biolink-model

Schema and generated objects for biolink data model and upper ontology

This project is maintained by biolink

Mapping to RDF

This is similar to the Neo4J mapping. One difference is that Neo4J uses a property-graph model, whereas a RDF graph is a triple store, and must employ a technique such as reification or named graphs to attach information to the triple.

Nodes

Each node in a graph corresponds to an RDF resource. See named thing for the base class.

The id field is a CURIE, which maps to the resource IRI/URI using a standard prefix expansion. The RDF graph MAY include the CURIE shortform using a triple with dcterms:identifier as predicate and the CURIE as a literal.

The name field maps to rdfs:label.

Types and Categories

TBD: use rdf:type or include additional category

Mapping Edges

An edge maps to an RDF triple.

See named thing for a list of generic properties that are associated with an edge.

OBAN Reification

Wikidata Reification

Standard RDF Reification

Use of NamedGraphs

Examples: nanopubs