Synthetic STARR-seq reveals how DNA shape and sequence modulate transcriptional output and noise.

ABSTRACT: The binding of transcription factors to short recognition sequences plays a pivotal role in controlling the expression of genes. The sequence and shape characteristics of binding sites influence DNA binding specificity and have also been implicated in modulating the activity of transcription factors downstream of binding. To quantitatively assess the transcriptional activity of tens of thousands of designed synthetic sites in parallel, we developed a synthetic version of STARR-seq (synSTARR-seq). We used the approach to systematically analyze how variations in the recognition sequence of the glucocorticoid receptor (GR) affect transcriptional regulation. Our approach resulted in the identification of a novel highly active functional GR binding sequence and revealed that sequence variation

SUBMITTER: Schone S 

PROVIDER: S-EPMC6261644 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature