QTL Mapping and Identification of Candidate Genes in DO Mice: A Use Case Model Derived From a Benzene Toxicity Experiment

Methods Mol Biol. 2017;1488:265-281. doi: 10.1007/978-1-4939-6427-7_12.

Abstract

Diversity Outbred (DO) mice are a multiparental advanced generation intercross population derived from eight inbred strains which are genetically very diverse. They are maintained as an outbred population using a randomized mating design. Thus DO mice represent an ideal population to map phenotypic traits. Here, we provide a case study in which male DO mice were exposed to benzene and phenotyped for the number of micronucleated reticulocytes. We provide step-by-step R scripts for the analysis of phenotypes, genotypes, mapping of resistance gene loci and identification of candidate genes.

Keywords: DO mice; QTL mapping; Response to toxins; Use case.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Analysis of Variance
  • Animals
  • Bayes Theorem
  • Benzene / toxicity
  • Breeding*
  • Chromosome Mapping / methods*
  • Founder Effect
  • Genetic Association Studies / methods*
  • Genetic Variation*
  • Genotype
  • Humans
  • Lod Score
  • Male
  • Mice
  • Phenotype
  • Quantitative Trait Loci*
  • Software*

Substances

  • Benzene