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Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach
Objectives: Using a novel candidate SNP approach, we aimed to identify a possible genetic basis for the higher glioma incidence in Whites relative to East Asians and African-Americans. Methods: We hypothesized that genetic regions containing SNPs with extreme differences in allele frequencies acros...
Autores principales: | , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3469791/ https://www.ncbi.nlm.nih.gov/pubmed/23091480 http://dx.doi.org/10.3389/fgene.2012.00203 |
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author | Jacobs, Daniel I. Walsh, Kyle M. Wrensch, Margaret Wiencke, John Jenkins, Robert Houlston, Richard S. Bondy, Melissa Simon, Matthias Sanson, Marc Gousias, Konstantinos Schramm, Johannes Labussière, Marianne Di Stefano, Anna Luisa Wichmann, H.-Erich Müller-Nurasyid, Martina Schreiber, Stefan Franke, Andre Moebus, Susanne Eisele, Lewin Dewan, Andrew T. Dubrow, Robert |
author_facet | Jacobs, Daniel I. Walsh, Kyle M. Wrensch, Margaret Wiencke, John Jenkins, Robert Houlston, Richard S. Bondy, Melissa Simon, Matthias Sanson, Marc Gousias, Konstantinos Schramm, Johannes Labussière, Marianne Di Stefano, Anna Luisa Wichmann, H.-Erich Müller-Nurasyid, Martina Schreiber, Stefan Franke, Andre Moebus, Susanne Eisele, Lewin Dewan, Andrew T. Dubrow, Robert |
author_sort | Jacobs, Daniel I. |
collection | PubMed |
description | Objectives: Using a novel candidate SNP approach, we aimed to identify a possible genetic basis for the higher glioma incidence in Whites relative to East Asians and African-Americans. Methods: We hypothesized that genetic regions containing SNPs with extreme differences in allele frequencies across ethnicities are most likely to harbor susceptibility variants. We used International HapMap Project data to identify 3,961 candidate SNPs with the largest allele frequency differences in Whites compared to East Asians and Africans and tested these SNPs for association with glioma risk in a set of White cases and controls. Top SNPs identified in the discovery dataset were tested for association with glioma in five independent replication datasets. Results: No SNP achieved statistical significance in either the discovery or replication datasets after accounting for multiple testing or conducting meta-analysis. However, the most strongly associated SNP, rs879471, was found to be in linkage disequilibrium with a previously identified risk SNP, rs6010620, in RTEL1. We estimate rs6010620 to account for a glioma incidence rate ratio of 1.34 for Whites relative to East Asians. Conclusion: We explored genetic susceptibility to glioma using a novel candidate SNP method which may be applicable to other diseases with appropriate epidemiologic patterns. |
format | Online Article Text |
id | pubmed-3469791 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-34697912012-10-22 Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach Jacobs, Daniel I. Walsh, Kyle M. Wrensch, Margaret Wiencke, John Jenkins, Robert Houlston, Richard S. Bondy, Melissa Simon, Matthias Sanson, Marc Gousias, Konstantinos Schramm, Johannes Labussière, Marianne Di Stefano, Anna Luisa Wichmann, H.-Erich Müller-Nurasyid, Martina Schreiber, Stefan Franke, Andre Moebus, Susanne Eisele, Lewin Dewan, Andrew T. Dubrow, Robert Front Genet Genetics Objectives: Using a novel candidate SNP approach, we aimed to identify a possible genetic basis for the higher glioma incidence in Whites relative to East Asians and African-Americans. Methods: We hypothesized that genetic regions containing SNPs with extreme differences in allele frequencies across ethnicities are most likely to harbor susceptibility variants. We used International HapMap Project data to identify 3,961 candidate SNPs with the largest allele frequency differences in Whites compared to East Asians and Africans and tested these SNPs for association with glioma risk in a set of White cases and controls. Top SNPs identified in the discovery dataset were tested for association with glioma in five independent replication datasets. Results: No SNP achieved statistical significance in either the discovery or replication datasets after accounting for multiple testing or conducting meta-analysis. However, the most strongly associated SNP, rs879471, was found to be in linkage disequilibrium with a previously identified risk SNP, rs6010620, in RTEL1. We estimate rs6010620 to account for a glioma incidence rate ratio of 1.34 for Whites relative to East Asians. Conclusion: We explored genetic susceptibility to glioma using a novel candidate SNP method which may be applicable to other diseases with appropriate epidemiologic patterns. Frontiers Media S.A. 2012-10-12 /pmc/articles/PMC3469791/ /pubmed/23091480 http://dx.doi.org/10.3389/fgene.2012.00203 Text en Copyright © 2012 Jacobs, Walsh, Wrensch, Wiencke, Jenkins, Houlston, Bondy, Simon, Sanson, Gousias, Schramm, Labussière, Di Stefano, Wichmann, Müller-Nurasyid, Schreiber, Franke, Moebus, Eisele, Dewan and Dubrow. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in other forums, provided the original authors and source are credited and subject to any copyright notices concerning any third-party graphics etc. |
spellingShingle | Genetics Jacobs, Daniel I. Walsh, Kyle M. Wrensch, Margaret Wiencke, John Jenkins, Robert Houlston, Richard S. Bondy, Melissa Simon, Matthias Sanson, Marc Gousias, Konstantinos Schramm, Johannes Labussière, Marianne Di Stefano, Anna Luisa Wichmann, H.-Erich Müller-Nurasyid, Martina Schreiber, Stefan Franke, Andre Moebus, Susanne Eisele, Lewin Dewan, Andrew T. Dubrow, Robert Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title | Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title_full | Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title_fullStr | Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title_full_unstemmed | Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title_short | Leveraging Ethnic Group Incidence Variation to Investigate Genetic Susceptibility to Glioma: A Novel Candidate SNP Approach |
title_sort | leveraging ethnic group incidence variation to investigate genetic susceptibility to glioma: a novel candidate snp approach |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3469791/ https://www.ncbi.nlm.nih.gov/pubmed/23091480 http://dx.doi.org/10.3389/fgene.2012.00203 |
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