**Tentative Outline**

Lec. 1 (5/27)

- Introduction & outline
- Evolving sequences, Master equation
- Population genetics, mutation, reproduction, selection
- Forward Kolmogorov equations, steady state

Lec. 2 (5/28)

- Genetic drift, fixation
- Backward Kolmogorov equations, fixation
- Phylogeny, sequence matching
- Recursive algorithms, dynamic programming
- Significance of alignments, extreme value distribution

Lec. 3 (5/29)

- Forces and interactions
- Polymers, bending rigidity, entropic elasticity
- Interactions and Flory/mean-field theory
- Protein folding, random energy model

Lec. 4 (5/30)

- Nucleic acids
- Melting of DNA; Poland-Scheraga model
- Secondary structure of RNA
- Melting of an RNA hairpin

Lec. 5 (5/31)

- Dynamic Instability of microtubules, caps and catastrophes
- Molecular motors, ratchet and asymmetric hopping models
- Cell motility

Lec. 6 (6/3)

- Protein-DNA interactions
- Packing of DNA within cells
- Membranes

Lec. 7 (6/4)

- Biological networks
- Elements of networks: distance, diameter, degree distribution
- Random network (Erdos-Renyi), percolation
- Preferential attachment, The Barabasi-Albert model

Lec. 8 (6/5)

- Dynamics on networks: Fixed points
- The Hopfield model for associative memory
- Stability, bifurcations, and cycles
- Synchronization
- Turing Patterns