Class: Node
UI container class extending Entity with additional information
URI: https://w3id.org/monarch/monarch-py/:Node
classDiagram
class Node
click Node href "../Node"
Entity <|-- Node
click Entity href "../Entity"
Node : association_counts
Node --> "1..*" AssociationCount : association_counts
click AssociationCount href "../AssociationCount"
Node : category
Node : causal_gene
Node --> "*" Entity : causal_gene
click Entity href "../Entity"
Node : causes_disease
Node --> "*" Entity : causes_disease
click Entity href "../Entity"
Node : deprecated
Node : description
Node : external_links
Node --> "*" ExpandedCurie : external_links
click ExpandedCurie href "../ExpandedCurie"
Node : full_name
Node : has_phenotype
Node : has_phenotype_closure
Node : has_phenotype_closure_label
Node : has_phenotype_count
Node : has_phenotype_label
Node : id
Node : in_taxon
Node : in_taxon_label
Node : inheritance
Node --> "0..1" Entity : inheritance
click Entity href "../Entity"
Node : iri
Node : mappings
Node --> "*" ExpandedCurie : mappings
click ExpandedCurie href "../ExpandedCurie"
Node : name
Node : namespace
Node : node_hierarchy
Node --> "0..1" NodeHierarchy : node_hierarchy
click NodeHierarchy href "../NodeHierarchy"
Node : provided_by
Node : provided_by_link
Node --> "0..1" ExpandedCurie : provided_by_link
click ExpandedCurie href "../ExpandedCurie"
Node : symbol
Node : synonym
Node : uri
Node : xref
Inheritance
- Entity
- Node
Slots
Name | Cardinality and Range | Description | Inheritance |
---|---|---|---|
in_taxon | 0..1 String |
The biolink taxon that the entity is in the closure of | direct |
in_taxon_label | 0..1 String |
The label of the biolink taxon that the entity is in the closure of | direct |
inheritance | 0..1 Entity |
direct | |
causal_gene | * Entity |
A list of genes that are known to be causally associated with a disease | direct |
causes_disease | * Entity |
A list of diseases that are known to be causally associated with a gene | direct |
mappings | * ExpandedCurie |
List of ExpandedCuries with id and url for mapped entities | direct |
external_links | * ExpandedCurie |
ExpandedCurie with id and url for xrefs | direct |
provided_by_link | 0..1 ExpandedCurie |
A link to the docs for the knowledge source that provided the node/edge | direct |
association_counts | 1..* AssociationCount |
direct | |
node_hierarchy | 0..1 NodeHierarchy |
direct | |
id | 1 String |
Entity | |
category | 0..1 String |
Entity | |
name | 0..1 String |
Entity | |
full_name | 0..1 String |
The long form name of an entity | Entity |
deprecated | 0..1 Boolean |
A boolean flag indicating that an entity is no longer considered current or v... | Entity |
description | 0..1 String |
Entity | |
xref | * String |
Entity | |
provided_by | 0..1 String |
Entity | |
symbol | 0..1 String |
Entity | |
synonym | * String |
Entity | |
uri | 0..1 String |
The URI of the entity | Entity |
iri | 0..1 String |
Entity | |
namespace | 0..1 String |
The namespace/prefix portion of this entity's identifier | Entity |
has_phenotype | * String |
A list of phenotype identifiers that are known to be associated with this ent... | Entity |
has_phenotype_label | * String |
A list of phenotype labels that are known to be associated with this entity | Entity |
has_phenotype_closure | * String |
A list of phenotype identifiers that are known to be associated with this ent... | Entity |
has_phenotype_closure_label | * String |
A list of phenotype labels that are known to be associated with this entity e... | Entity |
has_phenotype_count | 0..1 Integer |
A count of the number of phenotypes that are known to be associated with this... | Entity |
Identifier and Mapping Information
Schema Source
- from schema: https://w3id.org/monarch/monarch-py
Mappings
Mapping Type | Mapped Value |
---|---|
self | https://w3id.org/monarch/monarch-py/:Node |
native | https://w3id.org/monarch/monarch-py/:Node |
LinkML Source
Direct
name: Node
description: UI container class extending Entity with additional information
from_schema: https://w3id.org/monarch/monarch-py
is_a: Entity
slots:
- in_taxon
- in_taxon_label
- inheritance
- causal_gene
- causes_disease
- mappings
- external_links
- provided_by_link
- association_counts
- node_hierarchy
Induced
name: Node
description: UI container class extending Entity with additional information
from_schema: https://w3id.org/monarch/monarch-py
is_a: Entity
attributes:
in_taxon:
name: in_taxon
description: The biolink taxon that the entity is in the closure of.
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: in_taxon
owner: Node
domain_of:
- Entity
- Node
range: string
in_taxon_label:
name: in_taxon_label
description: The label of the biolink taxon that the entity is in the closure
of.
