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Assessing Genome-wide Statistical Significance for Large P Small N Problems

Overview
Journal Genetics
Specialty Genetics
Date 2013 May 14
PMID 23666935
Citations 20
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Abstract

Assessing genome-wide statistical significance is an important issue in genetic studies. We describe a new resampling approach for determining the appropriate thresholds for statistical significance. Our simulation results demonstrate that the proposed approach accurately controls the genome-wide type I error rate even under the large p small n situations.

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References
1.
Broman K, Wu H, Sen S, Churchill G . R/qtl: QTL mapping in experimental crosses. Bioinformatics. 2003; 19(7):889-90. DOI: 10.1093/bioinformatics/btg112. View

2.
Churchill G, Doerge R . Empirical threshold values for quantitative trait mapping. Genetics. 1994; 138(3):963-71. PMC: 1206241. DOI: 10.1093/genetics/138.3.963. View

3.
Zou F, Fine J, Hu J, Lin D . An efficient resampling method for assessing genome-wide statistical significance in mapping quantitative trait Loci. Genetics. 2004; 168(4):2307-16. PMC: 1448705. DOI: 10.1534/genetics.104.031427. View

4.
LANDER E, Kruglyak L . Genetic dissection of complex traits: guidelines for interpreting and reporting linkage results. Nat Genet. 1995; 11(3):241-7. DOI: 10.1038/ng1195-241. View

5.
Manichaikul A, Palmer A, Sen S, Broman K . Significance thresholds for quantitative trait locus mapping under selective genotyping. Genetics. 2007; 177(3):1963-6. PMC: 2147971. DOI: 10.1534/genetics.107.080093. View