An example interaction network and Bayesian network model. A possible BPN (A) to explain the perturbation in the underlying gene-gene interaction network (B). In the BPN (A), nodes represent processes, while edges between nodes represent hypothesized perturbed links between the incident processes. In the interaction network (B), nodes represent genes, where red coloration indicates perturbation, and sub-labels enclosed in parentheses represent processes to which each gene belongs. Edges represent interactions between those genes, and bold edges indicate a perturbed interaction. Abbreviations: TP: true positive; FP: false positive; FN: false negative; TN: true negative.