except for zinc finger proteins (4,5). Although several biochemical and genome-wide assays exist to assess TF-DNA affinities and detect TFBSs, these assays cannot be performed for all TFs in all cell types and biological conditions. Thus, computational approaches and models for TF binding remain critical. Aside from prediction of TFBS, such models can also be used as part of other analyses, such as enrichment of TFBSs in sets of promoters or enhancers, prediction of impacts of mutations in non-coding regions and guided in vitro mutagenesis (6,7).
