Methods in Bioengineering header
View Series titlesPreview Series pagesView title contents
spacer
Meet the Editors image Meet the
Editors
spacer
spacer
Meet our Series Editors in Chief , Martin L. Yarmush and Robert S. Langer, and read our Methods in Bioengineering Series description. spacer
spacer spacer
Meet the Editors spacer
spacer
Preview Series Pages image Preview
Series Pages
spacer
spacer
Get a glimpse of what makes the Methods in Bioengineering Series so unique: consistent presentation of step-by step laboratory instructions with full-color images and supporting text. spacer
spacer spacer
Preview series pages spacer
spacer
Series Savings image Series
Savings
Save! spacer
spacer
View current savings offers on book titles in the Methods in Bioengineering Series. spacer
spacer spacer
View series savings spacer
spacer
Series Alerts image Sign up for
Series Alerts
spacer
spacer
Enter your email address below and be among the first to learn about new titles in the Methods in Bioengineering Series. spacer
spacer spacer
Email address:
Your name:
 

Chapter Contents
spacer
Book Title: Methods in Bioengineering: Systems Analysis of Biological Networks
Editors: Arul Jayaraman and Juergen Hahn, Texas A&M University
Chapter Contents: CH1-2 | CH3-4 | CH5-6 | CH7-8 | CH9-10 | CH11-12 | CH13-14
Jayaraman book cover
Methods in Bioengineering: Systems Analysis of Biological Networks
Arul Jayaraman and Juergen Hahn, Texas A&M University
ISBN: 978-1-59693-406-1
Copyright: 2009
Pages: 330
Price: $129/£79
spacer spacer

Chapter 7
Modeling the Dynamics of Cellular Networks

7.1. spacer Introduction
7.2. Materials
7.2.1 Cell culture
7.2.2 Database
7.3 Methods
7.3.1 Network Reconstruction
7.3.2 Network reduction
7.3.2.1 Structural Reduction
7.3.2.2 Functional Reduction
7.3.3 Kinetic Modeling
7.3.3.1 Rate Equations
7.3.3.2 Dynamic Simulation
7.3.4 Parameter Estimation
7.4 Data Acquisition, Anticipate Results and Interpretation
7.4.1 Model Network
7.4.2 Dynamic Simulation Parameters
7.5 Discussion and Commentary
7.5.1. Modularity
7.5.2 Generalized Kinetic Expressions
7.5.3 Population Heterogeneity
7.6 Troubleshooting Table
7.7 Application Notes
7.8 Summary Notes
7.9 Acknowledgements
7.10 References

Chapter 8
Steady State Sensitivity Analysis of Biochemical Networks: A Brief Review and new Methods

8.1   Introduction
8.2 Considered System Class and Parametric Sensitivity
8.2.1 Simple Example System: Reversible Covalent Modification
8.2.2 Parametric Steady State Sensitivity
8.3 Linear Sensitivity Analysis
8.4 Parametric Sensitivity via Empirical Gramians
8.4.1 Gramians and Linear Sensitivity Analysis
8.4.2 Empirical Gramians for Nonlinear Systems
8.4.3 A New Sensitivity Measure Based on Gramians
8.4.4 Example: Covalent Modification System
8.5 Sensitivity Analysis via Infeasibility Certificates
8.5.1 Feasibility Problem and Semidefinite Relaxation
8.5.2 Infeasibility Certificates from the Dual Problem
8.5.3 Algorithm to Bound Feasible Steady States
8.5.4 Example: Covalent Modification System
8.6 Discussion and Outlook
  Bibliography

Previous Chapter | Next Chapter

 

spacer