Mapping DNA sequence to transcription factor binding energy in vivo.

ABSTRACT: Despite the central importance of transcriptional regulation in biology, it has proven difficult to determine the regulatory mechanisms of individual genes, let alone entire gene networks. It is particularly difficult to decipher the biophysical mechanisms of transcriptional regulation in living cells and determine the energetic properties of binding sites for transcription factors and RNA polymerase. In this work, we present a strategy for dissecting transcriptional regulatory sequences using in vivo methods (massively parallel reporter assays) to formulate quantitative models that map a transcription factor binding site's DNA sequence to transcription factor-DNA binding energy. We use these models to predict the binding energies of transcription factor binding sites to within 1 kBT of th

SUBMITTER: Barnes SL 

PROVIDER: S-EPMC6375646 | biostudies-literature | 2019 Feb

REPOSITORIES: biostudies-literature