Table 2 External databases used for data integration

Chemical Entities of Biological Interest (ChEBI)

http://www.ebi.ac.uk/chebi/init.do

38,580

ChEBI Ontology

http://www.ebi.ac.uk/chebi/

29,974

Enzyme

http://ca.expasy.org/enzyme/

5,418

Gene

http://www.ncbi.nlm.nih.gov/gene

892,7911

Functional association data/networks (GeneMania)

http://genemania.org/

21,084

GO

http://www.geneontology.org/

34,940

GOA

http://www.ebi.ac.uk/GOA/

11,300,749

HUGO Gene Nomenclature

http://www.genenames.org/

35,795

Human Major Histocompatibility Complex

http://www.ebi.ac.uk/imgt/hla/

6,939

Immunoglobulins and T cell receptors nucleotide sequences

http://www.imgt.org/IMGTlect/

156,529

Interpro

http://www.ebi.ac.uk/interpro/

21,749

Oxford Human Mouse grid

http://www.informatics.jax.org/

17,834

Pfam-A

http://pfam.sanger.ac.uk/

12,273

Pfam-B

http://pfam.sanger.ac.uk/

233,174

Pfam-Seed

http://pfam.sanger.ac.uk/

12,273

PRINTS

http://bioinf.man.ac.uk/dbbrowser/PRINTS/

2,050

Prosite

http://www.expasy.org/prosite/

2,247

Prosite Documentation

http://www.expasy.org/prosite/

1,621

REBASE

http://rebase.neb.com/rebase/rebase.html

5,020

RefSeq

http://www.ncbi.nlm.nih.gov/RefSeq/

18,236,994

UniProtKB/Swiss-Prot

http://www.uniprot.org/

53,1473

Taxonomy

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Taxonomy

817,120

UniProtKB/TrEMBL

http://www.uniprot.org/

16,504,022

Unigene

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=unigene

2,652,777

Uniprot: UniProtKB/Swiss-Prot, UniProtKB/TrEMBL

http://www.uniprot.org/

17,035,495

Total Records

76,644,041