Introduction to the Coalescent Theory - Lecture 2

Introduction to the Coalescent Theory - Lecture 2

International Centre for Theoretical Sciences via YouTube Direct link

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Introduction to the Coalescent Theory - Lecture 2

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  1. 1 Third Bangalore School on Population Genetics and Evolution
  2. 2 Introduction to the coalescent theory
  3. 3 The coalescent variance
  4. 4 The coa Review variance
  5. 5 Robustness of the coalescent
  6. 6 Example
  7. 7 Population genetics in and of itself only allows limited inference
  8. 8 Effective population size
  9. 9 Variable population size
  10. 10 In a constant population:
  11. 11 Exponential growth
  12. 12 Rule of thumb
  13. 13 Population structure
  14. 14 The structured Wright-Fisher model
  15. 15 This model can equally well be studied backward in time.
  16. 16 The two-deme model
  17. 17 Slow migration
  18. 18 Consequences of slow migration
  19. 19 Fast migration
  20. 20 Let 7; be the stationary probability that a lineage is in patch i.
  21. 21 Source-sink environments
  22. 22 Is the island model a good model?
  23. 23 Sex
  24. 24 Hermaphrodites and self-fertilization
  25. 25 Males and females
  26. 26 Stage structure
  27. 27 Stochastic demography
  28. 28 Why recombination?
  29. 29 Recombination backwards in time!
  30. 30 Recombination makes it possible for linked sites to
  31. 31 In the The ancestral recombination graph
  32. 32 In the limit as N - co:
  33. 33 A walk through tree space
  34. 34 Simulating data
  35. 35 How common is recombination?
  36. 36 Detecting recombination
  37. 37 It can be shown that a very large fraction of recombination events cannot be detected even with infinite mutation rate.
  38. 38 Overcoming the evolutionary variance
  39. 39 The number of SNPs in 20 copies of 10 kb, 1000 runs:
  40. 40 Same thing, with recombination:
  41. 41 Linkage disequilibrium LD
  42. 42 Why "linkage disequilbrium"?
  43. 43 Where does come from?
  44. 44 Assuming random mating, we have:
  45. 45 How does evolve? Well,
  46. 46 Decay of haplotype sharing
  47. 47 HapMap Project

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