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Class: OrganismTaxonToOrganismTaxonInteraction

An interaction relationship between two taxa. This may be a symbiotic relationship (encompassing mutualism and parasitism), or it may be non-symbiotic. Example: plague transmitted_by flea; cattle domesticated_by Homo sapiens; plague infects Homo sapiens

URI: biolink:OrganismTaxonToOrganismTaxonInteraction

classDiagram class OrganismTaxonToOrganismTaxonInteraction OrganismTaxonToOrganismTaxonAssociation <|-- OrganismTaxonToOrganismTaxonInteraction OrganismTaxonToOrganismTaxonInteraction : aggregator_knowledge_source OrganismTaxonToOrganismTaxonInteraction : associated_environmental_context OrganismTaxonToOrganismTaxonInteraction : category OrganismTaxonToOrganismTaxonInteraction : description OrganismTaxonToOrganismTaxonInteraction : has_attribute OrganismTaxonToOrganismTaxonInteraction --|> attribute : has_attribute OrganismTaxonToOrganismTaxonInteraction : has_evidence OrganismTaxonToOrganismTaxonInteraction --|> evidence type : has_evidence OrganismTaxonToOrganismTaxonInteraction : id OrganismTaxonToOrganismTaxonInteraction : iri OrganismTaxonToOrganismTaxonInteraction : knowledge_source OrganismTaxonToOrganismTaxonInteraction : name OrganismTaxonToOrganismTaxonInteraction : negated OrganismTaxonToOrganismTaxonInteraction : object OrganismTaxonToOrganismTaxonInteraction --|> organism taxon : object OrganismTaxonToOrganismTaxonInteraction : object_category OrganismTaxonToOrganismTaxonInteraction --|> ontology class : object_category OrganismTaxonToOrganismTaxonInteraction : object_category_closure OrganismTaxonToOrganismTaxonInteraction --|> ontology class : object_category_closure OrganismTaxonToOrganismTaxonInteraction : object_closure OrganismTaxonToOrganismTaxonInteraction : object_label_closure OrganismTaxonToOrganismTaxonInteraction : object_namespace OrganismTaxonToOrganismTaxonInteraction : original_object OrganismTaxonToOrganismTaxonInteraction : original_predicate OrganismTaxonToOrganismTaxonInteraction : original_subject OrganismTaxonToOrganismTaxonInteraction : predicate OrganismTaxonToOrganismTaxonInteraction : primary_knowledge_source OrganismTaxonToOrganismTaxonInteraction : publications OrganismTaxonToOrganismTaxonInteraction --|> publication : publications OrganismTaxonToOrganismTaxonInteraction : qualifiers OrganismTaxonToOrganismTaxonInteraction --|> ontology class : qualifiers OrganismTaxonToOrganismTaxonInteraction : retrieval_source_ids OrganismTaxonToOrganismTaxonInteraction --|> retrieval source : retrieval_source_ids OrganismTaxonToOrganismTaxonInteraction : subject OrganismTaxonToOrganismTaxonInteraction --|> organism taxon : subject OrganismTaxonToOrganismTaxonInteraction : subject_category OrganismTaxonToOrganismTaxonInteraction --|> ontology class : subject_category OrganismTaxonToOrganismTaxonInteraction : subject_category_closure OrganismTaxonToOrganismTaxonInteraction --|> ontology class : subject_category_closure OrganismTaxonToOrganismTaxonInteraction : subject_closure OrganismTaxonToOrganismTaxonInteraction : subject_label_closure OrganismTaxonToOrganismTaxonInteraction : subject_namespace OrganismTaxonToOrganismTaxonInteraction : timepoint OrganismTaxonToOrganismTaxonInteraction : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
associated_environmental_context 0..1
String		 the environment in which the two taxa interact direct
subject 1..1
OrganismTaxon		 the taxon that is the subject of the association Association
predicate 1..1
PredicateType		 A high-level grouping for the relationship type Association
object 1..1
OrganismTaxon		 the taxon that is the subject of the association Association
negated 0..1
Boolean		 if set to true, then the association is negated i Association
qualifiers 0..*
OntologyClass		 connects an association to qualifiers that modify or qualify the meaning of t... Association
publications 0..*
Publication		 One or more publications that report the statement expressed in an Associati... Association
has_evidence 0..*
