Table 2 External databases successfully imported into cPath.
From: cPath: open source software for collecting, storing, and querying biological pathways
Database Name | Database Type | URL | Release Date Tested | Data Format used for cPath Import | Database Stats |
|---|---|---|---|---|---|
Cancer Cell Map | Signaling Pathways | April, 2006 | BioPAX, Level 2 | Pathways: 10 Interactions: 2,104 Physical Entities: 899 | |
Database of Interacting Proteins (DIP) [54, 55] | Protein-Protein Interactions | April, 2006 | PSI-MI, Level 1 | Interactions: 54,511 Physical Entities: 19,003 | |
Ecocyc [56] | Metabolic and Signaling Pathways | http://ecocyc.org/ Registration required to download data | March, 2006 | BioPAX, Level 1 | Pathways: 224 Interactions: 4,644 Physical Entities: 3,511 |
Human Protein Reference Database (HPRD) [57] | Protein-Protein Interactions | http://hprd.org/ Registration required to download data | Sept, 2005 | PSI-MI, Level 1 | Interactions: 4,450 Physical Entities: 12,226 |
IntAct [46] | Protein-Protein Interactions | May, 2006 | PSI-MI, Level 1 | Interactions: 67,816 Physical Entities: 28,006 | |
KEGG [58, 59] | Metabolic Pathways | July, 2006 | BioPAX, Level 2 | Human Data Only Pathways: 108 Interactions: 3,285 Physical Entities: 2,018 | |
Molecular Interaction Database (MINT) [45] | Protein-Protein Interactions | May, 2005 | PSI-MI, Level 1 | Interactions: 44,904 Physical Entities: 16,325 | |
Reactome [47] | Metabolic and Signaling Pathways | May, 2006 | BioPAX, Level 2 | Human Data Only Pathways: 775 Interactions: 2,962 Physical Entities: 3,197 |