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gpi.jsonld
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/
gpi.jsonld
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{
"name": "gpi",
"description": "Various association data models",
"id": "https://w3id.org/ontology_association/gpi",
"imports": [
"association",
"linkml:types"
],
"license": "https://creativecommons.org/publicdomain/zero/1.0/",
"prefixes": [
{
"prefix_prefix": "linkml",
"prefix_reference": "https://w3id.org/linkml/"
},
{
"prefix_prefix": "biolink",
"prefix_reference": "https://w3id.org/biolink/vocab/"
},
{
"prefix_prefix": "ontology_association",
"prefix_reference": "https://w3id.org/ontology_association/"
},
{
"prefix_prefix": "GO",
"prefix_reference": "http://purl.obolibrary.org/obo/GO_"
}
],
"default_curi_maps": [
"obo_context",
"semweb_context"
],
"default_prefix": "ontology_association",
"default_range": "string",
"types": [
{
"name": "curie",
"definition_uri": "https://w3id.org/ontology_association/Curie",
"from_schema": "https://w3id.org/ontology_association",
"typeof": "string",
"base": "str",
"uri": "http://www.w3.org/2001/XMLSchema#string",
"@type": "TypeDefinition"
},
{
"name": "symbol_type",
"definition_uri": "https://w3id.org/ontology_association/SymbolType",
"from_schema": "https://w3id.org/ontology_association",
"typeof": "string",
"base": "str",
"uri": "http://www.w3.org/2001/XMLSchema#string",
"@type": "TypeDefinition"
},
{
"name": "name_type",
"definition_uri": "https://w3id.org/ontology_association/NameType",
"from_schema": "https://w3id.org/ontology_association",
"typeof": "string",
"base": "str",
"uri": "http://www.w3.org/2001/XMLSchema#string",
"@type": "TypeDefinition"
},
{
"name": "string",
"definition_uri": "https://w3id.org/linkml/String",
"description": "A character string",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "str",
"uri": "http://www.w3.org/2001/XMLSchema#string",
"@type": "TypeDefinition"
},
{
"name": "integer",
"definition_uri": "https://w3id.org/linkml/Integer",
"description": "An integer",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "int",
"uri": "http://www.w3.org/2001/XMLSchema#integer",
"@type": "TypeDefinition"
},
{
"name": "boolean",
"definition_uri": "https://w3id.org/linkml/Boolean",
"description": "A binary (true or false) value",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "Bool",
"uri": "http://www.w3.org/2001/XMLSchema#boolean",
"repr": "bool",
"@type": "TypeDefinition"
},
{
"name": "float",
"definition_uri": "https://w3id.org/linkml/Float",
"description": "A real number that conforms to the xsd:float specification",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "float",
"uri": "http://www.w3.org/2001/XMLSchema#float",
"@type": "TypeDefinition"
},
{
"name": "double",
"definition_uri": "https://w3id.org/linkml/Double",
"description": "A real number that conforms to the xsd:double specification",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "float",
"uri": "http://www.w3.org/2001/XMLSchema#double",
"@type": "TypeDefinition"
},
{
"name": "decimal",
"definition_uri": "https://w3id.org/linkml/Decimal",
"description": "A real number with arbitrary precision that conforms to the xsd:decimal specification",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "Decimal",
"uri": "http://www.w3.org/2001/XMLSchema#decimal",
"@type": "TypeDefinition"
},
{
"name": "time",
"definition_uri": "https://w3id.org/linkml/Time",
"description": "A time object represents a (local) time of day, independent of any particular day",
"notes": [
"URI is dateTime because OWL reasoners don't work with straight date or time"
],
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "XSDTime",
"uri": "http://www.w3.org/2001/XMLSchema#dateTime",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "date",
"definition_uri": "https://w3id.org/linkml/Date",
"description": "a date (year, month and day) in an idealized calendar",
"notes": [
"URI is dateTime because OWL reasoners don't work with straight date or time"
],
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "XSDDate",
"uri": "http://www.w3.org/2001/XMLSchema#date",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "datetime",
"definition_uri": "https://w3id.org/linkml/Datetime",
"description": "The combination of a date and time",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "XSDDateTime",
"uri": "http://www.w3.org/2001/XMLSchema#dateTime",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "uriorcurie",
"definition_uri": "https://w3id.org/linkml/Uriorcurie",
"description": "a URI or a CURIE",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "URIorCURIE",
