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Ancestral Sequence Reconstruction
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Ancestral Sequence Reconstruction

David A Liberles

Abstract

Ancestral sequence reconstruction is a technique of growing importance in molecular evolutionary biology and comparative genomics. As a powerful tool for testing evolutionary and ecological hypotheses, as well as uncovering the link between sequence and molecular phenotype, there are potential applications in almost all fields of applied molecular biology. This book starts with a historical overview of the field, before discussing the potential applications in drug discovery and the pharmaceutical industry. This is followed by a section on computational methodology, which provides a detailed d ... More

Keywords: sequence-function mapping, substitution, proteome reconstruction, genome, evolution, phylogenetics, bioinformatics, drug discovery, maximum likelihood, parsimony

Bibliographic Information

Print publication date: 2007 Print ISBN-13: 9780199299188
Published to Oxford Scholarship Online: September 2008 DOI:10.1093/acprof:oso/9780199299188.001.0001

Authors

Affiliations are at time of print publication.

David A Liberles, editor
Department of Molecular Biology, University of Wyoming, USA

Contents

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I Introductory scientific overview

CHAPTER 3 Linking sequence to function in drug design with ancestral sequence reconstruction

Janos T. Kodra, Marie Skovgaard, Dennis Madsen, and David A. Liberles

II Computational methodology and concerns

CHAPTER 4 Probabilistic models and their impact on the accuracy of reconstructed ancestral protein sequences

Tal Pupko, Adi Doron-Faigenboim, David A. Liberles, and Gina M. Cannarozzi

CHAPTER 6 Estimating the history of mutations on a phylogeny

Jonathan P. Bollback, Paul P. Gardner, and Rasmus Nielsen

III Computational applications of ancestral sequence reconstruction

CHAPTER 12 Reconstruction of ancestral proteomes

Toni Gabaldón, and Martijn A. Huynen

IV Experimental methodology and concerns

V Experimental synthesis of ancestral proteins to test biological hypotheses

CHAPTER 19 Evolution of specificity and diversity

Denis C. Shields, Catriona R. Johnston, Iain M. Wallace, and Richard J. Edwards

Conclusion and a way forward

David A. Liberles

End Matter