The power and statistical behaviour of allele-sharing statistics when applied to models with two disease loci |
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| Authors: | Shugart Yin Y Feng Bing-Jian Collins Andrew |
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| Institution: | (1) Epidemiology Department, Bloomberg School of Public Health, Johns Hopkins University, 21205 Baltimore, MD, USA;(2) Center for Inherited Disease Research, Johns Hopkins University, 21205 Baltimore, MD, USA;(3) Human Genetics Division, School of Medicine, University of Southampton, SO16 6YD Southampton, UK |
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| Abstract: | We have evaluated the power for detecting a common trait determined by two loci, using seven statistics, of which five are
implemented in the computer program SimWalk2, and two are implemented in GENEHUNTER. Unlike most previous reports which involve
evaluations of the power of allelesharing statistics for a single disease locus, we have used a simulated data set of general
pedigrees in which a twolocus disease is segregating and evaluated several nonparametric linkage statistics implemented in
the two programs. We found that the power for detecting linkage using the Sall statistic in GENEHUNTER (GH, version 2.1), implemented as statisticE in SimWalk2 (version 2.82), is different in the two. TheP values associated with statisticE output by SimWalk2 are consistently more conservative than those from GENEHUNTER except when the underlying model includes
heterogeneity at a level of 50% where theP values output are very comparable. On the other hand, when the thresholds are determined empirically under the null hypothesis,
Sall in GENEHUNTER and statisticE have similar power. |
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| Keywords: | mapping complex traits power calculation allele-sharing statistics |
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