Biostatistics 666: Linkage Disequilibrium
Objective
Introduce the concept of linkage disequilibrium. Provide students with an understanding of D' and r^2, the most common measures of linkage disequilibrium, and the forces that shape them. Provide several illustrations of the extent of linkage disequilibrium in the genome. Introduce the concept of SNP-tagging.
Slides
Background Reading
Dawson E, Abecasis GR, Bumpstead S, Chen Y, Hunt S, Beare DM, Pabial J, Dibling T, Tinsley E, Kirby S, Carter D, Papaspyridonos M, Livingstone S, Ganske R, Lohmussaar E, Zernant J, Tonisson N, Remm M, Magi R, Puurand T, Vilo J, Kurg A, Rice K, Deloukas P, Mott R, Metspalu A, Bentley DR, Cardon LR and Dunham I (2002). A first-generation linkage disequilibrium map of human chromosome 22. Nature 418:544-548 Link
The International HapMap Consortium. (2005). A haplotype map of the human genome. Nature 437:1299-320
Carlson CS, Eberle MA, Rieder MJ, Yi Q, Kruglyak L, Nickerson DA (2004). Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet 74:106-120
