ArticleBMC genomics2019
Estimation of a significance threshold for genome-wide association studies.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers, 1 of them a synthesis that pooled it.
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Who cites it
89 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Multi-Season Genome-Wide Association Study Reveals Loci and Candidate Genes for Fruit Quality and Maturity Traits in Peach.Plants (Basel, Switzerland) · 2026Article
- Genome-wide association study and gene network analysis of drought tolerance in wheat during early growth.Frontiers in plant science · 2026Article
- Exploring the genetic diversity of Mediterranean fig trees highlights genes associated with fruit traits.Frontiers in plant science · 2026Article
- Integrated genomic analysis of a diverse maize population reveals novel genes and superior predictive models for ear diameter.BMC genomics · 2025Article
- Effects of genotype × environment interactions on the morphological and genetic aspects of the seed characteristics of faba beans.The plant genome · 2025Article
- Predicting natural variation in the yeast phenotypic landscape with machine learning.Molecular systems biology · 2025Article
- Genome-wide association study and genomic selection for growth-related traits in Eastern oyster (Crassostrea virginica).BMC genomics · 2025Article
- Genetic structure of Ethiopian finger millet landraces and genome-wide association mapping for agronomic and nutritional traits.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- The Genome of Lolium multiflorum Reveals the Genetic Architecture of Paraquat Resistance.Molecular ecology · 2025Article
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- Enhanced diagnosis of multi-drug-resistant microbes using group association modeling and machine learning.Nature communications · 2025Article
- Validation of Polymorphisms Associated with the Immune Response After Vaccination Against Porcine Reproductive and Respiratory Syndrome Virus in Yorkshire Gilts.Veterinary sciences · 2025Article
- Genome-wide association studies, Polygenic Risk Scores and Mendelian randomisation: an overview of common genetic epidemiology methods for ophthalmic clinicians.The British journal of ophthalmology · 2025Review
29 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
backgroundSelection of an appropriate statistical significance threshold in genome-wide association studies is critical to differentiate true positives from false positives and false negatives. Different multiple testing comparison methods have been developed to determine the significance threshold; however, these methods may be overly conservative and may lead to an increase in false negatives. Here, we developed an empirical formula to determine the statistical significance threshold that is based on the marker-based heritability of the trait. To develop a formula for a significance threshold, we used 45 simulated traits in soybean, maize, and rice that varied in both broad sense heritability and the number of QTLs.
resultsA formula to determine a significance threshold was developed based on a regression equation that used one independent variable, marker-based heritability, and one response variable, - log
conclusionsOur formula was less conservative and identified more true positive associations than the false discovery rate and Bonferroni correction methods.
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