Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates
DNA methylation is an important epigenetic modification involved in many biological
processes and diseases. Recent developments in whole genome bisulfite sequencing …
processes and diseases. Recent developments in whole genome bisulfite sequencing …
'Leveling'the playing field for analyses of single-base resolution DNA methylomes
Over the past few years the cost of DNA sequencing has plummeted while the numbers and
lengths of sequencing reads have increased. This sequencing revolution has led to …
lengths of sequencing reads have increased. This sequencing revolution has led to …
Detection of significantly differentially methylated regions in targeted bisulfite sequencing data
Motivation: Bisulfite sequencing is currently the gold standard to obtain genome-wide DNA
methylation profiles in eukaryotes. In contrast to the rapid development of appropriate pre …
methylation profiles in eukaryotes. In contrast to the rapid development of appropriate pre …
Detection and accurate false discovery rate control of differentially methylated regions from whole genome bisulfite sequencing
With recent advances in sequencing technology, it is now feasible to measure DNA
methylation at tens of millions of sites across the entire genome. In most applications …
methylation at tens of millions of sites across the entire genome. In most applications …
[HTML][HTML] Methylated DNA is over-represented in whole-genome bisulfite sequencing data
The development of whole-genome bisulfite sequencing (WGBS) has resulted in a number
of exciting discoveries about the role of DNA methylation leading to a plethora of novel …
of exciting discoveries about the role of DNA methylation leading to a plethora of novel …
Whole-genome bisulfite sequencing with improved accuracy and cost
M Suzuki, W Liao, F Wos, AD Johnston… - Genome …, 2018 - genome.cshlp.org
DNA methylation patterns in the genome both reflect and help to mediate transcriptional
regulatory processes. The digital nature of DNA methylation, present or absent on each …
regulatory processes. The digital nature of DNA methylation, present or absent on each …
[HTML][HTML] Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling
Sequencing-based approaches have led to new insights about DNA methylation. While
many different techniques for genome-scale mapping of DNA methylation have been …
many different techniques for genome-scale mapping of DNA methylation have been …
DMAP: differential methylation analysis package for RRBS and WGBS data
PA Stockwell, A Chatterjee, EJ Rodger… - …, 2014 - academic.oup.com
Motivation: The rapid development of high-throughput sequencing technologies has
enabled epigeneticists to quantify DNA methylation on a massive scale. Progressive …
enabled epigeneticists to quantify DNA methylation on a massive scale. Progressive …
[HTML][HTML] BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions
DNA methylation is an important epigenetic modification involved in gene regulation, which
can now be measured using whole-genome bisulfite sequencing. However, cost, complexity …
can now be measured using whole-genome bisulfite sequencing. However, cost, complexity …
Metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data
The detection of differentially methylated regions (DMRs) is a necessary prerequisite for
characterizing different epigenetic states. We present a novel program, metilene, to identify …
characterizing different epigenetic states. We present a novel program, metilene, to identify …