Network with qualitative labels on predicted interactions. (a) The network of interactions in yeast that are specifically predicted to be physical (red lines) or metabolic (blue lines). We took all gene pairs that fell into squares (Figure 3) with a differential ppv larger than 0.95 and at least five true positive metabolic interactions for the specific metabolic interactions. We selected all gene pairs that fell into squares with differential ppv smaller than -0.95 and at least five true positive physical interactions for the specific physical interactions. Names of several known complexes and metabolic pathways are indicated on the network. (b) The arginine biosynthesis pathway in yeast. Names of the enzymes are in orange, arrows indicate biochemical reactions. Blue lines indicate all interactions that exist for these genes. Note that ECM40 catalyzes two steps in this pathway but the interactions with the other genes are drawn only once.
van Noort et al. Genome Biology 2007 8:R197 doi:10.1186/gb-2007-8-9-r197