Testing for genetic association in the presence of population stratification in genome-wide association studies

Genetic Epidemiology

Volumn 33, Issue 7, 2009, Pages 637-645

  Kai, Wang ^a  

^a UNIVERSITY OF IOWA   (United States)

Author keywords

Genetic association; Genomic control; Population stratification; SNP; Variance inflation factor

Indexed keywords

ARTICLE; CASE CONTROL STUDY; CONTROLLED STUDY; EFFECT SIZE; FALSE POSITIVE RESULT; GENETIC ASSOCIATION; GENOME; GENOMICS; GENOTYPE; QUANTITATIVE TRAIT; SIMULATION; STATISTICAL ANALYSIS;

BIOSTATISTICS; CASE-CONTROL STUDIES; COMPUTER SIMULATION; FALSE POSITIVE REACTIONS; GENETICS, POPULATION; GENOME-WIDE ASSOCIATION STUDY; GENOMICS; GENOTYPE; HUMANS; MODELS, GENETIC; MODELS, STATISTICAL; MOLECULAR EPIDEMIOLOGY; PHENOTYPE; POLYMORPHISM, SINGLE NUCLEOTIDE; PRINCIPAL COMPONENT ANALYSIS; STATISTICS AS TOPIC;

EID: 70350676370     PISSN: 07410395     EISSN: 10982272     Source Type: Journal    
DOI: 10.1002/gepi.20415     Document Type: Article

References (20)

1. Armitage P. 1955. Tests for linear trends in proportions and frequencies. Biometrics 11:375-386.
2. Bacanu S, Devlin B, Roeder K. 2000. The power of genomic control. Am J Hum Genet 66:1933-1944.
3. Bacanu S, Devlin B, Roeder K. 2002. Association studies for quantitative traits in structured populations. Genet Epidemiol 22:78-93. (Pubitemid 34019893)
4. Devlin B, Roeder K. 1999. Genomic control for association studies. Biometrics 55:997-1004.
5. Devlin B, Roeder K, Wasserman L. 2001. Genomic control, a new approach to genetic-based association studies. Theor Popul Biol 60:155-166. (Pubitemid 34235086)
6. Epstein MP, Allen AS, Satten GA. 2007. A simple and improved correction for population stratification in case-control studies. Am J Hum Genet 80:921-930.
7. Horvath S, Laird NM. 1998. A discordant-sibship test for disequilibrium and linkage: no need for parental data. Am J Hum Genet 63:1886-1897.
8. Huber P. 1981. Robust Statistics. New York: Wiley.
9. Kimmel G, Jordan MI, Halperin E, Shamir R, Karp RM. 2007. A randomization test for controlling population stratification in whole-genome association studies. Am J Hum Genet 81:895-905. (Pubitemid 47580244)
10. Lee S, Sullivan PF, Zou F, Wright FA. 2008. Comment on a simple and improved correction for population stratification. Am J Hum Genet 82:524-526. (Pubitemid 351726110)
11. Lunetta KL. 2008. Genetic association studies. Circulation 118:96-101.
12. McCarthy MI, Abecasis GR, Cardon LR, Goldstein DB, Little J, Ioannidis JPA, Hirschhorn JN. 2008. Genome-wide association studies for complex traits: consensus, uncertainty and challenges. Nat Rev Genet 9:356-369. (Pubitemid 351556063)
13. 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. (Pubitemid 44141658)
14. Pritchard JK, Donnelly P. 2001. Case-control studies of association in structured or admixed populations. Theor Popul Biol 60:227-237. (Pubitemid 34235093)
15. Pritchard JK, Rosenberg NA. 1999. Use of unlinked genetic markers to detect population stratification in association studies. Am J Hum Genet 65:220-228.
16. Pritchard JK, Stephens M, Donnelly P. 2000a. Inference of population structure using multilocus genotype data. Genetics 155:945-959. (Pubitemid 30397141)
17. Pritchard JK, Stephens M, Rosenberg NA, Donnelly P. 2000b. Association mapping in structured populations. Am J Hum Genet 67:170-181.
18. R Development Core Team. 2008. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. ISBN 3-900051-07-0.
19. Sasieni PD. 1997. From genotypes to genes: doubling the sample size. Biometrics 53:1253-1261.
20. Zhu X, Li S, Cooper RS, Elston RC. 2008. A unified association analysis approach for family and unrelated samples correcting for stratification. Am J Hum Genet 82:352-365. (Pubitemid 351726103)