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Segregation Analysis
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    SPEAKER(S)

Prof. Chris Cannings - University of Sheffield, UK

Chris Cannings is Head of the Section of Genetics and Informatics and Director of the Centre for Bioinformatics and Computational Biology in the Division of Genomic Medicine, School of Medicine, University of Sheffield. He has previously held posts at the Universities of Aberdeen and Pavia, and visiting positions at Stanford, Cambridge, Houston and Utah. His research has focused on mathematical problems in biology, including such topics as the dynamics of genetic selection models, models of genetic drift, ascertainment, and algorithms for pedigree analysis, mathematical theory of evolutionary conflicts, theory of identity states and random graphs, protein interaction nets. Current research emphasis is on IBD, generalisation of the classical random graph and application to genealogies and interaction nets. There is also continuing involvement with studies of recombination, genetic associations with disease susceptibility and severity (e.g. with HepC, meningococcal infection) and various family studies. He is co-editor of "The Handbook of Statistical Genetics" (Wiley, 2003).

Dr. Dawn Teare - University of Sheffield, UK

Dawn Teare is a Lecturer in Genetic Epidemiology at the University of Sheffield. Following a degree in computer science and statistics, she worked on familial childhood cancer at the University of Manchester where she was awarded her PhD (entitled modelling familial cancer risk) in 1995. For the next five years she continued to work on this field at the University of Cambridge, before moving to Sheffield in 2001.

Talk Online Publication: Sep 2004

TOPICS COVERED IN SEGREGATION ANALYSIS

Components of segregation analysis - Maximum likelihood models - Peeling and MCMC - Estimating the segregation proportion - Ascertainment/sampling bias - Ascertainment correction - Segregation analysis for quantitative traits - Polygenic models - Heritability - Components of variance - Genetic variance: additive and dominance - Epistatic variance - Analysis of covariance - Mixed models - Liability and threshold models - The hypergeometric polygenic model - Regressive models - Penetrance functions - Survival models - Computer packages

How to cite this talk:
Cannings, C. and Teare, D. (2004), "Segregation Analysis", in Weale, M. (ed.), Genetic Epidemiology I: Fundamentals, Theory, Practice and Latest Developments, The Biomedical & Life Sciences Collection, Henry Stewart Talks Ltd, London (online at http://hstalks.com/bio)

Direct talk access link:
http://hstalks.com/lib.php?t=HST1.8003_1_2&c=252

    DETAILED SLIDE INDEX

1. Introduction
2. Segregation analysis: fitting a genetic model
3. Parts of segregation analysis
4. Maximum likelihood
5. Likelihood
6. Peeling
7. MCMC
8. Example
9. Classic segregation analysis
10. Estimating the segregation proportion
11. Ascertainment / sampling bias
12. Ascertainment probability
13. Special cases
14. Selected through affected
15. Ascertainment correction
16. Ascertainment criteria
17. Ascertainment problems
18. Segregation analysis for quantitative traits
19. Quantitative traits
20. QTL
21. Polygenic model
22. Polygenic values
23. Polygenes responsible for a quantitative trait
24. Polygenic inheritance
25. Heritability
26. Components of variance
27. Heritability (1)
28. Heritability (2)
29. Heritability (3)
30. Heritability (4)
31. Heritability (5)
32. Additive genetic variance
33. Dominance variance
34. Epistatic variance
35. Total variance
36. Covariance between pairs of relatives (1)
37. Covariance between pairs of relatives (2)
38. Covariance between pairs of relatives (3)
39. Analysis of covariance
40. Segregation analysis and the mixed model (1)
41. Segregation analysis and the mixed model (2)
42. Segregation analysis and the mixed model (3)
43. Likelihood for the mixed model
44. Liability and threshold models
45. Liability thresholds
46. Polygenic approximations
47. The hypergeometric polygenic model
48. Hypergeometric approximation (1)
49. Hypergeometric approximation (2)
50. Regressive models
51. Penetrance functions
52. Survival models
53. Hazard rate (1)
54. Hazard rate (2)
55. Survival
56. Estimation (1)
57. Estimation (2)
58. Summary
59. Complex segregation analysis (1)
60. Complex segregation analysis (2)
61. Common problems in segregation analysis
62. Global or local maximum likelihood?
63. Computer packages
64. Graphical models and MCMC
65. Segregation analysis: the future (1)
66. Segregation analysis: the future (2)
67. Segregation analysis: the future (3)
68. END