Technical Considerations for Reduced Representation Bisulfite Sequencing with Multiplexed Libraries
نویسندگان
چکیده
منابع مشابه
Technical Considerations for Reduced Representation Bisulfite Sequencing with Multiplexed Libraries
Reduced representation bisulfite sequencing (RRBS), which couples bisulfite conversion and next generation sequencing, is an innovative method that specifically enriches genomic regions with a high density of potential methylation sites and enables investigation of DNA methylation at single-nucleotide resolution. Recent advances in the Illumina DNA sample preparation protocol and sequencing tec...
متن کاملMapping the zebrafish brain methylome using reduced representation bisulfite sequencing
Reduced representation bisulfite sequencing (RRBS) has been used to profile DNA methylation patterns in mammalian genomes such as human, mouse and rat. The methylome of the zebrafish, an important animal model, has not yet been characterized at base-pair resolution using RRBS. Therefore, we evaluated the technique of RRBS in this model organism by generating four single-nucleotide resolution DN...
متن کاملA comprehensive evaluation of alignment software for reduced representation bisulfite sequencing data.
Motivation The rapid development of next-generation sequencing technology provides an opportunity to study genome-wide DNA methylation at single-base resolution. However, depletion of unmethylated cytosines brings challenges for aligning bisulfite-converted sequencing reads to a large reference. Software tools for aligning methylation reads have not yet been comprehensively evaluated, especiall...
متن کاملRRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing
SUMMARY Reduced representation bisulfite sequencing (RRBS) is a powerful yet cost-efficient method for studying DNA methylation on a genomic scale. RRBS involves restriction-enzyme digestion, bisulfite conversion and size selection, resulting in DNA sequencing data that require special bioinformatic handling. Here, we describe RRBSMAP, a short-read alignment tool that is designed for handling R...
متن کاملHigh concordance between Illumina HiSeq2500 and NextSeq500 for reduced representation bisulfite sequencing (RRBS)
Reduced representation bisulfite sequencing (RRBS) provides an efficient method for measuring DNA methylation at single base resolution in regions of high CpG density. This technique has been extensively tested on the HiSeq2500, which uses a 4-colour detection method, however it is unclear if the method will also work on the NextSeq500 platform, which employs a 2-colour detection system. We cre...
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ژورنال
عنوان ژورنال: Journal of Biomedicine and Biotechnology
سال: 2012
ISSN: 1110-7243,1110-7251
DOI: 10.1155/2012/741542