Methyl-Seq/MRE-Seq

Methyl-Seq/MRE-Seq

Methylation sensitive restriction enzyme sequencing MSRE/MRE-Seq or Methyl-Seq are protocols that use methylation sensitive restriction enzymes on genomic DNA to study DNA methylation. In this method, genomic DNA is first separately digested with different methylation sensitive restriction enzymes and then library prepped and sequenced. Deep sequencing allows for accurate detection of methylation sites in the genome.

• MRE-Seq: Maunakea A. K., Nagarajan R. P., Bilenky M., Ballinger T. J., D'Souza C., et al. (2010) Conserved role of intragenic DNA methylation in regulating alternative promoters. Nature 466: 253-257
• Methyl-Seq: Brunner A. L., Johnson D. S., Kim S. W., Valouev A., Reddy T. E., et al. (2009) Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res 19: 1044-1056

1. Chen K., Chen Z., Wu D., Zhang L., Lin X., et al. (2015) Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes. Nat Genet
2. Elliott G., Hong C., Xing X., Zhou X., Li D., et al. (2015) Intermediate DNA methylation is a conserved signature of genome regulation. Nat Commun 6: 6363
3. Gascard P., Bilenky M., Sigaroudinia M., Zhao J., Li L., et al. (2015) Epigenetic and transcriptional determinants of the human breast. Nat Commun 6: 6351
4. Lee H. J., Lowdon R. F., Maricque B., Zhang B., Stevens M., et al. (2015) Developmental enhancers revealed by extensive DNA methylome maps of zebrafish early embryos. Nat Commun 6: 6315