MIRA-seq for DNA methylation analysis of CpG islands #MMPMID25881900
Jung M; Kadam S; Xiong W; Rauch TA; Jin SG; Pfeifer GP
Epigenomics 2015[Aug]; 7 (5): 695-706 PMID25881900show ga
Aim:: To develop a reliable method for whole genome analysis of DNA methylation. Materials & methods:: Genome-scale analysis of DNA methylation includes affinity-based approaches such as enrichment using methyl-CpG-binding proteins. One of these methods, the methylated-CpG island recovery assay (MIRA), is based on the high affinity of the MBD2b-MBD3L1 complex for CpG-methylated DNA. Here we provide a detailed description of MIRA and combine it with next generation sequencing platforms (MIRA-seq). Results:: We assessed the performance of MIRA-seq and compared the data with whole genome bisulfite sequencing. Conclusion:: MIRA-seq is a reliable, genome-scale DNA methylation analysis platform for scoring DNA methylation differences at CpG-rich genomic regions. The method is not limited by primer or probe design and is cost effective.