Causal relationships predicted by DM_BN.

(A) Linear cascading relationships among regulators involved in HOG signaling pathway in response to osmotic stress were correctly inferred. (B) The predicted relationships between the SIR complex and the STE/FUS3/KSS MAPK signal transduction pathway are consistent with their roles in mating process. Purple nodes: components of the SIR complex; Cyan nodes: single or double mutants of protein kinases. The parameter in the DM_BN algorithm for generating these predictions was set to . See section “Novel regulator-regulator interactions predicted by DM_BN” for more details.