High-throughput data and modeling reveal insights into the mechanisms of cooperative DNA-binding by transcription factor proteins.

ABSTRACT: Cooperative DNA-binding by transcription factor (TF) proteins is critical for eukaryotic gene regulation. In the human genome, many regulatory regions contain TF-binding sites in close proximity to each other, which can facilitate cooperative interactions. However, binding site proximity does not necessarily imply cooperative binding, as TFs can also bind independently to each of their neighboring target sites. Currently, the rules that drive cooperative TF binding are not well understood. In addition, it is oftentimes difficult to infer direct TF-TF cooperativity from existing DNA-binding data. Here, we show that in vitro binding assays using DNA libraries of a few thousand genomic sequences with putative cooperative TF-binding events can be used to develop accurate models of cooperativit

SUBMITTER: Martin V 

PROVIDER: S-EPMC10681739 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature