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Treating phenotype as given: a simple resampling method for genome-wide association studies
Significance of genetic association to a marker has been traditionally evaluated through statistics that are standardized such that their null distributions conform to some known ones. Distributional assumptions are often required in this standardization procedure. Based on the observation that the...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287899/ https://www.ncbi.nlm.nih.gov/pubmed/22373312 http://dx.doi.org/10.1186/1753-6561-5-S9-S60 |
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author | Wang, Kai Huang, Jian |
author_facet | Wang, Kai Huang, Jian |
author_sort | Wang, Kai |
collection | PubMed |
description | Significance of genetic association to a marker has been traditionally evaluated through statistics that are standardized such that their null distributions conform to some known ones. Distributional assumptions are often required in this standardization procedure. Based on the observation that the phenotype remains the same regardless of the marker being investigated, we propose a simple statistic that does not need such standardization. We propose a resampling procedure to assess this statistic’s genome-wide significance. This method has been applied to replicate 2 of the Genetic Analysis Workshop 17 simulated data on unrelated individuals in an attempt to map phenotype Q2. However, none of the selected SNPs are in genes that are disease-causing. This may be due to the weak effect that each genetic factor has on Q2. |
format | Online Article Text |
id | pubmed-3287899 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-32878992012-02-28 Treating phenotype as given: a simple resampling method for genome-wide association studies Wang, Kai Huang, Jian BMC Proc Proceedings Significance of genetic association to a marker has been traditionally evaluated through statistics that are standardized such that their null distributions conform to some known ones. Distributional assumptions are often required in this standardization procedure. Based on the observation that the phenotype remains the same regardless of the marker being investigated, we propose a simple statistic that does not need such standardization. We propose a resampling procedure to assess this statistic’s genome-wide significance. This method has been applied to replicate 2 of the Genetic Analysis Workshop 17 simulated data on unrelated individuals in an attempt to map phenotype Q2. However, none of the selected SNPs are in genes that are disease-causing. This may be due to the weak effect that each genetic factor has on Q2. BioMed Central 2011-11-29 /pmc/articles/PMC3287899/ /pubmed/22373312 http://dx.doi.org/10.1186/1753-6561-5-S9-S60 Text en Copyright ©2011 Wang and Huang; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Proceedings Wang, Kai Huang, Jian Treating phenotype as given: a simple resampling method for genome-wide association studies |
title | Treating phenotype as given: a simple resampling method for genome-wide association studies |
title_full | Treating phenotype as given: a simple resampling method for genome-wide association studies |
title_fullStr | Treating phenotype as given: a simple resampling method for genome-wide association studies |
title_full_unstemmed | Treating phenotype as given: a simple resampling method for genome-wide association studies |
title_short | Treating phenotype as given: a simple resampling method for genome-wide association studies |
title_sort | treating phenotype as given: a simple resampling method for genome-wide association studies |
topic | Proceedings |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287899/ https://www.ncbi.nlm.nih.gov/pubmed/22373312 http://dx.doi.org/10.1186/1753-6561-5-S9-S60 |
work_keys_str_mv | AT wangkai treatingphenotypeasgivenasimpleresamplingmethodforgenomewideassociationstudies AT huangjian treatingphenotypeasgivenasimpleresamplingmethodforgenomewideassociationstudies |