Quantitative profiling of selective Sox/POU pairing on hundreds of sequences in parallel by Coop-seq.

ABSTRACT: Cooperative binding of transcription factors is known to be important in the regulation of gene expression programs conferring cellular identities. However, current methods to measure cooperativity parameters have been laborious and therefore limited to studying only a few sequence variants at a time. We developed Coop-seq (cooperativity by sequencing) that is capable of efficiently and accurately determining the cooperativity parameters for hundreds of different DNA sequences in a single experiment. We apply Coop-seq to 12 dimer pairs from the Sox and POU families of transcription factors using 324 unique sequences with changed half-site orientation, altered spacing and discrete randomization within the binding elements. The study reveals specific dimerization profiles of different Sox fa

SUBMITTER: Chang YK 

PROVIDER: S-EPMC5314778 | biostudies-literature | 2017 Jan

REPOSITORIES: biostudies-literature