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Methyl-CpG-Binding Domain Sequencing: MBD-seq

  • Karolina A. Aberg
  • Robin F. Chan
  • Linying Xie
  • Andrey A. Shabalin
  • Edwin J. C. G. van den OordEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1708)

Abstract

Detailed biological knowledge about the potential importance of the methylome is typically lacking for common diseases. Therefore, methylome-wide association studies (MWAS) are critical to detect disease relevant methylation sites. Methyl-CpG-binding domain sequencing (MBD-seq) offers potential advantages compared to antibody-based enrichment, but performance depends critically on using an optimal protocol. Using an optimized protocol, MBD-seq can approximate the sensitivity/specificity obtained with whole-genome bisulfite sequencing, but at a fraction of the costs and time to complete the project. Thus, MBD-seq offers a comprehensive first pass at the CpG methylome and is economically feasible with the samples sizes required for MWAS.

Key words

Methyl-CpG-binding domain Sequencing Affinity-based capture MBD-seq Methylome-wide association studies MWAS CpG MethylMiner Blood spots Differentially methylated regions High-dimensional data analysis RaMWAS 

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Copyright information

© Springer Science+Business Media, LLC 2018

Authors and Affiliations

  • Karolina A. Aberg
    • 1
  • Robin F. Chan
    • 1
  • Linying Xie
    • 1
  • Andrey A. Shabalin
    • 1
  • Edwin J. C. G. van den Oord
    • 1
    Email author
  1. 1.Center for Biomarker Research and Precision MedicineVirginia Commonwealth UniversityRichmondUSA

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