Cluster analysis and association study of structured multilocus genotype data

Journal of Human Genetics

Volumn 50, Issue 2, 2005, Pages 53-61

  Nakamura, Takahiro ^a   Shoji, Akira ^a   Fujisawa, Hironori ^b   Kamatani, Naoyuki ^a  

^a TOKYO WOMEN'S MEDICAL UNIVERSITY   (Japan)

^b INSTITUTE OF STATISTICAL MATHEMATICS   (Japan)

Author keywords

Cross validation; Hierarchical clustering; k means algorithm; Mantel Haenszel test; Population structure

Indexed keywords

ACCURACY; ALGORITHM; ARTICLE; CELL SUBPOPULATION; CLUSTER ANALYSIS; COMPUTER PROGRAM; COMPUTER SIMULATION; DEVICE; GENE FREQUENCY; GENE LOCUS; GENOTYPE; MANTEL HAENSZEL TEST; SIMULATION; VALIDATION PROCESS; CASE CONTROL STUDY; HUMAN;

ALGORITHMS; CASE-CONTROL STUDIES; CLUSTER ANALYSIS; GENE FREQUENCY; GENOTYPE; HUMANS; SOFTWARE;

EID: 15944420911     PISSN: 14345161     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10038-004-0220-x     Document Type: Article

References (15)

1. Bowcock AM, Ruiz-Linares A, Tomfohrde J, Minch E, Kidd JR, Cavalli-Sforza LL (1994) High resolution human evolutionary trees with polymorphic microsatellites. Nature 368:455-457
2. 2 test. Biometrics 10:417-451
3. Devlin B, Roeder K (1999) Genomic control for association studies. Biometrics 55:997-1004
4. Efron B, Tibshirani RJ (1993) An introduction to the bootstrap. Chapman & Hall, New York
5. Everitt BS (1993) Cluster analysis, 3rd edn. Edward Arnold, New York
6. Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164:1567-1587
7. Hoggart CJ, Parra EJ, Shriver MD, Bonilla C, Kittles RA, Clayton DG, Mckeigue PM (2003) Control of confounding of genetic associations in stratified populations. Am J Hum Genet 72:1492-1504
8. Mantel N, Haenszel W (1959) Statistical aspect of the analysis of data from retrospective studies of disease. J Natl Cancer Inst 22:719-748
9. Pritchard JK, Rosenberg NA (1999) Use of unlinked genetic markers to detect population stratification in association studies. Am J Hum Genet 65:220-228
10. Pritchard JK, Stephens M, Donelly P (2000a) Inference of population structure using multilocus genotype data. Am J Hum Genet 67:945-959
11. Pritchard JK, Stephens M, Rosenberg NA, Donelly P (2000b) Association mapping in structured population. Am J Hum Genet 67:170-181
12. Satten GA, Flanders WD, Yang Q (2001) Accounting for unmeasured population substructure in case-control studies of genetic association using novel latent-class model. Am J Hum Genet 68:466-477
13. Spielman RS, McGinnis RE, Ewens WJ (1993) Transmission test for linkage disequilibrium: the insulin gene region and insulin-dependent diabetes mellitus (IDDM). Am J Hum Genet 52:506-513
14. Stone M (1974) Cross-validation and multinomial prediction. Biometrika 51:509-515
15. Stone M (1977) An asymptotic equivalence of choice of model by cross-validation and Akaike's criterion. J R Stat Soc B 39:44-47