Evaluation of methods for adjusting population stratification in genomewide association studies: Standard versus categorical principal component analysis

AS Turkmen, Y Yuan, N Billor - Annals of human genetics, 2019 - Wiley Online Library
… To evaluate the PCA variants' performance for controlling population stratification, we carry
out two simulation studies under a variety of scenarios of population structures and MAFs to …

Benefits and limitations of genome-wide association studies

V Tam, N Patel, M Turcotte, Y Bossé, G Paré… - Nature Reviews …, 2019 - nature.com
… Association tests are used to identify regions of the genome associated with the phenotype
of interest at genome-wide significance, and meta-analysis is a common step to increase the …

Genome-wide association studies

E Uffelmann, QQ Huang, NS Munung… - Nature Reviews …, 2021 - nature.com
… such as the 1000 Genomes Project or TOPMed 21,22 , which involves the statistical inference
effects or insufficiently corrected population stratification. In the case of true causal effects, …

Evaluation of population stratification adjustment using genomewide or exonic variants

Y Chen, GM Peloso, CT Liu, AL DeStefano… - Genetic …, 2020 - Wiley Online Library
… have different levels of confounding by population stratification, we also compare the power
… account for population stratification such as PC-based corrections and mixed-effects models. …

Population structure and pharmacogenomic risk stratification in the United States

SD Nagar, AB Conley, IK Jordan - BMC biology, 2020 - Springer
… , the likelihood of group-specific effect sizes is far lower than would be expected for non-coding
variants discovered by genome-wide association studies, which are typically tag markers …

Demographic history mediates the effect of stratification on polygenic scores

AA Zaidi, I Mathieson - Elife, 2020 - elifesciences.org
Population stratification continues to bias the results of genome-wide association studies
(… We show that the effect of population stratification depends not only on allele frequencies …

Robustification of GWAS to explore effective SNPs addressing the challenges of hidden population stratification and polygenic effects

Z Akond, MA Ahsan, M Alam, MNH Mollah - Scientific reports, 2021 - nature.com
Population stratification is one of the main concerning issues when extensive genome-wide
the minimum β-divergence method 20,21 . The performance of the proposed approach has …

False discovery rate control in genome-wide association studies with population structure

M Sesia, S Bates, E Candès… - Proceedings of the …, 2021 - National Acad Sciences
… 1 accounts for population structure because the latter is determined by the genotypes and
… This is akin to using principal components to capture population structure (21), but X − G …

Structure-informed clustering for population stratification in association studies

A Bose, M Burch, A Chowdhury, P Paschou… - BMC …, 2023 - Springer
… principle underlying Genome Wide Association Studies (GWAS… height in Europeans, we
applied it on the UKBB cohort. We … genome sequences [21]. SDS was combined with GWAS …

Genome-wide significance thresholds for admixture mapping studies

KE Grinde, LA Brown, AP Reiner, TA Thornton… - The American Journal of …, 2019 - cell.com
populations with contributions from any number of ancestral populations and arbitrary
population structure. … for obtaining genome-wide significance thresholds for admixture mapping …