Systems Biology

1

Introduction to the Class and Overview of Topics

2

Input Function, Michaelis-Menten kinetics, and Cooperativity

3

Autoregulation, Feedback and Bistability

4

Synthetic Biology and Stability Analysis in the Toggle Switch

5

Oscillatory Genetic Networks

6

Graph Properties of Transcription Networks

7

Feed-forward Loop Network Motif

8

Introduction to Stochastic Gene Expression

9

Causes and Consequences of Stochastic Gene Expression

10

Stochastic Modeling

11

Life at Low Reynolds Number

12

Robustness and Bacterial Chemotaxis

13

Robustness in Development and Pattern Formation

14

Microbial Evolution Experiments and Optimal Gene Circuit Design

15

Evolution in Finite Populations

16

Clonal Interference and the Distribution of Beneficial Mutations

17

Fitness Landscapes and Sequence Spaces

18

Evolutionary Games

19

Survival in Fluctuating Environments

20

Parasites, the Evolution of Virulence and Sex

21

Interspecies Interactions

22

Ecosystem Stability, Critical Transitions, and Biodiversity

23

Dynamics of Populations in Space

24

The Neutral Theory of Ecology