Evolutionary computation in gene regulatory network research / edited by Hitoshi Iba, Nasimul Noman.

Format:

Book

Contributor:

Iba, Hitoshi, editor.

Noman, Nasimul, editor.

Wiley InterScience (Online service)

Rudolph G. Schmieder Fund.

Series:

Wiley series on bioinformatics

Wiley series on bioinformatics : Computational techniques and engineering

Language:

English

Subjects (All):

Genetic regulation--Mathematical models.

Genetic regulation.

Gene regulatory networks--Computer simulation.

Gene regulatory networks.

Genetic algorithms.

Evolutionary computation.

Gene Regulatory Networks.

Computer Simulation.

Computer simulation.

Medical Subjects:

Gene Regulatory Networks.

Computer Simulation.

Physical Description:

1 online resource (xvii, 439 pages.)

Place of Publication:

Hoboken, New Jersey : John Wiley & Sons, Inc., [2016]

System Details:

text file

Summary:

Introducing a handbook for gene regulatory network research using evolutionary computation, with applications for computer scientists, computational and system biologists, This book is a step-by-step guideline for research in gene regulatory networks (GRNs) using evolutionary computation (EC). The book is organized into four parts that deliver materials in a way equally attractive for a reader with training in computation or biology. Each of these sections, authored by well-known researchers and experienced practitioners, provides the relevant materials for the interested readers. The first part of this book contains an introductory background to the field. The second part presents the EC approaches for analysis and reconstruction of GRN from gene expression data. The third part of this book covers the contemporary advancements in the automatic construction of gene regulatory and reaction networks and gives direction and guidelines for future research. Finally, the last part of this book focuses on applications of GRNs with EC in other fields, such as design, engineering and robotics. Provides a reference for current and future research in gene regulatory networks (GRN) using evolutionary computation (EC), Covers sub-domains of GRN research using EC, such as expression profile analysis, reverse engineering, GRN evolution, applications, Contains useful contents for courses in GRNs, systems biology, computational biology, and synthetic biology, Delivers state-of-the-art research in genetic algorithms, genetic programming, and swarm intelligence, Evolutionary Computation in Gene Regulatory Network Research is a reference for researchers and professionals in computer science, systems biology, and bioinformatics, as well as upper undergraduate, graduate, and postgraduate students. Book jacket.

Contents:

I Preliminaries

1 A Brief introduction to Evolutionary and other Nature-Inspired Algorithms / Nasimul Noman Noman, Nasimul, Hitoshi Iba Iba, Hitoshi 3

2 Mathematical Models and Computational Methods for Inference of Genetic Networks / Tatsuya Akutsu Akutsu, Tatsuya 30

3 Gene Regulatory Networks: Real Data Sources and Their Analysis / Yuji Zhang Zhang, Yuji 49

II EAs for Gene Expression Data Analysis and GRN Reconstruction

4 Biclustering Analysis of Gene Expression Data Using Evolutionary Algorithms / Alan Wee-Chung Liew Liew, Alan Wee-Chung 69

5 Inference of Vohradsky's Models of Genetic Networks Using a Real-Coded Genetic Algorithm / Shuhei Kimura Kimura, Shuhei 96

6 GPU-Powered Evolutionary Design of Mass-Action-Based Models of Gene Regulation / Marco S. Nobile Nobile, Marco S., Davide Cipolla Cipolla, Davide, Paolo Cazzaniga Cazzaniga, Paolo, Daniela Besozzi Besozzi, Daniela 118

7 Modeling Dynamic Gene Expression in Streptomyces Coelicotor, Comparing Single and Multi-Objective Setups / Spencer Angus Thomas Thomas, Spencer Angus, Yaochu Jin Jin, Yaochu, Emma Laing Laing, Emma, Colin Smith Smith, Colin 151

8 Reconstruction of Large-Scale Gene Regulatory Network Using S-system Model / Ahsan Raja Chowdhury Chowdhury, Ahsan Raja, Madhu Chetty Chetty, Madhu 185

III EAs for Evolving GRNs and Reaction Networks

9 Design Automation of Nucleic Acid Reaction System Simulated by Chemical Kinetics Based on Graph Rewriting Model / Ibuki Kawamata Kawamata, Ibuki, Masami Hagiya Hagiya, Masami 213

10 Using Evolutionary Algorithms to Study the Evolution of Gene Regulatory Networks Controlling Biological Development / Alexander Spirov Spirov, Alexander, David Holloway Holloway, David 240

11 Evolving GRN-Inspired In Vitro Oscillatory Systems / Quang Huy Dinh Dinh, Quang Huy, Nathanael Aubert Aubert, Nathanael, Nasimul Noman Noman, Nasimul, Hitoshi Iba Iba, Hitoshi, Yannic Rondelez Rondelez, Yannic 269

IV Application of GRN with EAs

12 Artificial Gene Regulatory Networks for Agent Control / Sylvain Cussat-Blanc Cussat-Blanc, Sylvain, Jean Disset Disset, Jean, Stéphane Sanchez Sanchez, Stéphane, Yves Duthen Duthen, Yves 301

13 Evolving H-GRNs for Morphogenetic Adaptive Pattern Formation of Swarm Robots / Hyondong Oh Oh, Hyondong, Yaochu Jin Jin, Yaochu 327

14 Regulatory Representations in Architectural Design / Daniel Richards Richards, Daniel, Martyn Amos Amos, Martyn 362

15 Computing with Artificial Gene Regulatory Networks / Michael A. Lones Lones, Michael A. 398.

Notes:

Includes bibliographical references and index.

Electronic reproduction. Hoboken, N.J. Available via World Wide Web.

Description based on print version record.

Local Notes:

Acquired for the Penn Libraries with assistance from the Rudolph G. Schmieder Fund.

Other Format:

Online version: Evolutionary computation in gene regulatory network research

ISBN:

9781119079453

1119079454

Publisher Number:

99967464222

Access Restriction:

Restricted for use by site license.