Sequence Alignment: Methods, Models, Concepts, and Strategies / Edition 1

Sequence Alignment: Methods, Models, Concepts, and Strategies / Edition 1

by Michael S. Rosenberg
     
 

ISBN-10: 0520256972

ISBN-13: 9780520256972

Pub. Date: 03/11/2009

Publisher: University of California Press

The sequencing of the human genome involved thousands of scientists but used relatively few tools. Today, obtaining sequences is simpler, but aligning the sequences—making sure that sequences from one source are properly compared to those from other sources—remains a complicated but underappreciated aspect of comparative molecular biology. This volume,

Overview

The sequencing of the human genome involved thousands of scientists but used relatively few tools. Today, obtaining sequences is simpler, but aligning the sequences—making sure that sequences from one source are properly compared to those from other sources—remains a complicated but underappreciated aspect of comparative molecular biology. This volume, the first to focus on this crucial step in analyzing sequence data, is about the practice of alignment, the procedures by which alignments are established, and more importantly, how the outcomes of any alignment algorithm should be interpreted. Edited by Michael S. Rosenberg with essays by many of the field's leading experts, Sequence Alignment covers molecular causes, computational advances, approaches for assessing alignment quality, and philosophical underpinnings of the algorithms themselves.

Product Details

ISBN-13:
9780520256972
Publisher:
University of California Press
Publication date:
03/11/2009
Pages:
360
Product dimensions:
5.90(w) x 9.10(h) x 1.10(d)

Table of Contents

Contributors
Preface
1. Sequence Alignment: Concepts and History
2.
Insertion and Deletion Events, Their Molecular Mechanisms, and Their Impact on Sequence Alignments
3. Local versus Global Alignments
4. Computing Multiple Sequence Alignment with Template-Based Methods
5. Sequence Evolution Models for Simultaneous Alignment and Phylogeny Reconstruction
6. Phylogenetic Hypotheses and the Utility of Multiple Sequence Alignment
7. Structural and Evolutionary Considerations for Multiple Sequence Alignment of RNA, and the Challenges for Algorithms That Ignore Them
8. Constructing Alignment Benchmarks
9. Simulation Approaches to Evaluating Alignment Error and Methods for Comparing Alternate Alignments
Contents
10. Robust
Inferences from Ambiguous Alignments
11. Strategies for Efficient Exploitation of the Informational Content of Protein Multiple Alignments
References

Index

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