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Class: PairwiseMolecularInteraction

An interaction at the molecular level between two physical entities

URI: biolink:PairwiseMolecularInteraction

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

Inheritance

Slots

Name Cardinality and Range Description Inheritance
interacting_molecules_category 0..1
OntologyClass		 direct
subject 1..1
MolecularEntity		 the subject gene in the association Association
predicate 1..1
PredicateType		 interaction relationship type Association
object 1..1
MolecularEntity		 the object gene in 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		 identifier for the interaction 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:PairwiseMolecularInteraction
native biolink:PairwiseMolecularInteraction

LinkML Source

Direct

name: pairwise molecular interaction
description: An interaction at the molecular level between two physical entities
from_schema: https://w3id.org/biolink/biolink-model
is_a: pairwise gene to gene interaction
slots:
- interacting molecules category
slot_usage:
  subject:
    name: subject
    domain_of:
    - association
    range: molecular entity
  id:
    name: id
    description: identifier for the interaction. This may come from an interaction
      database such as IMEX.
    examples:
    - value: WB:WBInteraction000538741
    values_from:
    - IMEX
    - BioGRID
    domain_of:
    - ontology class
    - entity
  predicate:
    name: predicate
    description: interaction relationship type
    examples:
    - value: RO:0002447
      description: the subject molecular phosphorylates the object molecule
    domain_of:
    - predicate mapping
    - association
    subproperty_of: interacts with
  object:
    name: object
    domain_of:
    - association
    range: molecular entity
defining_slots:
- subject
- predicate
- object