THIS SCHEDULE IS PRELIMINARY, AND SUBJECT TO CHANGE
| Thursday, Sept 27 8.30-9.50 |
1.1 General introduction. Mendel's laws. 1.2 Terminology. Pedigrees. |
Get set up for your StatGen computing Background on likelihood Chapter 1 (PDF) Notes (posted 9/23/2007) |
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| Tuesday , Oct 2 8.30-9:50 |
1.3 Allele and genotype frequencies; 1.3 Hardy-Weinberg equilibrium. 1.3 Population subdivision. |
Passwords will be available for new Biostat
accounts: Lab 1 (posted 9/21/2007) will be due 10/11. |
| Thursday, Oct 4 8:30-9:50 |
1.3 Estimating allele freqs: recessive case 1.3 Estimating allele frequencies from relatives Discussion session for homework 1. | Homework 1 (posted 9/20/2007) due |
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| Tuesday, Oct 9 8.30-9:50 |
1.4 Testing HWE: goodness of fit 1.4 Testing the ABO blood group models 1.5 Start of EM--gene counting for recessive allele |
Help on copying/editing files in Unix/linux More help on editing file in Unix Help with Strange problems with files out of Notepad etc. Summary: Kayleen Williams |
| Thursday, Oct 11 8:30-9:50 |
1.5 More EM algorithm 1.6 Haplotypes and allelic association |
Homework 2 (posted 10/01/2007)due and Lab 1 (Posted 9/21/2007) due. |
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| Tuesday, Oct 16 |
1.6 Estimating phase and haplotype frequencies. 1.7 Mutation, selection, and random genetic drift |
Help on meaning of expectations (posted 10/14/2007) Chapter 2 (PDF) Notes (posted 10/14/2007) Summary: Patrick Danaher |
| Thursday, Oct 18 |
2.1 Start of intro to pedigrees
(Chap 2) More on pedigrees: quad-half-1st-cousins 2.2 Kinship and inbreeding coefficients | Homework 3 due (Reposted (final) 10/10/2007) |
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| Tuesday, Oct 23 |
2.2 Computation of kinship by path-counting and by recursion. 2.2 Recessive traits in inbred individuals 2.3 IBD between pairs of relatives | Summary: Veronika Skrivankova |
| Thursday, Oct 25 |
2.3 Triangle-representation of relationships. 2.4 Data on pairs of relatives 2.3 Back to IBD--quadruple half first cousins. |
Homework 4 (posted 10/14/2007:
update 10/16) and Lab 2 due (posted 10/10/2007) |
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| Tuesday, Oct 30 |
2.4 General relationship of IBD to data. 3.1 Linkage and recombination |
Chapter 3 (PDF) Notes (posted 10/29/2007) Summary: Xiuwen Zheng |
| Thursday, Nov 1 |
3.1 Haplotypes and allelic association. The sources of allelic association. |
Homework 5
(posted 10/19: confirmed 10/24/2007) due. A good week to think about projects |
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| Tuesday, Nov 6 |
3.1 Decay of allelic association over generations 3.2 Counting recombinants and estimating recombination. | Summary: Brian Piening |
| Thursday, Nov 8 | 3.3 Linkage designs and information |
Lab 3 due. (Posted 10/24/2007). No graded Homework Turn in 1 paragraph of thoughts about your project |
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| Tuesday, Nov 13 |
3.4 Power, sample size and information 3.5 Two-locus gene ibd (omit 2-locus kinship) |
Summary: Quenna Wong. Updated papers list |
| Thursday, Nov 15 | 3.6 Homozygosity mapping |
Homework 6
(posted 11/02) due. |
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| Tuesday, Nov 20 |
Start Chapter 4: 4.1 Meiosis, maps and map functions |
Chapter 4 (PDF) Notes (posted 11/18/2007) Summary: Yi-Ting Lin. Final (?) papers list and Project info |
| Thursday, Nov 22 | THANKSGIVING |
Lab 4 due. (Posted 11/04/2007). Due by email at Thanksgiving |
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| Tuesday, Nov 27 | 4.2 Multilocus recombination: the Lander-Green algorithm | (no summary). Student evaluations. |
| Thursday, Nov 29 |
4.2 EM for genetic map estimation 4.3 Bigger pedigrees -- Elston-Stewart algorithm |
Homework 7
(posted 11/18) due. |
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| Tuesday, Dec 4 | 4.3 SIMLINK etc. | Summary: |
| Thursday, Dec 6 | 4.4 Monte Carlo sampling on pedigrees. |
Homework 8
(posted 11/26/2007) and
Lab 5 due (posted 11/21/2007). |
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| Tuesday, Dec 11 | PROJECTS DUE BY NOON | Due by email (files names with your name and NO spaces), or hard copy to Statistics (mail boxes in main office B313). |