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Analysis of Biological Data
A Soft Computing Approach



Edited by

Sanghamitra Bandyopadhyay
Ujjwal Maulik
Jason T. L. Wang

World Scientific Publishing Co., 2007, ISBN 981-270-780-8

Table of Contents at World Scientific

Part I: Overview
  • Chapter 1. Bioinformatics: Mining the Massive Data from High Throughput Genomics Experiments; Haixu Tang, Sun Kim (USA), 3 - 24.
  • Chapter 2. An Introduction to Soft Computing; Amit Konar, Swagatam Das (India), 25 - 56.

Part II: Biological Sequence and Structure Analysis

  • Chapter 3. Reconstructing Phylogenies with Memetic Algorithms and Branch-and-Bound; Jose E. Gallardo, Carlos Cotta, Antonio J. Fernandez (Spain), 59 - 84.
  • Chapter 4. Classification of RNA Sequences with Support Vector Machines; Jason T. L. Wang, Xiaoming Wu (USA), 85 - 108.
  • Chapter 5. Beyond String Algorithms: Protein Sequence Analysis Using Wavelet Transforms; Arun Krishnan, Kuo-Bin Li (Japan, Taiwan), 109 - 131.
  • Chapter 6. Filtering Protein Surface Motifs Using Negative Instances of Active Sites Candidates; Nripendra L. Shrestha, Takenao Ohkawa (Japan), 133 - 152.
  • Chapter 7. Distill: A Machine Learning Approach to Ab Initio Protein Structure Prediction; Gianluca Pollastri, Davide Bau, Alessandro Vullo (Ireland), 153 - 181.
  • Chapter 8. In Silico Design of Ligands Using Properties of Target Active Sites; Sanghamitra Bandyopadhyay, Santanu Santra, Ujjwal Maulik, Heinz Muehlenbein (India, Germany), 183 - 201.

Part III: Gene Expression and Microarray Data Analysis

  • Chapter 9. Inferring Regulations in a Genomic Network from Gene Expression Profiles; Nasimul Noman, Hitoshi Iba (Japan), 205 - 229.
  • Chapter 10. A Reliable Classification of Gene Clusters for Cancer Samples Using a Hybrid Multi-Objective Evolutionary Procedure; Kalyanmoy Deb, A. Raji Reddy, Shamik Chaudhuri (India), 231 - 257.
  • Chapter 11. Feature Selection for Cancer Classification Using Ant Colony Optimization and Support Vector Machines; A. Gupta, V. K. Jayaraman, B. D. Kulkarni (India), 259 - 280.
  • Chapter 12. Sophisticated Methods for Cancer Classification Using Microarray Data; Sung-Bae Cho, Han-Saem Park (Korea), 281 - 302.
  • Chapter 13. Multiobjective Evolutionary Approach to Fuzzy Clustering of Microarray Data; Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay (India), 303 - 328.

Index, 329 - 332.

If you have questions, have found bugs or typos, or want to comment on the presentation or content of the book, please send email to wangj@njit.edu.