EvidenceType		 connects an association to an instance of supporting evidence Association
knowledge_source 0..1
String		 An Information Resource from which the knowledge expressed in an Association ... Association
primary_knowledge_source 0..1
String		 The most upstream source of the knowledge expressed in an Association that an... Association
aggregator_knowledge_source 0..*
String		 An intermediate aggregator resource from which knowledge expressed in an Asso... Association
timepoint 0..1
TimeType		 a point in time Association
original_subject 0..1
String		 used to hold the original subject of a relation (or predicate) that an extern... Association
original_predicate 0..1
Uriorcurie		 used to hold the original relation/predicate that an external knowledge sourc... Association
original_object 0..1
String		 used to hold the original object of a relation (or predicate) that an externa... Association
subject_category 0..1
OntologyClass		 Used to hold the biolink class/category of an association Association
object_category 0..1
OntologyClass		 Used to hold the biolink class/category of an association Association
subject_closure 0..*
String		 Used to hold the subject closure of an association Association
object_closure 0..*
String		 Used to hold the object closure of an association Association
subject_category_closure 0..*
OntologyClass		 Used to hold the subject category closure of an association Association
object_category_closure 0..*
OntologyClass		 Used to hold the object category closure of an association Association
subject_namespace 0..1
String		 Used to hold the subject namespace of an association Association
object_namespace 0..1
String		 Used to hold the object namespace of an association Association
subject_label_closure 0..*
String		 Used to hold the subject label closure of an association Association
object_label_closure 0..*
String		 Used to hold the object label closure of an association Association
retrieval_source_ids 0..*
RetrievalSource		 A list of retrieval sources that served as a source of knowledge expressed in... Association
id 1..1
String		 A unique identifier for an entity Entity
iri 0..1
IriType		 An IRI for an entity Entity
category 0..*
CategoryType		 Name of the high level ontology class in which this entity is categorized Entity
type 0..*
String		 rdf:type of biolink:Association should be fixed at rdf:Statement Entity
name 0..1
LabelType		 A human-readable name for an attribute or entity Entity
description 0..1
NarrativeText		 a human-readable description of an entity Entity
has_attribute 0..*
Attribute		 connects any entity to an attribute Entity

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/biolink/biolink-model

Mappings

Mapping Type Mapped Value
self biolink:OrganismTaxonToOrganismTaxonInteraction
native biolink:OrganismTaxonToOrganismTaxonInteraction

LinkML Source

Direct

name: organism taxon to organism taxon interaction
description: 'An interaction relationship between two taxa. This may be a symbiotic
  relationship (encompassing mutualism and parasitism), or it may be non-symbiotic.
  Example: plague transmitted_by flea; cattle domesticated_by Homo sapiens; plague
  infects Homo sapiens'
from_schema: https://w3id.org/biolink/biolink-model
is_a: organism taxon to organism taxon association
slots:
- associated environmental context
slot_usage:
  subject:
    name: subject
    description: the taxon that is the subject of the association
    domain_of:
    - association
    role: interactor taxon
    range: organism taxon
  object:
    name: object
    description: the taxon that is the subject of the association
    domain_of:
    - association
    role: interactee taxon
    range: organism taxon
  predicate:
    name: predicate
    domain_of:
    - predicate mapping
    - association
    subproperty_of: interacts with
  associated environmental context:
    name: associated environmental context
    description: the environment in which the two taxa interact
    domain_of:
    - organism taxon to organism taxon interaction
defining_slots:
- predicate