| Week 2 | ||
| Scoring Matrices | ||
| Scoring Matrices - PAM Example | ||
| Assignment 1, Part 1 | specification | |
| Week 3 | ||
| Optimal Pairwise Alignment | ||
| Affine Gap Scoring | ||
| Optimal Multiple Alignment | ||
| Tutorial questions | ||
| Week 4 | ||
| Heuristic Pairwise Alignment - FASTA | ||
| Note on FASTA | ||
| Heuristic Pairwise Alignment - BLAST | ||
| Statistics of Alignment 1 | ||
| Example | ||
| Statistics of Alignment 2 | ||
| Week 5 | ||
| Multiple Sequence Alignment | ||
| Tree-building Algorithms | ||
| Assignment 1, Part 2 | specification | |
| Week 6 | ||
| Markov Chains and Hidden Markov Models | ||
| Week 7 | ||
| Sequence family representations | ||
| Week 8 - 9 | ||
| Microarrays 1 | ||
| Microarrays 2 | ||
| Microarrays 3 | ||
| Microarrays 3 - SVM examples | ||
| Assignment 1, Part 3 | specification | |
| Week 9 - 10 | ||
| Pathway / Genome Databases | ||
| Week 10 | ||
| Boolean Networks | ||
| Week 11 | ||
| Biological Modelling | ||
| Causality in Bayes Nets | ||
| Assignment 3 | specification | |
| Week 12 | ||
| Network Graphs (1) | ||
| Network Graphs (2) | ||
| Week 13 | ||
| Network Graphs (3) | ||
| Gene Ontology | ||
| Synthetic Biology | ||
| Talk on synthetic biology | Craig Venter: Metagenomics and Synthetic Biology | |
| Article on synthetic biology | A LIFE OF ITS OWN - Where will synthetic biology lead us? | |
| Revision | ||
| Sample questions |