Significance Thresholds for Quantitative Trait Locus Mapping Under Selective Genotyping | Zendy

Ani Manichaikul | Zendy; Abraham A. Palmer | Zendy; Śaunak Sen | Zendy; Karl W. Broman | Zendy

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Significance Thresholds for Quantitative Trait Locus Mapping Under Selective Genotyping

Author(s) -

Ani Manichaikul,

Abraham A. Palmer,

Śaunak Sen,

Karl W. Broman

Publication year - 2007

Publication title -

genetics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 2.792

H-Index - 246

eISSN - 1943-2631

pISSN - 0016-6731

DOI - 10.1534/genetics.107.080093

Subject(s) - quantitative trait locus , biology , genotyping , locus (genetics) , genetics , trait , phenotype , allele , family based qtl mapping , genotype , gene mapping , computational biology , gene , chromosome , computer science , programming language

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.

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