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A rank-based nonparametric method for mapping quantitative trait loci in outbred half-sib pedigrees: application to milk production in a granddaughter design.

W Coppieters·A Kvasz·F Farnir·J J Arranz·B Grisart·M Mackinnon·M Georges
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Abstract

We describe the development of a multipoint nonparametric quantitative trait loci mapping method based on the Wilcoxon rank-sum test applicable to outbred half-sib pedigrees. The method has been evaluated on a simulated dataset and its efficiency compared with interval mapping by using regression. It was shown that the rank-based approach is slightly inferior to regression when the residual variance is homoscedastic normal; however, in three out of four other scenarios envisaged, i.e., residual variance heteroscedastic normal, homoscedastic skewed, and homoscedastic positively kurtosed, the latter outperforms the former one. Both methods were applied to a real data set analyzing the effect of bovine chromosome 6 on milk yield and composition by using a 125-cM map comprising 15 microsatellites and a granddaughter design counting 1158 Holstein-Friesian sires.

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AnimalsBreedingCattleFemaleGenetic MarkersMaleMicrosatellite RepeatsMilkModels, GeneticModels, StatisticalPedigreeQuantitative Trait, HeritableRegression AnalysisStatistics, NonparametricJournal ArticleResearch Support, Non-U.S. Gov't

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W Coppieters, A Kvasz, F Farnir, J J Arranz, B Grisart, M Mackinnon, M Georges. 1998. A rank-based nonparametric method for mapping quantitative trait loci in outbred half-sib pedigrees: application to milk production in a granddaughter design.. https://doi.org/10.1093/genetics%2F149.3.1547

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