Genomics Book from C.H.I.P.S.

Fundamentals and Applications
edited by Supratim Choudhuri

Genomics delivers a solid foundation for understanding the role of genomics in human health and in advances that promise to help improve the quality of human life.

Genomics presents a thorough overview of the field in four major sections:

  1. fundamentals of genes and genome structure, function, expression, variations, and genomic technology platforms
  2. applications of genomics in drug discovery and drug development, safety evaluation, genomic database maintenance, mining, and analysis, food safety monitoring, and translational toxicogenomics
  3. how regulatory agencies such as the FDA and EPA use genomic data in their safety evaluation
  4. a summary of the current state and the future prospect of the science of genomics
Genomics is the first resource to present essential discussion of theory and application for:

  • eukaryotic genomes
  • epigenomics
  • translational genomics and biomarker development

Genes and Genomes

1. Fundamentals of Structure-Function Analysis of Eukaryotic Protein-Coding Genes

  • Structure and Function of Typical Eukaryotic Protein-Coding Gene

2. The Eukaryotic Genome: A Brief Overview of Structure, Function, and Evolution

  • Introduction—The Scope of Genomics
  • Nucleoprotein Organization of the Genome
  • Genomic DNA as a Mosaic of Isochores
  • Genomic Landscape as Revealed by Genome Sequencing
  • Chromosomal Synteny and Synthenic Maps in Comparative Genomics
3. Epigenetic Regulation of Gene and Genome Expression

  • Molecular Basis of Epigenetic Regulation
  • Examples of Epigenetic Regulation of Gene and Genome Expression

4. Principles of Functional Genomic Analysis

  • Sequencing by Synthesis—Sanger Method
  • Sequencing by Chemical Cleavage—Maxam and Gilbert Method
  • Sequencing by Hybridization—ED Southern Method
  • Sequencing by Synthesis—Pal Nyren's Pyrosequencing Method
  • Applications of Pyrosequencing
  • Next Generation Sequencing—$1,000 Per Genome?
  • Principles of Protein Separation
  • Principles of Protein Identification
  • Principles of Protein Structure and Determination
Applications of Genomics

5. Toxicogenomics in Non-Clinical Safety Studies: Models of Animal and Human Tissues to Assess Target Organ Injury

  • Introduction—Translational Research and Research Models
  • New Approaches and Models for Mechanistic Insight
  • Value of In Vitro Models
  • Toxicogenomics in Translational Research—Animal and Human Models (in Vivo and In Vitro)
6. Mining of Genome Sequence Databases to Identify New Targets for Prostate and Breast Cancer Therapy

  • Identification of Disease-Related Genes by Database Mining

7. Functional Genomic Approaches for Studying Genotoxicity and Carcinogenesis

  • Transcriptomics
  • Functional Genomics

8. Human Genomics in Hypertension

  • Intermediate Phenotypes and Heritability in Hypertension
  • Systematic Polymophism Discovery at the Candidate Genetic Loci Susceptible for Hypertension
  • Genome-Wide Linkage Studies in Hypertension
  • Genome-Wide Association Studies in Hypertension
  • Gene-by-Sex Interaction in Hypertension
  • Adrenergic Pathway Polymorphisms and Hypertension
  • Renin-Angiotensin-Aldosterone System and Hypertension
  • Metabolic Syndrome and Hypertension
  • Endothelium and Vascular Dysfunction in Hypertension
  • Cardio-Renal Target Organ Susceptibility Genes and Hypertension
  • Pleiotropy and Hypertension
  • Epistasis and Hypertension
  • Heterosis and Hypertension
  • Pharmacogenetics—Antihypertensive Drugs
  • Mechanistic Studies on Trait-Associated Genetic Variants
  • Transcriptomics in Hypertension
  • Perspectives and Strategies
9. Immunotoxicogenomics: Gene Expression and Immunotoxicology in the Age of Genomics
  • Immune Suppression
  • Specific Application of Genomics Techniques as a Discovery Tool to Investigate Targeted Pathways in Immune Suppression
  • Screening for Dermal Sensitizers
  • Relating Genetic Variability and Host Susceptibility to Immune-Mediated Diseases
  • Genomics Applications in Discovery—a Tool in the Development of Immunomdulatory Therapeutics
  • Hazard Identification and Risk Characterization

10. Statistical Methods for Functional Anaylsis of 'Omics Experimental Data

  • Enrichment Analysis of High-Content Data
  • Analyzing Condition-Specific Networks
  • Network Meaures
11. Toxicogenomics Data adn Databases

  • Public Toxicogenomics Databases
  • Types of Data
  • Archiving 'Omics Data
  • Cheminformatics Data
  • Sharing Data
  • Characteristics of "Ideal" Database

12. Phenotypic Microarray Approaches to the Study of Prokaryotes

  • The Phenotypic Microarray System
  • Phenotypic Mcroarray Studies with E. coli K-12 Mutants Deleted for all Two-Component Systems
  • Deciphering the Function of the b1012 Operon in E. Coli K-12
  • Investigation of Phenotypic Changes in Rifampicin-Resistant rpoB Mutants of Bacillus Subtilis
  • Identifying Phenotypic Markers to Distinguish Foodborne Enteric Pathogens

13. Functional Analysis and Genomics of G-Protein-Coupled Receptors

  • GPCR Structural Features and Pharmacology
  • Receptor Functional Screening Strategies
  • Functional Genomics and Characterization of Orphan GPCRs
  • GPCR Dimerization and Allosteric Activation
  • GPCR Mutations in Human Diseases and Natural Variants

14. Nutrigenomics: A Genomic Approach to Human Nutrition

  • Applied Genomics—Pharmacogenomics and Nutrigenomics in Health Care
  • Nutrient-Gene Interactions
  • Paradigm Shift from Health-Care to Self-Care and the Current State of Personalized Nutrition
  • Public Perceptions and the Future of Nutrigenomics
  • New Applications of Genomic Technologies
  • Moving Forward

Use of Genomics Data by the Regulatory Agencies

15. Collaborations Lay the Critical Path to Acceptance of Genomics in Drug Safety Assessment

  • Forums for Collaboration
  • Microarray Technology Performance
  • Microarray Applications in Risk Assessment and Regulatory Concerns
  • Advancing the Science

16. Application of Pharmacogenetics and Pharmacogenomics in Drug Development and Regulatory Review

  • Type of Genomic Data that Qualifies as Valid Biomarkers
  • Drug Interactions
  • Voluntary Versus Required Submissions
  • Qualification of Biomarkers
  • Genetic Tests
  • Drug/Test Codevelpment
  • Clinical Study Design
  • Labeling Implications

17. Potential Use of Microarray Technology at the U.S. Environmental Protection Agency

  • Applicability of Gneomics Tehcnology in Regulatory Application
  • The Potential of Microarray Data
  • limitations of Microarray Technology
  • Data Submission condierations
  • Research Utilizing Microarrray Technology
  • Potential Integration of Microarray Data into EPA'S Regulatory Applications
  • Microarray Applications and Challenges in Risk Assessment
  • Collaborations to Standardized the Field of Microarray Technology
  • Outlook on Microarray Technology

The Promise of Genomics

18. Genomics: The State of the Science

  • From Genes to Genomics
  • Genomic Data, Databases, and Statistical Analysis
  • Current Applications and Future Promises of Genomics
  • Genomics and Regulatory Agencies
  • Genomics—The State of the Science


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Fundamentals and Applications
edited by Supratim Choudhuri

2009 • 424 pages • $248.95 + shipping
Texas residents please add 6.75 % sales tax

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