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dc.contributor.authorAn, Lin
dc.contributor.authorYang, Tao
dc.contributor.authorYang, Jiahao
dc.contributor.authorNubler, Johannes
dc.contributor.authorXiang, Guanjue
dc.contributor.authorHardison, Ross C
dc.contributor.authorLi, Qunhua
dc.contributor.authorZhang, Yu
dc.date.accessioned2020-07-22T18:53:36Z
dc.date.available2020-07-22T18:53:36Z
dc.date.issued2019-12-18
dc.date.submitted2019-04
dc.identifier.issn1474-760X
dc.identifier.urihttps://hdl.handle.net/1721.1/126320
dc.description.abstractThe 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.en_US
dc.description.sponsorshipNIH (Grant R01 GM121613, R01 GM109453, R24 DK106766)en_US
dc.description.sponsorshipNIH (Training Grant T32 GM102057)en_US
dc.publisherBioMed Centralen_US
dc.relation.isversionof10.1186/s13059-019-1893-yen_US
dc.rightsCreative Commons Attributionen_US
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en_US
dc.sourceBioMed Centralen_US
dc.titleOnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundariesen_US
dc.typeArticleen_US
dc.identifier.citationAn, 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)en_US
dc.contributor.departmentMassachusetts Institute of Technology. Institute for Medical Engineering & Scienceen_US
dc.relation.journalGenome Biologyen_US
dc.eprint.versionFinal published versionen_US
dc.type.urihttp://purl.org/eprint/type/JournalArticleen_US
eprint.statushttp://purl.org/eprint/status/PeerRevieweden_US
dc.date.updated2020-06-26T11:08:27Z
dc.language.rfc3066en
dc.rights.holderThe Author(s).
dspace.date.submission2020-06-26T11:08:27Z
mit.journal.volume20en_US
mit.licensePUBLISHER_CC


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