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Ujjwal Maulik, Sanghamitra Bandyopadhyay, Jason T. L. Wang (eds.)Computational Intelligence and Pattern Analysis in Biological Informatics
Wiley, November 2010, ISBN 978-0-470-58159-9
Also web.njit.edu/~wangj/publications/cipabio.html
This book synthesizes current research in the integration of computational intelligence and pattern analysis techniques, either individually or in a hybridized manner. The purpose is to analyze biological data and enable extraction of more meaningful information and insight from it. Biological data for analysis include sequence data, secondary and tertiary structure data, and microarray data. These data types are complex and advanced methods are required, including the use of domain-specific knowledge for reducing search space, dealing with uncertainty, partial truth and imprecision, efficient linear and/or sub-linear scalability, incremental approaches to knowledge discovery, and increased level and intelligence of interactivity with human experts and decision makers
- Chapters authored by leading researchers in CI in biology informatics.
- Covers highly relevant topics: rational drug design; analysis of microRNAs and their involvement in human diseases.
- Supplementary material included: program code and relevant data sets correspond to chapters.
PART I: INTRODUCTION
Chapter 1. Swagatam Das, Ajith Abraham, B. K. Panigrahi: Computational Intelligence: Foundations, Perspectives, and Recent Trends. 3-37.
Chapter 2. Basabi Chakraborty: Fundamentals of Pattern Analysis: A Brief Overview. 39-58.
Chapter 3. Kevin Byron, Miguel Cervantes-Cervantes, Jason T. L. Wang: Biological Informatics: Data, Tools, and Applications. 59-69.
PART II: SEQUENCE ANALYSIS
Chapter 4. T. Sobha Rani, S. Durga Bhavani, S. Bapi Raju: Promoter Recognition Using Neural Network Approaches. 73-97.
Chapter 5. Francesco Masulli, Stefano Rovetta, Giuseppe Russo: Predicting microRNA Prostate Cancer Target Genes. 99-115.
PART III: STRUCTURE ANALYSIS
Chapter 6. Dongrong Wen, Jason T. L. Wang: Structural Search in RNA Motif Databases. 119-130.
Chapter 7. Sourangshu Bhattacharya, Chiranjib Bhattacharyya, Nagasuma R. Chandra: Kernels on Protein Structures. 131-167.
Chapter 8. G. Agarwal, D. C. Dinesh, N. Srinivasan, Alexandre G. de Brevern: Characterization of Conformational Patterns in Active and Inactive Forms of Kinases using Protein Blocks Approach. 169-187.
Chapter 9. Aaron Smalter, Jun Huan: Kernel Function Applications in Cheminformatics. 189-235.
Chapter 10. Soumi Sengupta, Sanghamitra Bandyopadhyay: In Silico Drug Design Using a Computational Intelligence Technique. 237-256.
PART IV: MICROARRAY DATA ANALYSIS
Chapter 11. Indrajit Saha, Ujjwal Maulik: Integrated Differential Fuzzy Clustering for Analysis of Microarray Data. 259-276.
Chapter 12. Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay: Identifying Potential Gene Markers Using SVM Classifier Ensemble. 277-291.
Chapter 13. Ujjwal Maulik, Anasua Sarkar: Gene Microarray Data Analysis Using Parallel Point Symmetry-Based Clustering. 293-306.
PART V: SYSTEMS BIOLOGY
Chapter 14. Jieun Jeong, Jake Y. Chen: Techniques for Prioritization of Candidate Disease Genes. 309-324.
Chapter 15. Angshuman Bagchi: Prediction of Protein-Protein Interactions. 325-347.
Chapter 16. Malay Bhattacharyya, Sanghamitra Bandyopadhyay: Analyzing Topological Properties of Protein-Protein Interaction Networks: A Perspective Toward Systems Biology. 349-368.