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DNA Methylation Protocols

Overview of attention for book
Cover of 'DNA Methylation Protocols'

Table of Contents

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    Book Overview
  2. Altmetric Badge
    Chapter 1 A Summary of the Biological Processes, Disease-Associated Changes, and Clinical Applications of DNA Methylation
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    Chapter 2 Considerations for Design and Analysis of DNA Methylation Studies
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    Chapter 3 Quantification of Global DNA Methylation Levels by Mass Spectrometry
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    Chapter 4 Antibody-Based Detection of Global Nuclear DNA Methylation in Cells, Tissue Sections, and Mammalian Embryos
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    Chapter 5 Whole-Genome Bisulfite Sequencing Using the Ovation® Ultralow Methyl-Seq Protocol
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    Chapter 6 Tagmentation-Based Library Preparation for Low DNA Input Whole Genome Bisulfite Sequencing
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    Chapter 7 Post-Bisulfite Adaptor Tagging for PCR-Free Whole-Genome Bisulfite Sequencing
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    Chapter 8 Multiplexed Reduced Representation Bisulfite Sequencing with Magnetic Bead Fragment Size Selection
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    Chapter 9 Low Input Whole-Genome Bisulfite Sequencing Using a Post-Bisulfite Adapter Tagging Approach
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    Chapter 10 Methyl-CpG-Binding Domain Sequencing: MBD-seq
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    Chapter 11 The HELP-Based DNA Methylation Assays
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    Chapter 12 Comprehensive Whole DNA Methylome Analysis by Integrating MeDIP-seq and MRE-seq
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    Chapter 13 Digital Restriction Enzyme Analysis of Methylation (DREAM)
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    Chapter 14 Nucleosome Occupancy and Methylome Sequencing (NOMe-seq)
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    Chapter 15 Bisulphite Sequencing of Chromatin Immunoprecipitated DNA (BisChIP-seq)
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    Chapter 16 A Guide to Illumina BeadChip Data Analysis
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    Chapter 17 Microdroplet PCR for Highly Multiplexed Targeted Bisulfite Sequencing
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    Chapter 18 Multiplexed DNA Methylation Analysis of Target Regions Using Microfluidics (Fluidigm)
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    Chapter 19 Large-Scale Targeted DNA Methylation Analysis Using Bisulfite Padlock Probes
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    Chapter 20 Targeted Bisulfite Sequencing Using the SeqCap Epi Enrichment System
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    Chapter 21 Multiplexed and Sensitive DNA Methylation Testing Using Methylation-Sensitive Restriction Enzymes “MSRE-qPCR”
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    Chapter 22 Quantitative DNA Methylation Analysis at Single-Nucleotide Resolution by Pyrosequencing®
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    Chapter 23 Methylation-Specific PCR
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    Chapter 24 Quantitation of DNA Methylation by Quantitative Multiplex Methylation-Specific PCR (QM-MSP) Assay
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    Chapter 25 MethyLight and Digital MethyLight
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    Chapter 26 Quantitative Region-Specific DNA Methylation Analysis by the EpiTYPER™ Technology
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    Chapter 27 Methylation-Specific Multiplex Ligation-Dependent Probe Amplification (MS-MLPA)
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    Chapter 28 Methylation-Sensitive High Resolution Melting (MS-HRM)
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    Chapter 29 Hairpin Bisulfite Sequencing: Synchronous Methylation Analysis on Complementary DNA Strands of Individual Chromosomes
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    Chapter 30 Helper-Dependent Chain Reaction (HDCR) for Selective Amplification of Methylated DNA Sequences
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    Chapter 31 DNA Methylation Analysis from Blood Spots: Increasing Yield and Quality for Genome-Wide and Locus-Specific Methylation Analysis
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    Chapter 32 DNA Methylation Analysis of Free-Circulating DNA in Body Fluids
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    Chapter 33 Tet-Assisted Bisulfite Sequencing (TAB-seq)
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    Chapter 34 Multiplexing for Oxidative Bisulfite Sequencing (oxBS-seq)
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    Chapter 35 Affinity-Based Enrichment Techniques for the Genome-Wide Analysis of 5-Hydroxymethylcytosine
Attention for Chapter 10: Methyl-CpG-Binding Domain Sequencing: MBD-seq
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Chapter title
Methyl-CpG-Binding Domain Sequencing: MBD-seq
Chapter number 10
Book title
DNA Methylation Protocols
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7481-8_10
Pubmed ID
Book ISBNs
978-1-4939-7479-5, 978-1-4939-7481-8

Karolina A. Aberg, Robin F. Chan, Linying Xie, Andrey A. Shabalin, Edwin J. C. G. van den Oord


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.

Twitter Demographics

The data shown below were collected from the profile of 1 tweeter who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 12 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 12 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 33%
Professor 2 17%
Student > Doctoral Student 2 17%
Student > Bachelor 1 8%
Librarian 1 8%
Other 2 17%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 4 33%
Agricultural and Biological Sciences 3 25%
Veterinary Science and Veterinary Medicine 2 17%
Environmental Science 1 8%
Medicine and Dentistry 1 8%
Other 1 8%

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