2016
DOI: 10.1371/journal.pone.0163184
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High-Throughput Analysis of Global DNA Methylation Using Methyl-Sensitive Digestion

Abstract: DNA methylation is a major regulatory process of gene transcription, and aberrant DNA methylation is associated with various diseases including cancer. Many compounds have been reported to modify DNA methylation states. Despite increasing interest in the clinical application of drugs with epigenetic effects, and the use of diagnostic markers for genome-wide hypomethylation in cancer, large-scale screening systems to measure the effects of drugs on DNA methylation are limited. In this study, we improved the pre… Show more

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Cited by 9 publications
(5 citation statements)
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“…Genomic DNA (50 ng/µl) was obtained as described before and quantified using the SYBR Green I protocol (Gragene, DNA Genotek Inc., Canada). For the global methylation analysis (Shiratori et al, 2016)…”
Section: Global Dna Methylation Analysismentioning
confidence: 99%
“…Genomic DNA (50 ng/µl) was obtained as described before and quantified using the SYBR Green I protocol (Gragene, DNA Genotek Inc., Canada). For the global methylation analysis (Shiratori et al, 2016)…”
Section: Global Dna Methylation Analysismentioning
confidence: 99%
“…DNA methylation is a major mechanism of epigenetic modification in eukaryotic organisms. High‐throughput sequencing technologies combined with whole‐genome bisulfite sequencing (WGBS) have allowed the decoding of genome‐wide methylation at the nucleotide level for plants (Hardcastle, 2013; Rusk, 2008; Yong, Hsu, & Chen, 2016), animals and humans (Doherty & Couldrey, 2014; Shiratori et al., 2016). Recently, WGBS has been widely applied to profiling the DNA methylation in many plant species, including Arabidopsis (Cokus et al., 2008), rice (He et al., 2010; Liu et al., 2017) and soybean (Song et al., 2013).…”
Section: Introductionmentioning
confidence: 99%
“…This inconsistency could be related to the use of varying doses over varying periods; however, a critical confounding factor that should be considered is the type of methylation assays that were used and what they actually measure [138]. Some of these assays measure DNA methylation status in repetitive elements such as LINE (Long Interspersed Nucleotide Element 1), SINE (Short interspersed nuclear elements), and Alu ( Arthrobacter luteus restriction endonuclease) repeats and others examine differentially methylated regions via methylation-sensitive restriction enzymes [139]. Furthermore, some of the assays cover the whole genome while others cover only a certain percentage of the genome [138].…”
Section: Micronutrients and Dna Methylation And Their Impact On Camentioning
confidence: 99%