Bioinformatics

Specific Gene Expression and Epigenetics
The Interplay Between the Genome and Its Environment

Editor: Kasirajan Ayyanathan, PhD

Specific Gene Expression and Epigenetics

Published Available now.
Pub Date: March 2014
Hardback Price: $149.95 US
Hard ISBN: 9781771880367
E-Book ISBN: 9781482253856
Pages: 328pp
Binding Type: hardbound

This title includes a number of Open Access chapters.



This volume on gene expression and epigenetics discusses how environmental effects related to specific gene expression. The book also shows methods for bioinformatic analysis of the epigenome. The book is broken into two sections: the first looks at eukaryotic DNA methylation and the second at how to integrate genomic medicine into clinical practice.

The book includes chapters on these topics:
  • gene expression in colon cancer tissue
  • epigenetics in human acute kidney injury
  • embryologically relevant candidate genes in MRKH patients
  • dna methylation in common skeletal disorders
  • causal relationships in genomics
  • predicting severe asthma exacerbations in children
  • epigenetic understanding of gene-environment interactions in psychiatric disorders
  • more

CONTENTS:
Introduction
Part I: Eukaryotic DNA Methylation
Chapter 1. Renal Kallikrein Excretion and Epigenetics in Human Acute Kidney Injury: Expression, Mechanisms and Consequences
Sun Woo Kang, Pei-an Betty Shih, Roy O. Mathew, Manjula Mahata, Nilima Biswas, Fangwen Rao, Liying Yan, Josee Bouchard, Rakesh Malhotra, Ashita Tolwani, Srikrishna Khandrika, Ravindra L. Mehta, and Daniel T. O’Connor

Chapter 2. COX-2 Gene Expression in Colon Cancer Tissue Related to Regulating Factors and Promoter Methylation Status
Annika Gustafsson Asting, Helena Carén, Marianne Andersson, Christina Lönnroth, Kristina Lagerstedt, and Kent Lundholm

Chapter 3. Down-Regulation of Promoter Methylation Level of CD4 Gene After MDV Infection in MD-Susceptible Chicken Line
Juan Luo, Ying Yu, Huanmin Zhang, Fei Tian, Shuang Chang, Hans H. Cheng, and Jiuzhou Song

Chapter 4. A Combination of Transcriptome and Methylation Analyses Reveals Embryologically Relevant Candidate Genes in MRKH Patients
Katharina Rall, Gianmaria Barresi, Michael Walter, Sven Poths, Karina Haebig, Karin Schaeferhoff, Birgitt Schoenfisch, Olaf Riess, Diethelm Wallwiener, Michael Bonin, and Sara Brucker

Chapter 5. The Role of DNA Methylation in Common Skeletal Disorders
Jesús Delgado-Calle and José A. Riancho

Chapter 6. Enrichment-Based DNA Methylation Analysis Using Next-Generation Sequencing: Sample Exclusion, Estimating Changes in Global Methylation, and the Contribution of Replicate Lanes
Michael P. Trimarchi, Mark Murphy, David Frankhouser, Benjamin A. T. Rodriguez, John Curfman, Guido Marcucci, Pearlly Yan, and Ralf Bundschuh


Part II: Integrating Genomic Medicine into the Clinical Practice
Chapter 7. Assessing Causal Relationships in Genomics: From Bradford-Hill Criteria to Complex Gene-Environment Interactions and Directed Acyclic Graphs
Sara Geneletti, Valentina Gallo, Miquel Porta, Muin J. Khoury, and Paolo Vineis

Chapter 8. Genome Wide Association Study to Predict Severe Asthma Exacerbations in Children Using Random Forests Classifiers
Mousheng Xu, Kelan G. Tantisira, Ann Wu, Augusto A. Litonjua, Jen-hwa Chu, Blanca E. Himes, Amy Damask, and Scott T. Weiss

Chapter 9. Potential Utility of Natural Products as Regulators of Breast Cancer-Associated Aromatase Promoters
Shabana I. Khan, Jianping Zhao, Ikhlas A. Khan, Larry A. Walker, and Asok K. Dasmahapatra

Chapter 10. Therapeutic Potential of Cladribine in Combination with STAT3 Inhibitor Against Multiple Myeloma
Jian Ma, Shuiliang Wang, Ming Zhao, Xin-Sheng Deng, Choon-Kee Lee, Xiao-Dan Yu, and Bolin Liu

Chapter 11. Epigenetic Understanding of Gene-Environment Interactions in Psychiatric Disorders: A New Concept of Clinical Genetics
Takeo Kubota, Kunio Miyake, and Takae Hirasawa

Chapter 12. An Imprinted Rheumatoid Arthritis Methylome Signature Reflects Pathogenic Phenotype
John W. Whitaker, Robert Shoemaker, David L. Boyle, Josh Hillman, David Anderson, Wei Wang, and Gary S. Firestein

Index


About the Authors / Editors:
Editor: Kasirajan Ayyanathan, PhD
Research Associate Professor, Center for Molecular Biology and Biotechnology, Florida Atlantic University, Boca Raton, Florida

Kasirajan Ayyanathan, PhD, received his PhD degree from the Department of Biochemistry, Indian Institute of Science, one of the premier research institutions in India. Subsequently, at Temple University School of Medicine, Philadelphia, Pennsylvania, USA, he conducted postdoctoral research on the signal transduction by purinergic receptors, a class of G-Protein Coupled Receptors (GPCR), in erythroleukemia cancer cells. Next, he was trained as a staff scientist at the Wistar Institute, Philadelphia, for almost ten years and studied transcription regulation, chromatin, and epigenetic regulatory mechanisms in cancer before becoming an Associate Professor at Florida Atlantic University (FAU). Currently, he is at the Center for Molecular Biology and Biotechnology as a Research Associate Professor at FAU.

He is the recipient of the Chern Memorial Award, presented by the Wistar Institute, and the Howard Temin Career Research Award, presented by the National Cancer Institute, USA. Dr. Ayyanathan is well trained in molecular biology, cell biology, and biochemistry with main focus on studying transcription factors and gene regulation. He has contributed to several projects such as on the generation of conditional transcriptional repressors that are directed against the endogenous oncogenes to inhibit malignant growth, on the establishment of stable cell lines that express chromatin integrated transcriptional repressors and reporter genes in order to study the epigenetic mechanisms of KRAB repression, and on identification of novel SNAG repression domain interacting proteins in order to understand their roles in transcriptional repression and oncogenesis. Dr. Ayyanathan has published several research articles in peer-reviewed articles in these subject areas.




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