Table of Contents

Preface to the Second Edition. Preface to the First Edition. Foreword. PART I ANALYZING DNA, RNA, AND PROTEIN SEQUENCES IN DATABASES. 1 Introduction. 2 Access to Sequence Data and Literature Information. 3 Pairwise Sequence Alignment. 4 Basic Local Alignment Search Tool (BLAST). 5 Advanced Database Searching. 6 Multiple Sequence Alignment. 7 Molecular Phylogeny and Evolution. PART II GENOMEWIDE ANALYSIS OF RNA AND PROTEIN. 8 Bioinformatic Approaches to Ribonucleic Acid (RNA). 9 Gene Expression: Microarray Data Analysis. 10 Protein Analysis and Proteomics. 11 Protein Structure. 12 Functional Genomics. PART III GENOME ANALYSIS. 13 Completed Genomes. 14 Completed Genomes: Viruses. 15 Completed Genomes: Bacteria and Archaea. 16 The Eukaryotic Chromosome. 17 Eukaryotic Genomes: Fungi. 18 Eukaryotic Genomes: From Parasites to Primates. 19 Human Genome. 20 Human Disease. Glossary. Answers to Self-Test Quizzes. Author Index. Subject Index.