MATLAB® software is required to run the .m files in this section.
LEC # | TOPICS |
---|---|
Part I: Systems Microbiology - 'The Cell as a Well-stirred Bioreactor' | |
1 | Introduction (PDF) Michaelis-Menten Kinetics |
2 | Equilibrium Binding Cooperativity |
3 | Lambda Phage (PDF) Multistability Associated MATLAB® Code File (M) |
4 | Multistability (cont.) (PDF) |
5 | Synthetic Genetic Switches |
6 | Stability Analysis (PDF) |
7 | Introduction E. coli Chemotaxis (PDF - 1.3 MB) |
8 | Fine-tuned versus Robust Chemotaxis Models (PDF) Associated MATLAB® Code File (M) |
9 | Wrapping up Chemotaxis (PDF) |
10 | Genetic Oscillators (PDF) Associated MATLAB® Code File (M) |
11 | Genetic Oscillators (cont.) |
12 | Stochastic Chemical Kinetics |
13 | Stochastic Chemical Kinetics (cont.) |
Part II: Cell Systems Biology - 'The Importance of Diffusion and Gradients for Cellular Regulation' | |
14 | Introduction Cell Systems Biology (PDF) Fick's Laws |
15 | Local Excitation Global Inhibition Theory |
16 | Local Excitation (cont.) (PDF) Global Inhibition Theory (cont.) |
17 | Rapid Pole-to-pole Oscillations in E. coli (PDF) Associated MATLAB® Code File (M - 1 of 2) (M - 2 of 2) |
18 | Rapid Pole-to-pole Oscillations in E. coli (cont.) (PDF) |
19 | Models for Eukaryotic Gradient Sensing |
20 | Models for Eukaryotic Gradient Sensing (cont.) (PDF) |
21 | Modeling Cytoskeleton Dynamics |
22 | Modeling Cytoskeleton Dynamics (cont.) |
Part III: Developmental Systems Biology - 'Building an Organism Starting From a Single Cell' | |
23 | Quorum Sensing (PDF) |
24 | Final Problem Set Question Hour |
25 | Drosophila Development (PDF) |