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Comparison of alignment software for genome-wide bisulphite sequence data.

Nucleic acids research (2012-02-22)
Aniruddha Chatterjee, Peter A Stockwell, Euan J Rodger, Ian M Morison
RESUMO

Recent advances in next generation sequencing (NGS) technology now provide the opportunity to rapidly interrogate the methylation status of the genome. However, there are challenges in handling and interpretation of the methylation sequence data because of its large volume and the consequences of bisulphite modification. We sequenced reduced representation human genomes on the Illumina platform and efficiently mapped and visualized the data with different pipelines and software packages. We examined three pipelines for aligning bisulphite converted sequencing reads and compared their performance. We also comment on pre-processing and quality control of Illumina data. This comparison highlights differences in methods for NGS data processing and provides guidance to advance sequence-based methylation data analysis for molecular biologists.

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Sigma-Aldrich
Bissulfito de sódio, ACS reagent
Sigma-Aldrich
Sodium bisulfite solution, purum, ~40%
Sigma-Aldrich
Bissulfito de sódio, anhydrous, free-flowing, Redi-Dri, ACS reagent
Sigma-Aldrich
Bissulfito de sódio, JIS special grade, 64.0-67.4% SO2 basis