Introduction to Systems Biology / Edition 1

Introduction to Systems Biology / Edition 1

by Sangdun Choi
Pub. Date:
Springer-Verlag New York, LLC


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Introduction to Systems Biology / Edition 1

This book provides basic explanation of how to use computational methods to explain underlying biological meanings. It is an introduction into state-of-the-art systems biology, and contains typical approaches to experimental design, both wet-lab and computational.

Product Details

ISBN-13: 9781617377297
Publisher: Springer-Verlag New York, LLC
Publication date: 12/10/2010
Edition description: Softcover reprint of hardcover 1st ed. 2007
Pages: 542
Product dimensions: 7.01(w) x 10.00(h) x 0.39(d)

Table of Contents

Title: Introduction to Systems Biology

Table of Contents

I. Introduction

1. Scientific Challenges in Systems Biology
- Hiroaki Kitano

2. Bringing Genomes to Life: The Use of Genome-Scale in silico Models
- Ines Thiele and Bernhard O. Palsson

3. From Gene Expression to Metabolic Fluxes
- Ana Paula Oliveira, Michael C. Jewett and Jens Nielsen

II. Experimental Techniques for Systems Biology

4. Handling and Interpreting Gene Groups
- Nils Blüthgen, Szymon M. Kielbasa, and Dieter Beule

5. The Dynamic Transcriptome of Mice
- Yuki Hasegawa and Yoshihide Hayashizaki

6. Dissecting Transcriptional Control Networks
- Vijayalakshmi H. Nagaraj and Anirvan M. Sengupta

7. Reconstruction and Structural Analysis of Metabolic and Regulatory
- Hong-wu Ma, Marcio Rosa Da Silva, Ji-Bin Sun, Bharani Kumar, and
An-Ping Zeng

8. Cross-Species Comparison Using Expression Data
- Gaëlle Lelandais and Stéphane Le Crom

9. Methods for Protein-Protein Interaction Analysis
- Keiji Kito and Takashi Ito

10. Genome-Scale Assessment of Phenotypic Changes during Adaptive
- Stephen S. Fong

11. Location Proteomics
- Ting Zhao, Shann-Ching Chen, and Robert F. Murphy

III. Theoretical and Modeling Techniques

12. Reconstructing Transcriptional Networks using Gene Expression
Profiling and Bayesian State Space Models
- Matthew J. Beal, Juan Li, Zoubin Ghahramani, and David L. Wild

13. Modeling Spatiotemporal Dynamics of Multicellular Signaling
- Hao Zhu and Pawan K Dhar

14. Kinetics of Dimension Restricted Conditions
- Noriko Hiroi and Akira Funahashi

15. Mechanisms Generating Ultrasensitivity, Bistability and
Oscillations in Signal Transduction
- Nils Blüthgen, Stefan Legewie, Hanspeter Herzel, and Boris Kholodenko

16. Employing Systems Biology to Quantify ReceptorTyrosine Kinase
Signaling in Time and Space
- Boris N. Kholodenko

17. Dynamic Instabilities within Living Neutrophils
- Howard R. Petty, Roberto Romero, Lars F. Olsen, and Ursula Kummer

18. Efficiency, Robustness and Shasticity of Gene Regulatory
Networks in Systems Biology: ˜ Switch as a Working Example
- Xiaomei Zhu, Lan Yin, Leroy Hood, David Galas, and Ping Ao

19. Applications, Representation and Management of Signaling Pathway
Information: Introduction to the SigPath Project
- Eliza Chan and Fabien Campagne

IV. Methods and Software Platforms for Systems Biology

20. SBML Models and MathSBML
- Bruce E. Shapiro, Andrew Finney, Michael Hucka, Benjamin Bornstein,
Akira Funahashi, Akiya Jouraku, Sarah M. Keating, Nicolas Le Novère,
Joanne Matthews, and Maria J. Schilstra

21. CellDesigner: A Graphical Biological Network Editor and Workbench
Interfacing Simulator
- Akira Funahashi, Mineo Morohashi, Yukiko Matsuoka, Akiya Jouraku, and
Hiroaki Kitano

22. DBRF-MEGN Method: An Algorithm for Inferring Gene Regulatory
Networks from Large-Scale Gene Expression Profiles
- Koji Kyoda and Shuichi Onami

23. Systematic Determination of Biological Network Topology:
Non-Integral Connectivity Method (NICM)
- Kumar Selvarajoo and Masa Tsuchiya

24. Storing, Searching and Disseminating Experimental Proteomics Data
- Norman W. Paton, Andrew R. Jones, Chris Garwood, Kevin Garwood, and
Stephen Oliver

25. Representing and Analyzing Biochemical Networks using BioMaze
- Yves Deville, Christian Lemer, and Shoshana Wodak

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