Topic
|
Date
|
Handouts
|
Phylogenetics---models, distance-based estimation
|
01/18/05
|
h1,
h2
|
Phylogenetics---likelihood, parsimony, heuristic searches
|
01/25/05
|
Same handouts as last time plus
h1
h2
h3
|
Phylogenetics---disk covering methods,
supertree methods
|
02/01/05
|
Same handouts as last time plus
h1, h2,
SCM handout, dcm3 slides,
supertree slides
|
Quiz #1. Alignment---pairwise, heuristic pairwise,
multiple
|
02/08/05
|
h1,
h2,
h3
|
Phylogenetics
|
02/15/05
|
Previous handouts on phylogenetics plus phylogenetics lecture
notes
|
Phylogenetics, pairwise sequence alignment heuristics and scoring matrices
|
02/22/05
|
Previous handouts on alignment plus pairwise
alignment lecture notes
|
Make-up quiz #1, pairwise sequence alignment
heuristics, and multiple sequence
alignment
|
03/01/05
|
Previous handouts on multiple sequence alignment
plus multiple
alignment lecture notes
|
Multiple sequence alignment
|
03/08/05
|
No handouts
|
Multiple sequence alignment
|
03/15/05
|
No handouts
|
Spring break---No class
|
03/22/05
|
No handouts
|
| Quiz #2, clustering gene expression data
|
03/29/05
|
Hierarchical and k-means clustering
h1, and diametrical clustering h2
|
| Clustering gene expression data
|
04/05/05
|
Graph-theoretic clustering:
h1
and h2, and protein structure prediction chapter
|
| Quiz #3, student presentations
|
04/12/05
|
No handouts
|
| Student presentations
|
04/19/05
|
No handouts
|
| Student presentations
|
04/26/05
|
No handouts
|
| Final exam
|
05/10/05
|
No handouts
|