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Navigable Slide Index

1. Introduction
2. Frequency by effect
3. Classes of causal alleles
4. Fifty years of genetic epidemiology
5. Recombination
6. Linkage mapping of disease genes
7. Linkage disequilibrium
8. Mapping disease genes by linkage disequilibrium
9. Not all allelic association is due to LD
10. Single nucleotide polymorphisms (SNPs)
11. Association between pairs of SNPs
12. Association (rho)
13. LD by distance - the Malecot model
14. LD unit (LDU) maps and the LDMAP program
15. What is an LD map?
16. Constructing linkage disequilibrium maps
17. LD map graph: class II region of MHC segment
18. LD maps for isolated populations
19. Demographic history of population isolates
20. LDU maps for the 12 populations
21. Isolates
22. Haplotype map (HapMap) project
23. HapMap project and genome-wide LD maps
24. Phase I and phase II maps
25. HapMap chromosome 19 - LD and linkage maps
26. Phase II data for chromosome 22
27. LDU (phase II) and linkage map relationship
28. LD association mapping and CHROMSCAN
29. HFE region of chromosome 6
30. Association mapping (CHROMSCAN)
31. Composite likelihood and meta-analysis
32. LD mapping and CYP2D6 associated region
33. The location of the CYP2D6 mutation
34. Comparison of kilobase and LDU maps
35. HapMap and CYP LDU maps: the CYP2D6 region
36. Comparison of alternative LDU maps
37. Localization of CYP2D6
38. Testing association by 'breaking' the genome
39. Chromosome 1 - AMD
40. msSNPs
41. msSNP Chi-squares
42. P value distribution for 201 regions (CFH data)
43. Genome-wide association: conclusions
44. Publications and software
45. Acknowledgements

Topics Covered

• The nature of complex traits and introduction to linkage and association mapping
• Measures of linkage disequilibrium
• Methodology for constructing linkage disequilibrium maps and their properties
• Application to different human populations and relevance of linkage patterns/population bottlenecks
• Association mapping
• Importance of linkage disequilibrium structure
• Methodology for association mapping and interpretation of patterns of association
• Applications to example datasets and contrast with msSNP approach

Links

Series:

• Genetic Epidemiology II

Categories:

• Genetics & Epigenetics
• Methods

Talk Citation

Publication History

• Published on October 1, 2007
• Archived on February 25, 2021

Financial Disclosures

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