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Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies.
Lancet. 2011 Feb 19; 377(9766):641-9.Lct

Abstract

BACKGROUND

Genome-wide association studies (GWAS) for Parkinson's disease have linked two loci (MAPT and SNCA) to risk of Parkinson's disease. We aimed to identify novel risk loci for Parkinson's disease.

METHODS

We did a meta-analysis of datasets from five Parkinson's disease GWAS from the USA and Europe to identify loci associated with Parkinson's disease (discovery phase). We then did replication analyses of significantly associated loci in an independent sample series. Estimates of population-attributable risk were calculated from estimates from the discovery and replication phases combined, and risk-profile estimates for loci identified in the discovery phase were calculated.

FINDINGS

The discovery phase consisted of 5333 case and 12 019 control samples, with genotyped and imputed data at 7 689 524 SNPs. The replication phase consisted of 7053 case and 9007 control samples. We identified 11 loci that surpassed the threshold for genome-wide significance (p<5×10(-8)). Six were previously identified loci (MAPT, SNCA, HLA-DRB5, BST1, GAK and LRRK2) and five were newly identified loci (ACMSD, STK39, MCCC1/LAMP3, SYT11, and CCDC62/HIP1R). The combined population-attributable risk was 60·3% (95% CI 43·7-69·3). In the risk-profile analysis, the odds ratio in the highest quintile of disease risk was 2·51 (95% CI 2·23-2·83) compared with 1·00 in the lowest quintile of disease risk.

INTERPRETATION

These data provide an insight into the genetics of Parkinson's disease and the molecular cause of the disease and could provide future targets for therapies.

FUNDING

Wellcome Trust, National Institute on Aging, and US Department of Defense.

Authors

No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Meta-Analysis
Research Support, N.I.H., Extramural
Research Support, N.I.H., Intramural
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

Language

eng

PubMed ID

21292315

Citation

International Parkinson Disease Genomics Consortium, et al. "Imputation of Sequence Variants for Identification of Genetic Risks for Parkinson's Disease: a Meta-analysis of Genome-wide Association Studies." Lancet (London, England), vol. 377, no. 9766, 2011, pp. 641-9.
International Parkinson Disease Genomics Consortium, Nalls MA, Plagnol V, et al. Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies. Lancet. 2011;377(9766):641-9.
Nalls, M. A., Plagnol, V., Hernandez, D. G., Sharma, M., Sheerin, U. M., Saad, M., Simón-Sánchez, J., Schulte, C., Lesage, S., Sveinbjörnsdóttir, S., Stefánsson, K., Martinez, M., Hardy, J., Heutink, P., Brice, A., Gasser, T., Singleton, A. B., & Wood, N. W. (2011). Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies. Lancet (London, England), 377(9766), 641-9. https://doi.org/10.1016/S0140-6736(10)62345-8
International Parkinson Disease Genomics Consortium, et al. Imputation of Sequence Variants for Identification of Genetic Risks for Parkinson's Disease: a Meta-analysis of Genome-wide Association Studies. Lancet. 2011 Feb 19;377(9766):641-9. PubMed PMID: 21292315.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies. AU - ,, AU - Nalls,Michael A, AU - Plagnol,Vincent, AU - Hernandez,Dena G, AU - Sharma,Manu, AU - Sheerin,Una-Marie, AU - Saad,Mohamad, AU - Simón-Sánchez,J, AU - Schulte,Claudia, AU - Lesage,Suzanne, AU - Sveinbjörnsdóttir,Sigurlaug, AU - Stefánsson,Kári, AU - Martinez,Maria, AU - Hardy,John, AU - Heutink,Peter, AU - Brice,Alexis, AU - Gasser,Thomas, AU - Singleton,Andrew B, AU - Wood,Nicholas W, Y1 - 2011/02/01/ PY - 2011/2/5/entrez PY - 2011/2/5/pubmed PY - 2011/3/30/medline SP - 641 EP - 9 JF - Lancet (London, England) JO - Lancet VL - 377 IS - 9766 N2 - BACKGROUND: Genome-wide association studies (GWAS) for Parkinson's disease have linked two loci (MAPT and SNCA) to risk of Parkinson's disease. We aimed to identify novel risk loci for Parkinson's disease. METHODS: We did a meta-analysis of datasets from five Parkinson's disease GWAS from the USA and Europe to identify loci associated with Parkinson's disease (discovery phase). We then did replication analyses of significantly associated loci in an independent sample series. Estimates of population-attributable risk were calculated from estimates from the discovery and replication phases combined, and risk-profile estimates for loci identified in the discovery phase were calculated. FINDINGS: The discovery phase consisted of 5333 case and 12 019 control samples, with genotyped and imputed data at 7 689 524 SNPs. The replication phase consisted of 7053 case and 9007 control samples. We identified 11 loci that surpassed the threshold for genome-wide significance (p<5×10(-8)). Six were previously identified loci (MAPT, SNCA, HLA-DRB5, BST1, GAK and LRRK2) and five were newly identified loci (ACMSD, STK39, MCCC1/LAMP3, SYT11, and CCDC62/HIP1R). The combined population-attributable risk was 60·3% (95% CI 43·7-69·3). In the risk-profile analysis, the odds ratio in the highest quintile of disease risk was 2·51 (95% CI 2·23-2·83) compared with 1·00 in the lowest quintile of disease risk. INTERPRETATION: These data provide an insight into the genetics of Parkinson's disease and the molecular cause of the disease and could provide future targets for therapies. FUNDING: Wellcome Trust, National Institute on Aging, and US Department of Defense. SN - 1474-547X UR - https://www.unboundmedicine.com/medline/citation/21292315/Imputation_of_sequence_variants_for_identification_of_genetic_risks_for_Parkinson's_disease:_a_meta_analysis_of_genome_wide_association_studies_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0140-6736(10)62345-8 DB - PRIME DP - Unbound Medicine ER -