SuperTAD : robust detection of hierarchical topologically associated domains with optimized structural information
Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
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Detail(s)
| Original language | English |
|---|---|
| Article number | 45 |
| Journal / Publication | Genome Biology |
| Volume | 22 |
| Online published | 25 Jan 2021 |
| Publication status | Published - 2021 |
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| DOI | DOI |
|---|---|
| Attachment(s) | Documents
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| Link to Scopus | https://www.scopus.com/record/display.uri?eid=2-s2.0-85099757451&origin=recordpage |
| Permanent Link | https://scholars.cityu.edu.hk/en/publications/publication(dd57627a-31e7-407c-94ba-05c6c036eb3a).html |
Abstract
Topologically associating domains (TADs) are the organizational units of chromosome structures. TADs can contain TADs, thus forming a hierarchy. TAD hierarchies can be inferred from Hi-C data through coding trees. However, the current method for computing coding trees is not optimal. In this paper, we propose optimal algorithms for this computation. In comparison with seven state-of-art methods using two public datasets, from GM12878 and IMR90 cells, SuperTAD shows a significant enrichment of structural proteins around detected boundaries and histone modifications within TADs and displays a high consistency between various resolutions of identical Hi-C matrices.
Research Area(s)
- Dynamic programming, Hi-C, Structure information theory, Topologically associating domain
Citation Format(s)
SuperTAD: robust detection of hierarchical topologically associated domains with optimized structural information. / Zhang, Yu Wei; Wang, Meng Bo; Li, Shuai Cheng.
In: Genome Biology, Vol. 22, 45, 2021.
In: Genome Biology, Vol. 22, 45, 2021.
Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
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