| 1 | Introduction and Biological Databases | |
| 2 | Rapid Database Search (Hashing) | |
| 3 | Regulatory Motif Discovery (Combinatorial Search) | Assignment 1 out |
| 4 | Probabilistic Motif Finding (Gibbs Sampling) | |
| 5 | Sequence Alignment (Dynamic Programming) | Assignment 1 due |
| 6 | Markov Chains and Hidden Markov Models | |
| 7 | Gene Finding | |
| 8 | Genome Evolution and Phylogenetic Trees | Assignment 2 out |
| 9 | Genome Duplication | |
| 10 | Gene Expression Clustering | |
| 11-12 | Gene Network and Inference | Assignment 2 due |
| 13 | Scale-free Networks | Assignment 3 due |
| 14 | Comparative Genomics | Assignment 4 due |