Table 1

 Protein–protein interaction sets used in the study

Interaction setSource of interaction data*Number of proteins in human mapped interactions†Number of human mapped interactions‡ReferencesComments
*Y2H, yeast two-hybrid protein–protein interaction assay; PCP, protein complex purification experiment (based on mass spectrometry).
†These are the proteins that could be automatically mapped to human Ensembl gene IDs.
‡These are the interactions from the original interaction sets that could be automatically mapped to human Ensembl gene IDs.
HPRD setPublished reports600519 7285Downloaded October 21 2005
Human Y2H setHigh throughput experiments (Y2H)268652117, 8Interactions from both experiments pooled
Fly setHigh throughput experiment (Y2H)470616 31310All interactions were used, regardless of confidence level
Worm setHigh throughput experiment (Y2H)1933577111Downloaded from DIP database12
Yeast setHigh throughput experiments (Y2H, PCP)245527 098Y2H: 13, 14 PCP: 15, 16Interactions from all four experiments pooled
Combined high throughput setAll high throughput sets816254 048See aboveExcluding HPRD
Total combined setAll interaction sets10 89472 940See aboveIncluding HPRD