Tentative schedule (it will be updated as changes occur):
| dates and tasks | Lecture Contents: | textbook
sections and extra materials |
|---|---|---|
| Sep 10 | Course overview/admin; Intro to Molecular Biology | L01: Course handout; Ch 1; 01Introduction.pdf |
| Sep 14, 17 | Intro to Molecular Biology (cont'd) Review Dynamic Programming; Sequence Similarity |
L02: Ch1, 02MolecularBiologyII.pdf, 02_B_Turcotte L1 p42-175, Body Code (movie)/source L03: Ch 2, 03-05SequenceSimilarity.pdf |
| Sep 21,24 | Sequence Similarity | Ch 2, 03-05SequenceSimilarity.pdf |
| Sep 28, Oct 1 | Suffix Trees and variants | Ch 3, 06Turcotte_lect02-2.pdf (p.1-14,21-62)
07-09Turcotte_lect03.pdf (p.1-23) |
| Oct 5 (A1 due),8(no class) | Suffix trees & variants: applications | Ch 3, 07-09Turcotte_lect03.pdf (p.24-46) |
| Oct 12,15 | Suffix trees and variants Genome Alignment | Ch 3,07-09Turcotte_lect03.pdf (p.47-101),
09SuffixTreesAndVariants.pdf Ch. 4, 10-11GenomeAlignment.pdf |
| Oct 19,22 (A2 due) | Genome Alignment Multiple alignment | Ch 4, 10-11GenomeAlignment.pdf
Ch 6, 12-13MultipleAlignment.pdf |
| Oct 24-30 | Study break. | - |
| Nov 2,5 | Student Presentations (Nov 2: 11:30-2:30) Multiple Alignment | Presence is compulsory to all talks. Ch 6, 12-13MultipleAlignment.pdf |
| Nov 9,12 | Phylogeny Reconstruction | Ch 7, 14InferingPhylogeny_Turcotte.pdf |
| Nov 16,19 | Phylogeny Reconstruction | Ch 7, 16-17PhylogenyReconstruction.pdf |
| Nov 23,26 | Genome Rearrangement (lecturer: Ghada Badr) | Ch 9, Guest lectures. |
| Nov 30 (A3 due), Dec 3 |
RNA secondary structure (lecturer: Marcel Turcotte) Last lecture (topic to be decided). | Guest lecture.
Presence is compulsory to all guest lecture. |
| Dec 7 | Project Presentations | Presence is compulsory to all talks. |