Effect of antagonistic interactions between pairs of TFs on the accuracy of modeling ChIP data.

STAP was used with two motifs – the primary motif and a secondary motif (“Motif 2”), and with antagonistic DNA-binding included in the model. Interaction between two TF sites was included in the model only if the two sites are within a pre-defined “Distance Threshold” (set to 150 bp and 30 bp in two sets of experiments). Shown are all cases in which both improvements were more than 0.04, P-value≤0.05 and Z-score ≥3.