• Archived Lectures *These may not cover the latest advances in the field
• 31 min
  1. Designing a genome-wide association study

  • Dr. Chris Spencer
• 49 min
  2. Genotyping algorithms for genome wide association studies

  • Dr. Vincent Plagnol
• 35 min
  3. Statistical tests for association

  • Dr. Andrew Morris
• 32 min
  4. Population structure in genome-wide association studies

  • Dr. Dan Davison
• 33 min
  5. Imputation in genome-wide association analysis

  • Prof. Jonathan Marchini
• 58 min
  6. Assessing significance in genome-wide studies

  • Dr. David Evans
• 27 min
  7. Meta-analysis in genome-wide association studies: application to type 2 diabetes

  • Dr. Eleftheria Zeggini
• 20 min
  8. Imputing genotypes in genome-wide association studies

  • Prof. Jonathan Marchini
• 20 min
  9. Quality control measures for GWAS

  • Dr. Jeffrey Barrett
• 31 min
  10. Copy number variation and association studies

  • Dr. Don Conrad

Printable Handouts

PDF

Navigable Slide Index

1. Introduction
2. Main questions
3. Talk outline
4. Hypothesis testing
5. Ruling out artefacts
6. Asymptotic p values
7. Interpreting p values
8. Criticisms of p values
9. Multiple testing
10. Problems with Bonferroni adjustments
11. Results of a genome-wide meta-analysis
12. Permutation testing
13. How permutation work (1)
14. How permutation work (2)
15. How permutation work (3)
16. Permutation testing in PLINK
17. Permutation testing - other study designs
18. Bayes factors - description
19. Calculating Bayes factors - likelihood
20. Priors
21. Thresholding Bayes factors
22. Bayes factors - limitations
23. p values vs. Bayes factors
24. Replication
25. Guidelines for replication studies
26. Acknowledgements

Topics Covered

• Hypothesis testing
• Ruling out artefactual associations
• Asymptotic P values and problems with interpretation
• Multiple testing and Bonferroni corrections
• Permutation, pointwise and genomewise significance
• Bayes factors
• Comparison between P values and Bayes factors
• Replication studies

Links

Series:

• Statistical Methods for the Analysis of Genome-Wide Association Studies

Categories:

• Genetics & Epigenetics
• Methods

Talk Citation

Publication History

• Published on June 4, 2008
• Archived on February 6, 2025

Financial Disclosures

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