A Monte Carlo procedure for two-stage tests with correlated data

Genetic Epidemiology

Volumn 18, Issue 1, 2000, Pages 48-62

  Martin, E R ^a   Kaplan, N L ^b  

^a DUKE UNIVERSITY MEDICAL CENTER   (United States)

^b NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES   (United States)

Author keywords

Allelic association; Case control test; Genome scan; Linkage; Linkage disequilibrium; Transmission disequilibrium test (TDT)

Indexed keywords

ARTICLE; GENETIC ASSOCIATION; GENETIC LINKAGE; SYSTEM ANALYSIS;

GENETIC MARKERS; GENETICS, MEDICAL; HUMANS; MODELS, STATISTICAL; MONTE CARLO METHOD;

EID: 0033989379     PISSN: 07410395     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1098-2272(200001)18:1<48::AID-GEPI4>3.0.CO;2-S     Document Type: Article

References (29)

1. Barcellos LF, Klitz W, Leigh Field L, Tobias R, Bowcock AM, Wilson R, Nelson MP, Nagatomi J, Thomson G. 1997. Association mapping of disease loci, by use of a pooled DNA genomic screen. Am J Hum Genet 61:734-7.
2. Dizier M, Babron M, Clerget-Darpoux. 1995. Modeling the role of two susceptibility loci by the MASC method. Genet Epidemiol 12:589-93.
3. Duffy DL. 1995. Screening a 2cM genetic map for allelic association: a simulated oligogenic trait. Genet Epidemiol 12:595-600.
4. Ewens WJ, Spielman RS. 1995. The transmission/disequilibrium test: history, subdivision and admixture. Am J Hum Genet 57:455-64.
5. Falk CT, Rubinstein P. 1987. Haplotype relative risks: an easy reliable way to construct a proper control sample for risk calculations. Ann Hum Genet 51:227-33.
6. Good P. Permutation tests. New York: Springer-Verlag; 1994.
7. Harley JB, Moser KL, Neas BR. 1995. Logistic transmission modeling of simulated data. Genet Epidemiol 12:607-12.
8. Hodge SE. 1995a. Genetic Analysis Workshop 9: development of problem 1. Genet Epidemiol 12:555-60.
9. Hodge SE. 1995b. An oligogenic disease displaying weal marker associations: a summary of contributions to problem 1 of GAW9. Genet Epidemiol 12:545-54.
10. Holmans P, McGuffin P, Clayton D. 1995. Genome scan for association and linkage. Genet Epidemiol 12:613-8.
11. Holmans P, McGuffin P, Clayton D. 1995. Genome scan for association and linkage. Genet Epidemiol 12:613-8.
12. Horvath SM, Laird NM. 1998. A discordant-subship test for disequilibrium and linkage: no need for parental data. Am J Hum Genet 53:1886-97.
13. Kaplan NL, Martin ER, Weir BS. 1997a. Power studies for the transmission/disequilibrium tests with multiple alleles. Am J Hum Genet 60:691-702.
14. Kaplan NL, Martin ER, Weir BS. 1997b. Reply to Sham. Am J Hum Genet 61:778.
15. Martin ER, Kaplan NL, Weir BS. 1997. Tests for linkage and association in nuclear families. Am J Hum Genet 61:439-48.
16. Oden NE. 1991. Allocation of effort in Monte Carlo simulations for power of tests. J Am Stat Assoc 86:1074-6.
17. Risen N, Merikangas K. 1996. The future of genetic studies of complex diseases. Science 273:1516-7.
18. Rubinstein P, Walker M, Carpenter C, Carrier C, Krassner J, Falk CT, Ginsberg F. 1981. Genetics of HLA disease associations. Relative risk (HRR) and the "Haplo-delta" (DH) estimates in juvenile diabetes from three racial groups. Hum Immunol 3:384.
19. Schaid DJ, Sommers SS. 1993. Genotype relative risks: methods for design and analysis of candidate-gene association studies. Am J Hum Genet 53:1114-26.
20. Schaid DJ, Sommer SS. 1994. Comparison of statistics for candidate-gene association studies using cases and parents. Am J Hum Genet 55:402-9.
21. Schaid DJ. 1996. General score statistics for associations of genetic markers with disease using cases and their parents. Genet Epidemiol 13:423-49.
22. Schlesselman JJ, Case-control studies. Design, conduct, analysis. New York/Oxford: Oxford University Press; 1982.
23. Sham PC, Curtis D. 1995. An extended transmission/disequilibrium test (TDT) for multi-allele marker loci. Ann Hum Genet 59:323-36.
24. Sham PC. 1997. Transmission/disequilibrium tests for multiallelic loci. Am J Hum Genet 61:774-8.
25. 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 52:506-16.
26. Spielman RS, Ewens WJ. 1996. Invited editorial: the TDT and other family-based tests for linkage disequilibrium and association. Am J Hum Genet 59:983-9.
27. Spielman RS, Ewens WJ. 1998. A sibship test for linkage in the presence of association: the sib transmission/disequilibrium test. Am J Hum Genet 62:450-9.
28. Terwilliger JD, Ott J. 1992. A haplotype-based "haplotype relative risk" approach to detecting allelic associations. Hum Hered 42:337-46.
29. Thomson G. 1988. HLA disease associations: models for insulin dependent diabetes mellitus and the study of complex human genetic disorders. Annu Rev Genet 22:31-50.