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Non-replication of association for six polymorphisms from meta-analysis of genome-wide association studies of Parkinson's disease : large-scale collaborative study

Evangelou, Evangelos ; Maraganore, Demetrius M. ; Annesi, Grazia ; Brighina, Laura ; Brice, Alexis ; Elbaz, Alexis ; Ferrarese, Carlo ; Hadjigeorgiou, Georgios M. ; Krueger, Rejko and Lambert, Jean-Charles , et al. (2010) In American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics 153B(1). p.8-220
Abstract

Early genome-wide association (GWA) studies on Parkinson's disease (PD) have not been able to yield conclusive, replicable signals of association, perhaps due to limited sample size. We aimed to investigate whether association signals derived from the meta-analysis of the first two GWA investigations might be replicable in different populations. We examined six single-nucleotide polymorphisms (SNPs) (rs1000291, rs1865997, rs2241743, rs2282048, rs2313982, and rs3018626) that had reached nominal significance with at least two of three different strategies proposed in a previous analysis of the original GWA studies. Investigators from the "Genetic Epidemiology of Parkinson's Disease" (GEOPD) consortium were invited to join in this study.... (More)

Early genome-wide association (GWA) studies on Parkinson's disease (PD) have not been able to yield conclusive, replicable signals of association, perhaps due to limited sample size. We aimed to investigate whether association signals derived from the meta-analysis of the first two GWA investigations might be replicable in different populations. We examined six single-nucleotide polymorphisms (SNPs) (rs1000291, rs1865997, rs2241743, rs2282048, rs2313982, and rs3018626) that had reached nominal significance with at least two of three different strategies proposed in a previous analysis of the original GWA studies. Investigators from the "Genetic Epidemiology of Parkinson's Disease" (GEOPD) consortium were invited to join in this study. Ten teams contributed replication data from 3,458 PD cases and 3,719 controls. The data from the two previously published GWAs (599 PD cases, 592 controls and 443 sibling pairs) were considered as well. All data were synthesized using both fixed and random effects models. The summary allelic odds ratios were ranging from 0.97 to 1.09 by random effects, when all data were included. The summary estimates of the replication data sets (excluding the original GWA data) were very close to 1.00 (range 0.98-1.09) and none of the effects were nominally statistically significant. The replication data sets had significantly different results than the GWA data. Our data do not support evidence that any of these six SNPs reflect susceptibility markers for PD. Much stronger signals of statistical significance in GWA platforms are needed to have substantial chances of replication. Specifically in PD genetics, this would require much larger GWA studies and perhaps novel analytical techniques.

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type
Contribution to journal
publication status
published
subject
keywords
Genome-Wide Association Study, Humans, Parkinson Disease, Polymorphism, Genetic, Journal Article, Meta-Analysis, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't
in
American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics
volume
153B
issue
1
pages
9 pages
publisher
International Society of Psychiatric Genetics
external identifiers
  • scopus:73949093664
  • pmid:19475631
ISSN
1552-4841
DOI
10.1002/ajmg.b.30980
language
English
LU publication?
yes
additional info
Andreas Puschmann is part of Group Author
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d0ae63cd-6b51-4659-adcb-8d4ecc989d13
date added to LUP
2017-07-04 15:44:51
date last changed
2025-01-07 16:40:25
@article{d0ae63cd-6b51-4659-adcb-8d4ecc989d13,
  abstract     = {{<p>Early genome-wide association (GWA) studies on Parkinson's disease (PD) have not been able to yield conclusive, replicable signals of association, perhaps due to limited sample size. We aimed to investigate whether association signals derived from the meta-analysis of the first two GWA investigations might be replicable in different populations. We examined six single-nucleotide polymorphisms (SNPs) (rs1000291, rs1865997, rs2241743, rs2282048, rs2313982, and rs3018626) that had reached nominal significance with at least two of three different strategies proposed in a previous analysis of the original GWA studies. Investigators from the "Genetic Epidemiology of Parkinson's Disease" (GEOPD) consortium were invited to join in this study. Ten teams contributed replication data from 3,458 PD cases and 3,719 controls. The data from the two previously published GWAs (599 PD cases, 592 controls and 443 sibling pairs) were considered as well. All data were synthesized using both fixed and random effects models. The summary allelic odds ratios were ranging from 0.97 to 1.09 by random effects, when all data were included. The summary estimates of the replication data sets (excluding the original GWA data) were very close to 1.00 (range 0.98-1.09) and none of the effects were nominally statistically significant. The replication data sets had significantly different results than the GWA data. Our data do not support evidence that any of these six SNPs reflect susceptibility markers for PD. Much stronger signals of statistical significance in GWA platforms are needed to have substantial chances of replication. Specifically in PD genetics, this would require much larger GWA studies and perhaps novel analytical techniques.</p>}},
  author       = {{Evangelou, Evangelos and Maraganore, Demetrius M. and Annesi, Grazia and Brighina, Laura and Brice, Alexis and Elbaz, Alexis and Ferrarese, Carlo and Hadjigeorgiou, Georgios M. and Krueger, Rejko and Lambert, Jean-Charles and Lesage, Suzanne and Markopoulou, Katerina and Mellick, George D. and Meeus, Bram and Pedersen, Nancy L. and Quattrone, Aldo and Van Broeckhoven, Christine and Sharma, Manu and Silburn, Peter A. and Tan, Eng-King and Wirdefeldt, Karin and Ioannidis, John P A and Puschmann, Andreas}},
  issn         = {{1552-4841}},
  keywords     = {{Genome-Wide Association Study; Humans; Parkinson Disease; Polymorphism, Genetic; Journal Article; Meta-Analysis; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't}},
  language     = {{eng}},
  month        = {{01}},
  number       = {{1}},
  pages        = {{8--220}},
  publisher    = {{International Society of Psychiatric Genetics}},
  series       = {{American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics}},
  title        = {{Non-replication of association for six polymorphisms from meta-analysis of genome-wide association studies of Parkinson's disease : large-scale collaborative study}},
  url          = {{http://dx.doi.org/10.1002/ajmg.b.30980}},
  doi          = {{10.1002/ajmg.b.30980}},
  volume       = {{153B}},
  year         = {{2010}},
}