalSource
GenotypeToDiseaseAssociation sources range RetrievalSource
GenotypeToDiseaseAssociation retrieval_source_ids range RetrievalSource
GeneAsAModelOfDiseaseAssociation sources range RetrievalSource
GeneAsAModelOfDiseaseAssociation retrieval_source_ids range RetrievalSource
VariantAsAModelOfDiseaseAssociation sources range RetrievalSource
VariantAsAModelOfDiseaseAssociation retrieval_source_ids range RetrievalSource
GenotypeAsAModelOfDiseaseAssociation sources range RetrievalSource
GenotypeAsAModelOfDiseaseAssociation retrieval_source_ids range RetrievalSource
CellLineAsAModelOfDiseaseAssociation sources range RetrievalSource
CellLineAsAModelOfDiseaseAssociation retrieval_source_ids range RetrievalSource
OrganismalEntityAsAModelOfDiseaseAssociation sources range RetrievalSource
OrganismalEntityAsAModelOfDiseaseAssociation retrieval_source_ids range RetrievalSource
OrganismToOrganismAssociation sources range RetrievalSource
OrganismToOrganismAssociation retrieval_source_ids range RetrievalSource
TaxonToTaxonAssociation sources range RetrievalSource
TaxonToTaxonAssociation retrieval_source_ids range RetrievalSource
GeneHasVariantThatContributesToDiseaseAssociation sources range RetrievalSource
GeneHasVariantThatContributesToDiseaseAssociation retrieval_source_ids range RetrievalSource
GeneToExpressionSiteAssociation sources range RetrievalSource
GeneToExpressionSiteAssociation retrieval_source_ids range RetrievalSource
SequenceVariantModulatesTreatmentAssociation sources range RetrievalSource
SequenceVariantModulatesTreatmentAssociation retrieval_source_ids range RetrievalSource
FunctionalAssociation sources range RetrievalSource
FunctionalAssociation retrieval_source_ids range RetrievalSource
MacromolecularMachineToMolecularActivityAssociation sources range RetrievalSource
MacromolecularMachineToMolecularActivityAssociation retrieval_source_ids range RetrievalSource
MacromolecularMachineToBiologicalProcessAssociation sources range RetrievalSource
MacromolecularMachineToBiologicalProcessAssociation retrieval_source_ids range RetrievalSource
MacromolecularMachineToCellularComponentAssociation sources range RetrievalSource
MacromolecularMachineToCellularComponentAssociation retrieval_source_ids range RetrievalSource
MolecularActivityToChemicalEntityAssociation sources range RetrievalSource
MolecularActivityToChemicalEntityAssociation retrieval_source_ids range RetrievalSource
MolecularActivityToMolecularActivityAssociation sources range RetrievalSource
MolecularActivityToMolecularActivityAssociation retrieval_source_ids range RetrievalSource
GeneToGoTermAssociation sources range RetrievalSource
GeneToGoTermAssociation retrieval_source_ids range RetrievalSource
EntityToDiseaseAssociation sources range RetrievalSource
EntityToDiseaseAssociation retrieval_source_ids range RetrievalSource
EntityToPhenotypicFeatureAssociation sources range RetrievalSource
EntityToPhenotypicFeatureAssociation retrieval_source_ids range RetrievalSource
SequenceAssociation sources range RetrievalSource
SequenceAssociation retrieval_source_ids range RetrievalSource
GenomicSequenceLocalization sources range RetrievalSource
GenomicSequenceLocalization retrieval_source_ids range RetrievalSource
SequenceFeatureRelationship sources range RetrievalSource
SequenceFeatureRelationship retrieval_source_ids range RetrievalSource
TranscriptToGeneRelationship sources range RetrievalSource
TranscriptToGeneRelationship retrieval_source_ids range RetrievalSource
GeneToGeneProductRelationship sources range RetrievalSource
GeneToGeneProductRelationship retrieval_source_ids range RetrievalSource
ExonToTranscriptRelationship sources range RetrievalSource
ExonToTranscriptRelationship retrieval_source_ids range RetrievalSource
ChemicalEntityOrGeneOrGeneProductRegulatesGeneAssociation sources range RetrievalSource
ChemicalEntityOrGeneOrGeneProductRegulatesGeneAssociation retrieval_source_ids range RetrievalSource
AnatomicalEntityToAnatomicalEntityAssociation sources range RetrievalSource
AnatomicalEntityToAnatomicalEntityAssociation retrieval_source_ids range RetrievalSource
AnatomicalEntityToAnatomicalEntityPartOfAssociation sources range RetrievalSource
AnatomicalEntityToAnatomicalEntityPartOfAssociation retrieval_source_ids range RetrievalSource
AnatomicalEntityToAnatomicalEntityOntogenicAssociation sources range RetrievalSource
AnatomicalEntityToAnatomicalEntityOntogenicAssociation retrieval_source_ids range RetrievalSource
OrganismTaxonToOrganismTaxonAssociation sources range RetrievalSource
OrganismTaxonToOrganismTaxonAssociation retrieval_source_ids range RetrievalSource
OrganismTaxonToOrganismTaxonSpecialization sources range RetrievalSource
OrganismTaxonToOrganismTaxonSpecialization retrieval_source_ids range RetrievalSource
OrganismTaxonToOrganismTaxonInteraction sources range RetrievalSource
OrganismTaxonToOrganismTaxonInteraction retrieval_source_ids range RetrievalSource
OrganismTaxonToEnvironmentAssociation sources range RetrievalSource
OrganismTaxonToEnvironmentAssociation retrieval_source_ids range RetrievalSource

LinkML Source

name: retrieval source
description: Provides information about how a particular InformationResource served
  as a source from which knowledge expressed in an Edge, or data used to generate
  this knowledge, was retrieved.
from_schema: https://w3id.org/biolink/biolink-model
is_a: information content entity
slots:
- resource id
- resource role
- upstream resource ids
- source record urls
- xref
slot_usage:
  resource id:
    name: resource id
    description: The InformationResource that served as a source for the knowledge
      expressed in an Edge, or data used to generate this knowledge.
    required: true
  resource role:
    name: resource role
    description: The role of the InformationResource in the retrieval of the knowledge
      expressed in an Edge, or data used to generate this knowledge.
    required: true
  upstream resource ids:
    name: upstream resource ids
    description: A list of upstream InformationResources from which the resource being
      described directly retrieved a record of the knowledge expressed in the Edge,
      or data used to generate this knowledge.
  source record urls:
    name: source record urls
    description: One or more URLs that link to a specific web page or document provided
      by the InformationResource, that contains a record of the knowledge expressed
      in the Edge.