1. Advances in Epigenetic Technology
Trygve O. Tollefsbol
2. DNA Methylation Detection: Bisulfite Genomic Sequencing Analysis
Yuanyuan Li and Trygve O. Tollefsbol
3. Methylation-specific PCR (MSP)
Ja-Lok Ku, You-Kyung Jeon, and Jae-Gahb Park
4. Analyzing DNA Methylation Using Bisulfite Pyrosequencing
Thomas Mikeska, Jörg Felsberg, Chelsee A. Hewitt, and Alexander Dobrovic
5. Closed-tube PCR Methods for Locus Specific DNA Methylation Analysis
Ida L. M. Candiloro, Thomas Mikeska, and Alexander Dobrovic
6. A Combined Bisulfite Restriction Analysis (COBRA) Bioinformatics Tool: Methyl-typing
Cheng-Hong Yang, Yu-Huei Cheng, Li-Yeh Chuang, and Hsueh-Wei Chang
7. SIRPH: an HPLC-based SNuPE for Quantitative Methylation Measurement at Specific CpG Sites
Heike Singer, Nicole Nüsgen, and Osman El-Maarri
8. Restriction Landmark Genome Scanning (RLGS)
Hisato Okuizumi, Tomoko Takamiya, Yasushi Okazaki, and Yoshihide Hayashizaki
9. Methylated DNA Immunoprecipitation (MeDIP) Genome-wide Analysis
Mattia Pelizzola and Annette Molinaro
10. Methylated-CpG Island Recovery Assay (MIRA)
Natalie Mitchell, J. Tyson DeAngelis, and Trygve O. Tollefsbol
11. Global DNA Methylation Analysis Using the Luminometric Methylation Assay, LUMA
Mohsen Karimi, Karin Luttropp, and Tomas J. Ekström
12. Inhibition of DNA Methylation in Somatic Cells
Angelica M. Giraldo and Kenneth R. Bondioli
13. DNA Methyltransferase Assays
Renata Z. Jurkowska, Alexandre Ceccaldi, Yingying Zhang, Paola B. Arimondo, and Albert Jeltsch
14. A Chromatin Immunoprecipitation Protocol for Small Cell Numbers
Philippe Collas
15. Native Chromatin Immunoprecipitation (nChIP)
Céline Cosseau and Christoph Grunau
16. Q-PCR in Combination with ChIP Assays to Detect Changes in Chromatin Acetylation
Ryan A. Irvine, Cindy Okitsu, and Chih-Lin Hsieh
17. Sequential Chromatin Immunoprecipitation (SeqChIP) Assay and Analysis
Ricardo B. de Medeiros
18. Combined Chromatin Immunoprecipitation and Bisulfite Methylation Sequencing (ChIP-BMS) Analysis
Yuanyuan Li and Trygve O. Tollefsbol
19. Studying RNA-protein Interactions in vivo by RNA Immunoprecipitation (RIP)
Luke A. Selth, Pierre Close, and Jesper Q. Svejstrup
20. Using ChIP-seq Technology to Generate High-resolution Profiles of Histone
Modifications
Henriette O'Geen, Lorigail Echipare, and Peggy J. Farnham
21. Mapping Open Chromatin with Formaldehyde-assisted Isolation of Regulatory Elements (FAIRE)
Takao Nammo, Santiago A. Rodríguez-Seguí, and Jorge Ferrer
22. Inhibition of Histone Deacetylases
Yi Huang, Patrick G. Shaw, and Nancy E. Davidson
23. Computational Methods for Epigenetic Analysis - the Protocol of Computational Analysis for Modified Methylation-specific Digital Karyotyping (MMSDK) Based on Massively Parallel Sequencing
Jian Li, Qian Zhao, and Lars Bolund
