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Multiple Sequence Alignment Methods By David J Russell

Multiple Sequence Alignment Methods by David J Russell

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Summary

From basic performing of sequence alignment through a proficiency at understanding how most industry-standard alignment algorithms achieve their results, Multiple Sequence Alignment Methods describes numerous algorithms and their nuances in chapters written by the experts who developed these algorithms.

This book will be specially printed for your order, which means it may take a little longer to arrive (5 days). We do this to cut down on waste & to help protect our planet.

Multiple Sequence Alignment Methods Summary

Multiple Sequence Alignment Methods by David J Russell

From basic performing of sequence alignment through a proficiency at understanding how most industry-standard alignment algorithms achieve their results, Multiple Sequence Alignment Methods describes numerous algorithms and their nuances in chapters written by the experts who developed these algorithms. The various multiple sequence alignment algorithms presented in this handbook give a flavor of the broad range of choices available for multiple sequence alignment generation, and their diversity is a clear reflection of the complexity of the multiple sequence alignment problem and the amount of information that can be obtained from multiple sequence alignments. Each of these chapters not only describes the algorithm it covers but also presents instructions and tips on using their implementation, as is fitting with its inclusion in the highly successful Methods in Molecular Biology series.

Authoritative and practical, Multiple Sequence Alignment Methods provides a readily available resource which will allow practitioners to experiment with different algorithms and find the particular algorithm that is of most use in their application.

Table of Contents

Part I: Theory

1. Dynamic Programming

OE. Ufuk Nalbantoglu

2. Heuristic Alignment Methods

Osamu Gotoh

3. Objective Functions

Haluk Dogan and Hasan H. Otu

4. An Appraisal of Benchmarks for Multiple Sequence Alignment

Stefano Iantorno, Kevin Gori, Nick Goldman, Manuel Gil, and Christophe Dessimoz

5. BLAST and FASTA Similarity Searching for Multiple Sequence Alignment

William R. Pearson

Part II: Alignment Techniques

6. Clustal Omega, Accurate Alignment of Very Large Numbers of Sequences

Fabian Sievers and Desmond G. Higgins

7. T-COFFEE: Tree-Based Consistency Objective Function for Alignment Evaluation

Cedrik Magis, Jean-Francois Taly, Giovanni Bussotti, Jia-Ming Chang, Paolo Di Tommaso, Ionas Erb, Jose Espinosa-Carrasco, and Cedric Notredame

8. MAFFT: Iterative Refinement and Additional Methods

Kazutaka Katoh and Daron M. Standley

9. Multiple Sequence Alignment Using Probcons and Probalign

Usman Roshan

10. Phylogeny-Aware Alignment with PRANK

Ari Loeytynoja

11. GramAlign: Fast Alignment Driven by Grammar-Based Phylogeny

David J. Russell

12. Multiple Sequence Alignment with DIALIGN

Burkhard Morgenstern

13. PicXAA: A Probabilistic Scheme for Finding the Maximum Expected Accuracy Alignment of Multiple Biological Sequences

Sayed Mohammad Ebrahim Sahraeian, and Byung-Jun Yoon

14. Multiple Protein Sequence Alignment with MSAProbs

Yongchao Liu and Bertil Schmidt

15. Large-Scale Multiple Sequence Alignment and Tree Estimation Using SATe

Kevin Liu and Tandy Warnow

16. PRALINE: A Versatile Multiple Sequence Alignment Toolkit

Punto Bawono and Jaap Heringa

17. PROMALS3D: Multiple Protein Sequence Alignment Enhanced with Evolutionary and 3-Dimensional Structural Information

Jimin Pei and Nick V. Grishin

18. MSACompro: Improving Multiple Protein Sequence Alignment by Predicted Structural Features

Xin Deng and Jianlin Cheng

Additional information

NLS9781493960477
9781493960477
1493960474
Multiple Sequence Alignment Methods by David J Russell
New
Paperback
Humana Press Inc.
2016-08-23
287
N/A
Book picture is for illustrative purposes only, actual binding, cover or edition may vary.
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