A Bayesian Assignment Method for Ambiguous Bisulfite Short Reads.

ABSTRACT: DNA methylation is an epigenetic modification critical for normal development and diseases. The determination of genome-wide DNA methylation at single-nucleotide resolution is made possible by sequencing bisulfite treated DNA with next generation high-throughput sequencing. However, aligning bisulfite short reads to a reference genome remains challenging as only a limited proportion of them (around 50-70%) can be aligned uniquely; a significant proportion, known as multireads, are mapped to multiple locations and thus discarded from downstream analyses, causing financial waste and biased methylation inference. To address this issue, we develop a Bayesian model that assigns multireads to their most likely locations based on the posterior probability derived from information hidden in unique

SUBMITTER: Tran H 

PROVIDER: S-EPMC4806927 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature