Work

BISMA - Fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences

Year: 2010

Type: article

Abstract: BACKGROUND: Bisulfite sequencing is a popular method to analyze DNA methylation patterns at high resolution. A region of interest is targeted by PCR and about 20-50 subcloned DNA molecules are usually analyzed, to determine the methylation status at single CpG sites and molecule resolution. RESULTS: The BISMA (Bisulfite Sequencing DNA Methylation Analysis) software for analysis of primary bisulfite sequencing data implements sequencing data extraction and enhanced data processing, quality controls, analysis and presentation of the methylation state. It uses an improved strategy for detection of clonal molecules and accurate CpG site detection and it supports for the first time analysis of repetitive sequences. CONCLUSIONS: BISMA works highly automated but still provides the user full control over all steps of the analysis. The BISMA software is freely available as an online tool for academic purposes for the analysis of bisulfite sequencing data from both unique and repetitive sequences http://biochem.jacobs-university.de/BDPC/BISMA/.

Source: BMC Bioinformatics

DOI: 10.1186/1471-2105-11-230

Authors: Christian Rohde, Yingying Zhang, Richard Reinhardt, Albert Jeltsch

Institutions: Constructor University, Max Planck Institute for Molecular Genetics

Language: English

Topic: Epigenetics and DNA Methylation

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $2,990

Funders: Bundesministerium für Bildung und Forschung, Jacobs University