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Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, 4th Edition




Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, 4th Edition

Andreas D. Baxevanis, Gary Bader, David Wishart

ISBN: 978-1-119-33558-0 February 2020 648 Pages

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This fully revised Forth Edition to a best-selling resource provides the reader with a hands-on guide to computational biology, primarily in the area of sequence analysis. The subject matter will cover a broad spectrum of concepts in bioinformatics, beginning with an overview of biological databases and ending with a series of chapters on predictive and comparative algorithms. Using relevant biological examples, the book will provide background on and strategies for using many of the most powerful and commonly-used algorithms for sequence-based discovery. Given the explosion in the number of organisms whose genomes have been sequenced over the last several years, the emergence of new types of data sets (particularly those derived using next-generation sequencing technologies), and increasing emphasis on being able to make effective use of “big data”, the book is both timely and important to investigators in molecular biology and related fields.

With a full-color, enlarged page design, this edition offers the most readable, up-to-date, and thorough introduction to the field for biologists. The new “Foundations” section insures that readers have a firm understanding of the technologies that generate the data, as well as the essential statistical and programming tools. Features include special boxes, enhanced use of real examples, and problem sets with answers provided on the book's dedicated website ( A glossary and appendix of sample file formats rounds out the book's reader-friendly, 'hands-on' treatment.




Chapter 1 Biological Sequence Databases
Andreas D. Baxevani

Chapter 2 Information Retrieval from Biological Databases
Andreas D. Baxevanis

Chapter 3 Assessing Pairwise Sequence Similarity: BLAST and FASTA
Andreas D. Baxevanis

Chapter 4 Genome Browsers
Tyra G. Wolfsberg

Chapter 5 Genome Annotation
David S. Wishart

Chapter 6 Predictive Methods Using RNA Sequences
Michael F. Sloma, Michael Zuker, and David H. Mathews

Chapter 7 Predictive Methods Using Protein Sequences
Jonas Reeb, Tatyana Goldberg, Yanay Ofran, and Burkhard Rost

Chapter 8 Multiple Sequence Alignments
Fabian Sievers, Geoffrey J. Barton, and Desmond G. Higgins

Chapter 9 Molecular Evolution and Phylogenetic Analysis
Emma J. Griffiths and Fiona S.L. Brinkman

Chapter 10 Expression Analysis
Marieke L. Kuijjer, Joseph N. Paulson, and John Quackenbush

Chapter 11 Proteomics and Protein Identification by Mass Spectrometry
Sadhna Phanse and Andrew Emili

Chapter 12 Protein Structure Prediction and Analysis
David S. Wishart

Chapter 13 Biological Networks and Pathways
Gary D. Bader

Chapter 14 Metabolomics
David S. Wishart

Chapter 15 Population Genetics
Lynn B. Jorde and W. Scott Watkins

Chapter 16 Metagenomics and Microbial Community Analysis
Robert G. Beiko

Chapter 17 Translational Bioinformatics
Sean D. Mooney and Stephen J. Mooney

Chapter 18 Statistical Methods for Biologists
Hunter N.B. Moseley

Appendix 1 Dynamic Programming
Michael F. Sloma, Michael Zuker, and David H. Mathews