Control theory and systems biology /
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作 者：edited by Pablo A. Iglesias and Brian P. Ingalls.
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ISBN：9780262013345
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简介
Issues of regulation and control are central to the study of biological and biochemical systems. Thus it is not surprising that the tools of feedback control theory--engineering techniques developed to design and analyze self-regulating systems--have proven useful in the study of these biological mechanisms. Such interdisciplinary work requires knowledge of the results, tools and techniques of another discipline, as well as an understanding of the culture of an unfamiliar research community. This volume attempts to bridge the gap between disciplines by presenting applications of systems and control theory to cell biology that range from surveys of established material to descriptions of new developments in the field. The first chapter offers a primer on concepts from dynamical systems and control theory, which allows the life scientist with no background in control theory to understand the concepts presented in the rest of the book. Following the introduction of ordinary differential equation-based modeling in the first chapter, the second and third chapters discuss alternative modeling frameworks. The remaining chapters sample a variety of applications, considering such topics as quantitative measures of dynamic behavior, modularity, stoichiometry, robust control techniques, and network identification. ContributorsDavid Angeli, Declan G. Bates, Eric Bullinger, Peter S. Chang, Domitilla Del Vecchio, Francis J. Doyle III, Hana El-Samad, Dirk Fey, Rolf Findeisen, Simone Frey, Jorge Gon alves, Pablo A. Iglesias, Brian P. Ingalls, Elling W. Jacobsen, Mustafa Khammash, Jongrae Kim, Eric Klavins, Eric C. Kwei, Thomas Millat, Jason E. Shoemaker, Eduardo D. Sontag, Stephanie R. Taylor, David Thorsley, Camilla Tran , Sean Warnick, Olaf Wolkenhauer
目录
Preface p. vii
1 A Primer on Control Engineering Brian P. Ingalls and Pablo A. Iglesias p. 1
2 Modeling and Analysis of Stochastic Biochemical Networks Mustafa Khammash p. 29
3 Spatial Modeling Pablo A. Iglesias p. 45
4 Quantifying Properties of Cell Signaling Cascades Simone Frey and Olaf Wolkenhauer and Thomas Millat p. 69
5 Control Strategies in Times of Adversity p. 85
How Organisms Survive Stressful Conditions Hana El-Samad
6 Synthetic Biology p. 101
A Systems Engineering Perspective Domitilla Del Vecchio and Eduardo D. Sontag
7 Graphs and the Dynamics of Biochemical Networks David Angeli and Eduardo D. Sontag p. 125
8 A Control-Theoretic Interpretation of Metabolic Control Analysis Brian P. Ingalls p. 145
9 Robustness and Sensitivity Analyses in Cellular Networks Jason E. Shoemaker and Peter S. Chang and Eric C. Kwei and Stephanie R. Taylor and Francis J. Doyle III p. 169
10 Structural Robustness of Biochemical Networks p. 189
Quantifying Robustness and Identifying Fragilities Camilla Trane and Elling W. Jacobsen
11 Robustness of Oscillations in Biological Systems Jongrae Kim and Declan G. Bates p. 225
12 A Theory of Approximation for Stochastic Biochemical Processes David Thorsley and Eric Klavins p. 243
13 System-Theoretic Approaches to Network Reconstruction Jorge Goncalves and Sean Warnick p. 265
14 Identification of Biochemical Reaction Networks Using a Parameter-Free Coordinate System Dirk Fey and Rolf Findeisen and Eric Bullinger p. 297
References p. 317
Contributors p. 335
Index p. 337
1 A Primer on Control Engineering Brian P. Ingalls and Pablo A. Iglesias p. 1
2 Modeling and Analysis of Stochastic Biochemical Networks Mustafa Khammash p. 29
3 Spatial Modeling Pablo A. Iglesias p. 45
4 Quantifying Properties of Cell Signaling Cascades Simone Frey and Olaf Wolkenhauer and Thomas Millat p. 69
5 Control Strategies in Times of Adversity p. 85
How Organisms Survive Stressful Conditions Hana El-Samad
6 Synthetic Biology p. 101
A Systems Engineering Perspective Domitilla Del Vecchio and Eduardo D. Sontag
7 Graphs and the Dynamics of Biochemical Networks David Angeli and Eduardo D. Sontag p. 125
8 A Control-Theoretic Interpretation of Metabolic Control Analysis Brian P. Ingalls p. 145
9 Robustness and Sensitivity Analyses in Cellular Networks Jason E. Shoemaker and Peter S. Chang and Eric C. Kwei and Stephanie R. Taylor and Francis J. Doyle III p. 169
10 Structural Robustness of Biochemical Networks p. 189
Quantifying Robustness and Identifying Fragilities Camilla Trane and Elling W. Jacobsen
11 Robustness of Oscillations in Biological Systems Jongrae Kim and Declan G. Bates p. 225
12 A Theory of Approximation for Stochastic Biochemical Processes David Thorsley and Eric Klavins p. 243
13 System-Theoretic Approaches to Network Reconstruction Jorge Goncalves and Sean Warnick p. 265
14 Identification of Biochemical Reaction Networks Using a Parameter-Free Coordinate System Dirk Fey and Rolf Findeisen and Eric Bullinger p. 297
References p. 317
Contributors p. 335
Index p. 337
Control theory and systems biology /
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