"uri": "http://www.w3.org/2001/XMLSchema#anyURI",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "uri",
"definition_uri": "https://w3id.org/linkml/Uri",
"description": "a complete URI",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "URI",
"uri": "http://www.w3.org/2001/XMLSchema#anyURI",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "ncname",
"definition_uri": "https://w3id.org/linkml/Ncname",
"description": "Prefix part of CURIE",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "NCName",
"uri": "http://www.w3.org/2001/XMLSchema#string",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "objectidentifier",
"definition_uri": "https://w3id.org/linkml/Objectidentifier",
"description": "A URI or CURIE that represents an object in the model.",
"comments": [
"Used for inheritence and type checking"
],
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "ElementIdentifier",
"uri": "http://www.w3.org/ns/shex#iri",
"repr": "str",
"@type": "TypeDefinition"
},
{
"name": "nodeidentifier",
"definition_uri": "https://w3id.org/linkml/Nodeidentifier",
"description": "A URI, CURIE or BNODE that represents a node in a model.",
"from_schema": "https://w3id.org/linkml/types",
"imported_from": "linkml:types",
"base": "NodeIdentifier",
"uri": "http://www.w3.org/ns/shex#nonLiteral",
"repr": "str",
"@type": "TypeDefinition"
}
],
"slots": [
{
"name": "id",
"definition_uri": "https://w3id.org/ontology_association/id",
"description": "identifier",
"from_schema": "https://w3id.org/ontology_association",
"range": "curie",
"slot_uri": "https://w3id.org/ontology_association/id",
"required": true,
"identifier": true,
"@type": "SlotDefinition"
},
{
"name": "local_id",
"definition_uri": "https://w3id.org/ontology_association/local_id",
"description": "local part of identifier",
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/local_id",
"required": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"pattern": "\\S+",
"@type": "SlotDefinition"
},
{
"name": "db",
"definition_uri": "https://w3id.org/ontology_association/db",
"description": "db part of identifier",
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/db",
"required": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"pattern": "[a-zA-Z0-9\\.\\-\\_]+",
"@type": "SlotDefinition"
},
{
"name": "db_object_ref",
"definition_uri": "https://w3id.org/ontology_association/db_object_ref",
"exact_mappings": [
"https://w3id.org/biolink/vocab/subject"
],
"todos": [
"in GAF this refers to a local id, in GPAD a CURIE"
],
"examples": [
{
"value": "UniProtKB:P11678",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/db_object_ref",
"required": true,
"inlined": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "aspect",
"definition_uri": "https://w3id.org/ontology_association/aspect",
"description": "varies by association type",
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/aspect",
"required": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "db_object_symbol",
"definition_uri": "https://w3id.org/ontology_association/db_object_symbol",
"examples": [
{
"value": "AMOT",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "symbol_type",
"slot_uri": "https://w3id.org/ontology_association/db_object_symbol",
"required": true,
"owner": "XafAssociation",
"domain_of": [
"GpiEntity",
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "db_object_name",
"definition_uri": "https://w3id.org/ontology_association/db_object_name",
"exact_mappings": [
"https://w3id.org/biolink/vocab/name"
],
"examples": [
{
"value": "Angiomotin",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "name_type",
"slot_uri": "https://w3id.org/ontology_association/db_object_name",
"owner": "XafAssociation",
"domain_of": [
"GpiEntity",
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "db_object_synonyms",
"definition_uri": "https://w3id.org/ontology_association/db_object_synonyms",
"examples": [
{
"value": "Angiomotin",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "name_type",
"slot_uri": "https://w3id.org/ontology_association/db_object_synonyms",
"multivalued": true,
"owner": "XafAssociation",
"domain_of": [
"GpiEntity",
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "db_object_type",
"definition_uri": "https://w3id.org/ontology_association/db_object_type",
"examples": [
{
"value": "PR:000000001",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/db_object_type",
"owner": "XafAssociation",
"domain_of": [
"GpiEntity",
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "db_object_taxon",
"definition_uri": "https://w3id.org/ontology_association/db_object_taxon",
"examples": [
{
"value": "NCBITaxon:9606",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "Taxon",
