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Article

GWAS significance thresholds for deep phenotyping studies can depend upon minor allele frequencies and sample size.

Molecular psychiatry - 1 Jun 2021

Asif Huma, Alliey-Rodriguez Ney, Keedy Sarah, Tamminga Carol A, Sweeney John A, Pearlson Godfrey, Clementz Brett A, Keshavan Matcheri S, Buckley Peter, Liu Chunyu, Neale Benjamin, Gershon Elliot S

Abstract excerpt

An important issue affecting genome-wide association studies with deep phenotyping (multiple correlated phenotypes) is determining the suitable family-wise significance threshold. Straightforward family-wise correction (Bonferroni) of p < 0.05 for 4.3 million genotypes and 335 phenotypes would give a threshold of p < 3.46E-11. This would be too conservative because it assumes all tests are independent. The...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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PMID: 32066829
DOI: 10.1038/s41380-020-0670-3
PMCID: PMC7429341

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