title: Significance thresholds for quantitative trait locus mapping under selective genotyping.
abstract: In the case of selective genotyping, the usual permutation test to establish statistical significance for quantitative trait locus (QTL) mapping can give inappropriate significance thresholds, especially when the phenotype distribution is skewed. A stratified permutation test should be used, with phenotypes shuffled separately within the genotyped and ungenotyped individuals.
authors.affiliation: Department of Biostatistics, Johns Hopkins University, Baltimore, Maryland 21205, USA.
authors.forename: Ani
authors.initials: A
authors.lastname: Manichaikul
authors.forename: Abraham A
authors.initials: AA
authors.lastname: Palmer
authors.forename: Saunak
authors.initials: S
authors.lastname: Sen
authors.forename: Karl W
authors.initials: KW
authors.lastname: Broman
mesh_terms: D000465:Algorithms; D002874:Chromosome Mapping / Q000379:methods* / Q000706:statistics & numerical data; D005838:Genotype; D016013:Likelihood Functions; D008126:Lod Score; D008957:Models, Genetic; D010641:Phenotype; D040641:Quantitative Trait Loci