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Class: NucleosomeModification

Description: A chemical modification of a histone protein within a nucleosome octomer or a substitution of a histone with a variant histone isoform. e.g. Histone 4 Lysine 20 methylation (H4K20me), histone variant H2AZ substituting H2A.
classDiagram class NucleosomeModification GeneProductIsoformMixin <|-- NucleosomeModification GenomicEntity <|-- NucleosomeModification EpigenomicEntity <|-- NucleosomeModification BiologicalEntity <|-- NucleosomeModification NucleosomeModification : category NucleosomeModification : deprecated NucleosomeModification : description NucleosomeModification : full_name NucleosomeModification : has_attribute NucleosomeModification --|> Attribute : has_attribute NucleosomeModification : has_biological_sequence NucleosomeModification : id NucleosomeModification : in_taxon NucleosomeModification --|> OrganismTaxon : in_taxon NucleosomeModification : in_taxon_label NucleosomeModification : iri NucleosomeModification : name NucleosomeModification : provided_by NucleosomeModification : synonym NucleosomeModification : type NucleosomeModification : xref

Inheritance

Slots

Name Cardinality and Range Inheritance Examples
has_biological_sequence:
connects a genomic feature to its sequence
0..1
BiologicalSequence		 EpigenomicEntity, 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
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, GeneProductMixin
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, GeneProductMixin
id:
A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI 		1..1
String		 Entity
iri:
An IRI for an entity. This is determined by the id using expansion rules. 		0..1
IriType		 Entity
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
name:
genes are typically designated by a short symbol and a full name. We map the symbol to the default display name and use an additional slot for full name 		0..1
SymbolType		 Entity, MacromolecularMachineMixin
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: nucleosome modification
description: A chemical modification of a histone protein within a nucleosome octomer
  or a substitution of a histone with a variant histone isoform. e.g. Histone 4 Lysine
  20 methylation (H4K20me), histone variant H2AZ substituting H2A.
from_schema: https://w3id.org/biolink/biolink-model
is_a: biological entity
mixins:
- gene product isoform mixin
- genomic entity
- epigenomic entity