Table 1.
PPI data sources integrated in HIPPIE.
Table 2.
Scores for experiment types.
Figure 1.
Coverage of HIPPIE and overlap by three technique specific datasets.
Left: proteins. Right: PPIs. Y2H is yeast-two-hybrid, Coprep is anti-bait coimmunoprecipitation and MS is affinity capture mass spectrometry. The protein numbers show that Y2H can focus on many proteins that have not been targeted by the other two techniques. Together the three techniques already cover 80% of all proteins currently considered in HIPPIE (i.e. 80% of all proteins in HIPPIE participate in at least one Y2H, Coprep or MS experiment). However, the overlap in PPIs between these datasets and to the remainder of HIPPIE is much smaller indicating that PPI detection is technique specific. Nevertheless, one can appreciate that similar techniques have a bias towards detecting similar PPIs, here illustrated by the significant overlap between Coprep and MS and by the little overlap of Y2H to the other two techniques.
Figure 2.
Distribution of HIPPIE confidence scores.
Interactions with scores above 0.73 (black bars) constitute only 25% of all and could be considered high-confidence interactions. According to the design of the scoring function, such score implies that the interaction is supported by multiple evidence.
Table 3.
Coverage of HIPPIE by novel datasets.