Ancestry deconvolution and partial polygenic score can improve susceptibility predictions in recently admixed individuals
Open Access
- 2 April 2020
- journal article
- research article
- Published by Springer Science and Business Media LLC in Nature Communications
- Vol. 11 (1), 1-9
- https://doi.org/10.1038/s41467-020-15464-w
Abstract
Polygenic Scores (PSs) describe the genetic component of an individual’s quantitative phenotype or their susceptibility to diseases with a genetic basis. Currently, PSs rely on population-dependent contributions of many associated alleles, with limited applicability to understudied populations and recently admixed individuals. Here we introduce a combination of local ancestry deconvolution and partial PS computation to account for the population-specific nature of the association signals in individuals with admixed ancestry. We demonstrate partial PS to be a proxy for the total PS and that a portion of the genome is enough to improve susceptibility predictions for the traits we test. By combining partial PSs from different populations, we are able to improve trait predictability in admixed individuals with some European ancestry. These results may extend the applicability of PSs to subjects with a complex history of admixture, where current methods cannot be applied.Keywords
Funding Information
- EC | European Regional Development Fund (2014-2020.4.01.16-0024, MOBTT53, 2014-2020.4.01.16-0024, MOBTT53, 2014-2020.4.01.16-0024, MOBTT53, 2014-2020.4.01.16-0030, 2014-2020.4.01.16-0030, 2014- 2020.4.01.15-0012, 2014- 2020.4.01.15-0012, 2014-2020.4.01.16-0024, MOBTT53)
- Eesti Teadusagentuur (PUT PRG687, PUT PRG243, PUT PRG243, PUT PRG687, PUT1665, PUT PRG243)
- Ministry of Education and Research | Estonian Research Competency Council (IUT20-60, IUT20-60)
- EC | Horizon 2020 Framework Programme (810645)
- Università degli Studi di Padova (STARS@UNIPD ASPERA)
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