MIT Libraries logoDSpace@MIT

MIT
View Item 
  • DSpace@MIT Home
  • MIT Open Access Articles
  • MIT Open Access Articles
  • View Item
  • DSpace@MIT Home
  • MIT Open Access Articles
  • MIT Open Access Articles
  • View Item
JavaScript is disabled for your browser. Some features of this site may not work without it.

OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries

Author(s)
An, Lin; Yang, Tao; Yang, Jiahao; Nubler, Johannes; Xiang, Guanjue; Hardison, Ross C; Li, Qunhua; Zhang, Yu; ... Show more Show less
Thumbnail
Download13059_2019_Article_1893.pdf (2.167Mb)
Publisher with Creative Commons License

Publisher with Creative Commons License

Creative Commons Attribution

Terms of use
Creative Commons Attribution https://creativecommons.org/licenses/by/4.0/
Metadata
Show full item record
Abstract
The spatial organization of chromatin in the nucleus has been implicated in regulating gene expression. Maps of high-frequency interactions between different segments of chromatin have revealed topologically associating domains (TADs), within which most of the regulatory interactions are thought to occur. TADs are not homogeneous structural units but appear to be organized into a hierarchy. We present OnTAD, an optimized nested TAD caller from Hi-C data, to identify hierarchical TADs. OnTAD reveals new biological insights into the role of different TAD levels, boundary usage in gene regulation, the loop extrusion model, and compartmental domains. OnTAD is available at https://github.com/anlin00007/OnTAD.
Date issued
2019-12-18
URI
https://hdl.handle.net/1721.1/126320
Department
Massachusetts Institute of Technology. Institute for Medical Engineering & Science
Journal
Genome Biology
Publisher
BioMed Central
Citation
An, Lin et al. "OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries." Genome Biology 20 (Dec. 2019): no. 282 doi 10.1186/s13059-019-1893-y ©2019 Author(s)
Version: Final published version
ISSN
1474-760X

Collections
  • MIT Open Access Articles

Browse

All of DSpaceCommunities & CollectionsBy Issue DateAuthorsTitlesSubjectsThis CollectionBy Issue DateAuthorsTitlesSubjects

My Account

Login

Statistics

OA StatisticsStatistics by CountryStatistics by Department
MIT Libraries
PrivacyPermissionsAccessibilityContact us
MIT
Content created by the MIT Libraries, CC BY-NC unless otherwise noted. Notify us about copyright concerns.