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NordicDB: a Nordic pool and portal for genome-wide control data

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Author

  • Monica Leu
  • Keith Humphreys
  • Ida Surakka
  • Emil Rehnberg
  • Juha Muilu
  • Paivi Rosenstrom
  • Peter Almgren
  • Juha Jaaskelainen
  • Richard P. Lifton
  • Kirsten Ohm Kyvik
  • Jaakko Kaprio
  • Nancy L. Pedersen
  • Aarno Palotie
  • Per Hall
  • Henrik Gronberg
  • Leif Groop
  • Leena Peltonen
  • Juni Palmgren
  • Samuli Ripatti
Show all

Summary, in English

A cost-efficient way to increase power in a genetic association study is to pool controls from different sources. The genotyping effort can then be directed to large case series. The Nordic Control database, NordicDB, has been set up as a unique resource in the Nordic area and the data are available for authorized users through the web portal (http://www.nordicdb.org). The current version of NordicDB pools together high-density genome-wide SNP information from similar to 5000 controls originating from Finnish, Swedish and Danish studies and shows country-specific allele frequencies for SNP markers. The genetic homogeneity of the samples was investigated using multidimensional scaling (MDS) analysis and pairwise allele frequency differences between the studies. The plot of the first two MDS components showed excellent resemblance to the geographical placement of the samples, with a clear NW-SE gradient. We advise researchers to assess the impact of population structure when incorporating NordicDB controls in association studies. This harmonized Nordic database presents a unique genome-wide resource for future genetic association studies in the Nordic countries. European Journal of Human Genetics (2010) 18, 1322-1326; doi: 10.1038/ejhg.2010.112; published online 28 July 2010

Publishing year

2010

Language

English

Pages

1322-1326

Publication/Series

European Journal of Human Genetics

Volume

18

Issue

12

Document type

Journal article

Publisher

Nature Publishing Group

Topic

  • Medical Genetics

Keywords

  • population
  • stratification
  • Nordic Control Database
  • common controls
  • genome-wide data

Status

Published

Research group

  • Genomics, Diabetes and Endocrinology

ISBN/ISSN/Other

  • ISSN: 1476-5438