Table 1 Information for the seven public PPI databases
From: atBioNet– an integrated network analysis tool for genomics and biomarker discovery
Databases | Description | Extracted Homo sapien proteins and interactions | |
|---|---|---|---|
Number of proteins | Number of interactions | ||
BioGRID thebiogrid.org | BioGRID provides PPI data compiled through comprehensive curation efforts from high-throughput data sets and individual focused studies. | 8204 | 33625 |
DIP dip.doembi.ucla.edu/dip/Main.cgi | The DIPTM catalogs experimentally determined interactions between proteins, mainly from yeast, and includes interactions from Helicobacter pylori and human. | 1137 | 1509 |
HPRD http://www.hprd.org | The HPRD provides submitted human PPI data including mass spectrometry and protein microarray-derived data among other data types. | 9553 | 38802 |
IntAct contains PPI data with full descriptions of the experimental conditions; data is derived from literature curation or direct user submissions. | 7495 | 30965 | |
MINT mint.bio.uniroma2.it/mint/Welcome.do | MINT focuses on experimentally verified PPIs classified as human, domain–peptide, and virus–virus/host. Data is mined from the scientific literature by expert curators. | 5230 | 15353 |
REACTOME http://www.reactome.org | REACTOME collects manually curated and peer-reviewed pathway data for all species. | 3599 | 74490 |
SPIKE focuses on highly curated human signaling pathways. | 6927 | 23224 | |