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Impact of Population Stratification on Family-Based Association in an Admixed Population
Population substructure is a well-known confounder in population-based case-control genetic studies, but its impact in family-based studies is unclear. We performed population substructure analysis using extended families of admixed population to evaluate power and Type I error in an association stu...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Hindawi Publishing Corporation
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434195/ https://www.ncbi.nlm.nih.gov/pubmed/26064873 http://dx.doi.org/10.1155/2015/501617 |
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author | Mersha, T. B. Ding, L. He, H. Alexander, E. S. Zhang, X. Kurowski, B. G. Pilipenko, V. Kottyan, L. Martin, L. J. Fardo, D. W. |
author_facet | Mersha, T. B. Ding, L. He, H. Alexander, E. S. Zhang, X. Kurowski, B. G. Pilipenko, V. Kottyan, L. Martin, L. J. Fardo, D. W. |
author_sort | Mersha, T. B. |
collection | PubMed |
description | Population substructure is a well-known confounder in population-based case-control genetic studies, but its impact in family-based studies is unclear. We performed population substructure analysis using extended families of admixed population to evaluate power and Type I error in an association study framework. Our analysis shows that power was improved by 1.5% after principal components adjustment. Type I error was also reduced by 2.2% after adjusting for family substratification. The presence of population substructure was underscored by discriminant analysis, in which over 92% of individuals were correctly assigned to their actual family using only 100 principal components. This study demonstrates the importance of adjusting for population substructure in family-based studies of admixed populations. |
format | Online Article Text |
id | pubmed-4434195 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Hindawi Publishing Corporation |
record_format | MEDLINE/PubMed |
spelling | pubmed-44341952015-06-10 Impact of Population Stratification on Family-Based Association in an Admixed Population Mersha, T. B. Ding, L. He, H. Alexander, E. S. Zhang, X. Kurowski, B. G. Pilipenko, V. Kottyan, L. Martin, L. J. Fardo, D. W. Int J Genomics Research Article Population substructure is a well-known confounder in population-based case-control genetic studies, but its impact in family-based studies is unclear. We performed population substructure analysis using extended families of admixed population to evaluate power and Type I error in an association study framework. Our analysis shows that power was improved by 1.5% after principal components adjustment. Type I error was also reduced by 2.2% after adjusting for family substratification. The presence of population substructure was underscored by discriminant analysis, in which over 92% of individuals were correctly assigned to their actual family using only 100 principal components. This study demonstrates the importance of adjusting for population substructure in family-based studies of admixed populations. Hindawi Publishing Corporation 2015 2015-05-04 /pmc/articles/PMC4434195/ /pubmed/26064873 http://dx.doi.org/10.1155/2015/501617 Text en Copyright © 2015 T. B. Mersha et al. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Mersha, T. B. Ding, L. He, H. Alexander, E. S. Zhang, X. Kurowski, B. G. Pilipenko, V. Kottyan, L. Martin, L. J. Fardo, D. W. Impact of Population Stratification on Family-Based Association in an Admixed Population |
title | Impact of Population Stratification on Family-Based Association in an Admixed Population |
title_full | Impact of Population Stratification on Family-Based Association in an Admixed Population |
title_fullStr | Impact of Population Stratification on Family-Based Association in an Admixed Population |
title_full_unstemmed | Impact of Population Stratification on Family-Based Association in an Admixed Population |
title_short | Impact of Population Stratification on Family-Based Association in an Admixed Population |
title_sort | impact of population stratification on family-based association in an admixed population |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434195/ https://www.ncbi.nlm.nih.gov/pubmed/26064873 http://dx.doi.org/10.1155/2015/501617 |
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