Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Correspondence
  • Published:

Reply to 'Haplotype block structure of the cytochrome P450 CYP2C gene cluster on chromosome 10'

Nature Genetics volume 37, page 916 (2005)Cite this article

Access through your institution
Buy or subscribe

In reply:

Walton et al. discuss two points regarding the selection of tagging SNPs (tSNPs) for genetic association studies. The first relates to the genomic boundaries within which tSNPs are selected. The computational constraints on multiple-marker methods of selecting tSNPs make it impractical to consider contiguous stretches of sequence beyond a certain size; beyond this, it is necessary to follow some scheme to subdivide the region. Walton et al. note that the division selected for one of our regions, the polygenic CYP2C region, will influence the tSNP efficiency (i.e., minimizing the number of tSNPs needed to achieve a desired level of power against untyped causal variants). Second, Walton et al. note that there may be long-range haplotypes extending across genes in the CYP2C cluster that may form functional units. As general principles, we agree with both these points. In fact, we were among the first to show that combining smaller regions into single large ones, where possible, led to considerable increases in SNP tagging efficiency1. We also think that the occurrence of two or more genes in strong linkage disequilibrium (LD) could make it useful to consider intergene haplotypes as integrated units in association studies.

This is a preview of subscription content, access via your institution

Relevant articles

Open Access articles citing this article.

Access options

Access through your institution

Buy this article

  • Purchase on SpringerLink
  • Instant access to full article PDF
Buy now

Prices may be subject to local taxes which are calculated during checkout

References

  1. Goldstein, D.B., Ahmadi, K.R., Weale, M.E. & Wood, N.W. Genome scans and candidate gene approaches in the study of common diseases and variable drug responses. Trends Genet. 19, 615–622 (2003).

    Article  CAS  Google Scholar 

  2. Gabriel, S.B. et al. The structure of haplotype blocks in the human genome. Science 296, 2225–2229 (2002).

    Article  CAS  Google Scholar 

  3. Ahmadi, K.R. et al. A single-nucleotide polymorphism tagging set for human drug metabolism and transport. Nat. Genet. 37, 84–89 (2005).

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Department of Biology (Galton Lab), University College London, The Darwin Building, Gower Street, London, WC1E 6BT, UK

    Kourosh R Ahmadi

  2. Department of Medicine (Institute for Human Genetics and Health), University College London, The Darwin Building, Gower Street, London, WC1E 6BT, UK

    Michael E Weale

  3. Genetics Research, GlaxoSmithKline, PO Box 13398, Five Moore Drive, Research Triangle Park, 27709, North Carolina, USA

    Allen D Roses & Ann M Saunders

  4. Institute for Genome Sciences and Policy, Duke University, CIEMAS, 101 Science Drive, Box 3382, Durham, 27708, North Carolina, USA

    David B Goldstein

Authors
  1. Kourosh R Ahmadi
    View author publications

    Search author on:PubMed Google Scholar

  2. Michael E Weale
    View author publications

    Search author on:PubMed Google Scholar

  3. Allen D Roses
    View author publications

    Search author on:PubMed Google Scholar

  4. Ann M Saunders
    View author publications

    Search author on:PubMed Google Scholar

  5. David B Goldstein
    View author publications

    Search author on:PubMed Google Scholar

Corresponding authors

Correspondence to Kourosh R Ahmadi or David B Goldstein.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Ahmadi, K., Weale, M., Roses, A. et al. Reply to 'Haplotype block structure of the cytochrome P450 CYP2C gene cluster on chromosome 10'. Nat Genet 37, 916 (2005). https://doi.org/10.1038/ng0905-916

Download citation

  • Issue date:

  • DOI: https://doi.org/10.1038/ng0905-916

This article is cited by

Search

Advanced search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing