Figure 1

An illustrative figure of the four proposed algorithms. The four proposed algorithms all consist of two steps. Step 1: Define the targets of each TF of a TF pair. Step 2: Measure the cooperativity of a TF pair by the statistical significance of the overlap of the targets of these two TFs using the hypergeometric test. The four proposed algorithms all have the same Step 2 but have different Step 1. In Step1, the four proposed algorithms (denoted as PA1, PA2, PA3, and PA4) use different data sources to define the targets of a TF. PA1 uses ChIP-chip data, PA2 uses TF binding data, PA3 uses TF perturbation data, and PA4 uses the intersection of TF binding and TF perturbation data.