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Genetic ancestry plays a central role in population pharmacogenomics
Recent studies have pointed out the essential role of genetic ancestry in population pharmacogenetics. In this study, we analyzed the whole-genome sequencing data from The 1000 Genomes Project (Phase 3) and the pharmacogenetic information from Drug Bank, PharmGKB, PharmaADME, and Biotransformation....
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7864978/ https://www.ncbi.nlm.nih.gov/pubmed/33547344 http://dx.doi.org/10.1038/s42003-021-01681-6 |
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author | Yang, Hsin-Chou Chen, Chia-Wei Lin, Yu-Ting Chu, Shih-Kai |
author_facet | Yang, Hsin-Chou Chen, Chia-Wei Lin, Yu-Ting Chu, Shih-Kai |
author_sort | Yang, Hsin-Chou |
collection | PubMed |
description | Recent studies have pointed out the essential role of genetic ancestry in population pharmacogenetics. In this study, we analyzed the whole-genome sequencing data from The 1000 Genomes Project (Phase 3) and the pharmacogenetic information from Drug Bank, PharmGKB, PharmaADME, and Biotransformation. Here we show that ancestry-informative markers are enriched in pharmacogenetic loci, suggesting that trans-ancestry differentiation must be carefully considered in population pharmacogenetics studies. Ancestry-informative pharmacogenetic loci are located in both protein-coding and non-protein-coding regions, illustrating that a whole-genome analysis is necessary for an unbiased examination over pharmacogenetic loci. Finally, those ancestry-informative pharmacogenetic loci that target multiple drugs are often a functional variant, which reflects their importance in biological functions and pathways. In summary, we develop an efficient algorithm for an ultrahigh-dimensional principal component analysis. We create genetic catalogs of ancestry-informative markers and genes. We explore pharmacogenetic patterns and establish a high-accuracy prediction panel of genetic ancestry. Moreover, we construct a genetic ancestry pharmacogenomic database Genetic Ancestry PhD (http://hcyang.stat.sinica.edu.tw/databases/genetic_ancestry_phd/). |
format | Online Article Text |
id | pubmed-7864978 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-78649782021-02-16 Genetic ancestry plays a central role in population pharmacogenomics Yang, Hsin-Chou Chen, Chia-Wei Lin, Yu-Ting Chu, Shih-Kai Commun Biol Article Recent studies have pointed out the essential role of genetic ancestry in population pharmacogenetics. In this study, we analyzed the whole-genome sequencing data from The 1000 Genomes Project (Phase 3) and the pharmacogenetic information from Drug Bank, PharmGKB, PharmaADME, and Biotransformation. Here we show that ancestry-informative markers are enriched in pharmacogenetic loci, suggesting that trans-ancestry differentiation must be carefully considered in population pharmacogenetics studies. Ancestry-informative pharmacogenetic loci are located in both protein-coding and non-protein-coding regions, illustrating that a whole-genome analysis is necessary for an unbiased examination over pharmacogenetic loci. Finally, those ancestry-informative pharmacogenetic loci that target multiple drugs are often a functional variant, which reflects their importance in biological functions and pathways. In summary, we develop an efficient algorithm for an ultrahigh-dimensional principal component analysis. We create genetic catalogs of ancestry-informative markers and genes. We explore pharmacogenetic patterns and establish a high-accuracy prediction panel of genetic ancestry. Moreover, we construct a genetic ancestry pharmacogenomic database Genetic Ancestry PhD (http://hcyang.stat.sinica.edu.tw/databases/genetic_ancestry_phd/). Nature Publishing Group UK 2021-02-05 /pmc/articles/PMC7864978/ /pubmed/33547344 http://dx.doi.org/10.1038/s42003-021-01681-6 Text en © The Author(s) 2021 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Yang, Hsin-Chou Chen, Chia-Wei Lin, Yu-Ting Chu, Shih-Kai Genetic ancestry plays a central role in population pharmacogenomics |
title | Genetic ancestry plays a central role in population pharmacogenomics |
title_full | Genetic ancestry plays a central role in population pharmacogenomics |
title_fullStr | Genetic ancestry plays a central role in population pharmacogenomics |
title_full_unstemmed | Genetic ancestry plays a central role in population pharmacogenomics |
title_short | Genetic ancestry plays a central role in population pharmacogenomics |
title_sort | genetic ancestry plays a central role in population pharmacogenomics |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7864978/ https://www.ncbi.nlm.nih.gov/pubmed/33547344 http://dx.doi.org/10.1038/s42003-021-01681-6 |
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