Journal
EPIGENOMICS
Volume 7, Issue 5, Pages 695-706Publisher
FUTURE MEDICINE LTD
DOI: 10.2217/epi.15.33
Keywords
CpG islands; DNA methylation; high-throughput sequencing; methyl-CpG-binding protein; methylated-CpG island recovery assay
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Funding
- NIH [AG036041, CA160965, CA084469]
- NATIONAL CANCER INSTITUTE [R01CA084469, R01CA160965] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE ON AGING [R01AG036041] Funding Source: NIH RePORTER
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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.
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