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Mapping Qtl With Covariates, Cherie A. Ochsenfeld, Kristofer Jennings, R. W. Doerge

Conference on Applied Statistics in Agriculture

Quantitative trait loci (QTL) analysis is an effective tool for locating regions of the genome associated with a trait. Quantitative trait data are complex, and when statistically testing for the location of a QTL, the distribution of the test statistic is typically unknown. Historically, asymptotic thresholds have been difficult to derive for QTL analysis. Permutation testing has successfully provided significance thresholds for QTL analysis, but the need for exchangeability among the observations limits these empirically derived thresholds to simple linear models and does not permit the inclusion of important covariates in the model. We address the limitation of permutation theory …