DNA methylation : methods and protocols / edited by Jorg Tost. — 2nd ed. — New York : Humana Press, c2009. – (58.17/M592/v.507)

Contents

    Contents
    
    Preface
    Contributors
    PART I. INTRODUCTION
    1. DNA Methylation: An Introduction to the Biology and the Disease-Associated Changes of a Promising Biomarker
    PART II. GLOBAL METHYLATION LEVELS
    2. Quantification of Global DNA Methylation by Capillary Electrophoresis and Mass Spectrometry
    3. Methyl Group Acceptance Assay for the Determination of Global DNA Methylation Levels
    PART III. METHODS FOR WHOLE GENOME ANALYSIS OF DNA METHYLATION PATTERNS
    4. Immunodetection Array
    5. Methylated DNA Immunoprecipitation (MeDIP)
    6. The MIRA Method for DNA Methylation Analysis
    7. The HELP Assay
    8. Differential Methylation Hybridization: Profiling DNA Methylation with a High-Density CpG Island Microarray
    9. Analysis of DNA Methylation by Amplification of Intermethylated Sites (AIMS)
    10. Methylation-Sensitive Representational Difference Analysis (MS-RDA)
    11. Restriction Landmark Genomic Scanning: Analysis of CpG Islands in Genomes by 2D Gel Electrophoresis
    12. GoldenGate Assay for DNA Methylation Profiling
    13. 5'-Azacytidine Expression Arrays
    PART IV. GENE-SPECIFIC METHYLATION ANALYSIS
    14. DNA Methylation Analysis by Bisulfite Conversion， Cloning， and Sequencing of Individual Clones
    15. Identification and Quantification of Differentially Methylated Loci by the Pyrosequencing Technology
    16. Mass Spectrometric Analysis of Cytosine Methylation by Base-Specific Cleavage and Primer Extension Methods
    17. Melting Curve Assays for DNA Methylation Analysis
    18. Methylation SNaPshot: A Method for the Quantification of Site-Specific DNA Methylation Levels
    19. Bio-COBRA: Absolute Quantification of DNA Methylation in Electrofluidics Chips
    20. Restriction Digestion and Real-Time PCR (qAMP)
    21. MethylQuant: A Real-Time PCR-Based Method to Quantify DNA Methylation at Single Specific Cytosines
    22. Methylation-Specific PCR
    23. MethyLight
    24. Quantification of Methylated DNA by HeavyMethyl Duplex PCR
    PART V. SPECIAL APPLICATIONS
    25. Analysis of Methylated Circulating DNA in Cancer Patients' Blood
    26. Prevention of PCR Cross-Contamination by UNG Treatment of Bisulfite-Treated DNA
    27. Profiling DNA Methylation from Small Amounts of Genomic DNA Starting Material: Efficient Sodium Bisulfite Conversion and Subsequent Whole-Genome Amplification
    Index