May 6, 2015

Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data

BioRxiv : the Preprint Server for Biology
Jean-Philippe Fortin, Kasper D. Hansen

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 be reliably estimated using epigenetic data from two different platforms, the Illumina 450k DNA methylation microarray and DNase hypersensitivity sequencing. We do this by exploiting the fact that the structure of long range correlations differs between open and closed compartments. This work makes A/B compartments readily available in a wide variety of cell types, including many human cancers.

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Mentioned in this Paper

Hydrogen sulfite
DNA Methylation [PE]
Deoxyribonuclease I
Body Fluid Compartments
Genome
DNA Methylation
Nucleic Acid Sequencing
Study of Epigenetics
Sequencing
Deoxyribonuclease I Activity

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