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          Institute: MPI für molekulare Genetik     Collection: Sequencing Group     Display Documents



  history
ID: 536139.0, MPI für molekulare Genetik / Sequencing Group
BISMA--fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences
Authors:Rohde, Christian; Zhang, Yingying; Reinhardt, Richard; Jeltsch, Albert
Language:English
Date of Publication (YYYY-MM-DD):2010-05-06
Title of Journal:BMC Bioinformatics
Volume:11
Start Page:11:230
End Page:11:230
Copyright:© 2010 Rohde et al; licensee BioMed Central Ltd
Review Status:not specified
Audience:Experts Only
Abstract / Description: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.
Comment of the Author/Creator:This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
External Publication Status:published
Document Type:Article
Communicated by:Richard Reinhardt
Affiliations:MPI für molekulare Genetik
External Affiliations:School of Engineering and Science, Jacobs University Bremen, Campus Ring 1, 28725 Bremen, Germany
Identifiers:DOI:10.1186/1471-2105-11-230
ISSN:1471-2105
URL:http://www.biomedcentral.com/content/pdf/1471-2105...
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