Performance summary for four computational methods and their variants using six reference genome sets.

Notes: The performance summary of protein-protein prediction methods measured as Area Under the ROC Curve (AUC). BPPM stands for Binary Phylogenetic Profile Method; SPPM stands for Sequence Similarity (bit scores) based Phylogenetic Profiling Method; GCM is Gene Cluster Method, MDM is gene neighborhood based Minimum Distance Method; GD is genome distance; NA stands for sets that are not analyzed for corresponding method. ALL, BAAC, BAS, BAC, GAMMA and BANR are reference genome sets whose compositions is given in Table 1.