"slot_uri": "https://w3id.org/ontology_association/db_object_taxon",
"required": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"GpiEntity",
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "encoded_by",
"definition_uri": "https://w3id.org/ontology_association/encoded_by",
"from_schema": "https://w3id.org/ontology_association",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/encoded_by",
"multivalued": true,
"inlined": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "parent_protein",
"definition_uri": "https://w3id.org/ontology_association/parent_protein",
"from_schema": "https://w3id.org/ontology_association",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/parent_protein",
"multivalued": true,
"inlined": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "protein_containing_complex_members",
"definition_uri": "https://w3id.org/ontology_association/protein_containing_complex_members",
"from_schema": "https://w3id.org/ontology_association",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/protein_containing_complex_members",
"multivalued": true,
"inlined": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "db_xrefs",
"definition_uri": "https://w3id.org/ontology_association/db_xrefs",
"from_schema": "https://w3id.org/ontology_association",
"range": "curie",
"slot_uri": "https://w3id.org/ontology_association/db_xrefs",
"multivalued": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "negation",
"definition_uri": "https://w3id.org/ontology_association/negation",
"from_schema": "https://w3id.org/ontology_association",
"range": "boolean",
"slot_uri": "https://w3id.org/ontology_association/negation",
"@type": "SlotDefinition"
},
{
"name": "ontology_class_ref",
"definition_uri": "https://w3id.org/ontology_association/ontology_class_ref",
"exact_mappings": [
"https://w3id.org/biolink/vocab/object"
],
"examples": [
{
"value": "GO:0050803",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "OntologyClass",
"slot_uri": "https://w3id.org/ontology_association/ontology_class_ref",
"required": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "qualifiers",
"definition_uri": "https://w3id.org/ontology_association/qualifiers",
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/qualifiers",
"multivalued": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "relation",
"definition_uri": "https://w3id.org/ontology_association/relation",
"exact_mappings": [
"https://w3id.org/biolink/vocab/predicate"
],
"examples": [
{
"value": "RO:0002263",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/relation",
"required": true,
"@type": "SlotDefinition"
},
{
"name": "supporting_references",
"definition_uri": "https://w3id.org/ontology_association/supporting_references",
"exact_mappings": [
"https://w3id.org/biolink/vocab/publications"
],
"from_schema": "https://w3id.org/ontology_association",
"range": "Publication",
"slot_uri": "https://w3id.org/ontology_association/supporting_references",
"multivalued": true,
"required": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "with_or_from",
"definition_uri": "https://w3id.org/ontology_association/with_or_from",
"exact_mappings": [
"https://w3id.org/biolink/vocab/evidence_object"
],
"examples": [
{
"value": "WB:WBVar00000510",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/with_or_from",
"multivalued": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "interacting_taxon_ref",
"definition_uri": "https://w3id.org/ontology_association/interacting_taxon_ref",
"exact_mappings": [
"https://w3id.org/biolink/vocab/evidence_object"
],
"from_schema": "https://w3id.org/ontology_association",
"range": "Taxon",
"slot_uri": "https://w3id.org/ontology_association/interacting_taxon_ref",
"multivalued": true,
"inlined": true,
"@type": "SlotDefinition"
},
{
"name": "evidence_type",
"definition_uri": "https://w3id.org/ontology_association/evidence_type",
"exact_mappings": [
"https://w3id.org/biolink/vocab/evidence"
],
"from_schema": "https://w3id.org/ontology_association",
"range": "OntologyClass",
"slot_uri": "https://w3id.org/ontology_association/evidence_type",
"required": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "bioentity_type",
"definition_uri": "https://w3id.org/ontology_association/bioentity_type",
"description": "type of entity",
"from_schema": "https://w3id.org/ontology_association",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/bioentity_type",
"@type": "SlotDefinition"
},
{
"name": "annotation_date",
"definition_uri": "https://w3id.org/ontology_association/annotation_date",
"description": "date when annotation was made",
"from_schema": "https://w3id.org/ontology_association",
"range": "datetime",
"slot_uri": "https://w3id.org/ontology_association/annotation_date",
