IDR2D identifies reproducible genomic interactions
Name
gkaa030.pdf
Description
Published version
Size
1.75 MB
Format
Adobe PDF
Checksum (MD5)
44b090f2f3964f9fbbaa537b9f1f12b3
Author(s)
Krismer, Konstantin
Guo, Yuchun
Gifford, David K
Date Issued
February 2020
Journal
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Citation
Krismer, Konstantin et al. "IDR2D identifies reproducible genomic interactions." Nucleic Acids Research 48, 6 (February 2020): e31. © 2020 The Author(s)
Version
Final published version
Abstract
Chromatin interaction data from protocols such as ChIA-PET, HiChIP and Hi-C provide valuable insights into genome organization and gene regulation, but can include spurious interactions that do not reflect underlying genome biology. We introduce an extension of the Irreproducible Discovery Rate (IDR) method called IDR2D that identifies replicable interactions shared by chromatin interaction experiments. IDR2D provides a principled set of interactions and eliminates artifacts from single experiments. The method is available as a Bioconductor package for the R community, as well as an online service at https://idr2d.mit.edu.
MIT Department
Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory
Massachusetts Institute of Technology. Department of Biological Engineering
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/10.1093/nar/gkaa030
