Methods for adjusting population structure and familial relatedness in association test for collective effect of multiple rare variants on quantitative traits

BMC Proceedings

Volumn 5, Issue SUPPL. 9, 2011, Pages

  Zhang, Qunyuan ^a   Chung, Doyoung ^a   Kraja, Aldi ^a   Borecki, Ingrid I ^a   Province, Michael A ^a  

^a WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFERENCE PAPER; FALSE POSITIVE RESULT; FAMILY; GENE REPLICATION; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC VARIABILITY; HUMAN; PEDIGREE; POPULATION STRUCTURE; PRIORITY JOURNAL; QUANTITATIVE TRAIT; STATISTICAL MODEL;

EID: 82455183195     PISSN: None     EISSN: 17536561     Source Type: Journal    
DOI: 10.1186/1753-6561-5-S9-S35     Document Type: Conference Paper

References (18)

1. Multiple rare alleles contribute to low plasma levels of HDL cholesterol. Cohen JC, Kiss RS, Pertsemlidis A, Marcel YL, McPherson R, Hobbs HH, Science 2004 305 869 872 10.1126/science.1099870 15297675 (Pubitemid 39038422)
2. Sequence variations in PCSK9, low LDL, and protection against coronary heart disease. Cohen JC, Boerwinkle E, Mosley TH Jr, Hobbs HH, New Engl J Med 2006 354 1264 1272 10.1056/NEJMoa054013 16554528
3. Medical sequencing at the extremes of human body mass. Ahituv N, Kavaslar N, Schackwitz W, Ustaszewska A, Martin J, Hebert S, Doelle H, Ersoy B, Kryukov G, Schmidt S, et al. Am J Hum Genet 2007 80 779 791 10.1086/513471 17357083 (Pubitemid 46564414)
4. Rare independent mutations in renal salt handling genes contribute to blood pressure variation. Ji W, Foo JN, ORoak BJ, Zhao H, Larson MG, Simon DB, Newton-Cheh C, State MW, Levy D, Lifton RP, Nat Genet 2008 40 592 599 10.1038/ng.118 18391953 (Pubitemid 351601207)
5. Rare variants of IFIH1, a gene implicated in antiviral responses, protect against type 1 diabetes. Nejentsev S, Walker N, Riches D, Egholm M, Todd JA, Science 2009 324 387 389 10.1126/science.1167728 19264985
6. Excess of rare variants in genes identified by genome-wide association study of hypertriglyceridemia. Johansen CT, Wang J, Lanktree MB, Cao H, McIntyre AD, Ban MR, Martins RA, Kennedy BA, Hassell RG, Visser ME, et al. Nat Genet 2010 42 684 687 10.1038/ng.628 20657596
7. Genomics: in search of rare human variants. Nielsen R, Nature 2010 467 1050 1051 10.1038/4671050a 20981085
8. Statistical analysis strategies for association studies involving rare variants. Bansal V, Libiger O, Torkamani A, Schork NJ, Nat Rev Genet 2010 11 773 785 20940738
9. A strategy to discover genes that carry multi-allelic or mono-allelic risk for common diseases: a cohort allelic sums test (CAST). Morgenthaler S, Thilly WB, Mutat Res 2007 615 28 56 10.1016/j.mrfmmm.2006.09.003 17101154 (Pubitemid 46054081)
10. Methods for detecting associations with rare variants for common diseases: application to analysis of sequence data. Li B, Leal SM, Am J Hum Genet 2008 83 311 321 10.1016/j.ajhg.2008.06.024 18691683
11. A groupwise association test for rare mutations using a weighted sum statistic. Madsen BE, Browning SR, PLoS Genet 2009 5 1000384 10.1371/journal.pgen.1000384 19214210
12. A data-adaptive sum test for disease association with multiple common or rare variants. Han F, Pan W, Hum Hered 2010 70 42 54 10.1159/000288704 20413981
13. An evaluation of statistical approaches to rare variant analysis in genetic association studies. Morris AP, Zeggini E, Genet Epidemiol 2010 34 188 193 10.1002/gepi.20450 19810025
14. Pooled association tests for rare variants in exon-resequencing studies. Price AL, Kryukov GV, de Bakker PI, Purcell SM, Staples J, Wei LJ, Sunyaev SR, Am J Hum Genet 2010 86 832 838 10.1016/j.ajhg.2010.04.005 20471002
15. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Yu J, Pressoir G, Briggs WH, Vroh Bi I, Yamasaki M, Doebley JF, McMullen MD, Gaut BS, Nielsen DM, Holland JB, et al. Nat Genet 2006 38 203 208 10.1038/ng1702 16380716 (Pubitemid 43177234)
16. Genetic Analysis Workshop 17 mini-exome simulation. Almasy LA, Dyer TD, Peralta JM, Kent JW Jr, Charlesworth JC, Curran JE, Blangero J, BMC Proc 2011 5 suppl 9 2 21810212
17. Principal components analysis corrects for stratification in genome-wide association studies. Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D, Nat Genet 2006 38 904 909 10.1038/ng1847 16862161 (Pubitemid 44141658)
18. Efficient control of population structure in model organism association mapping. Kang HM, Zaitlen NA, Wade CM, Kirby A, Heckerman D, Daly MJ, Eskin E, Genetics 2008 178 1709 1723 10.1534/genetics.107.080101 18385116