ArticleGenome biology2016
Multiple testing correction in linear mixed models.
Article in Genome biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers, 3 of them syntheses that pooled it.
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Who cites it
37 citing papers in PubMed, 3 syntheses or guidelines pooled it.
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- Genetic characterization of outbred Sprague Dawley rats and utility for genome-wide association studies.PLoS genetics · 2022Pooled it
- Multi-ancestry eQTL meta-analysis of human brain identifies candidate causal variants for brain-related traits.Nature genetics · 2022Pooled it
- Beware of counter-intuitive levels of false discoveries in datasets with strong intra-correlations.Genome biology · 2025Article
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- Machine learning and complex network analysis of drug effects on neuronal microelectrode biosensor data.Scientific reports · 2025Article
- MARSweb: a fully automated web service for set-based association testing.BMC genomics · 2025Article
- FlexLMM: a Nextflow linear mixed model framework for GWAS.Bioinformatics (Oxford, England) · 2024Article
- Quantitative genomics-enabled selection for simultaneous improvement of lint yield and seed traits in cotton (Gossypium hirsutum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Ankle-targeted exosuit resistance increases paretic propulsion in people post-stroke.Journal of neuroengineering and rehabilitation · 2023Article
- Unveiling the common loci for six body measurement traits in Chinese Wenshan cattle.Frontiers in genetics · 2023Article
- Identification of biomarkers to stratify response to B-cell-targeted therapies in systemic lupus erythematosus: an exploratory analysis of a randomised controlled trial.The Lancet. Rheumatology · 2023Article
- Admixture Mapping of Alzheimer's disease in Caribbean Hispanics identifies a new locus on 22q13.1.Molecular psychiatry · 2022Article
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- Study protocol for iSIPsmarter: A randomized-controlled trial to evaluate the efficacy, reach, and engagement of a technology-based behavioral intervention to reduce sugary beverages among rural Appalachian adults.Contemporary clinical trials · 2021Article
- Iterative epigenomic analyses in the same single cell.Genome research · 2021Article
- Acoustic salience in emotional voice perception and its relationship with hallucination proneness.Cognitive, affective & behavioral neuroscience · 2021Article
- Status and prospects of genome-wide association studies in plants.The plant genome · 2021Review
- Gene-level quantitative trait mapping in Caenorhabditis elegans.G3 (Bethesda, Md.) · 2021Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
backgroundMultiple hypothesis testing is a major issue in genome-wide association studies (GWAS), which often analyze millions of markers. The permutation test is considered to be the gold standard in multiple testing correction as it accurately takes into account the correlation structure of the genome. Recently, the linear mixed model (LMM) has become the standard practice in GWAS, addressing issues of population structure and insufficient power. However, none of the current multiple testing approaches are applicable to LMM.
resultsWe were able to estimate per-marker thresholds as accurately as the gold standard approach in real and simulated datasets, while reducing the time required from months to hours. We applied our approach to mouse, yeast, and human datasets to demonstrate the accuracy and efficiency of our approach.
conclusionsWe provide an efficient and accurate multiple testing correction approach for linear mixed models. We further provide an intuition about the relationships between per-marker threshold, genetic relatedness, and heritability, based on our observations in real data.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.