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.
Description
Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data. - PubMed - NCBI
%0 Journal Article
%1 Fortin:2015:Genome-Biol:26316348
%A Fortin, J P
%A Hansen, K D
%D 2015
%J Genome Biol
%K MUSTREAD epic fulltext illumina methylation microarray minfi quality-control software
%P 180-180
%R 10.1186/s13059-015-0741-y
%T Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data
%U https://www.ncbi.nlm.nih.gov/pubmed/26316348
%V 16
%X 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.
@article{Fortin:2015:Genome-Biol:26316348,
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. },
added-at = {2018-07-22T16:23:06.000+0200},
author = {Fortin, J P and Hansen, K D},
biburl = {https://www.bibsonomy.org/bibtex/2dc4df4fddd2de15ca4229abb0dff9916/marcsaric},
description = {Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data. - PubMed - NCBI},
doi = {10.1186/s13059-015-0741-y},
interhash = {0e8207e201744c1c0cb6c194ef6360bf},
intrahash = {dc4df4fddd2de15ca4229abb0dff9916},
journal = {Genome Biol},
keywords = {MUSTREAD epic fulltext illumina methylation microarray minfi quality-control software},
month = aug,
pages = {180-180},
pmid = {26316348},
timestamp = {2018-07-22T16:23:06.000+0200},
title = {Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data},
url = {https://www.ncbi.nlm.nih.gov/pubmed/26316348},
volume = 16,
year = 2015
}