Genome-wide quantitative analysis of DNA methylation from bisulfite sequencing data

Kemal Akman, Thomas Haaf, Silvia Gravina, Jan Vijg, Achim Tresch

Research output: Contribution to journalArticlepeer-review

14 Scopus citations

Abstract

Summary: Here we present the open-source R/Bioconductor software package BEAT (BS-Seq Epimutation Analysis Toolkit). It implements all bioinformatics steps required for the quantitative high-resolution analysis of DNA methylation patterns from bisulfite sequencing data, including the detection of regional epimutation events, i.e. loss or gain of DNA methylation at CG positions relative to a reference. Using a binomial mixture model, the BEAT package aggregates methylation counts per genomic position, thereby compensating for low coverage, incomplete conversion and sequencing errors.

Original languageEnglish (US)
Pages (from-to)1933-1934
Number of pages2
JournalBioinformatics
Volume30
Issue number13
DOIs
StatePublished - Jul 1 2014

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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