| LEC # | TOPICS |
|---|---|
| 1 | Introduction and Overview. The Problem of Understanding Nonlinearity and Feedback in Biological Networks. |
| 2 | DNA Computing and Self-Assembly. |
| 3 | Enzyme Kinetics. Michaelis-Menten Theory. Cooperative Behavior. |
| 4 | Metabolic Control Analysis. |
| 5 | General Formalism for Chemical Reaction Networks. Metabolic Flux Analysis. |
| 6 | Student Presentations. Theory of Chemical Computation. |
| 7 | Overview of Transcriptional Regulation. Lambda Phage. |
| 8 | Models of Bistability in Chemical Reaction Networks. |
| 9 | Demo of Bard Ermentrout's XPP. Chemical Reaction Networks Versus Neural Networks. Global Stability of Symmetric Networks. |
| 10 | Student Presentations. Synthetic Genetic Networks. |
| 11 | Oscillations in an Activator-Inhibitor System. Phase Plane Analysis. |
| 12 | Hodgkin-Huxley Model of the Action Potential. |
| 13 | Spike Frequency Adaptation and Negative Feedback Linearization. |
| 14 | Phototransduction. |
| 15 | Chemotaxis. |
| 16 | Long-Term Potentiation. |
| 17 | Circadian Rhythms. |
| 18 | Stochastic Models of Lambda Phage. |
| 19 | Molecular Motors. |
| 20 | Development. |
| 21 | Cell Cycle. |
| 22 | Pattern Formation and Slime Molds. |
| 23 | Cell Sorting. |
| 24 | Immunity. |
| 25 | Final Project Presentations. |