Book description
The bestselling introduction to bioinformatics and functional genomics—now in an updated edition
Widely received in its previous edition, Bioinformatics and Functional Genomics offers the most broad-based introduction to this explosive new discipline. Now in a thoroughly updated and expanded Second Edition, it continues to be the go-to source for students and professionals involved in biomedical research.
This edition provides up-to-the-minute coverage of the fields of bioinformatics and genomics. Features new to this edition include:
Several fundamentally important proteins, such as globins, histones, insulin, and albumins, are included to better show how to apply bioinformatics tools to basic biological questions.
A completely updated companion web site, which will be updated as new information becomes available - visit www.wiley.com/go/pevsnerbioinformatics
Descriptions of genome sequencing projects spanning the tree of life.
A stronger focus on how bioinformatics tools are used to understand human disease.
The book is complemented by lavish illustrations and more than 500 figures and tables—fifty of which are entirely new to this edition. Each chapter includes a Problem Set, Pitfalls, Boxes explaining key techniques and mathematics/statistics principles, Summary, Recommended Reading, and a list of freely available software. Readers may visit a related Web page for supplemental information at www.wiley.com/go/pevsnerbioinformatics
.
Bioinformatics and Functional Genomics, Second Edition serves as an excellent single-source textbook for advanced undergraduate and beginning graduate-level courses in the biological sciences and computer sciences. It is also an indispensable resource for biologists in a broad variety of disciplines who use the tools of bioinformatics and genomics to study particular research problems; bioinformaticists and computer scientists who develop computer algorithms and databases; and medical researchers and clinicians who want to understand the genomic basis of viral, bacterial, parasitic, or other diseases.
Praise for the first edition:
"...ideal both for biologists who want to master the application of bioinformatics to real-world problems and for computer scientists who need to understand the biological questions that motivate algorithms." Quarterly Review of Biology
"... an excellent textbook for graduate students and upper level undergraduate students." Annals of Biomedical Engineering
"...highly recommended for academic and medical libraries, and for researchers as an introduction and reference..." E-Streams
Table of contents
- Cover Page
- Title Page
- Copyright
- Dedication
- Contents in Brief
- 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
- INTRODUCTION TO BIOLOGICAL DATABASES
- GENBANK: DATABASE OF MOST KNOWN NUCLEOTIDE AND PROTEIN SEQUENCES
- NATIONAL CENTER FOR BIOTECHNOLOGY INFORMATION
- THE EUROPEAN BIOINFORMATICS INSTITUTE (EBI)
- ACCESS TO INFORMATION: ACCESSION NUMBERS TO LABEL AND IDENTIFY SEQUENCES
- ACCESS TO INFORMATION VIA ENTREZ GENE AT NCBI
- ACCESS TO INFORMATION: PROTEIN DATABASES
- ACCESS TO INFORMATION: THE THREE MAIN GENOME BROWSERS
- EXAMPLES OF HOW TO ACCESS SEQUENCE DATA
- ACCESS TO BIOMEDICAL LITERATURE
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
- 3: Pairwise Sequence Alignment
- 4: Basic Local Alignment Search Tool (BLAST)
-
5: Advanced Database Searching
- INTRODUCTION
