Leveraging ethnic group incidence variation to investigate genetic susceptibility to glioma: A novel candidate SNP approach

Daniel I. Jacobs, Kyle M. Walsh, Margaret Wrensch, John Wiencke, Robert Brian Jenkins, Richard S. Houlston, Melissa Bondy, Matthias Simon, Marc Sanson, Konstantinos Gousias, Johannes Schramm, Marianne Labussière, Anna Luisa Di Stefano, H. Erich Wichmann, Martina Müller-Nurasyid, Stefan Schreiber, Andre Franke, Susanne Moebus, Lewin Eisele, Andrew T. DewanRobert Dubrow

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

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.

Original languageEnglish (US)
Article numberArticle 203
JournalFrontiers in Genetics
Volume3
Issue numberOCT
DOIs
StatePublished - 2012

Fingerprint

Genetic Predisposition to Disease
Ethnic Groups
Glioma
Single Nucleotide Polymorphism
Incidence
Gene Frequency
HapMap Project
Asian Americans
Linkage Disequilibrium
African Americans
Meta-Analysis

Keywords

  • Admixture
  • Ancestry informative markers
  • Brain cancer
  • Candidate SNP association study
  • Ethnicity
  • Glioma
  • Race

ASJC Scopus subject areas

  • Genetics
  • Molecular Medicine
  • Genetics(clinical)

Cite this

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 Brian; 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.

In: Frontiers in Genetics, Vol. 3, No. OCT, Article 203, 2012.

Research output: Contribution to journalArticle

Jacobs, DI, Walsh, KM, Wrensch, M, Wiencke, J, Jenkins, RB, Houlston, RS, Bondy, M, Simon, M, Sanson, M, Gousias, K, Schramm, J, Labussière, M, Di Stefano, AL, Wichmann, HE, Müller-Nurasyid, M, Schreiber, S, Franke, A, Moebus, S, Eisele, L, Dewan, AT & Dubrow, R 2012, 'Leveraging ethnic group incidence variation to investigate genetic susceptibility to glioma: A novel candidate SNP approach', Frontiers in Genetics, vol. 3, no. OCT, Article 203. https://doi.org/10.3389/fgene.2012.00203
Jacobs, Daniel I. ; Walsh, Kyle M. ; Wrensch, Margaret ; Wiencke, John ; Jenkins, Robert Brian ; 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. In: Frontiers in Genetics. 2012 ; Vol. 3, No. OCT.
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AU - Jenkins, Robert Brian

AU - Houlston, Richard S.

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AU - Simon, Matthias

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AU - Müller-Nurasyid, Martina

AU - Schreiber, Stefan

AU - Franke, Andre

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AU - Dubrow, Robert

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