On the follow-up of genome-wide association studies: An overall test for the most promising SNPs

Genetic Epidemiology

Volumn 35, Issue 5, 2011, Pages 303-309

  Lipman, Peter J ^a   Cho, Michael H ^b   Bakke, Per ^c,d   Gulsvik, Amund ^c,d   Kong, Xiangyang ^e   Lomas, David A ^f   Anderson, Wayne ^e   Silverman, Edwin K ^b   Lange, Christoph ^a,b,g  

^a HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

^b BRIGHAM AND WOMEN S HOSPITAL   (United States)

^c HAUKELAND UNIVERSITY HOSPITAL   (Norway)

^d UNIVERSITY OF BERGEN   (Norway)

^e GLAXOSMITHKLINE   (United States)

^f UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^g UNIVERSITY OF BONN   (Germany)

Author keywords

Chronic obstructive pulmonary disease; Genome wide association studies; Multiple testing; SNP association tests; Statistical genetics

Indexed keywords

ARTICLE; CHRONIC OBSTRUCTIVE LUNG DISEASE; CIGARETTE SMOKING; CONTROLLED STUDY; FOLLOW UP; GENETIC ASSOCIATION; GENOTYPE; HISTOGRAM; HUMAN; MAJOR CLINICAL STUDY; NULL HYPOTHESIS; SIMULATION; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL PARAMETERS;

COMPUTER SIMULATION; GENOME-WIDE ASSOCIATION STUDY; HUMANS; LINKAGE DISEQUILIBRIUM; MODELS, GENETIC; MODELS, STATISTICAL; MOLECULAR EPIDEMIOLOGY; POLYMORPHISM, SINGLE NUCLEOTIDE; PULMONARY DISEASE, CHRONIC OBSTRUCTIVE;

EID: 79958131065     PISSN: 07410395     EISSN: 10982272     Source Type: Journal    
DOI: 10.1002/gepi.20578     Document Type: Article

References (13)

1. Bell B, Rose C, Damon H. 1972. The Normative Aging Study: an interdisciplinary and longitudinal study of health and aging. Aging Hum Dev 3:5-17.
2. Benjamini Y, Hochberg Y. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B 57:289-300.
3. Cho MH, Boutaoui N, Klanderman BJ, Sylvia JS, Ziniti JP, Hersh CP, DeMeo DL, Hunninghake GM, Litonjua AA, Sparrow D, Lange C, Won S, Murphy JR, Beaty TH, Regan EA, Make BJ, Hokanson JE, Crapo JD, Kong X, Anderson WH, Tal-Singer R, Lomas DA, Bakke P, Gulsvik A, Pillai SG, Silverman EK. 2010. Variants in FAM13A are associated with chronic obstructive pulmonary disease. Nat Genet 42:200-202.
4. Fishman A, Martinez F, Naunheim K, Piantadosi S, Wise R, Ries A, Weinnmann G, Wood DE. 2003. A randomized trial comparing lung-volume-reduction surgery with medical therapy for severe emphysema. N Engl J Med 348:2059-2073.
5. Hersh CP, Demeo DL, Lange C, Litonjua AA, Reilly JJ, Kwiatkowski D, Laird N, Sylvia JS, Sparrow D, Speizer FE, Weiss ST, Silverman EK. 2005. Attempted replication of reported chronic obstructive pulmonary disease candidate gene associations. Am J Respir Cell Mol Biol 33:71-78.
6. Massey FJ. 1951. The Kolmogorov-Smirnov Test for goodness of fit. J Am Stat Assoc 46:68-78.
7. Pillai SG, Ge D, Zhu G, Kong X, Shianna KV, Need AC, Feng S, Hersh CP, Bakke P, Gulsvik A, Ruppert A, Ldrup Carlsen KC, Roses A, Anderson W, Rennard SI, Lomas DA, Silverman EK, Goldstein DB, ICGN Investigators. 2009. A genome-wide association study in chronic obstructive pulmonary disease (COPD): identification of two major susceptibility loci. PLoS Genet 5:e1000421.
8. Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D. 2006. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 38:904-909.
9. Purcell S, Neale B, Todd-Browne K, Thomas L, Ferreira MAR, Bender D, Maller J, de Bakker, PIW, Daly MJ, Sham PC. 2007. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81:559-575.
10. Rabe KF, Hurd S, Anzueto A, Barnes PJ, Buist SA, Calverley P, Fukuchi Y, Jenkins C, Rodriguez-Roisin R, van Weel C, Zielinski J. 2007. Global Strategy for the Diagnosis, Management, and Prevention of Chronic Obstructive Pulmonary Disease: GOLD Executive Summary. Am J Respir Crit Care Med 176:532-555.
11. Self SG, Liang KY. 1987. Asymptotic properties of maximum likelihood estimators and likelihood ratio tests under nonstandard conditions. J Am Stat Assoc 398:605-610.
12. Vestbo J, Anderson W, Coxson HO, Crim C, Dawber F, Edwards L, Hagan G, Knobil K, Lomas DA, MacNee W, Silverman EK, Tai-Singer R, ECLIPSE Investigators. 2008. Evaluation of COPD longitudinally to identify predictive surrogate end-points (ECLIPSE). Eur Respir J 31:869-873.
13. Zhu G, Warren L, Aponte J, Gulsvik A, Bakke P, Anderson WH, Lomas DA, Silverman EK, Pillai SG, ICGN Investigators. 2007. The SERPINE2 gene is associated with chronic obstructive pulmonary disease in two large populations. Am J Respir Crit Care Med 176:167-173.