- SPECIALIZED BLAST SITES
- FINDING DISTANTLY RELATED PROTEINS: POSITION-SPECIFIC ITERATED BLAST (PSI-BLAST)
- PROFILE SEARCHES: HIDDEN MARKOV MODELS
- BLAST-LIKE ALIGNMENT TOOLS TO SEARCH GENOMIC DNA RAPIDLY
- USING BLAST FOR GENE DISCOVERY
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
- 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
- INTRODUCTION
- TECHNIQUES TO IDENTIFY PROTEINS
- FOUR PERSPECTIVES ON PROTEINS
- PERSPECTIVE 1. PROTEIN DOMAINS AND MOTIFS: MODULAR NATURE OF PROTEINS
- PERSPECTIVE 2. PHYSICAL PROPERTIES OF PROTEINS
- INTRODUCTION TO PERSPECTIVES 3 AND 4: GENE ONTOLOGY CONSORTIUM
- PERSPECTIVE 3: PROTEIN LOCALIZATION
- PERSPECTIVE 4: PROTEIN FUNCTION
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
- 11: Protein Structure
-
12: Functional Genomics
- INTRODUCTION TO FUNCTIONAL GENOMICS
- EIGHT MODEL ORGANISMS FOR FUNCTIONAL GENOMICS
- FUNCTIONAL GENOMICS USING REVERSE GENETICS AND FORWARD GENETICS
- FUNCTIONAL GENOMICS AND THE CENTRAL DOGMA
- PROTEOMICS APPROACHES TO FUNCTIONAL GENOMICS
- PERSPECTIVE
- PITFALLS
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LABORATORY
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
-
Part III: Genome Analysis
- 13: Completed Genomes
- 14: Completed Genomes: Viruses
- 15: Completed Genomes: Bacteria and Archaea
-
16: The Eukaryotic Chromosome
- INTRODUCTION
- GENERAL FEATURES OF EUKARYOTIC GENOMES AND CHROMOSOMES
- REPETITIVE DNA CONTENT OF EUKARYOTIC CHROMOSOMES
- GENE CONTENT OF EUKARYOTIC CHROMOSOMES
- REGULATORY REGIONS OF EUKARYOTIC CHROMOSOMES
- COMPARISON OF EUKARYOTIC DNA
- VARIATION IN CHROMOSOMAL DNA
- TECHNIQUES TO MEASURE CHROMOSOMAL CHANGE
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
-
17: Eukaryotic Genomes: Fungi
- INTRODUCTION
- INTRODUCTION TO BUDDING YEAST SACCHAROMYCES CEREVISIAE
- GENE DUPLICATION AND GENOME DUPLICATION OF S. CEREVISIAE
- COMPARATIVE ANALYSES OF HEMIASCOMYCETES
- ANALYSIS OF FUNGAL GENOMES
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
-
18: Eukaryotic Genomes: From Parasites to Primates
- INTRODUCTION
- PROTOZOANS AT THE BASE OF THE TREE LACKING MITOCHONDRIA
- GENOMES OF UNICELLULAR PATHOGENS: TRYPANOSOMES AND LEISHMANIA
- THE CHROMALVEOLATES
- PLANT GENOMES
- SLIME AND FRUITING BODIES AT THE FEET OF METAZOANS
- METAZOANS
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
-
19: Human Genome
- INTRODUCTION
- MAIN CONCLUSIONS OF HUMAN GENOME PROJECT
- GATEWAYS TO ACCESS THE HUMAN GENOME
- THE HUMAN GENOME PROJECT
- 24 HUMAN CHROMOSOMES
- VARIATION: SEQUENCING INDIVIDUAL GENOMES
- VARIATION: SNPS TO COPY NUMBER VARIANTS
- PERSPECTIVE
- PITFALLS
- DISCUSSION QUESTIONS
- PROBLEMS/COMPUTER LAB
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
-
20: Human Disease
- HUMAN GENETIC DISEASE: A CONSEQUENCE OF DNA VARIATION
- FOUR CATEGORIES OF DISEASE
- DISEASE DATABASES
- FOUR APPROACHES TO IDENTIFYING DISEASE-ASSOCIATED GENES
- HUMAN DISEASE GENES IN MODEL ORGANISMS
- FUNCTIONAL CLASSIFICATION OF DISEASE GENES
- PERSPECTIVE
- PITFALLS
- WEB RESOURCES
- DISCUSSION QUESTIONS
- PROBLEMS
- SELF-TEST QUIZ
- SUGGESTED READING
- REFERENCES
- Glossary
- Answersto Self-Test Quizzes
- Author Index
- Subject Index
Product information
- Title: Bioinformatics and Functional Genomics, Second Edition
- Author(s):
- Release date: May 2009
- Publisher(s): Wiley-Blackwell
- ISBN: 9780470085851
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