Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data.
Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data.
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DOI：
10.1186/s13059-015-0741-y
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发表时间：
2015-08-28
期刊：
影响因子：
12.3
通讯作者：
Hansen KD
中科院分区：
文献类型：
--
作者：
Fortin JP;Hansen KD
对Hi-C数据的分析表明，基因组可以分为两个区室，称为A/B区室。这些区室是细胞类型特异性的，与开放和封闭的染色质有关。我们表明，A/B区室可以可靠地估计使用来自几个不同平台的表观遗传数据：Illumina 450k DNA甲基化微阵列，DNA酶超敏测序，单细胞ATAC测序和单细胞全基因组亚硫酸氢盐测序。我们通过利用开放和封闭隔间之间的远程相关性结构的不同来做到这一点。这项工作使得A/B区室分配很容易在各种细胞类型中使用，包括许多人类癌症。本文的在线版本（doi:10.1186/s13059-015-0741-y）包含补充材料，仅供授权用户使用。
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. The online version of this article (doi:10.1186/s13059-015-0741-y) contains supplementary material, which is available to authorized users.