List of Contributors xiii

Acknowledgments xix

Section 1 Design, Analysis and Interpretation Of Toxicogenomics

1 Mechanistic Toxicogenomics: Design and Analysis of Microarray Experiments 3
Kirstin Meyer, Susanne Schwenke and Johanna M. Beekman

2 A New Approach to Analysis and Interpretation of Toxicogenomic Gene Expression Data and its Importance in Examining Biological Responses to Low, Environmentally Relevant Doses of Toxicants 27
Julie A. Gosse, Thomas H. Hampton, Jennifer C. Davey and Joshua W. Hamilton

3 Principles of Data Mining in Toxicogenomics 59
Yoko Hirabayashi and Tohru Inoue Copyrighted Material

4 Design Issues in Toxicogenomics: The Application of Genomic Technologies for Mechanistic and Predictive Research 87
Woong-Yang Park, Lian Li and Daehee Kang

5 Sources of Variability in Toxicogenomic Assays 101
Karol Thompson, P. Scott Pine and Barry Rosenzweig

6 Key Aspects of Toxicogenomic Data Analysis and Interpretation as a Safety Assessment Tool to Identify and Understand Drug-Induced Toxicity 111
Antoaneta Vladimirova and Brigitte Ganter

Section 2 Applications of Toxicogenomics

7 Toxicogenomics as a Tool to Assess Immunotoxicity 129
Kirsten A. Baken, Janine Ezendam, Jeroen L.A. Pennings, Rob J. Vandebriel and Henk van Loveren

8 Toxicogenomics and Ecotoxicogenomics: Studying Chemical Effects and Basic Biology in Vertebrates and Invertebrates 143
Taisen Iguchi, Hajime Watanabe and Yoshinao Katsu

9 Gene Expression Profiling of Transplacental Arsenic Carcinogenesis in Mice 159
Jie Liu, Bhalchandra A. Diwan, Raymond Tennant and Michael P. Waalkes

10 Characterization of Estrogen-active Compounds and Estrogenic Signaling by Global Gene Expression Profiling In Vitro 175
Stephanie Simon, Kathleen Boehme, Susanne U. Schmidt and Stefan O. Mueller

11 Escherichia coli Stress Response as a Tool for Detection of Toxicity 199
Arindam Mitra, Nabarun Chakraborti and Suman Mukhopadhyay

12 Toxicogenomics In Vitro: A Powerful Tool for Screening Hepatotoxic Potential of Food-related Products 211
Saura C. Sahu

13 Toxicogenomics Approach to Drug-induced Phospholipidosis 225
Hiroshi Sawada

14 Use of Toxicogenomics as an Early Predictive Tool for Hepatotoxicity 235
Laura Suter

15 Nutrigenomics: The Application of Genomics Signatures in Nutrition-related Research 253
Elisavet T. Gatzidou and Stamatios E. Theocharis

16 Application of Toxicogenomics in Drug Discovery 269
Michael J. Liguori, Amy C. Ditewig and Jeffrey F. Waring

Section 3 Toxicogenomics and Risk Assessment

17 Natural Products from Medicinal Plants and Risk Assessment 289
Leila Chekir-Ghedira

18 The Development of a Metabonomic-based Drug Safety Testing Paradigm 309
Muireann Coen, Elaine Holmes, Jeremy K. Nicholson and John C. Lindon

19 Potential Uses of Toxicogenomic Biomarkers in Occupational Health and Risk Assessment 345
Paul A. Nony

Section 4 Toxicogenomics for Regulatory Use

20 Toxicogenomics: A Regulatory Perspective 355
Daniel A. Casciano

21 Toxicogenomics for Regulatory Use: The View from the Bench 365
P. Ancian, S. Leuillet, S. Arthaud, J.J. Legrand and R. Forster

22 Perspectives on Toxicogenomics Activities at the US Environmental Protection Agency 377
Karen Hamernik, Kenneth Haymes, Susan Hester and J. Thomas McClintock

Index 397