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Modeling Biomolecular Networks in Cells

Structures and Dynamics

  • Book
  • © 2010

Overview

Authors:
  1. Luonan Chen

    1. Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China

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  2. Ruiqi Wang

    1. Institute of Systems Biology, Shanghai University, Shanghai, China

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  3. Chunguang Li

    1. Department of Information Science and Electronic Engineering, Zhejiang University, Hangzhou, China

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  4. Kazuyuki Aihara

    1. University of Tokyo, Tokyo, Japan

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  • Shows the reader how nature has often evolved different more efficient solutions from those produced by traditional human approaches to circuits and systems

  • Gives the reader mathematical tools to produce simplified models of molecular networks and interactions

  • Demonstrates how simple biological systems can be synthesised with controllable properties facilitating their use in novel forms of electronics

  • Includes supplementary material: sn.pub/extras

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Table of contents (8 chapters)

  1. Front Matter

    Pages i-xii
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  2. Introduction

    Pages 1-30

  3. Dynamical Representations of Molecular Networks

    Pages 31-100

  4. Deterministic Structures of Biomolecular Networks

    Pages 101-123

  5. Qualitative Analysis of Deterministic Dynamical Networks

    Pages 125-158

  6. Stability Analysis of Genetic Networks in Lur’e Form

    Pages 159-177

  7. Design of Synthetic Switching Networks

    Pages 179-216

  8. Design of Synthetic Oscillating Networks

    Pages 217-265

  9. Multicellular Networks and Synchronization

    Pages 267-324

  10. Back Matter

    Pages 325-343
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Keywords

About this book

Modeling Biomolecular Networks in Cells shows how the interaction between the molecular components of basic living organisms can be modelled mathematically and the models used to create artificial biological entities within cells. Such forward engineering is a difficult task but the nonlinear dynamical methods espoused in this book simplify the biology so that it can be successfully understood and the synthesis of simple biological oscillators and rhythm-generators made feasible. Such simple units can then be co-ordinated using intercellular signal biomolecules. The formation of such man-made multicellular networks with a view to the production of biosensors, logic gates, new forms of integrated circuitry based on "gene-chips" and even biological computers is an important step in the design of faster and more flexible "electronics". The book also provides theoretical frameworks and tools with which to analyze the nonlinear dynamical phenomena which arise from the connection of building units in a biomolecular network.

Authors and Affiliations

  • Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China

    Luonan Chen

  • Institute of Systems Biology, Shanghai University, Shanghai, China

    Ruiqi Wang

  • Department of Information Science and Electronic Engineering, Zhejiang University, Hangzhou, China

    Chunguang Li

  • University of Tokyo, Tokyo, Japan

    Kazuyuki Aihara

About the authors

Luonan Chen received his M.E. and Ph.D. degrees in electrical engineering from Tohoku University, Sendai, Japan, in 1988 and 1991, respectively. From 1997, he was a member of the faculty of Osaka Sangyo University, Osaka, Japan, and then became a full Professor in the Department of Electrical Engineering and Electronics. He was also the founding director of Institute of Systems Biology, Shanghai University. Since 2010, he has been a professor at Key Laboratory of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences. His fields of interest are systems biology, bioinformatics, and nonlinear dynamics. He serves as associate editor or editorial board member for many systems biology related journals, e.g. BMC Systems Biology, IEEE/ACM Trans. on Computational Biology and Bioinformatics, IET Systems Biology, Mathematical Biosciences, International Journal of Systems and Synthetic Biology, and the Journal of Systems Science and Complexity. He also serves as Chair of Technical Committee of Systems Biology at the IEEE SMC Society. Ruiqi Wang received an M.S. degree in mathematics from Yunnan University, Kunming, China, in 1999, and a Ph. D. degree in mathematics from the Academy of Mathematics and Systems Science, CAS, Beijing, China, in 2002. Since 2007, he has been a member of the faculty of Shanghai University, Shanghai, China, where he is currently an Associate Professor at Institute of Systems Biology. His fields of interest are systems biology and nonlinear dynamics. Chunguang Li received an M.S. degree in Pattern Recognition and Intelligent Systems and a Ph.D. degree in Circuits and Systems from the University of Electronic Science and Technology of China, Chengdu, China, in 2002 and 2004, respectively. Currently, he is a Professor with the Department of Information Science and Electronic Engineering, Zhejiang University, Hangzhou, China. His current research interests include computational neuroscience, statistical signal processing, and machine intelligence. Kazuyuki Aihara received a B.E. degree of electrical engineering in 1977 and a Ph.D. degree of electronic engineering 1982 from the University of Tokyo, Japan. Currently, he is Professor of the Institute of Industrial Science, Professor of the Graduate School of Information Science and Technology, and Director of Collaborative Research Center for Innovative Mathematical Modelling at the University of Tokyo. His research interests include mathematical modeling of complex systems, parallel distributed processing with spatio-temporal chaos, and time series analysis of complex data.

Bibliographic Information

  • Book Title: Modeling Biomolecular Networks in Cells

  • Book Subtitle: Structures and Dynamics

  • Authors: Luonan Chen, Ruiqi Wang, Chunguang Li, Kazuyuki Aihara

  • DOI: https://doi.org/10.1007/978-1-84996-214-8

  • Publisher: Springer London

  • eBook Packages: Engineering, Engineering (R0)

  • Copyright Information: Springer-Verlag London 2010

  • Hardcover ISBN: 978-1-84996-213-1Published: 15 July 2010

  • Softcover ISBN: 978-1-4471-5736-6Published: 04 November 2014

  • eBook ISBN: 978-1-84996-214-8Published: 05 July 2010

  • Edition Number: 1

  • Number of Pages: XII, 343

  • Topics: Biomedical Engineering and Bioengineering

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