epiGBSBS: reference-free reduced representation bisulfite sequencing

T. van Gurp, C.A.M. Wagemaker, B. Wouters, P. Vergeer, N.J. Ouborg, Koen J.F. Verhoeven

Research output: Contribution to journalArticleAcademicpeer-review

33 Citations (Scopus)

Abstract

We describe epiGBSBS, a reduced representation bisulfite sequencing method for cost-effective exploration and comparative analysis of DNADNADNA methylation and genetic variation in hundreds of samples de novo. This method uses genotyping by sequencing of bisulfite-converted DNADNADNA followed by reliable de novo reference construction, mapping, variant calling, and distinction of single-nucleotide polymorphisms (SNSNPs) versus methylation variation (software is available at https://github.com/thomasvangurp/epiGBS). The output can be loaded directly into a genome browser for visualization and into RnBeads for analysis of differential methylation.
Original languageEnglish
Pages (from-to)322-324
JournalNature Methods : techniques for life scientists and chemists
Volume13
DOIs
Publication statusPublished - 2016

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