A prevalence-based association test for case-control studies
Article first published online: 12 MAY 2008
© 2008 Wiley-Liss, Inc.
Volume 32, Issue 7, pages 600–605, November 2008
How to Cite
Ryckman, K. K., Jiang, L., Li, C., Bartlett, J., Haines, J. L. and Williams, S. M. (2008), A prevalence-based association test for case-control studies. Genet. Epidemiol., 32: 600–605. doi: 10.1002/gepi.20342
- Issue published online: 27 OCT 2008
- Article first published online: 12 MAY 2008
- Manuscript Accepted: 26 MAR 2008
- Manuscript Revised: 18 FEB 2008
- Manuscript Received: 23 JUL 2007
- National Institutes of Health. Grant Numbers: 1P50HL081009, EY12118
- case-control studies;
- Hardy-Weinberg equilibrium;
- association testing
Genetic association is often determined in case-control studies by the differential distribution of alleles or genotypes. Recent work has demonstrated that association can also be assessed by deviations from the expected distributions of alleles or genotypes. Specifically, multiple methods motivated by the principles of Hardy-Weinberg equilibrium (HWE) have been developed. However, these methods do not take into account many of the assumptions of HWE. Therefore, we have developed a prevalence-based association test (PRAT) as an alternative method for detecting association in case-control studies. This method, also motivated by the principles of HWE, uses an estimated population allele frequency to generate expected genotype frequencies instead of using the case and control frequencies separately. Our method often has greater power, under a wide variety of genetic models, to detect association than genotypic, allelic or Cochran-Armitage trend association tests. Therefore, we propose PRAT as a powerful alternative method of testing for association. Genet. Epidemiol. 2008. © 2008 Wiley-Liss, Inc.