Epigenetics Methods, Second Edition offers an extensive overview of the tools that enhance translational epigenetics studies. This edition includes updated and revised chapters, along with newly added topics such as MALDI-TOF-MS for analyzing DNA methylation and the RIP assay for lncRNA binding. Specialists provide step-by-step guidance on methods used to study various epigenetic mechanisms. The book covers both fundamental and advanced techniques, making it an essential resource for researchers in this dynamic field. In addition to DNA methylation and histone modification techniques, the book…mehr
Epigenetics Methods, Second Edition offers an extensive overview of the tools that enhance translational epigenetics studies. This edition includes updated and revised chapters, along with newly added topics such as MALDI-TOF-MS for analyzing DNA methylation and the RIP assay for lncRNA binding. Specialists provide step-by-step guidance on methods used to study various epigenetic mechanisms. The book covers both fundamental and advanced techniques, making it an essential resource for researchers in this dynamic field. In addition to DNA methylation and histone modification techniques, the book also explores chromatin evaluation, enzyme analyses, and non-coding RNAs as epigenetic modulators. New chapters discuss recent advancements like single-cell epigenomics, epigenetic editing, and computational epigenetics. The volume addresses reproducibility issues and offers consensus-driven methods to unify approaches across experiments and labs. This edition is a vital reference for understanding and employing cutting-edge epigenetics methods.
Section 1: Overview 1. An Overview of Epigenetics Methods Section 2: DNA Methylation Methods: Gene- or Locus-specific Methylation Analyses 2. Principles of Bisulfite Conversion of DNA and Methylation-specific PCR (MSP) in Biological Research 3. Multiplex Methylation Specific Droplet Digital PCR (MS-ddPCR) for Detection and of Rare Methylated Alleles Section 3: DNA Methylation Methods: Global DNA Methylation and Methylomic Analyses 4. Methods for Detection of DNA Methylation in Transposable Elements 5. The Illumina Infinium Methylation Assay for Genome-wide Methylation Analyses 6. Methylated DNA Immunoprecipitation Sequencing: Methodological Principles and Applications 7. Multiplex Analyses Using Methylation Sensitive Restriction Enzyme coupled qPCR and NGS 8. Advances in Whole Genome Methylomic Sequencing Section 4: DNA Methylation Methods: Additional Technologies 9. Analyzing DNA Methyltransferase Enzymatic Activity: Basic Methods and Applications 10. Technologies and Applications for the Assessment of 5-Hydroxymethylcytosine Section 5: Histone Modification Methods 11. The Chromatin Immunoprecipitation (ChIP) Assay and ChIP-qPCR 12. CUT&RUN and CUT&Tag for histone modification and transcription factor binding analyses 13. Deep Sequencing for Histone Modifications Employing ChIP-seq Analyses 14. ChIP in Series: Sequential ChIP 15. The ChIP-exo Method to Study DNA-protein interactions and Chromatin Organization at Near-Nucleotide Resolution 16. ATAC-seq Method Applied to Embryonic Germ Cells and Neural Stem Cells from Mouse: Practical 17. Combinatorial ChIP and Bisulfite Sequencing (BisChIP-seq) Section 6: Epigenetic Methods for Evaluating Chromatin Higher Order 18. 3D DNA FISH for Analyses of Nuclear Chromatin Architecture Section 7: Enzyme Analyses of Histone Modifications 19. Assessment of Histone-Modifying Enzymes Involved in Epigenetic Gene Regulation Section 8: Assessment of Non-Coding RNA as an Epigenetic Modulator 20. Detection and Quantification of MicroRNAs (miRNAs) and High Throughput miRNAs Profiling 21. RIP-seq in Epigenetic Analyses 22. Chromatin Isolation by RNA Purification (ChIRP) and Its Applications Section 9: Additional Epigenetics Methods 23. Single-Cell Epigenomics: Methods and Translation 24. CRISPR/Cas9 Technologies in Epigenetics Research 25. Epigenome-Wide Association Study (EWAS) Methods and Applications 26. Systems Biology Methods to Study the Epigenome and Metabolic- epigenetic Interactions 27. Forensic Epigenetics Methods and Applications Section 10: Future Directions in Epigenetics Methodology 28. Advances in Epigenetic Techniques to Study Development and Diseases
Section 1: Overview 1. An Overview of Epigenetics Methods Section 2: DNA Methylation Methods: Gene- or Locus-specific Methylation Analyses 2. Principles of Bisulfite Conversion of DNA and Methylation-specific PCR (MSP) in Biological Research 3. Multiplex Methylation Specific Droplet Digital PCR (MS-ddPCR) for Detection and of Rare Methylated Alleles Section 3: DNA Methylation Methods: Global DNA Methylation and Methylomic Analyses 4. Methods for Detection of DNA Methylation in Transposable Elements 5. The Illumina Infinium Methylation Assay for Genome-wide Methylation Analyses 6. Methylated DNA Immunoprecipitation Sequencing: Methodological Principles and Applications 7. Multiplex Analyses Using Methylation Sensitive Restriction Enzyme coupled qPCR and NGS 8. Advances in Whole Genome Methylomic Sequencing Section 4: DNA Methylation Methods: Additional Technologies 9. Analyzing DNA Methyltransferase Enzymatic Activity: Basic Methods and Applications 10. Technologies and Applications for the Assessment of 5-Hydroxymethylcytosine Section 5: Histone Modification Methods 11. The Chromatin Immunoprecipitation (ChIP) Assay and ChIP-qPCR 12. CUT&RUN and CUT&Tag for histone modification and transcription factor binding analyses 13. Deep Sequencing for Histone Modifications Employing ChIP-seq Analyses 14. ChIP in Series: Sequential ChIP 15. The ChIP-exo Method to Study DNA-protein interactions and Chromatin Organization at Near-Nucleotide Resolution 16. ATAC-seq Method Applied to Embryonic Germ Cells and Neural Stem Cells from Mouse: Practical 17. Combinatorial ChIP and Bisulfite Sequencing (BisChIP-seq) Section 6: Epigenetic Methods for Evaluating Chromatin Higher Order 18. 3D DNA FISH for Analyses of Nuclear Chromatin Architecture Section 7: Enzyme Analyses of Histone Modifications 19. Assessment of Histone-Modifying Enzymes Involved in Epigenetic Gene Regulation Section 8: Assessment of Non-Coding RNA as an Epigenetic Modulator 20. Detection and Quantification of MicroRNAs (miRNAs) and High Throughput miRNAs Profiling 21. RIP-seq in Epigenetic Analyses 22. Chromatin Isolation by RNA Purification (ChIRP) and Its Applications Section 9: Additional Epigenetics Methods 23. Single-Cell Epigenomics: Methods and Translation 24. CRISPR/Cas9 Technologies in Epigenetics Research 25. Epigenome-Wide Association Study (EWAS) Methods and Applications 26. Systems Biology Methods to Study the Epigenome and Metabolic- epigenetic Interactions 27. Forensic Epigenetics Methods and Applications Section 10: Future Directions in Epigenetics Methodology 28. Advances in Epigenetic Techniques to Study Development and Diseases
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