Class: ThingWithTaxon

A mixin that can be used on any entity that can be taxonomically classified. This includes individual organisms; genes, their products and other molecular entities; body parts; biological processes

URI: biolink:ThingWithTaxon

classDiagram class ThingWithTaxon click ThingWithTaxon href "../ThingWithTaxon" ThingWithTaxon <|-- BiologicalEntity click BiologicalEntity href "../BiologicalEntity" ThingWithTaxon <|-- GenomeAssembly click GenomeAssembly href "../GenomeAssembly" ThingWithTaxon : in_taxon ThingWithTaxon --> "*" OrganismTaxon : in_taxon click OrganismTaxon href "../OrganismTaxon" ThingWithTaxon : in_taxon_label

Slots

Name	Cardinality and Range	Description	Inheritance
in_taxon	* OrganismTaxon	connects an entity to its taxonomic classification	direct
in_taxon_label	0..1 LabelType	The human readable scientific name for the taxon of the entity	direct

Mixin Usage

mixed into	description
BiologicalEntity
GenomeAssembly	Represents a genome assembly

Usages

used by	used in	type	used
ThingWithTaxon	in_taxon	domain	ThingWithTaxon
ThingWithTaxon	in_taxon_label	domain	ThingWithTaxon
BiologicalEntity	in_taxon	domain	ThingWithTaxon
BiologicalEntity	in_taxon_label	domain	ThingWithTaxon
Gene	in_taxon	domain	ThingWithTaxon
Gene	in_taxon_label	domain	ThingWithTaxon
Genome	in_taxon	domain	ThingWithTaxon
Genome	in_taxon_label	domain	ThingWithTaxon
GeneAnnotation	in_taxon	domain	ThingWithTaxon
GeneAnnotation	in_taxon_label	domain	ThingWithTaxon
GenomeAnnotation	in_taxon	domain	ThingWithTaxon
GenomeAnnotation	in_taxon_label	domain	ThingWithTaxon
GenomeAssembly	in_taxon	domain	ThingWithTaxon
GenomeAssembly	in_taxon_label	domain	ThingWithTaxon

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/brain-bican/bke-taxonomy

Mappings

Mapping Type	Mapped Value
self	biolink:ThingWithTaxon
native	bican:ThingWithTaxon

LinkML Source

Direct

name: thing with taxon
definition_uri: https://w3id.org/biolink/vocab/ThingWithTaxon
description: A mixin that can be used on any entity that can be taxonomically classified.
  This includes individual organisms; genes, their products and other molecular entities;
  body parts; biological processes
from_schema: https://w3id.org/brain-bican/bke-taxonomy
mixin: true
slots:
- in taxon
- in taxon label
class_uri: biolink:ThingWithTaxon

Induced

name: thing with taxon
definition_uri: https://w3id.org/biolink/vocab/ThingWithTaxon
description: A mixin that can be used on any entity that can be taxonomically classified.
  This includes individual organisms; genes, their products and other molecular entities;
  body parts; biological processes
from_schema: https://w3id.org/brain-bican/bke-taxonomy
mixin: true
attributes:
  in taxon:
    name: in taxon
    definition_uri: https://w3id.org/biolink/vocab/in_taxon
    annotations:
      canonical_predicate:
        tag: canonical_predicate
        value: true
    description: connects an entity to its taxonomic classification. Only certain
      kinds of entities can be taxonomically classified; see 'thing with taxon'
    in_subset:
    - translator_minimal
    from_schema: https://w3id.org/brain-bican/bke-taxonomy
    aliases:
    - instance of
    - is organism source of gene product
    - organism has gene
    - gene found in organism
    - gene product has organism source
    exact_mappings:
    - RO:0002162
    - WIKIDATA_PROPERTY:P703
    narrow_mappings:
    - RO:0002160
    rank: 1000
    is_a: related to at instance level
    domain: thing with taxon
    slot_uri: biolink:in_taxon
    inherited: true
    alias: in_taxon
    owner: thing with taxon
    domain_of:
    - thing with taxon
    - biological entity
    - gene
    - genome
    range: organism taxon
    multivalued: true
  in taxon label:
    name: in taxon label
    definition_uri: https://w3id.org/biolink/vocab/in_taxon_label
    annotations:
      denormalized:
        tag: denormalized
        value: true
    description: The human readable scientific name for the taxon of the entity.
    in_subset:
    - translator_minimal
    from_schema: https://w3id.org/brain-bican/bke-taxonomy
    exact_mappings:
    - WIKIDATA_PROPERTY:P225
    rank: 1000
    is_a: node property
    domain: thing with taxon
    slot_uri: biolink:in_taxon_label
    alias: in_taxon_label
    owner: thing with taxon
    domain_of:
    - thing with taxon
    - biological entity
    - gene
    - genome
    range: label type
class_uri: biolink:ThingWithTaxon