Abstract
Analysis of Hi-C data has shown that the genome can be divided into two compartments called A/B compartments. These compartments are cell-type specific and are associated with open and closed chromatin. We show that A/B compartments can reliably be estimated using epigenetic data from several different platforms: the Illumina 450 k DNA methylation microarray, DNase hypersensitivity sequencing, single-cell ATAC sequencing and single-cell whole-genome bisulfite sequencing. We do this by exploiting that the structure of long-range correlations differs between open and closed compartments. This work makes A/B compartment assignment readily available in a wide variety of cell types, including many human cancers.
Original language | English (US) |
---|---|
Article number | 180 |
Journal | Genome biology |
Volume | 16 |
Issue number | 1 |
DOIs | |
State | Published - Aug 28 2015 |
Keywords
- Chromatin
- Chromosome configuration capture
- DNase sequencing
- Epigenetics
- Hi-C
- Methylation
- Single-cell
ASJC Scopus subject areas
- Ecology, Evolution, Behavior and Systematics
- Genetics
- Cell Biology