Grid Computing for Bioinformatics and Computational Biology

✍ Scribed by El-Ghazali Talbi, Albert Y. Zomaya

• Publisher: Wiley-Interscience
• Year: 2007
• Tongue: English
• Leaves: 411
• Series: Wiley Series in Bioinformatics
• Category: Library

✦ Synopsis

The only single, up-to-date source for Grid issues in bioinformatics and biology Bioinformatics is fast emerging as an important discipline for academic research and industrial applications, creating a need for the use of Grid computing techniques for large-scale distributed applications. This book successfully presents Grid algorithms and their real-world applications, provides details on modern and ongoing research, and explores software frameworks that integrate bioinformatics and computational biology. Additional coverage includes: * Bio-ontology and data mining * Data visualization * DNA assembly, clustering, and mapping * Molecular evolution and phylogeny * Gene expression and micro-arrays * Molecular modeling and simulation * Sequence search and alignment * Protein structure prediction * Grid infrastructure, middleware, and tools for bio data Grid Computing for Bioinformatics and Computational Biology is an indispensable resource for professionals in several research and development communities including bioinformatics, computational biology, Grid computing, data mining, and more. It also serves as an ideal textbook for undergraduate- and graduate-level courses in bioinformatics and Grid computing.

✦ Table of Contents

GRID COMPUTING FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY......Page 3
CONTENTS......Page 9
Preface......Page 11
Acknowledgments......Page 13
Contributors......Page 15
1. Open Computing Grid for Molecular Sciences......Page 19
2. Designing High-Performance Concurrent Strategies for Biological Sequence Alignment Problems on Networked Computing Platforms......Page 41
3. Optimized Cluster-Enabled HMMER Searches......Page 69
4. Expanding the Reach of Grid Computing: Combining Globus- and BOINC-Based Systems......Page 89
5. Hierarchical Grid Computing for High-Performance Bioinformatics......Page 105
6. Multiple Sequence Alignment and Phylogenetic Inference......Page 141
7. Data Syndication Techniques for Bioinformatics Applications......Page 175
8. Molecular Docking Using Grid Computing......Page 197
9. Deployment of Grid Life Sciences Applications......Page 217
10. Grid-Based Interactive Decision Support in Biomedicine......Page 243
11. Database-Driven Grid Computing and Distributed Web Applications: A Comparison......Page 265
12. A Semantic Mediation Architecture for a Clinical Data Grid......Page 285
13. Bioinformatics Applications in Grid Computing Environments......Page 319
14. Recent Advances in Solving the Protein Threading Problem......Page 343
15. DNA Fragment Assembly Using Grid Systems......Page 375
16. Seeing Is Knowing: Visualization of Parameter–Parameter Dependencies in Biomedical Network Models......Page 393
Index......Page 407