Ontology-Based Querying with Bio2RDF’s Linked Open Data

Table 1 Bio2RDF datasets currently available

Dataset	Namespace	# of triples	# of unique subjects	# of unique predicates	# of unique objects
Affymetrix	affymetrix	44469611	1370219	79	13097194
Biomodels*	biomodels	589753	87671	38	209005
Comparative Toxicogenomics Database	ctd	141845167	12840989	27	13347992
DrugBank	drugbank	1121468	172084	75	526976
NCBI Gene	ncbigene	394026267	12543449	60	121538103
Gene Ontology Annotations	goa	80028873	4710165	28	19924391
HUGO Gene Nomenclature Committee	hgnc	836060	37320	63	519628
Homologene	homologene	1281881	43605	17	1011783
*InterPro†**	interpro	999031	23794	34	211346
iProClass	iproclass	211365460	11680053	29	97484111
iRefIndex†	irefindex	31042135	1933717	32	4276466
Medical Subject Headings	mesh	4172230	232573	60	1405919
*National Center for Biomedical Ontology†**	ncbo	15384622	4425342	191	7668644
National Drug Code Directory*	ndc	17814216	301654	30	650650
Online Mendelian Inheritance in Man	omim	1848729	205821	61	1305149
Pharmacogenomics Knowledge Base	pharmgkb	37949275	5157921	43	10852303
SABIO-RK*	sabiork	2618288	393157	41	797554
Saccharomyces Genome Database	sgd	5551009	725694	62	1175694
NCBI Taxonomy	taxon	17814216	965020	33	2467675
Total	19	1010758291	57850248	1003	298470583

The Bio2RDF datasets currently available for SPARQL querying and download at http://bio2rdf.org. The total number of triples, number of unique subject, number of unique predicates and number of unique objects are listed along with the Bio2RDF namespace for each dataset.
* Datasets new to the Bio2RDF network
† InterPro contains 13 domain resources, iRefIndex contains 13 interaction resources, and NCBO contains 107 OBO ontologies.

ISSN: 2041-1480