SELMAP - SELEX affinity landscape MAPping of transcription factor binding sites using integrated microfluidics.

ABSTRACT: Transcription factors (TFs) alter gene expression in response to changes in the environment through sequence-specific interactions with the DNA. These interactions are best portrayed as a landscape of TF binding affinities. Current methods to study sequence-specific binding preferences suffer from limited dynamic range, sequence bias, lack of specificity and limited throughput. We have developed a microfluidic-based device for SELEX Affinity Landscape MAPping (SELMAP) of TF binding, which allows high-throughput measurement of 16 proteins in parallel. We used it to measure the relative affinities of Pho4, AtERF2 and Btd full-length proteins to millions of different DNA binding sites, and detected both high and low-affinity interactions in equilibrium conditions, generating a comprehensive l

SUBMITTER: Chen D 

PROVIDER: S-EPMC5024299 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature