期刊
NATURE METHODS
卷 15, 期 2, 页码 119-+出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/nmeth.4560
关键词
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资金
- New York Stem Cell Foundation
- Alfred P. Sloan Foundation
- NIH Director's New Innovator Award [1DP2MH11024701]
- 4D Nucleome Common Fund [1U01HL12999801]
- NSF-NIGMS grant [1562665]
- National Science Foundation Graduate Research Fellowship [DGE-1321851]
- John D. and Catherine T. MacArthur Foundation
- Division Of Mathematical Sciences
- Direct For Mathematical & Physical Scien [1562665] Funding Source: National Science Foundation
Mammalian genomes are folded in a hierarchy of compartments, topologically associating domains (TADs), subTADs and looping interactions. Here, we describe 3DNetMod, a graph theory-based method for sensitive and accurate detection of chromatin domains across length scales in Hi-C data. We identify nested, partially overlapping TADs and subTADs genome wide by optimizing network modularity and varying a single resolution parameter. 3DNetMod can be applied broadly to understand genome reconfiguration in development and disease.
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