Instructors: Vineet Bafna and Pavel A. Pevzner
Lectures: TR 5-6:20, HSS2305
Office hours:
Vineet Bafna APM3832: by appointment
Pavel A. Pevzner APM4802: by appointment
Course Information:
Background
The course should be self-contained. Some familiarity with algorithms is required.
Lectures
| Lecture | Topic | Slides | Suggested Reading |
|---|---|---|---|
| 3/29/05 | Population Genetics Basics Hardy Weinberg equilibrium Linkage disequilibrium SNPs | L1 (pdf) , L1 (ppt) | See Hartl Clark |
| 3/31/05 | Coalescent theory | L2 (pdf) , L2 (ppt) | Nordborg's paper |
| 4/5/05 | Coalescent applications Population Sub-structure | L3 L3 (ppt) | Coalescent applications STRUCTURE Human Pop. structure |
| 4/7/05 | Population sub-structure (admixture) Admixture mapping Recombination lower bounds | L4 , L4 (ppt) | Admixture mapping Admixture mapping 2 Ptak et al. Myers Grifiths Bafna-Bansal |
| 4/12/05 | Estimating Recombination rate Recombination hotspots | L4 (ppt) , | Ptak et al. Stumpf Full likelihood Two locus |
| 4/14/05 | Haplotype phasing | L6 (ppt) | ML Phase PPH |