ArticleNature genetics2015
Testing for genetic associations in arbitrarily structured populations.
Article in Nature genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Computationally efficient whole-genome quantile regression at biobank scale.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Coancestry superposed on admixed populations yields measures of relatedness at individual-level resolution.PLoS computational biology · 2025Article
- Regenie.QRS: computationally efficient whole-genome quantile regression at biobank scale.bioRxiv : the preprint server for biology · 2025Article
- Identifying latent genetic interactions in genome-wide association studies using multiple traits.Genome medicine · 2024Article
- Deep Learning for Genomics: From Early Neural Nets to Modern Large Language Models.International journal of molecular sciences · 2023Review
- Structure-informed clustering for population stratification in association studies.BMC bioinformatics · 2023Article
- Limitations of principal components in quantitative genetic association models for human studies.eLife · 2023Article
- Hybrid autoencoder with orthogonal latent space for robust population structure inference.Scientific reports · 2023Article
- Article
- Aristotle: stratified causal discovery for omics data.BMC bioinformatics · 2022Article
- A robust two-sample transcriptome-wide Mendelian randomization method integrating GWAS with multi-tissue eQTL summary statistics.Genetic epidemiology · 2021Article
- Gene-Based Association Testing of Dichotomous Traits With Generalized Functional Linear Mixed Models Using Extended Pedigrees: Applications to Age-Related Macular Degeneration.Journal of the American Statistical Association · 2021Article
- Article
- Simultaneous SNP selection and adjustment for population structure in high dimensional prediction models.PLoS genetics · 2020Article
- A consistent approach to the genotype encoding problem in a genome-wide association study of continuous phenotypes.PloS one · 2020Article
- Article
- A Likelihood-Free Estimator of Population Structure Bridging Admixture Models and Principal Components Analysis.Genetics · 2019Article
- Article
- Novel probabilistic models of spatial genetic ancestry with applications to stratification correction in genome-wide association studies.Bioinformatics (Oxford, England) · 2017Article
- Combining Multiple Hypothesis Testing with Machine Learning Increases the Statistical Power of Genome-wide Association Studies.Scientific reports · 2016Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
We present a new statistical test of association between a trait and genetic markers, which we theoretically and practically prove to be robust to arbitrarily complex population structure. The statistical test involves a set of parameters that can be directly estimated from large-scale genotyping data, such as those measured in genome-wide association studies (GWAS). We also derive a new set of methodologies, called a 'genotype-conditional association test' (GCAT), shown to provide accurate association tests in populations with complex structures, manifested in both the genetic and non-genetic contributions to the trait. We demonstrate the proposed method on a large simulation study and on the Northern Finland Birth Cohort study. In the Finland study, we identify several new significant loci that other methods do not detect. Our proposed framework provides a substantially different approach to the problem from existing methods, such as the linear mixed-model and principal-component approaches.
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Registered trials
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.