Article (Scientific journals)
Investigation of the fine structure of European populations with applications to disease association studies
heath, sc; gut, ivo; brennan, p et al.
2008In European Journal of Human Genetics, 16, p. 1413-1429
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Abstract :
[en] An investigation into fine-scale European population structure was carried out using high-density genetic variation on nearly 6000 individuals originating from across Europe. The individuals were collected as control samples and were genotyped with more than 300 000 SNPs in genome-wide association studies using the Illumina Infinium platform. A major East-West gradient from Russian (Moscow) samples to Spanish samples was identified as the first principal component (PC) of the genetic diversity. The second PC identified a North-South gradient from Norway and Sweden to Romania and Spain. Variation of frequencies at markers in three separate genomic regions, surrounding LCT, HLA and HERC2, were strongly associated with this gradient. The next 18 PCs also accounted for a significant proportion of genetic diversity observed in the sample. We present a method to predict the ethnic origin of samples by comparing the sample genotypes with those from a reference set of samples of known origin. These predictions can be performed using just summary information on the known samples, and individual genotype data are not required. We discuss issues raised by these data and analyses for association studies including the matching of case-only cohorts to appropriate pre-collected control samples for genome-wide association studies.
Disciplines :
Genetics & genetic processes
Author, co-author :
heath, sc
gut, ivo
brennan, p
mckay, jd
bencko, v
fabianova, e
foretova, l
Georges, Michel  ;  Université de Liège - ULiège > Département de productions animales > GIGA-R : Génomique animale
janout, v
kabesch, m
krokan, he
elvestad, mb
lissowska, j
mates, d
rudnai, p
skorpen, f
schreiber, s
soria, jm
syvänen, ac
meneton, p
herçberg, s
galan, p
szeszenia-dabrowska, n
zaridze, d
génin, e
CARDON, Wesley ;  Centre Hospitalier Universitaire de Liège - CHU > Exploitation technique-maintenance des bâtiments
Lathrop, Mark
More authors (17 more) Less
Language :
English
Title :
Investigation of the fine structure of European populations with applications to disease association studies
Publication date :
December 2008
Journal title :
European Journal of Human Genetics
ISSN :
1018-4813
eISSN :
1476-5438
Publisher :
Nature Publishing Group, London, United Kingdom
Volume :
16
Pages :
1413-1429
Peer reviewed :
Peer Reviewed verified by ORBi
Available on ORBi :
since 08 November 2011

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