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"pattern": "^\\d{6}",
"@type": "SlotDefinition"
},
{
"name": "assigned_by",
"definition_uri": "https://w3id.org/ontology_association/assigned_by",
"description": "assigned by",
"from_schema": "https://w3id.org/ontology_association",
"range": "Provider",
"slot_uri": "https://w3id.org/ontology_association/assigned_by",
"required": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "gene_product_form",
"definition_uri": "https://w3id.org/ontology_association/gene_product_form",
"description": "isoform",
"from_schema": "https://w3id.org/ontology_association",
"range": "BiologicalEntity",
"slot_uri": "https://w3id.org/ontology_association/gene_product_form",
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "annotation_extensions",
"definition_uri": "https://w3id.org/ontology_association/annotation_extensions",
"description": "disjunction",
"examples": [
{
"value": "BFO:0000066(GO:0005829)",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "AnnotationExtension",
"slot_uri": "https://w3id.org/ontology_association/annotation_extensions",
"multivalued": true,
"inlined": true,
"owner": "XafAssociation",
"domain_of": [
"XafAssociation"
],
"@type": "SlotDefinition"
},
{
"name": "annotation_properties",
"definition_uri": "https://w3id.org/ontology_association/annotation_properties",
"from_schema": "https://w3id.org/ontology_association",
"range": "PropertyValuePair",
"slot_uri": "https://w3id.org/ontology_association/annotation_properties",
"multivalued": true,
"inlined": true,
"@type": "SlotDefinition"
},
{
"name": "gene_product_properties",
"definition_uri": "https://w3id.org/ontology_association/gene_product_properties",
"examples": [
{
"value": "db-subset=Swiss-Prot",
"@type": "Example"
}
],
"from_schema": "https://w3id.org/ontology_association",
"range": "PropertyValuePair",
"slot_uri": "https://w3id.org/ontology_association/gene_product_properties",
"multivalued": true,
"inlined": true,
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"@type": "SlotDefinition"
},
{
"name": "document_metadata_field",
"definition_uri": "https://w3id.org/ontology_association/document_metadata_field",
"from_schema": "https://w3id.org/ontology_association",
"abstract": true,
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/document_metadata_field",
"@type": "SlotDefinition"
},
{
"name": "date_generated",
"definition_uri": "https://w3id.org/ontology_association/date_generated",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/date_generated",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "generated_by",
"definition_uri": "https://w3id.org/ontology_association/generated_by",
"description": "YYYY-MM-DD or YYYY-MM-DDTHH:MM",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"range": "Provider",
"slot_uri": "https://w3id.org/ontology_association/generated_by",
"inlined": true,
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "url",
"definition_uri": "https://w3id.org/ontology_association/url",
"description": "e.g. http://www.yeastgenome.org/",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/url",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "project_release",
"definition_uri": "https://w3id.org/ontology_association/project_release",
"description": "e.g. WS275",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/project_release",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "funding",
"definition_uri": "https://w3id.org/ontology_association/funding",
"description": "e.g. NHGRI",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/funding",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "ontology_version",
"definition_uri": "https://w3id.org/ontology_association/ontology_version",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "document_metadata_field",
"abstract": true,
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/ontology_version",
"@type": "SlotDefinition"
},
{
"name": "go_version",
"definition_uri": "https://w3id.org/ontology_association/go_version",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "ontology_version",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/go_version",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "ro_version",
"definition_uri": "https://w3id.org/ontology_association/ro_version",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "ontology_version",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/ro_version",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "gorel_version",
"definition_uri": "https://w3id.org/ontology_association/gorel_version",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "ontology_version",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/gorel_version",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "eco_version",
