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Introduction to the Coalescent Theory - Lecture 3
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- 1 Third Bangalore School on Population Genetics and Evolution
- 2 Introduction to the coalescent theory
- 3 Selection and the coalescent
- 4 The ancestral selection graph
- 5 The Moran model
- 6 The biased voter model
- 7 The dual process
- 8 The ancestral selection graph
- 9 The conditional structured coalescent
- 10 Balancing selection
- 11 A peak of polymorphism is expected. .
- 12 Positive directional selection
- 13 Example: maize and teosinte
- 14 Purifying selection
- 15 Why purifying selection may reduce Ne
- 16 Summary
- 17 What is it good for?
- 18 Detecting selection
- 19 Allele frequency distribution
- 20 Polymorphism & divergence
- 21 Haplotype sharing
- 22 Standard approach 80's-90's
- 23 Plants vs flies
- 24 The CCR5-32 AIDS-
- 25 This approach is now dead
- 26 Sample size over time
- 27 You too, Drosophila!
- 28 "It is difficult to get a man to understand something when his salary depends upon his not understanding it.
- 29 Two possible ways out
- 30 Forget about p-values
- 31 Calibrating background models
- 32 But no model fits Arabidopsis...
- 33 Testing for local adaptation
- 34 Field experiments Schmitt et al
- 35 Alleles associated with fitness advantage are local
- 36 Schmitt et al
- 37 "The method has been shown to be robust to demography..."
- 38 "The method has been sh to be robust co
- 39 etched has been
- 40 "No evidence for population structure was found..."
- 41 evidence for ture was found...
- 42 Moral of the story
- 43 I'm not depressed
- 44 Gene trees & species trees
- 45 A. haller
- 46 The pairwise sequentially Markovian coalescent model
- 47 Problem: the ARG is not Markovian...
- 48 "Effective population size" over time ...
