SPAmix: a scalable, accurate, and universal analysis framework for large-scale genetic association studies in admixed populations
The SPAmix-based approaches are more accurate than Tractor to address phenotypic variance heterogeneity among ancestries when analyzing quantitative traits and to address an unbalanced case-control ratio when analyzing binary traits. SPAmix<sub>CCT</sub> is an optimal unified approach for various cross-ancestry genetic architectures. Extensive simulation studies and real data analyses of 369,314 UK Biobank individuals from multiple ancestries demonstrated that SPAmix is scalable and can discover novel hits while controlling type I error rates well.
Authors
- Shu‐Feng Zhou (ORCID: https://orcid.org/0000-0002-7215-707X)
- Peng Xu (ORCID: https://orcid.org/0000-0003-1064-6721)
- He Xu (ORCID: https://orcid.org/0000-0003-3333-2880)
- Fengbiao Mao (ORCID: https://orcid.org/0000-0003-0852-4266)
- Seunggeun Lee (ORCID: https://orcid.org/0000-0002-8097-3878)
- Wenjian Bi (ORCID: https://orcid.org/0000-0002-5108-9311)
- Yuzhuo Ma
- Peipei Zhang (ORCID: https://orcid.org/0000-0003-1742-1680)
- Ying Li (ORCID: https://orcid.org/0000-0001-5062-0230)
- Miao Lin (ORCID: https://orcid.org/0000-0002-2325-9811)
- Wei Zhou (ORCID: https://orcid.org/0000-0001-7719-0859)
- Ji‐Feng Zhang (ORCID: https://orcid.org/0000-0002-0656-2886)
- Hyesung Kim (ORCID: https://orcid.org/0000-0002-5560-8481)
- Linlin Xu (ORCID: https://orcid.org/0000-0002-5656-0248)
Institutions
- Broad Institute (US)
- Zhongyuan University of Technology (CN)
- Seoul National University (KR)
- Shandong University (CN)
- Peking University (CN)
- National Health and Family Planning Commission (CN)
- Soochow University (CN)
- Massachusetts General Hospital (US)
- Academy of Mathematics and Systems Science (CN)
- Peking University First Hospital (CN)
- Peking University Third Hospital (CN)
Publication Details
- Journal
- Genome biology
- Published
- 2025-10-16
- DOI
- https://doi.org/10.1186/s13059-025-03827-9
- Citations
- 1
- Primary Topic
- Genetic Associations and Epidemiology
- Type
- article
- Field-Weighted Citation Impact
- 1.82