"definition_uri": "https://w3id.org/ontology_association/eco_version",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "ontology_version",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/eco_version",
"@type": "SlotDefinition"
},
{
"name": "gpiDocument__entities",
"from_schema": "https://w3id.org/ontology_association/gpi",
"range": "GpiEntity",
"slot_uri": "https://w3id.org/ontology_association/entities",
"multivalued": true,
"alias": "entities",
"owner": "GpiDocument",
"domain_of": [
"GpiDocument"
],
"@type": "SlotDefinition"
},
{
"name": "propertyValuePair__property",
"from_schema": "https://w3id.org/ontology_association/gpi",
"range": "ControlledTerm",
"slot_uri": "https://w3id.org/ontology_association/property",
"inlined": true,
"alias": "property",
"owner": "PropertyValuePair",
"domain_of": [
"PropertyValuePair"
],
"@type": "SlotDefinition"
},
{
"name": "propertyValuePair__value",
"description": "value",
"from_schema": "https://w3id.org/ontology_association/gpi",
"range": "string",
"slot_uri": "https://w3id.org/ontology_association/value",
"alias": "value",
"owner": "PropertyValuePair",
"domain_of": [
"PropertyValuePair"
],
"@type": "SlotDefinition"
},
{
"name": "associationDocument__associations",
"from_schema": "https://w3id.org/ontology_association/gpi",
"range": "Association",
"slot_uri": "https://w3id.org/ontology_association/associations",
"multivalued": true,
"inlined": true,
"alias": "associations",
"owner": "AssociationDocument",
"domain_of": [
"AssociationDocument"
],
"@type": "SlotDefinition"
},
{
"name": "gpi_entity_db_object_ref",
"from_schema": "https://w3id.org/ontology_association/gpi",
"is_a": "db_object_ref",
"domain": "GpiEntity",
"range": "Entity",
"slot_uri": "https://w3id.org/ontology_association/db_object_ref",
"required": true,
"inlined": true,
"identifier": true,
"alias": "db object ref",
"owner": "GpiEntity",
"domain_of": [
"GpiEntity"
],
"is_usage_slot": true,
"usage_slot_name": "db object ref",
"@type": "SlotDefinition"
}
],
"classes": [
{
"name": "GpiEntity",
"definition_uri": "https://w3id.org/ontology_association/GpiEntity",
"description": "An entity that can be annotated using GO. May be a gene, gene product, or complex",
"from_schema": "https://w3id.org/ontology_association/gpi",
"is_a": "BiologicalEntity",
"slots": [
"gpi_entity_db_object_ref",
"db_object_symbol",
"db_object_name",
"db_object_synonyms",
"db_object_type",
"db_object_taxon",
"encoded_by",
"parent_protein",
"protein_containing_complex_members",
"db_xrefs",
"gene_product_properties"
],
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/GpiEntity",
"@type": "ClassDefinition"
},
{
"name": "GpiDocument",
"definition_uri": "https://w3id.org/ontology_association/GpiDocument",
"description": "A collection of gpi entities plus associated metadata",
"from_schema": "https://w3id.org/ontology_association/gpi",
"is_a": "Document",
"slots": [
"gpiDocument__entities"
],
"slot_usage": {},
"attributes": [
{
"name": "entities",
"range": "GpiEntity",
"multivalued": true,
"@type": "SlotDefinition"
}
],
"class_uri": "https://w3id.org/ontology_association/GpiDocument",
"@type": "ClassDefinition"
},
{
"name": "Entity",
"definition_uri": "https://w3id.org/ontology_association/Entity",
"close_mappings": [
"biolink:NamedThing"
],
"from_schema": "https://w3id.org/ontology_association",
"abstract": true,
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/Entity",
"@type": "ClassDefinition"
},
{
"name": "BiologicalEntity",
"definition_uri": "https://w3id.org/ontology_association/BiologicalEntity",
"exact_mappings": [
"biolink:BiologicalEntity"
],
"from_schema": "https://w3id.org/ontology_association",
"is_a": "Entity",
"abstract": true,
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/BiologicalEntity",
"@type": "ClassDefinition"
},
{
"name": "Provider",
"definition_uri": "https://w3id.org/ontology_association/Provider",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "Entity",
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/Provider",
"@type": "ClassDefinition"
},
{
"name": "Publication",
"definition_uri": "https://w3id.org/ontology_association/Publication",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "Entity",
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/Publication",
"@type": "ClassDefinition"
},
{
"name": "ControlledTerm",
"definition_uri": "https://w3id.org/ontology_association/ControlledTerm",
"from_schema": "https://w3id.org/ontology_association",
"is_a": "Entity",
"slot_usage": {},
"class_uri": "https://w3id.org/ontology_association/ControlledTerm",