Empirical threshold values for quantitative trait mapping.

GA Churchill, RW Doerge - Genetics, 1994 - academic.oup.com
Genetics, 1994academic.oup.com
The detection of genes that control quantitative characters is a problem of great interest to
the genetic mapping community. Methods for locating these quantitative trait loci (QTL)
relative to maps of genetic markers are now widely used. This paper addresses an issue
common to all QTL mapping methods, that of determining an appropriate threshold value for
declaring significant QTL effects. An empirical method is described, based on the concept of
a permutation test, for estimating threshold values that are tailored to the experimental data …
Abstract
The detection of genes that control quantitative characters is a problem of great interest to the genetic mapping community. Methods for locating these quantitative trait loci (QTL) relative to maps of genetic markers are now widely used. This paper addresses an issue common to all QTL mapping methods, that of determining an appropriate threshold value for declaring significant QTL effects. An empirical method is described, based on the concept of a permutation test, for estimating threshold values that are tailored to the experimental data at hand. The method is demonstrated using two real data sets derived from F(2) and recombinant inbred plant populations. An example using simulated data from a backcross design illustrates the effect of marker density on threshold values.
Oxford University Press