MRE-Seq and Methyl-Seq

Methylation-Sensitive Restriction Enzyme Sequencing

MSRE/MRE-seq and Methyl-seq are protocols that use methylation-sensitive restriction enzymes (MSREs) on genomic DNA to study DNA methylation (Maunakea et al., 2010) (Brunner et al., 2009). MRE-seq enriches unmethylated DNA and can cover 1.7 million CpG sites across the human genome (Shull et al., 2015). In this method, gDNA is first separately digested with different MSREs. The library is prepared from size-selected restriction fragments and sequenced. Deep sequencing allows for accurate detection of methylation sites in the genome.

Advantages:

• Allows the estimation of relative DNA methylation levels

Disadvantages:

• Relatively low coverage of the genome, because CpG-containing recognition sites are limited

Reagents:

Illumina Library prep and Array Kit Selector



Reviews:

Shull A. Y., Noonepalle S. K., Lee E. J., Choi J. H. and Shi H. Sequencing the cancer methylome. Methods Mol Biol. 2015;1238:627-651



References:

Lee H. J., Lowdon R. F., Maricque B., et al. Developmental enhancers revealed by extensive DNA methylome maps of zebrafish early embryos. Nat Commun. 2015;6:6315

Chen K., Chen Z., Wu D., et al. Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes. Nat Genet. 2015;

Elliott G., Hong C., Xing X., et al. Intermediate DNA methylation is a conserved signature of genome regulation. Nat Commun. 2015;6:6363

Gascard P., Bilenky M., Sigaroudinia M., et al. Epigenetic and transcriptional determinants of the human breast. Nat Commun. 2015;6:6351

Lee H. J., Lowdon R. F., Maricque B., Zhang B., Stevens M., et al. Developmental enhancers revealed by extensive DNA methylome maps of zebrafish early embryos. Nat Commun. 2015;6:6315

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History: MRE-Seq and Methyl-Seq

Revision by sbrumpton on 2017-06-21 07:50:20 - Show/Hide