DNase-capture reveals differential transcription factor binding modalities
Name
journal.pone.0187046.pdf
Size
7.32 MB
Format
Adobe PDF
Checksum (MD5)
f4419734203f5ce85992a5b6b09471f3
Author(s)
Sherwood, Richard
Barkal, Amira
Kang, Daniel D
Hashimoto, Tatsunori Benjamin
Engstrom, Logan G.
Gifford, David K
Date Issued
December 2017
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
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.
MIT Department
Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
Terms of Use
Creative Commons Attribution 4.0 International License
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1371/journal.pone.0187046
