Literature DB >> 18652599

Can the allelic test be retired from analysis of case-control association studies?

Gang Zheng1.   

Abstract

It has been stated that, when Hardy-Weinberg equilibrium (HWE) holds in the combined case-control samples, the allelic test is asymptotically equivalent to the trend test (for the additive model) for testing genetic association, and hence the allelic test should not be used. A recent publication shows that the allelic test and the trend test are asymptotically equivalent when HWE holds in the population. It is known that, when HWE does not hold, the trend test can still be used while the allelic test is no longer valid. Therefore, the allelic test is either not valid or is asymptotically equivalent to the trend test. It appears that the allelic test is a nuisance test. Can it be retired from the analysis of case-control association studies? It all depends on data and model assumptions. We give conditions under which the allelic test and the trend test are asymptotically equivalent under both null and alternative hypotheses.

Entities:  

Mesh:

Year:  2008        PMID: 18652599      PMCID: PMC2574995          DOI: 10.1111/j.1469-1809.2008.00466.x

Source DB:  PubMed          Journal:  Ann Hum Genet        ISSN: 0003-4800            Impact factor:   1.670


  14 in total

1.  Biased tests of association: comparisons of allele frequencies when departing from Hardy-Weinberg proportions.

Authors:  D J Schaid; S J Jacobsen
Journal:  Am J Epidemiol       Date:  1999-04-15       Impact factor: 4.897

2.  A powerful method of combining measures of association and Hardy-Weinberg disequilibrium for fine-mapping in case-control studies.

Authors:  Kijoung Song; Robert C Elston
Journal:  Stat Med       Date:  2006-01-15       Impact factor: 2.373

3.  A constrained-likelihood approach to marker-trait association studies.

Authors:  Kai Wang; Val C Sheffield
Journal:  Am J Hum Genet       Date:  2005-09-14       Impact factor: 11.025

4.  A fast, unbiased and exact allelic test for case-control association studies.

Authors:  M Guedj; J Wojcik; E Della-Chiesa; G Nuel; K Forner
Journal:  Hum Hered       Date:  2006-07-27       Impact factor: 0.444

5.  The merits of testing Hardy-Weinberg equilibrium in the analysis of unmatched case-control data: a cautionary note.

Authors:  Guang Yong Zou; Allan Donner
Journal:  Ann Hum Genet       Date:  2006-11       Impact factor: 1.670

6.  Efficient approximation of P-value of the maximum of correlated tests, with applications to genome-wide association studies.

Authors:  Qizhai Li; Gang Zheng; Zhaohai Li; Kai Yu
Journal:  Ann Hum Genet       Date:  2008-03-03       Impact factor: 1.670

7.  A note on allelic tests in case-control association studies.

Authors:  M Guedj; G Nuel; B Prum
Journal:  Ann Hum Genet       Date:  2008-03-17       Impact factor: 1.670

8.  Maximizing association statistics over genetic models.

Authors:  Juan R González; Josep L Carrasco; Frank Dudbridge; Lluís Armengol; Xavier Estivill; Victor Moreno
Journal:  Genet Epidemiol       Date:  2008-04       Impact factor: 2.135

9.  From genotypes to genes: doubling the sample size.

Authors:  P D Sasieni
Journal:  Biometrics       Date:  1997-12       Impact factor: 2.571

10.  Rational inferences about departures from Hardy-Weinberg equilibrium.

Authors:  Jacqueline K Wittke-Thompson; Anna Pluzhnikov; Nancy J Cox
Journal:  Am J Hum Genet       Date:  2005-04-15       Impact factor: 11.025

View more
  6 in total

1.  Quantitative allelic test--a fast test for very large association studies.

Authors:  Sang Mee Lee; Theodore G Karrison; Nancy J Cox; Hae Kyung Im
Journal:  Genet Epidemiol       Date:  2013-11-01       Impact factor: 2.135

2.  Semiparametric Allelic Tests for Mapping Multiple Phenotypes: Binomial Regression and Mahalanobis Distance.

Authors:  Arunabha Majumdar; John S Witte; Saurabh Ghosh
Journal:  Genet Epidemiol       Date:  2015-10-23       Impact factor: 2.135

3.  Case-Control Genome-wide Joint Association Study Using Semiparametric Empirical Model and Approximate Bayes Factor.

Authors:  Jinfeng Xu; Gang Zheng; Ao Yuan
Journal:  J Stat Comput Simul       Date:  2013-01-01       Impact factor: 1.424

4.  Assessment of global phase uncertainty in case-control studies.

Authors:  Hae-Won Uh; Jeanine J Houwing-Duistermaat; Hein Putter; Hans C van Houwelingen
Journal:  BMC Genet       Date:  2009-09-14       Impact factor: 2.797

5.  Testing allele homogeneity: the problem of nested hypotheses.

Authors:  Rafael Izbicki; Victor Fossaluza; Ana Gabriela Hounie; Eduardo Yoshio Nakano; Carlos Alberto de Bragança Pereira
Journal:  BMC Genet       Date:  2012-11-23       Impact factor: 2.797

6.  The X factor: A robust and powerful approach to X-chromosome-inclusive whole-genome association studies.

Authors:  Bo Chen; Radu V Craiu; Lisa J Strug; Lei Sun
Journal:  Genet Epidemiol       Date:  2021-07-05       Impact factor: 2.344

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.