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  • Tehua Lu, TimothyUniversity of Kiel (author)

An evaluation of the genetic-matched pair study design using genome-wide SNP data from the European population

  • Article/chapterEnglish2009

Publisher, publication year, extent ...

  • 2009-01-21
  • Springer Science and Business Media LLC,2009
  • printrdacarrier

Numbers

  • LIBRIS-ID:oai:DiVA.org:liu-53858
  • https://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-53858URI
  • https://doi.org/10.1038/ejhg.2008.266DOI

Supplementary language notes

  • Language:English
  • Summary in:English

Part of subdatabase

Classification

  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • Genetic matching potentially provides a means to alleviate the effects of incomplete Mendelian randomization in population-based gene-disease association studies. We therefore evaluated the genetic-matched pair study design on the basis of genome-wide SNP data (309 790 markers; Affymetrix GeneChip Human Mapping 500K Array) from 2457 individuals, sampled at 23 different recruitment sites across Europe. Using pair-wise identity-by-state (IBS) as a matching criterion, we tried to derive a subset of markers that would allow identification of the best overall matching (BOM) partner for a given individual, based on the IBS status for the subset alone. However, our results suggest that, by following this approach, the prediction accuracy is only notably improved by the first 20 markers selected, and increases proportionally to the marker number thereafter. Furthermore, in a considerable proportion of cases (76.0%), the BOM of a given individual, based on the complete marker set, came from a different recruitment site than the individual itself. A second marker set, specifically selected for ancestry sensitivity using singular value decomposition, performed even more poorly and was no more capable of predicting the BOM than randomly chosen subsets. This leads us to conclude that, at least in Europe, the utility of the genetic-matched pair study design depends critically on the availability of comprehensive genotype information for both cases and controls. European Journal of Human Genetics (2009) 17, 967-975; doi:10.1038/ejhg.2008.266; published online 21 January 2009

Subject headings and genre

  • population structure; matching; association; ancestry; microarray
  • TECHNOLOGY
  • TEKNIKVETENSKAP

Added entries (persons, corporate bodies, meetings, titles ...)

  • Lao, OscarErasmus University (author)
  • Nothnagel, MichaelUniversity of Kiel (author)
  • Junge, OlafUniversity of Kiel (author)
  • Freitag-Wolf, SandraUniversity of Kiel (author)
  • Caliebe, AmkeUniversity of Kiel (author)
  • Balascakova, MiroslavaCharles University of Prague (author)
  • Bertranpetit, JaumeUniversity of Pompeu Fabra (author)
  • Albert Bindoff, LaurenceHaukeland Hospital (author)
  • Comas, DavidUniversity of Pompeu Fabra (author)
  • Holmlund, GunillaLinköpings universitet,Institutionen för klinisk och experimentell medicin,Hälsouniversitetet(Swepub:liu)gunho29 (author)
  • Kouvatsi, AnastasiaAristotle University of Thessaloniki (author)
  • Macek, MilanCharles University of Prague (author)
  • Mollet, IsabelleEFS RA Site Lyon (author)
  • Nielsen, FinnUniversity of Copenhagen (author)
  • Parson, WaltherMedical University of Innsbruck (author)
  • Palo, JukkaUniversity of Helsinki (author)
  • Ploski, RafalWarsaw Medical University (author)
  • Sajantila, AnttiUniversity of Helsinki (author)
  • Tagliabracci, AdrianoUniversity of Ancona (author)
  • Gether, UlrikUniversity of Copenhagen (author)
  • Werge, ThomasCopenhagen University Hospital (author)
  • Rivadeneira, FernandoErasmus University (author)
  • Hofman, AlbertErasmus University (author)
  • Gerardus Uitterlinden, AndreErasmus University (author)
  • Gieger, ChristianGerman Research Centre for Environmental Health (author)
  • Wichmann, Heinz-ErichGerman Research Centre for Environmental Health (author)
  • Ruether, AndreasUniversity of Kiel (author)
  • Schreiber, StefanUniversity of Kiel (author)
  • Becker, ChristianUniversity of Cologne (author)
  • Nuernberg, PeterUniversity of Cologne (author)
  • Roberts Nelson, MatthewGlaxoSmithKline Inc (author)
  • Kayser, ManfredErasmus University (author)
  • Krawczak, MichaelUniversity of Kiel (author)
  • University of KielErasmus University (creator_code:org_t)

Related titles

  • In:European Journal of Human Genetics: Springer Science and Business Media LLC17:7, s. 967-9751018-48131476-5438

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