Predictive power of TF binding and HM+DNase-based models. These models are of mRNA transcript abundance for 1,880 sets of mESC genes grouped by ontology-classified biological processes. Sets of genes exhibiting significant HM+DNase-to-TF adjusted R2 ratio (i.e., for which HMs are more predictive of transcript abundance) are indicated in red, with those exhibiting a significant TF-to-HM+DNase adjusted R2 ratio (i.e., for which TF binding is more predictive) are indicated in blue. The overlap between the significant (Benjamini–Hochberg-corrected P < 0.05 ) and non-significant (grey) regions is due to the ratio significance threshold varying with the number of genes belonging to each group. HM, histone modification; TF, transcription factor; TFAS, transcription factor association strength.