Figure 3

Differential ppv in the evidence landscape. In each panel the x-axis indicates the score in the first dataset, the y-axis the score in the second set. The color scheme is based on differential ppv, being the ppv on the metabolic reference set minus the ppv on the physical interaction reference set. Differential ppv 1 is dark blue, 0 is yellow and -1 is red, parts that contain no gene pairs are white. The blue parts of the landscapes are regions where there are only metabolic interactions, whereas in the red parts there are only physical interactions. (a) TAP-tag purifications (Krogan) versus TAP-tag purifications (Gavin). (b) TAP-tag purifications (sum Krogan Gavin) versus conserved co-expression (CoExp2Sp). (c) TAP-tag purifications (sum Krogan Gavin) versus co-regulation (ChIP-chip*CoExp). (d) TAP-tag purifications (Krogan) versus gene neighborhood conservation (GenNeigh). (e) Gene neighborhood conservation (GenNeigh) versus co-regulation (ChIP-chip*CoExp). (f) TAP-tag purifications (Gavin) versus co-regulation (ChIP-chip*CoExp). (g) Correlated phylogenetic profiles (CoOcc) versus gene neighborhood conservation (GenNeigh).(h) Gene neighborhood conservation (GenNeigh) versus conserved co-expression (CoExp2Sp). (i) Paralogous conserved co-expression (CoExpPar) versus conserved co-expression (CoExp4Sp).