Note: Cover -- Concepts and techniques in genomics and proteomics -- Copyright -- Contents -- List of figures -- List of tables -- Preface -- Acknowledgements -- List of abbreviations -- About the authors -- 1 Introduction to genes and genomes -- Key concepts -- 1.1 Introduction -- 1.2 The cell -- 1.3 Mendel's contributions -- 1.4 The chromosomal theory of inheritance -- 1.5 The chemical nature of genetic material -- 1.6 Composition and structure of DNA -- 1.7 The central dogma of life -- 1.8 Genomes of prokaryotes and eukaryotes -- 1.9 The molecular structure of the gene -- 1.10 Conclusion -- Review questions and answers -- Recommended reading -- Web addresses -- 2 The human genome project -- Key concepts -- 2.1 The history of the HGP -- 2.2 The budget for the HGP -- 2.3 Goals of the HGP -- 2.4 Laboratories and investigators involved in the HGP -- 2.5 The Human Genome Organization (HUGO) -- 2.6 Salient findings of the HGP -- 2.7 Potential applications of the HGP -- 2.8 Post-HGP challenges -- 2.9 Ethical, legal, social issues (ELSI) related to the HGP -- 2.10 The international HapMap Project -- Review questions and answers -- Recommended reading -- Web addresses -- 3 Genomes of model organisms -- Key concepts -- 3.1 Introduction -- 3.2 The viral genome -- 3.3 Bacterial genomes -- 3.4 Fungal genomes -- 3.5 Worm genome: Caenorhabditis elegans -- 3.6 Fruit fly: Drosophila melanogaster -- 3.7 Plant genome -- 3.8 Animal genome -- 3.9 The Microbial Genome Project -- Review questions and answers -- Recommended reading -- Web addresses -- 4 High capacity vectors -- Key concepts -- 4.1 Introduction -- 4.2 Cosmid vectors -- 4.3 Fosmid vectors -- 4.4 Bacteriophage P1 derived vector -- 4.5 P1 derived artificial chromosome (PAC) -- 4.6 Bacterial artificial chromosomes (BAC) -- 4.7 Yeast artificial chromosome (YAC) -- Review questions and answers. , Recommended reading -- Web address -- 5 DNA sequencing methods -- Key concepts -- 5.1 The history of DNA sequencing -- 5.2 Steps in DNA sequencing -- 5.3 Chemical degradation method of DNA sequencing -- 5.4 The chain termination method of DNA sequencing -- 5.5 Advances in DNA sequencing methods -- 5.6 New sequencing methods -- 5.7 Next generation sequencing methods -- Review questions and answers -- Recommended reading -- Web addresses -- 6 Genome mapping -- Key concepts -- 6.1 Introduction -- 6.2 Importance of genome mapping in the context of genome sequencing -- 6.3 Genetic mapping -- 6.4 Genetic mapping in humans -- 6.5 Physical mapping methods -- Review questions and answers -- Recommended reading -- Web addresses -- 7 Genome sequencing methods -- Key concepts -- 7.1 Introduction -- 7.2 The clone-by-clone genome sequencing method -- 7.3 The whole genome shotgun sequencing method -- 7.4 Error control in genome sequencing -- Review questions and answers -- Recommended reading -- Web address -- 8 Genome sequence assembly and annotation -- Key concepts -- 8.1 Introduction -- 8.2 Clone contig assembly -- 8.3 Genome assembly program -- 8.4 Gaps and gap closing methods -- 8.5 Draft and finished genome sequences -- 8.6 Genome annotation -- 8.7 Comparative genomics -- Review questions and answers -- Recommended reading -- Web addresses -- 9 Functional genomics -- Key concepts -- 9.1 Introduction -- 9.2 Northern blotting -- 9.3 Subtractive hybridization -- 9.4 Differential Display Reverse Transcription PCR (DDRT-PCR) -- 9.5 Representational Difference Analysis (RDA) -- 9.6 Serial Analysis Gene Expression (SAGE) -- 9.7 Microarray technology -- Review questions and answers -- Recommended reading -- Web addresses -- 10 Introduction to proteomics -- Key concepts -- 10.1 Introduction -- 10.2 Traditional route of protein study -- 10.3 Protein isolation methods. , 10.4 Branches of proteomics -- 10.5 Characteristics of proteomics -- Review questions and answers -- Recommended reading -- Websites -- 11 Two-dimensional gel electrophoresis of proteins -- Key concepts -- 11.1 Introduction -- 11.2 Principles of 2D-PAGE -- 11.3 2D-PAGE apparatus -- 11.4 Sample preparation -- 11.5 First-dimensional separation by isoelectric focusing -- 11.6 Equilibration -- 11.7 Second-dimensional separation by SDS-PAGE -- 11.8 Detection of proteins on 2D-PAGE gels -- 11.9 Image analysis -- 11.10 Application of 2D-PAGE in proteomics -- Review questions and answers -- Recommended reading -- Web addresses -- 12 Mass spectrometry for proteomics -- Key concepts -- 12.1 Introduction -- 12.2 History of the mass spectrometer -- 12.3 Mass spectrometer -- 12.4 Protein sample preparation for MS analysis -- 12.5 Applications of MS proteomics -- Review questions and answers -- Recommended reading -- 13 Protein Identification by Peptide Mass Fingerprinting (PMF) -- Key concepts -- 13.1 Introduction -- 13.2 Principles of peptide mass fingerprinting -- 13.3 Protein preparation for PMF -- 13.4 Mass spectrometric analysis of peptide fragments -- 13.5 Data analysis and identification of protein -- Review question and answer -- Recommended reading -- Web address -- 14 Protein sequencing techniques -- Key concepts -- 14.1 Introduction -- 14.2 Preparation of protein sample for sequencing -- 14.3 Steps in protein sequencing -- 14.4 Protein sequencing by Edman degradation -- 14.5 De novo protein sequencing by mass spectrometry -- Review questions and answers -- Recommended reading -- 15 Phosphoproteomics -- Key concepts -- 15.1 Post-translational modifications of proteins -- 15.2 Phosphoproteomics -- 15.3 Phosphoprotein enrichment methods -- 15.4 Mass spectrometry for phosphoprotein identification -- Review questions and answers -- Recommended reading. , 16 Glycoproteomics -- Key concepts -- 16.1 Glycoproteins -- 16.2 Glycoprotein enrichment methods -- 16.3 Mass spectrometric analysis of glycoproteins -- 16.4 Importance of glycoproteins in human diseases -- Review questions and answers -- Recommended reading -- Web addresses -- Conclusion -- Glossary -- Index.