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Deterministic Kinetics in Chemistry and Systems Biology


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Table of Contents

Rates and Rate Equations.- Concentration and its Change in Time.- Reactions and the Reducibility of Chemical Systems.- Intermediates and Catalysts.- Open Systems: Flow of Reactants and Photons.- Experimental Design and its Limitations.- Systems Biology: Chemical Kinetics for Biologists.- Solving Rate Equations.- Analytical Possibilities.- Single-Concentration Rate Equations.- Multiple-Concentration Rate Equations.- Numerical Methods.- Fitting to Measured Data.- Inevitable Approximations.- The Method of Flooding.- Kinetically Separate Phases.- Rate Determining Steps.- Steady State Approximation.- Pre-Equilibrium Approach.- Relaxation Kinetics.- Chain Reactions.- Clock Reactions.- Competition Kinetics and Chemical Clocks.- Parameter Insensitivity and Indistinguishable Schemes.- Statistical Kinetics.- A Qualitative Approach to Chemical Kinetics.- Information from Parameter Values.- Diffusion Controlled Processes.- Activation and Transition States.- Electrostatic Effects.- Isotope Effects.- Structure-Reactivity Relationships.- Common Pitfalls.- The Fallacy of Reaction Rates.- The Fallacy of Rate Constants.- The Fallacy of Rate Coefficients.- The Fallacy of Consecutive Processes.- The Fallacy of Parallel Processes.- The Fallacy of the Rate Determining Step.- The Fallacy of Exchange Reactions.- Misconceptions About Activation Parameters.- The Fallacy of the Activation Energy.- The Fallacy of the Activation Free Energy.- The Fallacy of the Activation Entropy.- The Fallacy of the Activation Volume.- The Fallacy of the Isokinetic Temperature.- The Fallacy of the Diffusion Limited Rate Constant.- The Fallacy of Unimolecular Reactions.- The Fallacy of Radical Scavengers.- The Fallacy of Linearization.- The Fallacy of the Coefficient of Determination.- The Fallacy of Curve Fitting.

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