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Lecture Contents CSI5126 Fall 2011

Chapter sections refer to the textbook by Sung (2009).

Tentative schedule (it will be updated as changes occur):
dates and tasks  Lecture Contents: textbook sections
and extra materials
Sep 9 Course overview/admin;
Intro to Molecular Biology
L01: Course handout;
Ch 1; 01Introduction.pdf
Sep 13, 16 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 20,23 Sequence Similarity Ch 2, 03-05SequenceSimilarity.pdf
Sep 30 Suffix Trees and variants Ch 3, 06Turcotte_lect02-2.pdf (p.1-14,21-62)
07-09Turcotte_lect03.pdf (p.1-23)
Oct 7 (A1 due) Suffix trees & variants: applications
Ch 3, 07-09Turcotte_lect03.pdf (p.24-46) Ch 3,07-09Turcotte_lect03.pdf (p.47-101), 09SuffixTreesAndVariants.pdf
Oct 14 Genome Alignment Ch. 4, 10-11GenomeAlignment.pdf
Oct 21 (A2 due) Multiple alignment Ch 6, 12-13MultipleAlignment.pdf
Oct 23-29 Study break. -
Nov 4 Student Presentations
Presence is compulsory to all talks.
Nov 11 Phylogeny Reconstruction Ch 7, 14InferingPhylogeny_Turcotte.pdf
Nov 18 Phylogeny Reconstruction
Ch 7, 16-17PhylogenyReconstruction.pdf
Nov 25 Class contents to be posted; Guest Lecture Class; Guest lecture with Marcel Turcotte.
Dec 2 (A3 due) Genome Rearrangement (Guest Lectures) Presence is compulsory to all guest lecture.
Guest lectures with Kubo Kovac and Maryam Haghighi.
Dec 6 Project Presentations Presence is compulsory
to all talks.