Human Genetics

, Volume 119, Issue 1–2, pp 220–222 | Cite as

On the utility of data from the International HapMap Project for Australian association studies

  • Jim Stankovich
  • Charles J. Cox
  • Rachel B. Tan
  • Douglas S. Montgomery
  • Stewart J. Huxtable
  • Justin P. Rubio
  • Margaret G. Ehm
  • Laura Johnson
  • Helmut Butzkueven
  • Trevor J. Kilpatrick
  • Terence P. Speed
  • Allen D. Roses
  • Melanie Bahlo
  • Simon J. Foote
Short Report

Abstract

We compare patterns of linkage disequilibrium (LD) for 633 SNPs in two regions between samples collected in two Australian states and HapMap samples collected from Utah residents of Northern and Western (NW) European ancestry (CEU). Patterns of LD in the Australian and HapMap samples are similar, and tag SNPs chosen using HapMap genotypes perform almost as well on Australian samples as tags chosen using Australian genotypes.

References

  1. de Bakker PI, Yelensky R, Pe’er I, Gabriel SB, Daly MJ, Altshuler D (2005) Efficiency and power in genetic association studies. Nat Genet 37:1217–1223CrossRefPubMedGoogle Scholar
  2. Barrett JC, Fry B, Maller J, Daly MJ (2005) Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21:263–265CrossRefPubMedGoogle Scholar
  3. Rubio JP, Bahlo M, Butzkueven H, van Der Mei IA, Sale MM, Dickinson JL, Groom P, Johnson LJ, Simmons RD, Tait B, Varney M, Taylor B, Dwyer T, Williamson R, Gough NM, Kilpatrick TJ, Speed TP, Foote SJ (2002) Genetic dissection of the human leukocyte antigen region by use of haplotypes of Tasmanians with multiple sclerosis. Am J Hum Genet 70:1125–1137CrossRefPubMedGoogle Scholar
  4. Rubio JP, Bahlo M, Tubridy N, Stankovich J, Burfoot R, Butzkueven H, Chapman C, Johnson L, Marriott M, Mraz G, Tait B, Wilkinson C, Taylor B, Speed TP, Foote SJ, Kilpatrick TJ (2004) Extended haplotype analysis in the HLA complex reveals an increased frequency of the HFE–C282Y mutation in individuals with multiple sclerosis. Hum Genet 114:573–580CrossRefPubMedGoogle Scholar
  5. Taylor JD, Briley D, Nguyen Q, Long K, Iannone MA, Li MS, Ye F, Afshari A, Lai E, Wagner M, Chen J, Weiner MP (2001) Flow cytometric platform for high-throughput single nucleotide polymorphism analysis. Biotechniques 30(3):661–666, 668–669Google Scholar
  6. The International HapMap Consortium (2005) A haplotype map of the human genome. Nature 437:1299–1320CrossRefGoogle Scholar

Copyright information

© Springer-Verlag 2006

Authors and Affiliations

  • Jim Stankovich
    • 1
  • Charles J. Cox
    • 2
  • Rachel B. Tan
    • 1
  • Douglas S. Montgomery
    • 2
  • Stewart J. Huxtable
    • 1
  • Justin P. Rubio
    • 3
  • Margaret G. Ehm
    • 2
  • Laura Johnson
    • 3
  • Helmut Butzkueven
    • 3
  • Trevor J. Kilpatrick
    • 3
  • Terence P. Speed
    • 1
  • Allen D. Roses
    • 2
  • Melanie Bahlo
    • 1
  • Simon J. Foote
    • 1
    • 4
  1. 1.Division of Genetics and BioinformaticsThe Walter and Eliza Hall Institute of Medical ResearchParkvilleAustralia
  2. 2.GlaxoSmithKline R&DHarlowUK
  3. 3.The Howard Florey InstituteUniversity of MelbourneParkvilleAustralia
  4. 4.Menzies Research InstituteUniversity of TasmaniaHobartAustralia

Personalised recommendations