Fig. 4

Performance comparison with the previous GO-based method. We conducted independent test to compare performance with the previous GO-based method that did not consider GO relations. We compared the performance of activation and inhibition classifiers in terms of AUROC, AUPRC, precision, recall, f1-score, and accuracy. Since the previous work did not consider directions, performance for predicting signs was compared. a For predicting activation, our work performed equally, or slightly better than the previous work. b For predicting inhibition, our work outperformed the previous work by all metrics. These results show that overlap or difference between GO annotations of two proteins are not sufficient discriminating factor for signs of PPIs, given that inhibiting PPIs also participate in the same biological process. Moreover, positively regulates and negatively regulates relations in GO can be used for enhancing performance for predicting signs of PPIs. Abbreviations: AUROC, area under receiver operating characteristics; AUPRC, area under precision-recall curve