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MOABS: model based analysis of bisulfite sequencing data.

ABSTRACT: Bisulfite sequencing (BS-seq) is the gold standard for studying genome-wide DNA methylation. We developed MOABS to increase the speed, accuracy, statistical power and biological relevance of BS-seq data analysis. MOABS detects differential methylation with 10-fold coverage at single-CpG resolution based on a Beta-Binomial hierarchical model and is capable of processing two billion reads in 24 CPU hours. Here, using simulated and real BS-seq data, we demonstrate that MOABS outperforms other leading algorithms, such as Fisher's exact test and BSmooth. Furthermore, MOABS analysis can be easily extended to differential 5hmC analysis using RRBS and oxBS-seq. MOABS is available at http://code.google.com/p/moabs/.

SUBMITTER: Sun D

PROVIDER: S-EPMC4054608 | biostudies-literature | 2014 Feb

REPOSITORIES: biostudies-literature

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MOABS: model based analysis of bisulfite sequencing data.

Sun Deqiang D Xi Yuanxin Y Rodriguez Benjamin B Park Hyun Jung HJ Tong Pan P Meong Mira M Goodell Margaret A MA Li Wei W

Genome biology 20140224 2

Bisulfite sequencing (BS-seq) is the gold standard for studying genome-wide DNA methylation. We developed MOABS to increase the speed, accuracy, statistical power and biological relevance of BS-seq data analysis. MOABS detects differential methylation with 10-fold coverage at single-CpG resolution based on a Beta-Binomial hierarchical model and is capable of processing two billion reads in 24 CPU hours. Here, using simulated and real BS-seq data, we demonstrate that MOABS outperforms other leadi ...[more]

PMID: 24565500

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