Epigenetics Methods

Section 1: Overview<br>1. An Overview of Epigenetics Methods<br><br>Section 2: DNA Methylation Methods: Gene- or Locus-specific Methylation Analyses <br>2. Principles of Bisulfite Conversion of DNA and Methylation-specific PCR (MSP) in Biological Research<br>3. Multiplex Methylation Specific Droplet Digital PCR (MS-ddPCR) for Detection and of Rare Methylated Alleles<br><br>Section 3: DNA Methylation Methods: Global DNA Methylation and Methylomic Analyses <br>4. Methods for Detection of DNA Methylation in Transposable Elements<br>5. The Illumina Infinium Methylation Assay for Genome-wide Methylation Analyses<br>6. Methylated DNA Immunoprecipitation Sequencing: Methodological Principles and Applications<br>7. Multiplex Analyses Using Methylation Sensitive Restriction Enzyme coupled qPCR and NGS<br>8. Advances in Whole Genome Methylomic Sequencing<br><br>Section 4: DNA Methylation Methods: Additional Technologies<br>9. Analyzing DNA Methyltransferase Enzymatic Activity: Basic Methods and Applications<br>10. Technologies and Applications for the Assessment of 5-Hydroxymethylcytosine<br><br>Section 5: Histone Modification Methods<br>11. The Chromatin Immunoprecipitation (ChIP) Assay and ChIP-qPCR<br>12. CUT&RUN and CUT&Tag for histone modification and transcription factor binding analyses<br>13. Deep Sequencing for Histone Modifications Employing ChIP-seq Analyses<br>14. ChIP in Series: Sequential ChIP<br>15. The ChIP-exo Method to Study DNA-protein interactions and Chromatin Organization at Near-Nucleotide Resolution<br>16. ATAC-seq Method Applied to Embryonic Germ Cells and Neural Stem Cells from Mouse: Practical <br>17. Combinatorial ChIP and Bisulfite Sequencing (BisChIP-seq)<br><br>Section 6: Epigenetic Methods for Evaluating Chromatin Higher Order <br>18. 3D DNA FISH for Analyses of Nuclear Chromatin Architecture<br><br>Section 7: Enzyme Analyses of Histone Modifications<br>19. Assessment of Histone-Modifying Enzymes Involved in Epigenetic Gene Regulation<br><br>Section 8: Assessment of Non-Coding RNA as an Epigenetic Modulator<br>20. Detection and Quantification of MicroRNAs (miRNAs) and High Throughput miRNAs Profiling<br>21. RIP-seq in Epigenetic Analyses<br>22. Chromatin Isolation by RNA Purification (ChIRP) and Its Applications<br><br>Section 9: Additional Epigenetics Methods<br>23. Single-Cell Epigenomics: Methods and Translation<br>24. CRISPR/Cas9 Technologies in Epigenetics Research<br>25. Epigenome-Wide Association Study (EWAS) Methods and Applications<br>26. Systems Biology Methods to Study the Epigenome and Metabolic- epigenetic Interactions<br>27. Forensic Epigenetics Methods and Applications<br><br>Section 10: Future Directions in Epigenetics Methodology <br>28. Advances in Epigenetic Techniques to Study Development and Diseases