Identification of active regulatory regions from DNA methylation data

被引：158

作者：

Burger, Lukas ^{[1
,2
]}

Gaidatzis, Dimos ^{[1
,2
]}

Schuebeler, Dirk ^{[1
,3
]}

Stadler, Michael B. ^{[1
,2
]}

机构：

[1] Friedrich Miescher Inst Biomed Res, CH-4058 Basel, Switzerland

[2] Swiss Inst Bioinformat, CH-4058 Basel, Switzerland

[3] Univ Basel, CH-4003 Basel, Switzerland

来源：

NUCLEIC ACIDS RESEARCH | 2013年 / 41卷 / 16期

关键词：

GENOME; METHYLOME; ELEMENTS; BINDING; SEQUENCES; PROFILES; PACKAGE; STATES;

D O I：

10.1093/nar/gkt599

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We have recently shown that transcription factor binding leads to defined reduction in DNA methylation, allowing for the identification of active regulatory regions from high-resolution methylomes. Here, we present MethylSeekR, a computational tool to accurately identify such footprints from bisulfite-sequencing data. Applying our method to a large number of published human methylomes, we demonstrate its broad applicability and generalize our previous findings from a neuronal differentiation system to many cell types and tissues. MethylSeekR is available as an R package at www.bioconductor.org.

引用

页数：7

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