Table of Contents

A Summary of the Biological Processes, Disease-Associated Changes and Clinical Applications of DNA Methylation.- Considerations for Design and Analysis of DNA Methylation Studies.- Quantification of Global DNA Methylation Levels by Mass Spectrometry.- Antibody Based Detection of Global Nuclear DNA Methylation in Cells, Tissue Sections and Mammaliam Embryos.- Whole-Genome Bisulfite Sequencing Using the Ovation® Ultralow Methyl-Seq Protocol.- Tagmentation-Based Library Preparation for Low DNA Input Whole Genome Bisulfite Sequencing.- Post-Bisulfite Adaptor Tagging for PCR-Free Whole-Genome Bisulfite Sequencing.- Multiplexed Reduced Representation Bisulfite Sequencing with Magnetic Bead Fragment Size Selection.- Low Input Whole-Genome Bisulfite Sequencing Using a Post-Bisulfite Adapter Tagging Approach.- Methyl-CpG Binding Domain Sequencing: MBD-seq.- The HELP-Based Assays.- Comprehensive Whole DNA Methylome Analysis by InDigital Restriction Enzyme Analysis of Methylation (DREAM).- Nucleosome Occupancy and Methylome Sequencing (NOMe-seq).- Bisulfite Sequencing of Chromatin Immunoprecipitated DNA (BisChIP-seq).- A Guide to Illumina BeadChip Data Analysis.- Microdroplet PCR for Highly-Multiplexed Targeted Bisulfite Sequencing.- Multiplexed DNA Methylation Analysis of Target Regions Using Microfluidics (Fluidigm).- Large-Scale Targeted DNA Methylation Analysis Using Bisulfite Padlock Probes.- Targeted Bisulfite Sequencing Using the SeqCap Epi Enrichment System.- Multiplexed and Sensitive DNA Methylation Testing Using Methylation-Sensitive Restriction Enzymes MSRE-qPCR.- Quantitative DNA Methylation Analysis at Single-Nucleotide Resolution by Pyrosequencing®.- Methylation-Specific PCR.- Quantitation of DNA Methylation by Quantitative Multiplex Methylation-Specific PCR (QM-MSP).- MethyLight and Digital MethyLight.- Quantitative Region-Specific DNA Methylation Analysis by the EPITYPERTM Technology.- Methylation-Specific Multiplex Ligation-Dependent Probe Amplification  (MS-MLPA).- Methylation - Sensitive - High Resolution Melting (MS-HRM).- Hairpin Bisulfite Sequencing: Synchronous Methylation Analysis on Complementary DNA Strands of Individual Chromosomes.- Helper-Dependent Chain Reaction (HDCR) for Selective Amplification of Methylated DNA Sequences.- DNA Methylation Analysis from Blood Spots: Increasing Yield and Quality for Genome-Wide and Locus-Specific Methylation.- DNA Methylation Analysis of Free-Circulating DNA in Body Fluids.- Tet-Assisted Bisulfite Sequencing (TAB-seq).- Multiplexing for Oxidative Bisulfite Sequencing (oxBS-seq).- Affinity-Based Enrichment Techniques for the Genome-Wide Analysis of 5-Hydroxymethylcytosine.