Genomics

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MethylSig: a whole genome DNA methylation analysis pipeline


ABSTRACT: DNA methylation plays critical roles in gene regulation and cellular specification without altering DNA sequences. The wide application of reduced representation bisulfite sequencing (RRBS) and whole genome bisulfite sequencing (bis-seq) opens the door to study DNA methylation at single CpG site resolution. One challenging question is how best to test for significant methylation differences between groups of biological samples in order to minimize false positive findings. Current methods to analyze genome-wide bisulfite sequencing data use a smoothing approach or a simple statistical test based on the binomial distribution. Comparative DNA methylation profiling in AML blasts and normal CD34(+) control cells

ORGANISM(S): Homo sapiens  

SUBMITTER: Maria Eugenia Figueroa  Yongseok Park   Maureen Sartor   Maria E Figueroa    

PROVIDER: E-GEOD-55569 | ArrayExpress | 2014-08-22

SECONDARY ACCESSION(S): GSE55569SRP039394PRJNA240058

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

MethylSig: a whole genome DNA methylation analysis pipeline.

Park Yongseok Y   Figueroa Maria E ME   Rozek Laura S LS   Sartor Maureen A MA  

Bioinformatics (Oxford, England) 20140516 17


DNA methylation plays critical roles in gene regulation and cellular specification without altering DNA sequences. The wide application of reduced representation bisulfite sequencing (RRBS) and whole genome bisulfite sequencing (bis-seq) opens the door to study DNA methylation at single CpG site resolution. One challenging question is how best to test for significant methylation differences between groups of biological samples in order to minimize false positive findings.We present a statistical  ...[more]

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