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

Leu, Monica; Humphreys, Keith; Surakka, Ida; Rehnberg, Emil; Muilu, Juha; Rosenstrom, Paivi; Almgren, Peter LU ; Jaaskelainen, Juha; Lifton, Richard P. and Kyvik, Kirsten Ohm, et al. (2010) In European Journal of Human Genetics 18(12). p.1322-1326
Abstract
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... (More)
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 (Less)
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Contribution to journal
publication status
published
subject
keywords
population, stratification, Nordic Control Database, common controls, genome-wide data
in
European Journal of Human Genetics
volume
18
issue
12
pages
1322 - 1326
publisher
Nature Publishing Group
external identifiers
  • wos:000284376800010
  • scopus:78549251700
ISSN
1476-5438
DOI
10.1038/ejhg.2010.112
language
English
LU publication?
yes
id
fe38d2b3-8f1a-4fd0-a8ad-e28c6c6fec61 (old id 1752496)
date added to LUP
2011-01-04 07:36:20
date last changed
2018-05-29 10:10:25
@article{fe38d2b3-8f1a-4fd0-a8ad-e28c6c6fec61,
  abstract     = {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},
  author       = {Leu, Monica and Humphreys, Keith and Surakka, Ida and Rehnberg, Emil and Muilu, Juha and Rosenstrom, Paivi and Almgren, Peter and Jaaskelainen, Juha and Lifton, Richard P. and Kyvik, Kirsten Ohm and Kaprio, Jaakko and Pedersen, Nancy L. and Palotie, Aarno and Hall, Per and Gronberg, Henrik and Groop, Leif and Peltonen, Leena and Palmgren, Juni and Ripatti, Samuli},
  issn         = {1476-5438},
  keyword      = {population,stratification,Nordic Control Database,common controls,genome-wide data},
  language     = {eng},
  number       = {12},
  pages        = {1322--1326},
  publisher    = {Nature Publishing Group},
  series       = {European Journal of Human Genetics},
  title        = {NordicDB: a Nordic pool and portal for genome-wide control data},
  url          = {http://dx.doi.org/10.1038/ejhg.2010.112},
  volume       = {18},
  year         = {2010},
}