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DNase-capture reveals differential transcription factor binding modalities

Author(s)
Sherwood, Richard; Barkal, Amira; Kang, Daniel D; Hashimoto, Tatsunori Benjamin; Engstrom, Logan G.; Gifford, David K; ... Show more Show less
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Creative Commons Attribution 4.0 International License http://creativecommons.org/licenses/by/4.0
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Abstract
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. We describe DNase-capture, an assay that increases the analytical resolution of DNase-seq by focusing its sequencing phase on selected genomic regions. We introduce a new method to compensate for capture bias called BaseNormal that allows for accurate recovery of transcription factor protection profiles from DNase-capture data. We show that these normalized data allow for nuanced detection of transcription factor binding heterogeneity with as few as dozens of sites.
Date issued
2017-12
URI
http://hdl.handle.net/1721.1/113253
Department
Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory; Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
Journal
PLOS ONE
Publisher
Public Library of Science
Citation
Kang, Daniel et al. “DNase-Capture Reveals Differential Transcription Factor Binding Modalities.” Edited by Deyou Zheng. PLOS ONE 12, 12 (December 2017): e0187046 © 2017 Kang et al
Version: Final published version
ISSN
1932-6203

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