Recovery of known domain interactions from protein interactions. The proposed interaction detection based on shuffling (IDBOS) ranking scheme was compared with the frequency of occurrence ranking, one randomly ranked set (where the observed protein-protein interactions (PPIs) take random ranks), and a randomly rewired interaction set in identifying known domain-domain interactions (DDIs). We assessed performance by calculating the fraction of true DDIs among the judgeable interactions as a function of varying ranking thresholds. In the set scored by occurrence alone, multiple PPIs possessed the same score, and the second right-most symbol corresponds to the collection of PPIs with an observed occurrence ≥2.
Yu et al. BMC Bioinformatics 2012 13:79 doi:10.1186/1471-2105-13-79