Significance thresholds for quantitative trait locus mapping under selective genotyping |
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| Authors: | Manichaikul Ani Palmer Abraham A Sen Saunak Broman Karl W |
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| Institution: | Department of Biostatistics, Johns Hopkins University, Baltimore, Maryland 21205, USA. |
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| 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. |
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