Article

Large Impact of Genetic Data Processing Steps on Stability and Reproducibility of Set-Based Analyses in Genome-Wide Association Studies

2025-07-22

Abstract excerpt

Genome-wide association studies (GWAS) are crucial to human genetics research, yet their stability and reproducibility are often questioned. This work describes, analyzes, and provides tools for overcoming reproducibility challenges in two highly popular components of GWAS: set-based (a) hypothesis testing and (b) effect size estimation. Specifically, we focus on how the set-based natures of (a) and (b) often fuel...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 3afbfd83-f48b-5050-a149-b7a4e6db2b90
DOI: 10.1101/2025.07.21.665850

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Large Impact of Genetic Data Processing Steps on Stability and Reproducibility of Set-Based Analyses in Genome-Wide Association StudiesDOI 10.1101/2025.07.21.665850Read

Statistical analysis for genome-wide association studySemantic proximity Read

Gene set analysis of SNP data: benefits, challenges, and future directions.Semantic proximity Read

Gene set analysis of genome-wide association studies: methodological issues and perspectives.Semantic proximity Read

Identifying and mitigating batch effects in whole genome sequencing data.Semantic proximity Read

Addressing Overlapping Sample Challenges in Genome-Wide Association Studies: Meta-Reductive ApproachSemantic proximity Read

Impact of Variant-level Batch Effects on Identification of Genetic Risk Factors in Large Sequencing StudiesSemantic proximity Read

Guideline for data analysis of genomewide association studies.Semantic proximity Read

Data use under the NIH GWAS Data Sharing Policy and future directionsSemantic proximity Read

Using PLINK for Genome-Wide Association Studies (GWAS) and data analysis.Semantic proximity Read

EraSOR: a software tool to eliminate inflation caused by sample overlap in polygenic score analyses.Semantic proximity Read

Genome-wide association studies--data generation, storage, interpretation, and bioinformatics.Semantic proximity Read

Methods for meta-analysis in genetic association studies: a review of their potential and pitfallsSemantic proximity Read