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1. Introduction
2. The problem of population structure
3. How population structure can lead to confounding
4. Different disease rates lead to mismatching...
5. ...and this can lead to false positive associations
6. Cancer rates per 100,000 individuals
7. Allele frequencies can vary across populations
8. Similar problem can occur in admixed populations
9. How serious is this problem in practice?
10. Solutions
11. Unlinked markers as control loci
12. Two-stage analysis
13. Study design (continued)
14. Test for mismatching of case-control samples
15. Comments on the test for mismatching
16. The "genomic control" approach
17. Comments on genomic control
18. The "structured association" approach
19. Typical data
20. Structure: the basic model
21. Ancestry of individuals
22. More on the model...
23. Example: application to data
24. Map of populations
25. Inferred population structure
26. Inferred population structure - regions
27. Genetic variation among groups
28. Applying this to association mapping...
29. Using population information: "STRAT"
30. Distribution of p-values under the null
31. Comments on structured association
32. Marker selection
33. Inferred population structure
34. Similarity coefficients to runs that use all the data
35. Similarity of runs at the regional level
36. How many markers? (summary)
37. How should I choose the markers?
38. Informativeness measure
39. Population structure using subsets of loci
40. Cumulative fraction of information
41. How to select markers? (summary)
42. Wrap-up
43. Acknowledgements and resources

Topics Covered

• Population structure and false positives in case-control studies of association
• Family-based solutions and the TDT
• Limitations of family-based solutions
• Detecting population structure
• Correcting for structure
• Structured association and genomic control
• Use of unlinked marker loci

Links

Series:

• Genetic Epidemiology I

Categories:

• Genetics & Epigenetics
• Methods

Talk Citation

Pritchard, J. (2004, September 1). Detecting and correcting for population structure in genetic case-control studies [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved November 21, 2024, from https://doi.org/10.69645/DVAU8827.
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Publication History

• Published on September 1, 2004
• Archived on February 25, 2021

Financial Disclosures

• Dr. Jonathan Pritchard has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.