Plato's Cave Algorithm: Inferring Functional Signaling Networks from Early Gene Expression Shadows
Figure 4
Synthetic interaction network.
A. The biochemical interaction network for the synthetic network, including the four signaling components (S1–S4), and the 10 early genes they affect (G1–G10); B. The network of functional interactions between the four signaling components in the synthetic network, as inferred by PLACA. The inferred functional interactions convey the correct biochemical network; C. The heat map of the change in gene activity in all genes (X axis), as obtained from a set of simulations where each signaling component (Y axis) was perturbed. The heat map reveals which genes were involved in inferring each functional interaction.