Table 1

Summary of node types in Biomine
Node type Source databases Count Mean degree
Article PubMed 533,000 3.9
Protein UniProt, STRING 275,000 29.6
Gene Entrez Gene 193,000 18.6
Homology group Entrez HomoloGene 25,000 3.2
Biological process GO 20,000 32.5
Gene variant OMIM 19,000 1.4
Gene location (Locus) Entrez Gene, OMIM 12,000 18.7
Protein family InterPro 12,000 69.6
Molecular function GO 10,000 49.1
Drug KEGG 8,800 0.7
Protein feature InterPro 8,000 69.6
Phenotype OMIM 6,500 17.0
Enzyme KEGG 5,100 10.2
Cellular component GO 2,900 122.2
Pathway KEGG, UniProt 1,800 37.1
Tissue UniProt 1,300 189.1
total 1,133,000 14.8

Eronen and Toivonen

Eronen and Toivonen BMC Bioinformatics 2012 13:119   doi:10.1186/1471-2105-13-119

Open Data