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Class: GenomicBackgroundExposure

Description: A genomic background exposure is where an individual's specific genomic background of genes, sequence variants or other pre-existing genomic conditions constitute a kind of 'exposure' to the organism, leading to or influencing an outcome.
classDiagram class GenomicBackgroundExposure ExposureEvent <|-- GenomicBackgroundExposure GeneGroupingMixin <|-- GenomicBackgroundExposure PhysicalEssence <|-- GenomicBackgroundExposure GenomicEntity <|-- GenomicBackgroundExposure ThingWithTaxon <|-- GenomicBackgroundExposure OntologyClass <|-- GenomicBackgroundExposure Attribute <|-- GenomicBackgroundExposure GenomicBackgroundExposure : category GenomicBackgroundExposure : deprecated GenomicBackgroundExposure : description GenomicBackgroundExposure : full_name GenomicBackgroundExposure : has_attribute GenomicBackgroundExposure --|> Attribute : has_attribute GenomicBackgroundExposure : has_attribute_type GenomicBackgroundExposure --|> OntologyClass : has_attribute_type GenomicBackgroundExposure : has_biological_sequence GenomicBackgroundExposure : has_gene_or_gene_product GenomicBackgroundExposure --|> Gene : has_gene_or_gene_product GenomicBackgroundExposure : has_qualitative_value GenomicBackgroundExposure --|> NamedThing : has_qualitative_value GenomicBackgroundExposure : has_quantitative_value GenomicBackgroundExposure --|> QuantityValue : has_quantitative_value GenomicBackgroundExposure : id GenomicBackgroundExposure : in_taxon GenomicBackgroundExposure --|> OrganismTaxon : in_taxon GenomicBackgroundExposure : in_taxon_label GenomicBackgroundExposure : iri GenomicBackgroundExposure : name GenomicBackgroundExposure : provided_by GenomicBackgroundExposure : synonym GenomicBackgroundExposure : timepoint GenomicBackgroundExposure : type GenomicBackgroundExposure : xref

Inheritance

Slots

Name Cardinality and Range Inheritance Examples
timepoint:
a point in time
0..1
TimeType		 ExposureEvent
has_gene_or_gene_product:
connects an entity with one or more gene or gene products 		0..*
Gene		 GeneGroupingMixin
has_biological_sequence:
connects a genomic feature to its sequence 		0..1
BiologicalSequence		 GenomicEntity
in_taxon:
connects an entity to its taxonomic classification. Only certain kinds of entities can be taxonomically classified; see 'thing with taxon' 		0..*
OrganismTaxon		 ThingWithTaxon
in_taxon_label:
The human readable scientific name for the taxon of the entity. 		0..1
LabelType		 ThingWithTaxon
id:
A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI 		1..1
String		 OntologyClass, Entity
name:
The human-readable 'attribute name' can be set to a string which reflects its context of interpretation, e.g. SEPIO evidence/provenance/confidence annotation or it can default to the name associated with the 'has attribute type' slot ontology term. 		0..1
LabelType		 Entity, Attribute
has_attribute_type:
connects an attribute to a class that describes it 		1..1
OntologyClass		 Attribute
has_quantitative_value:
connects an attribute to a value 		0..*
QuantityValue		 Attribute
has_qualitative_value:
connects an attribute to a value 		0..1
NamedThing		 Attribute
iri:
An IRI for an entity. This is determined by the id using expansion rules. 		0..1
IriType		 Entity, Attribute
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. 		0..*
String		 NamedThing
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. 		0..*
Uriorcurie		 NamedThing
full_name:
a long-form human readable name for a thing 		0..1
LabelType		 NamedThing
synonym:
Alternate human-readable names for a thing 		0..*
LabelType		 NamedThing
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 		0..*
String		 Entity
description:
a human-readable description of an entity 		0..1
NarrativeText		 Entity
has_attribute:
connects any entity to an attribute 		0..*
Attribute		 Entity
deprecated:
A boolean flag indicating that an entity is no longer considered current or valid. 		0..1
Boolean		 Entity

LinkML Source

name: genomic background exposure
description: A genomic background exposure is where an individual's specific genomic
  background of genes, sequence variants or other pre-existing genomic conditions
  constitute a kind of 'exposure' to the organism, leading to or influencing an outcome.
from_schema: https://w3id.org/biolink/biolink-model
is_a: attribute
mixins:
- exposure event
- gene grouping mixin
- physical essence
- genomic entity
- thing with taxon
- ontology class