• Special Designs
• 46 min
  1. Family-based association tests: introduction

  • Dr. Christoph Lange
• 29 min
  2. Family-based association tests: FBAT testing strategies for large-scale association studies

  • Dr. Christoph Lange
• 37 min
  3. Two-stage genome-wide association designs

  • Dr. Andrew Skol
• Special Populations
• 40 min
  4. Admixture mapping

  • Dr. Paul McKeigue
• Whole-Genome Studies: Types of Data
• 34 min
  5. QTL association mapping

  • Prof. Bruce Weir
• 50 min
  6. Adjusting for population structure in genetic association studies

  • Prof. David Balding
• Whole-Genome Studies 2: Methods
• 47 min
  7. Whole-genome association studies: practical advice and considerations

  • Dr. Mike Weale
• Archived Lectures *These may not cover the latest advances in the field
• 49 min
  8. Family-based association tests: FBATs for various data types

  • Dr. Christoph Lange
• 44 min
  9. Choosing between family-based and population-based association designs

  • Dr. Ren-Hua Chung
• 54 min
  10. Use of isolated populations: pitfalls and potential

  • Dr. Leena Peltonen
• 40 min
  11. Information on untyped variation in genome-wide association studies

  • Dr. Dan Nicolae
• 37 min
  12. Detecting multiple associations in genome-wide studies

  • Prof. Frank Dudbridge
• 30 min
  13. Genome scanning by composite likelihood

  • Dr. Andrew Collins
• 41 min
  14. Multistage sampling for genetic studies

  • Prof. Robert Elston
• 39 min
  15. Screening large-scale association study data: exploiting multi-gene interactions with random forests

  • Dr. Kathryn Lunetta
• 43 min
  16. A survey of multi-locus methods for analysis of large SNP datasets

  • Mr. A. Geert Heidema
• 34 min
  17. Sequential analysis methods in genomic scans

  • Prof. Michael Province

Printable Handouts

PDF

Navigable Slide Index

1. Introduction
2. Effect of population structure on association (1)
3. Effect of population structure on association (2)
4. Spurious signals of association
5. Genealogy at causal locus (haploid)
6. Genome-wide allele sharing due to pedigree
7. The cryptic substructure problem
8. Generation of spurious associations
9. Pre-2006 approaches to population structure
10. TDT: pros and cons
11. Genomic control (GC)
12. Test statistics after genomic control adjustment
13. Use of GC adjustment
14. GC: pros and cons
15. Structured association
16. Problems with SA methods
17. Detecting individuals with unusual ancestry
18. New approaches in 2006: logistic regression
19. Simulation study: statistical methods
20. Power of different statistical methods
21. Simulation with more null markers
22. Simulation involving ascertainment bias
23. New approaches in 2006: Eigenstrat
24. Simulation results for two populations
25. Logistic regression with/without PC adjustment
26. First 2 PCs ability to capture population structure
27. Eigenstrat: pros and cons
28. New approaches, 2006: mixed model approach
29. Mixed regression model
30. Mixed model approach
31. Discussion
32. Conclusions
33. References

Topics Covered

• Effect of population structure in generating spurious associations
• Cause of problem is confounded by pedigree
• Pre-2006 solutions: design based (TDT), genomic control, structured association
• New solutions in 2006: null markers as regression covariates, principal components as regression covariates, linear mixed models using pairwise kinships

Links

Series:

• Genetic Epidemiology II

Categories:

• Genetics & Epigenetics
• Methods

Talk Citation

Publication History

• Published on October 1, 2007

Financial Disclosures

• Prof. David Balding has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.