Abstract
Bisulfite sequencing (BS-seq) technology measures DNA methylation at single nucleotide resolution. A key task in BS-seq data analysis is to identify differentially methylation (DM) under different conditions. Here we provide a tutorial for BS-seq DM analysis using Bioconductor package DSS. DSS uses a beta-binomial model to characterize the sequence counts from BS-seq, and implements rigorous statistical method for hypothesis testing. It provides flexible functionalities for a variety of DM analyses.
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Acknowledgements
We thank all co-authors for the three DSS papers, in particular Karen Conneely and Yongseok Park. They made important contribution for the statistical method development in DSS.
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The authors Hao Feng and Hao Wu declare that they have no conflict of interests.
This article does not contain any studies with human or animal subjects performed by any of authors.
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Feng, H., Wu, H. Differential methylation analysis for bisulfite sequencing using DSS. Quant Biol 7, 327–334 (2019). https://doi.org/10.1007/s40484-019-0183-8
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DOI: https://doi.org/10.1007/s40484-019-0183-8