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E-raamat: Computational Intelligence and Pattern Analysis in Biology Informatics

(New Jersey Institute of Technology, NJ), (Indian Statistical Institute), Series edited by (University of Western Australia), (Jadavpur University, India), Series edited by (Department of Computer Science, Georgia State University)
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"Computational Intelligence (CI) is a successor of artificial intelligence combining elements of learning, adaptation, evolution and logic to create programs that are, in some sense, intelligent. CI exhibits an ability to learn or deal with new situations, such that the system is perceived to possess one or more attributes of reason. The different methodologies in CI work synergistically and provide, in one form or another, flexible information processing capabilities for handling a huge volume of real life data with noises, ambiguity, and missing values. Solving problems often involves search for useful regularities or patterns in large amounts of data. A typical characteristic of biological data is high dimensionality with low sample size. This poses grand challenges to traditional pattern analysis techniques, necessitating the development of sophisticated approaches--Provided by publisher.

In the field of biological informatics, new methods of data collection that gather huge amounts of data and produce new data types have spurred advanced methods of searching for useful regularities or patterns in these data sets. Of these methods, computational intelligence has found particular favor among researchers. This book synthesizes current research in the integration of computational intelligence and pattern analysis techniques.

Computational Intelligence and Pattern Analysis in Biological Informatics brings together research articles by active practitioners, reporting recent advances in integrating computational intelligence and pattern analysis techniques for analyzing biological data in order to extract more meaningful information and insights from them. It covers highly relevant topics, including rational drug design and the involvement of microRNAs in human diseases.

Packed with theoretical and experimental results, Computational Intelligence and Pattern Analysis in Biological Informatics deepens the understanding of the ways in which the basic principles of computational intelligence and pattern analysis can be used for analyzing biological data in an efficient manner. Graduate students and researchers in computer science, bioinformatics, computational and molecular biology, biochemistry, systems science, and information technology will find this unique volume a valuable tool.



An invaluable tool in Bioinformatics, this unique volume provides both theoretical and experimental results, and describes basic principles of computational intelligence and pattern analysis while deepening the reader's understanding of the ways in which these principles can be used for analyzing biological data in an efficient manner.

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.

Arvustused

"This collection of 16 papers, edited by Maulik (computer science and engineering, Jadavpur U., India), Bandyopadhyay (Indian Statistical Institute, India), and Wang (data and knowledge engineering, New Jersey Institute of Technology, US), brings together contributions from practitioners integrating computational intelligence and pattern analysis techniques for analyzing biological data, including sequence, structure, and microarray data. The material is organized into five sections that explore basic principles and methodologies of computational techniques, applications of computational intelligence and pattern analysis for biological sequence analysis, structural analysis; microarray data analysis, and systems biology." (Reference and Research Book News, February 2011)

Preface xi
Contributors xvii
PART I INTRODUCTION
1 Computational Intelligence: Foundations, Perspectives, and Recent Trends
3(36)
Swagatam Das
Ajith Abraham
B. K. Panigrahi
2 Fundamentals of Pattern Analysis: A Brief Overview
39(20)
Basabi Chakraborty
3 Biological Informatics: Data, Tools, and Applications
59(14)
Kevin Byron
Miguel Cervantes-Cervantes
Jason T. L. Wang
PART II SEQUENCE ANALYSIS
4 Promoter Recognition Using Neural Network Approaches
73(26)
T. Sobha Rani
S. Durga Bhavani
S. Bapi Raju
5 Predicting microRNA Prostate Cancer Target Genes
99(20)
Francesco Masulli
Stefano Rovetta
Giuseppe Russo
PART III STRUCTURE ANALYSIS
6 Structural Search in RNA Motif Databases
119(12)
Dongrong Wen
Jason T. L. Wang
7 Kernels on Protein Structures
131(38)
Sourangshu Bhattacharya
Chiranjib Bhattacharyya
Nagasuma R. Chandra
8 Characterization of Conformational Patterns in Active and Inactive Forms of Kinases using Protein Blocks Approach
169(20)
G. Agarwal
D. C. Dinesh
N. Srinivasan
Alexandre G. de Brevern
9 Kernel Function Applications in Cheminformatics
189(48)
Aaron Smalter
Jun Huan
10 In Silico Drug Design Using a Computational Intelligence Technique
237(22)
Soumi Sengupta
Sanghamitra Bandyopadhyay
PART IV MICROARRAY DATA ANALYSIS
11 Integrated Differential Fuzzy Clustering for Analysis of Microarray Data
259(18)
Indrajit Saha
Ujjwal Maulik
12 Identifying Potential Gene Markers Using SVM Classifier Ensemble
277(16)
Anirban Mukhopadhyay
Ujjwal Maulik
Sanghamitra Bandyopadhyay
13 Gene Microarray Data Analysis Using Parallel Point Symmetry-Based Clustering
293(16)
Ujjwal Maulik
Anasua Sarkar
PART V SYSTEMS BIOLOGY
14 Techniques for Prioritization of Candidate Disease Genes
309(16)
Jieun Jeong
Jake Y. Chen
15 Prediction of Protein-Protein Interactions
325(24)
Angshuman Bagchi
16 Analyzing Topological Properties of Protein-Protein Interaction Networks: A Perspective Toward Systems Biology
349(20)
Malay Bhattacharyya
Sanghamitra Bandyopadhyay
Index 369
Dr. Ujjwal Maulik is Professor of Computer Science and Engineering at Jadavpur University (India). He is the editor or author of five books and coauthor of more than 150 articles. Dr. Maulik is a Senior Member of IEEE and also a Humboldt Fellow.

Dr. Sanghamitra Bandyopadhyay is Professor at the Indian Statistical Institute. She is the editor or author of six books and coauthor of more than 180 articles. Dr. Bandyopadhyay is a Senior Member of IEEE and also a Humboldt Fellow.

Dr. Jason T. L. Wang is a Professor and Director of the Data and Knowledge Engineering Lab at the New Jersey Institute of Technology. He is the editor or author of six books and Executive Editor of the World Scientific Book Series on Science, Engineering, and Biology Informatics.