I'm interested to do PPI network analysis using HIPPIE database. On the home-page of HIPPIE it states the following:
A threshold on the HIPPIE confidence score can be chosen. The user can either specify a custom value between 0 and 1 or choose a predefined confidence level: medium confidence (0.63 - second quartile of the HIPPIE score distribution) or high confidence (0.73 - third quartile). If both custom and predefined thresholds are selected, the higher one is applied.
At what threshold score should I select my protein interacting partners? Is >= 0.5 a reasonable good threshold ?