Functional footprinting of regulatory DNA
J Vierstra, A Reik, KH Chang, S Stehling-Sun, Y Zhou… - Nature …, 2015 - nature.com
J Vierstra, A Reik, KH Chang, S Stehling-Sun, Y Zhou, SJ Hinkley, DE Paschon, L Zhang…
Nature methods, 2015•nature.comRegulatory regions harbor multiple transcription factor (TF) recognition sites; however, the
contribution of individual sites to regulatory function remains challenging to define. We
describe an approach that exploits the error-prone nature of genome editing–induced
double-strand break repair to map functional elements within regulatory DNA at nucleotide
resolution. We demonstrate the approach on a human erythroid enhancer, revealing single
TF recognition sites that gate the majority of downstream regulatory function.
contribution of individual sites to regulatory function remains challenging to define. We
describe an approach that exploits the error-prone nature of genome editing–induced
double-strand break repair to map functional elements within regulatory DNA at nucleotide
resolution. We demonstrate the approach on a human erythroid enhancer, revealing single
TF recognition sites that gate the majority of downstream regulatory function.
Abstract
Regulatory regions harbor multiple transcription factor (TF) recognition sites; however, the contribution of individual sites to regulatory function remains challenging to define. We describe an approach that exploits the error-prone nature of genome editing–induced double-strand break repair to map functional elements within regulatory DNA at nucleotide resolution. We demonstrate the approach on a human erythroid enhancer, revealing single TF recognition sites that gate the majority of downstream regulatory function.
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