Detecting hierarchical genome folding with network modularity.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 29334377.
- Also identified by DOI 10.1038/nmeth.4560 and PMC identifier 6029251.
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Abstract
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.
Medical subject headings
- Chromatin
- Computational Biology
- Computer Graphics
- Genome, Human