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biolink-model.shexj
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biolink-model.shexj
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# metamodel_version: 1.7.0
# version: 3.0.3
{
"type": "Schema",
"@context": [
"http://www.w3.org/ns/shex.jsonld",
{
"@base": "https://w3id.org/biolink/vocab/"
}
],
"shapes": [
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/ChemicalFormulaValue",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/CategoryType",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/IriType",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/LabelType",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/PredicateType",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/NarrativeText",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/SymbolType",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/FrequencyValue",
"datatype": "http://purl.obolibrary.org/obo/UO_0000105"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/PercentageFrequencyValue",
"datatype": "http://purl.obolibrary.org/obo/UO_0000187"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/Quotient",
"datatype": "http://purl.obolibrary.org/obo/UO_0010006"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/Unit",
"datatype": "http://purl.obolibrary.org/obo/UO_0000000"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/TimeType",
"datatype": "http://www.w3.org/2001/XMLSchema#dateTime"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/biolink/vocab/BiologicalSequence",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/String",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Integer",
"datatype": "http://www.w3.org/2001/XMLSchema#integer"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Boolean",
"datatype": "http://www.w3.org/2001/XMLSchema#boolean"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Float",
"datatype": "http://www.w3.org/2001/XMLSchema#float"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Double",
"datatype": "http://www.w3.org/2001/XMLSchema#double"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Decimal",
"datatype": "http://www.w3.org/2001/XMLSchema#decimal"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Time",
"datatype": "http://www.w3.org/2001/XMLSchema#dateTime"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Date",
"datatype": "http://www.w3.org/2001/XMLSchema#date"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Datetime",
"datatype": "http://www.w3.org/2001/XMLSchema#dateTime"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/DateOrDatetime",
"datatype": "https://w3id.org/linkml/DateOrDatetime"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Uriorcurie",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Uri",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Ncname",
"datatype": "http://www.w3.org/2001/XMLSchema#string"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Objectidentifier",
"nodeKind": "iri"
},
{
"type": "NodeConstraint",
"id": "https://w3id.org/linkml/Nodeidentifier",
"nodeKind": "nonliteral"
},
{
"type": "Shape",
"id": "https://w3id.org/biolink/vocab/Activity",
"closed": true,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/Activity_tes",
"expressions": [
"https://w3id.org/biolink/vocab/NamedThing_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/NamedThing"
]
},
"min": 0
},
"https://w3id.org/biolink/vocab/ActivityAndBehavior_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/ActivityAndBehavior"
]
},
"min": 0
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/Activity"
]
},
"min": 1
}
]
}
},
{
"type": "Shape",
"id": "https://w3id.org/biolink/vocab/ActivityAndBehavior",
"closed": false,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/ActivityAndBehavior_tes",
"expressions": [
"https://w3id.org/biolink/vocab/Occurrent_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/Occurrent"
]
},
"min": 0
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/ActivityAndBehavior"
]
},
"min": 0
}
]
}
},
{
"type": "ShapeOr",
"id": "https://w3id.org/biolink/vocab/AdministrativeEntity",
"shapeExprs": [
{
"type": "Shape",
"closed": false,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/AdministrativeEntity_tes",
"expressions": [
"https://w3id.org/biolink/vocab/NamedThing_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/NamedThing"
]
},
"min": 0
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/AdministrativeEntity"
]
},
"min": 1
}
]
}
},
"https://w3id.org/biolink/vocab/Agent"
]
},
{
"type": "Shape",
"id": "https://w3id.org/biolink/vocab/Agent",
"closed": true,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/Agent_tes",
"expressions": [
"https://w3id.org/biolink/vocab/AdministrativeEntity_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/AdministrativeEntity"
]
},
"min": 0
},
{
"type": "TripleConstraint",
"predicate": "https://w3id.org/biolink/vocab/affiliation",
"valueExpr": "https://w3id.org/linkml/Uriorcurie",
"min": 0,
"max": -1
},
{
"type": "TripleConstraint",
"predicate": "https://w3id.org/biolink/vocab/address",
"valueExpr": "https://w3id.org/linkml/String",
"min": 0,
"max": 1
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/2000/01/rdf-schema#label",
"valueExpr": "https://w3id.org/biolink/vocab/LabelType",
"min": 0,
"max": 1
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/Agent"
]
},
"min": 1
}
]
}
},
{
"type": "ShapeOr",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntity",
"shapeExprs": [
{
"type": "Shape",
"closed": true,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntity_tes",
"expressions": [
"https://w3id.org/biolink/vocab/OrganismalEntity_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/OrganismalEntity"
]
},
"min": 0
},
"https://w3id.org/biolink/vocab/PhysicalEssence_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/PhysicalEssence"
]
},
"min": 0
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/AnatomicalEntity"
]
},
"min": 1
}
]
}
},
"https://w3id.org/biolink/vocab/Cell",
"https://w3id.org/biolink/vocab/CellularComponent",
"https://w3id.org/biolink/vocab/GrossAnatomicalStructure",
"https://w3id.org/biolink/vocab/PathologicalAnatomicalStructure"
]
},
{
"type": "ShapeOr",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityAssociation",
"shapeExprs": [
"https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityOntogenicAssociation",
"https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityPartOfAssociation"
]
},
{
"type": "Shape",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityAssociation_struct",
"closed": false,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityAssociation_tes",
"expressions": [
"https://w3id.org/biolink/vocab/Association_tes",
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/Association"
]
},
"min": 0
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject",
"valueExpr": "https://w3id.org/biolink/vocab/AnatomicalEntity",
"min": 1,
"max": 1
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#object",
"valueExpr": "https://w3id.org/biolink/vocab/AnatomicalEntity",
"min": 1,
"max": 1
}
]
},
{
"type": "TripleConstraint",
"predicate": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type",
"valueExpr": {
"type": "NodeConstraint",
"values": [
"https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityAssociation"
]
},
"min": 1
}
]
}
},
{
"type": "Shape",
"id": "https://w3id.org/biolink/vocab/AnatomicalEntityToAnatomicalEntityOntogenicAssociation",
"closed": true,
"expression": {
"type": "EachOf",
"expressions": [
{
"type": "EachOf",
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