Determination of Complex Reaction Mechanisms Analysis of Chemical, Biological, and Genetic Networks |
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| Author:
| Ross, John
Schreiber, Igor
Vlad, Marcel O. |
| As told to:
| Arkin, Adam
Oefner, Peter J.
Zamboni, Nicola |
| ISBN: | 978-0-19-803973-0 |
| Publication Date: | Oct 2005 |
| Publisher: | Oxford University Press, Incorporated
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| Book Format: | Ebook |
| List Price: | Contact Supplier contact
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Book Description:
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1. Introduction1.1. Some Basic Definitions1.2. Introduction to Classical Identification2. Introduction to Chemical Kinetic Processes2.1. Macroscopic, Deterministic Chemical Kinetics2.2. Disordered Kinetics2.3. Fluctuations3. A Brief Review of Methodology for the Analysis of Biochemical Reactions and Cells3.1. Introduction3.2. Measurement of Metabolite Concentrations3.3. Principles and Applications of Mass Spectrometry3.4. Genome-Wide Analyses of mRNA and Proteins3.5. Fluorescent...
More Description1. Introduction1.1. Some Basic Definitions1.2. Introduction to Classical Identification2. Introduction to Chemical Kinetic Processes2.1. Macroscopic, Deterministic Chemical Kinetics2.2. Disordered Kinetics2.3. Fluctuations3. A Brief Review of Methodology for the Analysis of Biochemical Reactions and Cells3.1. Introduction3.2. Measurement of Metabolite Concentrations3.3. Principles and Applications of Mass Spectrometry3.4. Genome-Wide Analyses of mRNA and Proteins3.5. Fluorescent Imaging3.6. Conclusions4. Computations by Means of Macroscopic Chemical Kinetics4.1. Chemical Neurons and Logic Gates4.2. Implementation of Computers by Macroscopic Chemical Kinetics4.3. Computational Functions in Biochemical Reaction Systems5. Response of Systems to Pulse Perturbations5.1. Theory5.2. An Example: The Glycolytic Pathway6. Experimental Test of the Pulse Pertubation Method for Determining Casual Connectivities of Chemical Species in a Reaction Network7. Correlation Metric Construction: Theory of Statistical Construction of Reaction Mechanisms8. Experimental Test and Applications of Correlation Metric Construction9. Destiny Estimation9.1. Entropy Metric Construction (EMC)9.2. Entropy Reduction Method (ERM)10. Applications of Genetic Algorithms to the Determination of Reaction Mechanisms10.1. A Shory Primer on Genetic Algorithms10.2. Selection Regulation of Flux in a Metabolic Model10.3. Evolutionary Development of Biochemical Oscillatory Reaction Mechanisms10.4. Systematic Determination of Reaction Mechanism and Rate Coefficients10.5. Summary11. Oscillatory Reactions11.1. Introduction11.2. Concepts and Theoretical Constructs11.3. Experiments Leading to Information about the Oscillatory Reaction Mechanism11.4. Examples of Deduction of Reaction Mechanism from Experiments11.5. Limits of Stoichiometric Network Analysis12. Lifetime and Transit Time Distributions and Response Experiments in Chemical Kinetics12.1. Lifetime Distributions of Chemical Species12.2. Response Experiments and Lifetime Distributions12.3. Transit Time Distributions, in Complex Chemical Systems12.4. Transit Time Distributions, Linear Response, and Extracting Kinetic Information from Experimental Data12.5. Errors in Response Experiments12.6. Response Experiments for Reaction-Diffusion Systems12.7. Conclusions13. Mini-Introduction to Bioinformatics13.1. Clustering13.2. Linearization in Various Forms13.3. Modeling of Reaction Mechanisms13.4. Boolean Networks13.5. Correlation Metric Construction for Genetic Networks13.6. Bayesian Networks13.7. Some Other Illustrative ApproachesIndex