Data Analysis in Molecular Biology and Evolution / Edition 1

by Xuhua Xia

Overview

Data Analysis in Molecular Biology and Evolution introduces biologists to DAMBE, a proprietary, user-friendly computer program for molecular data analysis. The unique combination of this book and software will allow biologists not only to understand the rationale behind a variety of computational tools in molecular biology and evolution, but also to gain instant access to these tools for use in their laboratories. Data Analysis in Molecular Biology and Evolution serves as an excellent resource for advanced level undergraduates or graduates as well as for professionals working in the field.

Product Details

ISBN-13:	9780792375005
Publisher:	Springer US
Publication date:	09/30/2001
Edition description:	2000
Pages:	280
Product dimensions:	6.10(w) x 9.25(h) x 0.03(d)

About the Author

Dr. Xuhua Xia is affiliated with the University of Hong Kong and specializes in bioinformatics.

Table of Contents

Acknowledgements. Preface. 1. Installation of DAMBE and a Quick Start. 2. File Conversion. 3. Processing GenBank Files. 4. Accessing GenBank or Networked Computers. 5. Pair-wise and Multiple Sequence Alignment. 6. Factors Affecting Nucleotide Frequencies. 7. Case Study 1: arthropod phylogeny. 8. Factors Affecting Codon Frequencies. 9. Case Study 2: Transcription and codon usage bias. 10. Case Study 3: Translation and codon usage bias. 11. Evolution of Amino Acid Usage. 12. Pattern of Nucleotide Substitutions. 13. Preamble to the Pattern of Codon Substitution. 14. Factors Affecting Codon Substitutions. 15. Case Study 4: Transition bias. 16. Substitution Pattern in Amino Acid Sequences. 17. A Statistical Digression. 18. Theoretical Background of Genetic Distances. 19. Molecular Phylogenetics: Concepts and Practice. 20. Testing the Molecular Clock Hypothesis. 21. Testing Phylogenetic Hypotheses. 22. Fitting Probability Distributions. Literature Cited. Index.

Editorial Reviews

Xia (bioinformatics, University of Hong Kong) provides an introduction to DAMBE, a proprietary, user-friendly computer program for molecular data analysis. He covers routine techniques for retrieving, manipulating, converting, organizing, and aligning molecular sequence data; introduces the concept of a substitutdion model with two categories of parameters<-->frequency parameters and rate ratio parameters; covers the fundamentals of comparative sequence analysis; and addresses some advanced topics such as phylogenetic reconstruction, testing alternative phylogenetic hypotheses, and fitting discrete and continuous probability distributions to substitution data. Two-thirds of the book is suitable for an undergraduate course in molecular biology and evolution; the other third ranges from graduate level to professional. Annotation c. Book News, Inc., Portland, OR (booknews.com)

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