List of Ontologies in the model_v2

This table has a list of all the ontologies used in the CDE semantic model. The first column has links to either download the ontology or to browse it. The prefix links are not all resolvable. Some comments on the usage of ontologies or the prefixes of the ontologies as used in the model are also given.

Ontology name	Prefix link	Prefix	Comments
Ontology for Biomedical Investigations (OBI)	http://purl.obolibrary.org/obo/	obo	In RDF files the prefix is obo.
National Cancer Institute Thesaurus (NCIT)	http://purl.obolibrary.org/obo/	ncit, obo	In RDF files the prefix is obo.
Orphanet Rare Disease Ontology (ORDO)	http://www.orpha.net/ORDO/	ordo
Semantic science Ontology (SIO)	http://semanticscience.org/resource/	sio
Human Phenotype Ontology (HP)	http://purl.obolibrary.org/obo/	hp, obo	In RDF files the prefix is obo.
Ontologized Minimum Information About BIobank data Sharing (OMIABIS)	http://purl.obolibrary.org/obo/	omiabis	In RDF files the prefix is obo.
EDAM Ontology	http://edamontology.org/	edam
XML Schema Definition (XSD)	http://www.w3.org/2001/XMLSchema#	xsd

Notes

In some cases the prefixes on ontologies are tied to the OBO foundry. In these cases we make a decision to use readable prefixes for the images and keep it obo for the files.

In cases where the term ids are numbers we could also use (human-readable) labels for the images and the identifiers for the RDF files.