Combining inferred regulatory and reconstructed metabolic networks enhances phenotype prediction in yeast
Fig 2
Strategy for IDREAM on integration of an EGRIN TRN with a metabolic model.
A. Comparison of three integrative models: PROM, IDREAM, IDREAM-hybrid. B. Detailed illustration of probability constraints in an IDREAM model. The direct and indirect interactions are represented using solid and dashed lines, respectively. For activators (red), we set the probability to Prob(Gene = ON|Factor = OFF) = FDR. For inhibitors (blue), we set Prob(Gene = ON|Factor = OFF) = 1-FDR. The constraints on the reaction flux were Vmax·Prob. For indirect interactions, no effects of TF knockout on flux constraints.