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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...

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Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2012
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.
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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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