This practical collection examines methodologies originating from the benefits of genome-wide approaches to studying epigenetics, which has opened the emerging field of epigenomics. Focusing on the areas of cancer, inflammatory and autoimmune disorders, chapters discuss three main components of the epigenome and their role in the regulation of gene expression and present a detailed method section specific to studying each component, including data analyses, troubleshooting, and feasibility in different experimental settings. The main topics are high-throughput and targeted methods for DNA methylation analysis, nucleosome position mapping, studying epigenetic effects of gut microbiota, optical imaging for detection of epigenetic aberrations in living cells, methods for microRNA, and histone code profiling. Written for the Methods in Pharmacology and Toxicology series, the book includes the kind of detail and implementation advice to encourage success in the lab.

Authoritative and easily applicable, Epigenetics and Gene Expression in Cancer, Inflammatory and Immune Diseases aims to provide pharmacologists, molecular biologists, bioinformaticians, and toxicologists with a vital background on epigenetics and state-of-the-art techniques in epigenomics.

1. High-Throughput Techniques for DNA Methylation Profiling
            Sophie Petropoulos, David Cheishvili, and Moshe Szyf
 
2. Reduced Representation Bisulfite Sequencing (RRBS) and Cell Sorting Prior to DNA Methylation Analysis in Psychiatric Disorders
            Wilfred C. de Vega, Atif Hussain, and Patrick O. McGowan
 
3. Targeted DNA Methylation Analysis Methods
            David Cheishvili, Sophie Petropoulos, Steffan Christiansen, and Moshe Szyf
 
4. Analyzing Targeted Nucleosome Position and Occupancy in Cancer, Obesity, and Diabetes
            Prasad P. Devarshi and Tara M. Henagan
 
5. Synthesis and Application of Cell-Permeable Metabolites for Modulating Chromatin Modifications Regulated by a-Ketoglutarate-Dependent Enzymes
            Hunter Balduf, Antonella Pepe, and Ann L. Kirchmaier
 
6. High-Throughput Screening of Small Molecule Transcriptional Regulators in Embryonic Stem Cells Using qRT-PCR
            Emily C. Dykhuizen, Leigh C. Carmody, and Nicola J. Tolliday
 
7. Methods for MicroRNA Profiling in Cancer
            Sushuma Yarlagadda, Anusha Thota, Ruchi Bansal, Jason Kwon, Murray Korc, and Janaiah Kota
 
8. Microbiota and Epigenetic Regulation of Inflammatory Mediators
            Marlene Remely, Heidrun Karlic, Irene Rebhan, Martina Greunz, and Alexander G. Haslberger
 
9. Optical Microscopy and Spectroscopy for Epigenetic Modifications in Single Living Cells
            Yi Cui and Joseph Irudayaraj
 
10. MicroRNAs in Therapy and Toxicity
            David J. MacEwan, Niraj M. Shah, and Daniel J. Antoine
 
11. Genetics and Epigenetics of Multiple Sclerosis
            Borut Peterlin, Ales Maver, Vidmar Lovro, and Luca Lovre¿i¿