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

Genetics. 1998 Jul;149(3):1547-55. doi: 10.1093/genetics/149.3.1547.

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.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Breeding / methods
  • Cattle / genetics*
  • Cattle / physiology
  • Female
  • Genetic Markers
  • Male
  • Microsatellite Repeats*
  • Milk*
  • Models, Genetic*
  • Models, Statistical*
  • Pedigree
  • Quantitative Trait, Heritable
  • Regression Analysis
  • Statistics, Nonparametric

Substances

  • Genetic Markers