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: in_taxon_label
owner: Node
domain_of:
- Entity
- Node
range: string
inheritance:
name: inheritance
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: inheritance
owner: Node
domain_of:
- Node
range: Entity
inlined: true
causal_gene:
name: causal_gene
description: A list of genes that are known to be causally associated with a disease
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: causal_gene
owner: Node
domain_of:
- Node
range: Entity
inlined: true
inlined_as_list: true
causes_disease:
name: causes_disease
description: A list of diseases that are known to be causally associated with
a gene
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: causes_disease
owner: Node
domain_of:
- Node
range: Entity
inlined: true
inlined_as_list: true
mappings:
name: mappings
description: List of ExpandedCuries with id and url for mapped entities
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: mappings
owner: Node
domain_of:
- Node
range: ExpandedCurie
inlined: true
inlined_as_list: true
external_links:
name: external_links
description: ExpandedCurie with id and url for xrefs
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: external_links
owner: Node
domain_of:
- Node
range: ExpandedCurie
inlined: true
inlined_as_list: true
provided_by_link:
name: provided_by_link
description: A link to the docs for the knowledge source that provided the node/edge.
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: provided_by_link
owner: Node
domain_of:
- Association
- Node
range: ExpandedCurie
inlined: true
association_counts:
name: association_counts
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: association_counts
owner: Node
domain_of:
- Node
range: AssociationCount
required: true
inlined: true
inlined_as_list: true
node_hierarchy:
name: node_hierarchy
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: node_hierarchy
owner: Node
domain_of:
- Node
range: NodeHierarchy
inlined: true
id:
name: id
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
identifier: true
alias: id
owner: Node
domain_of:
- Association
- ExpandedCurie
- Entity
- HistoPheno
- HistoBin
- Mapping
- MultiEntityAssociationResults
- TermInfo
range: string
required: true
category:
name: category
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: false
alias: category
owner: Node
domain_of:
- Association
- AssociationCount
- CompactAssociation
- AssociationTypeMapping
- Entity
range: string
name:
name: name
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: name
owner: Node
domain_of:
- Entity
- MultiEntityAssociationResults
range: string
full_name:
name: full_name
description: The long form name of an entity
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: full_name
owner: Node
domain_of:
- Entity
range: string
deprecated:
name: deprecated
description: A boolean flag indicating that an entity is no longer considered
current or valid.
from_schema: https://w3id.org/monarch/monarch-py
exact_mappings:
- oboInOwl:ObsoleteClass
rank: 1000
alias: deprecated
owner: Node
domain_of:
- Entity
range: boolean
description:
name: description
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: description
owner: Node
domain_of:
- Entity
range: string
xref:
name: xref
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: xref
owner: Node
domain_of:
- Entity
range: string
provided_by:
name: provided_by
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: provided_by
owner: Node
domain_of:
- Association
- Entity
range: string
symbol:
name: symbol
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: symbol
owner: Node
domain_of:
- Entity
range: string
synonym:
name: synonym
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: synonym
owner: Node
domain_of:
- Entity
range: string
uri:
name: uri
description: The URI of the entity
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: uri
owner: Node
domain_of:
- Entity
range: string
iri:
name: iri
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: iri
owner: Node
domain_of:
- Entity
range: string
namespace:
name: namespace
description: The namespace/prefix portion of this entity's identifier
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: namespace
owner: Node
domain_of:
- Entity
range: string
has_phenotype:
name: has_phenotype
description: A list of phenotype identifiers that are known to be associated with
this entity
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: has_phenotype
owner: Node
domain_of:
- Entity
range: string
inlined: true
inlined_as_list: true
has_phenotype_label:
name: has_phenotype_label
description: A list of phenotype labels that are known to be associated with this
entity
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: has_phenotype_label
owner: Node
domain_of:
- Entity
range: string
inlined: true
inlined_as_list: true
has_phenotype_closure:
name: has_phenotype_closure
description: A list of phenotype identifiers that are known to be associated with
this entity expanded to include all ancestors
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: has_phenotype_closure
owner: Node
domain_of:
- Entity
range: string
inlined: true
inlined_as_list: true
has_phenotype_closure_label:
name: has_phenotype_closure_label
description: A list of phenotype labels that are known to be associated with this
entity expanded to include all ancestors
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
multivalued: true
alias: has_phenotype_closure_label
owner: Node
domain_of:
- Entity
range: string
inlined: true
inlined_as_list: true
has_phenotype_count:
name: has_phenotype_count
description: A count of the number of phenotypes that are known to be associated
with this entity
from_schema: https://w3id.org/monarch/monarch-py
rank: 1000
alias: has_phenotype_count
owner: Node
domain_of:
- Entity
range: integer