Principal components analysis of population admixture

PLoS ONE

Volumn 7, Issue 7, 2012, Pages

  Ma, Jianzhong ^a   Amos, Christopher I ^a  

^a UNIVERSITY OF TEXAS MD ANDERSON CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; GENE FREQUENCY; GENE STRUCTURE; GENETIC ANALYSIS; GENETIC EPIDEMIOLOGY; GENOTYPE; HAPLOTYPE MAP; HUMAN GENOME PROJECT; MATHEMATICAL ANALYSIS; MATHEMATICAL COMPUTING; POPULATION GENETICS; PRINCIPAL COMPONENT ANALYSIS; QUANTITATIVE ANALYSIS;

COMPUTER SIMULATION; GENE POOL; GENEALOGY AND HERALDRY; GENETICS, POPULATION; HAPLOTYPES; HUMAN GENOME PROJECT; HUMANS; MODELS, GENETIC; PRINCIPAL COMPONENT ANALYSIS;

EID: 84863628084     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0040115     Document Type: Article

References (15)

1. Patterson N, Price A, Reich D, (2006) Population structure and eigenanalysis. PLoS Genet 4: 2074-2093.
2. Price A, Patterson N, Plenge R, Weinblatt M, Shadick N, et al. (2006) Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet 38: 904-909.
3. Zhu X, Zhang S, Zhao H, Cooper RS, (2002) Association mapping, using a mixture model for complex traits. Genet Epidemiol 23: 184-196.
4. Yu K, Wang Z, Li Q, Wacholder S, Hunter D, et al. (2008) Population substructure and control selection in genome-wide association studies. PLoS ONE 3: e2551.
5. Tian C, Plenge RM, Ransom M, Lee A, Villoslada P, et al. (2008) Analysis and application of European genetic substructure using 300K SNP information. PLoS Genet 4: e4.
6. Ma J, Amos C, (2010) Theoretical formulation of principal components analysis to detect and correct for population stratification. PLoS ONE 5: e12510.
7. McVean G, (2009) A genealogical interpretation of principal components analysis. PLoS Genet 5: e1000686.
8. Seldin M, Pasaniuc B, Price A, (2011) New approaches to disease mapping in admixed populations. Nat Rev Genet 12: 523-528.
9. Bryc K, Auton A, Nelson M, Oksenberg J, Hauser S, et al. (2010) Genome-wide patterns of population structure and admixture in West Africans and African Americans. Proc Natl Acad Sci U S A 107: 786-791.
10. Bryc K, Velez C, Karafet T, Moreno-Estrada A, Reynolds A, et al. (2010) Genome-wide patterns of population structure and admixture among Hispanic/Latino populations. Proc Natl Acad Sci U S A 107: 8954-8961.
11. Elston R, (1971) The estimation of admixture in racial hybrids. Ann Hum Genet 35: 9-17.
12. Pritchard J, Stephens M, Donnelly P, (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
13. Pugach I, Matveyev R, Wollstein A, Kayser M, Stoneking M, (2011) Dating the age of admixture via wavelet transform analysis of genome-wide data. Genome Biol 12: R19.
14. Pritchard J, Donnelly P, (2001) Case-control studies of association in structured or admixed populations. Theor Popul Biol 60: 227-237.
15. Balding D, Nichols R, (1995) A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica 96: 3-12.