Estimating Global Methylation and Erasure Using Low-Coverage Whole-Genome Bisulfite Sequencing (WGBS ).
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DOI: 10.1007/978-1-0716-1294-1_3
Abstract: Whole-genome bisulfite sequencing (WGBS) is a popular method for characterizing cytosine methylation because it is fully quantitative and has base-pair resolution. While WGBS is prohibitively expensive for experiments involving many samples, low-coverage WGBS can accurately… read more here.
Keywords: genome bisulfite; low coverage; methylation; wgbs ... See more keywords
Low-Input Whole-Genome Bisulfite Sequencing.
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DOI: 10.1007/978-1-0716-1597-3_20
Abstract: DNA methylation can regulate gene expression by modulating chromatin accessibility and transcription factor binding on promoter and enhancer regions. Whole-genome bisulfite sequencing (WGBS) represents the most informative and comprehensive analysis to profile the DNA methylation… read more here.
Keywords: genome bisulfite; whole genome; dna; bisulfite sequencing ... See more keywords
Whole-Genome Bisulfite Sequencing Using the Ovation® Ultralow Methyl-Seq Protocol.
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DOI: 10.1007/978-1-4939-7481-8_5
Abstract: The analysis of genome-wide epigenomic alterations including DNA methylation has become a subject of intensive research for many complex diseases. Whole-genome bisulfite sequencing (WGBS) using next-generation sequencing technologies can be considered the gold standard for… read more here.
Keywords: genome bisulfite; bisulfite; whole genome; bisulfite sequencing ... See more keywords
Approaches for the Analysis and Interpretation of Whole Genome Bisulfite Sequencing Data.
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DOI: 10.1007/978-1-4939-7774-1_17
Abstract: DNA methylation is a covalent modification of DNA that plays important roles in processes such as the regulation of gene expression, transcription factor binding, and suppression of transposable elements. The use of whole genome bisulfite… read more here.
Keywords: genome bisulfite; whole genome; dna; analysis ... See more keywords
Whole-Genome Bisulfite Sequencing and Epigenetic Variation in Cereal Methylomes.
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DOI: 10.1007/978-1-4939-9865-4_10
Abstract: Whole-genome bisulfite sequencing (WGBS) is a technique used for the analysis of genome-wide DNA methylation patterns (DNA methylomes) at a single-base resolution. Here, I describe a simple DNA extraction method from rice endosperm and the… read more here.
Keywords: genome bisulfite; bisulfite; whole genome; bisulfite sequencing ... See more keywords
Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis
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DOI: 10.1093/bib/bbab021
Abstract: Abstract Whole genome bisulfite sequencing is currently at the forefront of epigenetic analysis, facilitating the nucleotide-level resolution of 5-methylcytosine (5mC) on a genome-wide scale. Specialized software have been developed to accommodate the unique difficulties in… read more here.
Keywords: genome bisulfite; methylation; whole genome; analysis ... See more keywords
Whole-genome bisulfite sequencing with improved accuracy and cost.
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DOI: 10.1101/gr.232587.117
Abstract: 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 allele, makes this assay capable of quantifying events in… read more here.
Keywords: genome bisulfite; whole genome; bisulfite sequencing; genome ... See more keywords
Whole genome bisulfite sequencing of human spermatozoa reveals differentially methylated patterns from type 2 diabetic patients
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DOI: 10.1111/jdi.13201
Abstract: The incidence of type 2 diabetes mellitus is increasing worldwide, and it might partly cause metabolic disorder and type 2 diabetes mellitus susceptibility in patients’ offspring through epigenetic modification. However, the underlying mechanisms remain largely… read more here.
Keywords: genome bisulfite; whole genome; bisulfite sequencing; type diabetes ... See more keywords
wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data
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DOI: 10.1186/s12859-020-3470-5
Abstract: Background Analysing whole genome bisulfite sequencing datasets is a data-intensive task that requires comprehensive and reproducible workflows to generate valid results. While many algorithms have been developed for tasks such as alignment, comprehensive end-to-end pipelines… read more here.
Keywords: genome bisulfite; whole genome; end; analysis ... See more keywords
Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data
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DOI: 10.1186/s13059-018-1408-2
Abstract: BackgroundWhole-genome bisulfite sequencing (WGBS) is becoming an increasingly accessible technique, used widely for both fundamental and disease-oriented research. Library preparation methods benefit from a variety of available kits, polymerases and bisulfite conversion protocols. Although some… read more here.
Keywords: genome bisulfite; methylation; library preparation; bisulfite sequencing ... See more keywords
Performance of Mapping Approaches for Whole-Genome Bisulfite Sequencing Data in Crop Plants
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DOI: 10.3389/fpls.2020.00176
Abstract: DNA methylation is involved in many different biological processes in the development and well-being of crop plants such as transposon activation, heterosis, environment-dependent transcriptome plasticity, aging, and many diseases. Whole-genome bisulfite sequencing is an excellent… read more here.
Keywords: genome bisulfite; whole genome; bisulfite sequencing; read mappers ... See more keywords