Statistical Genomics Weekly Schedule
It is assumed that by the second week people have some
familiarity with basic biological concepts of Mendelian
genetics, Hardy-Weinberg equilibrium, and molecular
genetics (e.g. Ch. 2 of BL except 2.4). Numbers in
parentheses refer to chapters in BL;
first names in brackets refer to presenters.
The weeks assigned below are meant as a guide in planning. Realize
that some topics may take longer or shorter than anticipated.
Work within your team to divide up the material.
- sep 4: Course Overview (1) [Brian Y]
- sep 11: Genomics: Basic Biology (3) [David B]
- sep 18: Genomics: Basic Biology (3) [Patrick G]
- biological techniques in genomics
- mapping populations
- genetic markers
- sep 25: Likelihood-Based Methodology (4) [Pete H]
- oct 2: Likelihood-Based Methodology (4) [Monica F, Josh U, Natalia d]
- oct 9: Likelihood-Based Methodology (4) [M Jalal]
- commonly used distributions
- likelihood ratio principle
- least squares vs. maximum likelihood
- hypothesis tests, estimation & sample size
- profile likelihood & the EM method
- oct 16: Single--Locus Models (5) [Barry P]
- oct 23: Two-Locus Models (6) [Barry P, Diane A]
- oct 30: Two-Locus Models (7-8) [Carlos S, Kathryn O]
- segregation ratios, marker screening
- linkage & estimation of recombination fraction
- linkage phase, random mating populations
- linkage disequilibrium & recombination
- nov 6: Linkage Groups & Locus Ordering (9) [Pablo Q, Claudio G]
- nov 13: Multi-Locus Models (10) [Lixin H]
- nov 20: Linkage Map Merging (11) [Jenifer C]
- linkage groups, multilocus ordering
- map functions & map distance
- merging linkage maps
- (genetic vs. physical maps)
- dec 5: Genetic Linkage Software (18) [Patrick G, Josh U, Fei Z, Shyh-Forng G]
- dec 12: Genetic Linkage Software (18) [Patrick G, Josh U, Fei Z, Shyh-Forng G]
- Case Studies
- bring your research into your presentation weeks!
- Complex Traits, QTLs & Polygenes (12-17)
- least squares approach
- 27 mar Introduction: multilocus model (12) [Brian Y]
- 3 feb Single Marker Models: BC & F2 (13) [Diane A]
- 10-17 feb Interval Mapping (14) [Fei Z, Christina K]
- backcross, F2 & composite interval mapping
- 24 feb Natural Populations (15) [John B]
- 3 mar Statistical Power: 1 or more QTLs (16) [Pat G]
- mar Computer Tools (18)
- Mapmaker/QTL and QTLCart programs
- small group projects for month of March
- apr Data Resampling & Simulation (19) [Shyh-Forng G, ...]
- Permutation Thresholds
- Nonparametric LODs
- Monte Carlo Simulation
- (Markov chain Monte Carlo)
- Future Considerations (17)
- problems, resolution, strategies
- what are QTLs? QTLs in context of metabolic pathways
- (mixed models / polygenes)
- (multiple traits)
- Pedigrees & Multiple Generations (11)
- (genetic identity / identity by state / identity by descent)
- comparing linkage maps
- (animal model / mixed models / polygenes)
- (multiple generation analysis / pedigree analysis)
- Physical Mapping [Eric S]
Return to Statistical Genomics.
Last modified: Wed Jan 27 15:02:43 1999 by Brian Yandell
(yandell@stat.wisc.edu)