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Gene Ontology Relation and CURIE Extraction

A template for GO Term and ID extraction, as relations involving specific proteins. Note this does not make a distinction between GO term types.

URI: http://w3id.org/ontogpt/go_terms_relational

Name: go_terms_relational

Schema Diagram

erDiagram Document { } ProteinToGORelationship { string qualifier } NamedEntity { string id string label } GOTerm { string id string label } ProteinToGOPredicate { string id string label } Protein { string id string label } Publication { string id string title string abstract string combined_text string full_text } Document ||--|o Publication : "publication" Document ||--}o ProteinToGORelationship : "triples" ProteinToGORelationship ||--|o Protein : "subject" ProteinToGORelationship ||--|o ProteinToGOPredicate : "predicate" ProteinToGORelationship ||--|o GOTerm : "object" ProteinToGORelationship ||--|o NamedEntity : "subject_qualifier" ProteinToGORelationship ||--|o NamedEntity : "object_qualifier"

Classes

Class Description
AnnotatorResult None
Any None
CompoundExpression None
        Triple Abstract parent for Relation Extraction tasks
                ProteinToGORelationship A triple where the subject is a protein and the object is a GO term.
ExtractionResult A result of extracting knowledge on text
NamedEntity None
        GOTerm None
        Protein None
        RelationshipType None
                ProteinToGOPredicate A predicate for protein to GO term relationships.
Publication None
TextWithEntity A text containing one or more instances of a single type of entity.
TextWithTriples A text containing one or more relations of the Triple type.
        Document A document that contains biological or biomedical concepts.

Slots

Slot Description
abstract The abstract of the publication
combined_text
entities
extracted_object The complex objects extracted from the text
full_text The full text of the publication
id A unique identifier for the named entity
input_id
input_text
input_title
label The label (name) of the named thing
named_entities Named entities extracted from the text
object
object_id
object_qualifier An optional qualifier or modifier for the object of the statement, e
object_text
predicate
prompt
publication
qualifier A qualifier for the statements, e
raw_completion_output
subject
subject_qualifier An optional qualifier or modifier for the subject of the statement, e
subject_text
title The title of the publication
triples

Enumerations

Enumeration Description
NullDataOptions

Types

Type Description
Boolean A binary (true or false) value
Curie a compact URI
Date a date (year, month and day) in an idealized calendar
DateOrDatetime Either a date or a datetime
Datetime The combination of a date and time
Decimal A real number with arbitrary precision that conforms to the xsd:decimal speci...
Double A real number that conforms to the xsd:double specification
Float A real number that conforms to the xsd:float specification
Integer An integer
Jsonpath A string encoding a JSON Path
Jsonpointer A string encoding a JSON Pointer
Ncname Prefix part of CURIE
Nodeidentifier A URI, CURIE or BNODE that represents a node in a model
Objectidentifier A URI or CURIE that represents an object in the model
Sparqlpath A string encoding a SPARQL Property Path
String A character string
Time A time object represents a (local) time of day, independent of any particular...
Uri a complete URI
Uriorcurie a URI or a CURIE

Subsets

Subset Description