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

Rohde, C., Zhang, Y., Reinhardt, R., & Jeltsch, A. (2010). BISMA--fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences. BMC Bioinformatics, 11, 11:230-11:230. doi:10.1186/1471-2105-11-230.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-7B2A-B Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-7B2B-9
Genre: Journal Article

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 Creators:
Rohde, Christian, Author
Zhang, Yingying, Author
Reinhardt, Richard1, Author              
Jeltsch, Albert, Author
Affiliations:
1High Throughput Technologies, Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433552              

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 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/ webcite.

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Language(s): eng - English
 Dates: 2010-05-06
 Publication Status: Published in print
 Pages: -
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 Table of Contents: -
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Title: BMC Bioinformatics
Source Genre: Journal
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Publ. Info: -
Pages: - Volume / Issue: 11 Sequence Number: - Start / End Page: 11:230 - 11:230 Identifier: ISSN: 1471-2105