Bisulfite conversion of genomic DNA combined with next-generation sequencing (BS-seq) is widely used to measure the methylation state of a whole genome, the methylome, at single-base resolution. However, analysis of BS-seq data still poses a considerable challenge. Here we summarize the challenges of BS-seq mapping as they apply to both base and color-space data. We also explore the effect of sequencing errors and contaminants on inferred methylation levels and recommend the most appropriate way to analyze this type of data. © 2012 Nature America, Inc. All rights reserved.
CITATION STYLE
Krueger, F., Kreck, B., Franke, A., & Andrews, S. R. (2012, February). DNA methylome analysis using short bisulfite sequencing data. Nature Methods. https://doi.org/10.1038/nmeth.1828
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