Transcriptome-wide association study identifies new candidate susceptibility genes for glioma

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Standard

Transcriptome-wide association study identifies new candidate susceptibility genes for glioma. / Atkins, Isabelle; Kinnersley, Ben; Ostrom, Quinn T.; Labreche, Karim; Il'yasova, Dora; Armstrong, Georgina N.; Eckel-Passow, Jeanette E.; Schoemaker, Minouk J.; Nothen, Markus M.; Barnholtz-Sloan, Jill S.; Swerdlow, Anthony J.; Simon, Matthias; Rajaraman, Preetha; Chanock, Stephen J.; Shildkraut, Joellen; Bernstein, Jonine L.; Hoffmann, Per; Jockel, Karl Heinz; Lai, Rose K.; Claus, Elizabeth B.; Olson, Sara H.; Johansen, Christoffer; Wrensch, Margaret R.; Melin, Beatrice; Jenkins, Robert B.; Sanson, Marc; Bondy, Melissa L.; Houlston, Richard S.

I: Cancer Research, Bind 79, Nr. 8, 2019, s. 2065-2071.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Atkins, I, Kinnersley, B, Ostrom, QT, Labreche, K, Il'yasova, D, Armstrong, GN, Eckel-Passow, JE, Schoemaker, MJ, Nothen, MM, Barnholtz-Sloan, JS, Swerdlow, AJ, Simon, M, Rajaraman, P, Chanock, SJ, Shildkraut, J, Bernstein, JL, Hoffmann, P, Jockel, KH, Lai, RK, Claus, EB, Olson, SH, Johansen, C, Wrensch, MR, Melin, B, Jenkins, RB, Sanson, M, Bondy, ML & Houlston, RS 2019, 'Transcriptome-wide association study identifies new candidate susceptibility genes for glioma', Cancer Research, bind 79, nr. 8, s. 2065-2071. https://doi.org/10.1158/0008-5472.CAN-18-2888

APA

Atkins, I., Kinnersley, B., Ostrom, Q. T., Labreche, K., Il'yasova, D., Armstrong, G. N., Eckel-Passow, J. E., Schoemaker, M. J., Nothen, M. M., Barnholtz-Sloan, J. S., Swerdlow, A. J., Simon, M., Rajaraman, P., Chanock, S. J., Shildkraut, J., Bernstein, J. L., Hoffmann, P., Jockel, K. H., Lai, R. K., ... Houlston, R. S. (2019). Transcriptome-wide association study identifies new candidate susceptibility genes for glioma. Cancer Research, 79(8), 2065-2071. https://doi.org/10.1158/0008-5472.CAN-18-2888

Vancouver

Atkins I, Kinnersley B, Ostrom QT, Labreche K, Il'yasova D, Armstrong GN o.a. Transcriptome-wide association study identifies new candidate susceptibility genes for glioma. Cancer Research. 2019;79(8):2065-2071. https://doi.org/10.1158/0008-5472.CAN-18-2888

Author

Atkins, Isabelle ; Kinnersley, Ben ; Ostrom, Quinn T. ; Labreche, Karim ; Il'yasova, Dora ; Armstrong, Georgina N. ; Eckel-Passow, Jeanette E. ; Schoemaker, Minouk J. ; Nothen, Markus M. ; Barnholtz-Sloan, Jill S. ; Swerdlow, Anthony J. ; Simon, Matthias ; Rajaraman, Preetha ; Chanock, Stephen J. ; Shildkraut, Joellen ; Bernstein, Jonine L. ; Hoffmann, Per ; Jockel, Karl Heinz ; Lai, Rose K. ; Claus, Elizabeth B. ; Olson, Sara H. ; Johansen, Christoffer ; Wrensch, Margaret R. ; Melin, Beatrice ; Jenkins, Robert B. ; Sanson, Marc ; Bondy, Melissa L. ; Houlston, Richard S. / Transcriptome-wide association study identifies new candidate susceptibility genes for glioma. I: Cancer Research. 2019 ; Bind 79, Nr. 8. s. 2065-2071.

Bibtex

@article{d8a50e4dde864a4bbb1cb49f7165193d,
title = "Transcriptome-wide association study identifies new candidate susceptibility genes for glioma",
abstract = " Genome-wide association studies (GWAS) have so far identified 25 loci associated with glioma risk, with most showing specificity for either glioblastoma (GBM) or non-GBM tumors. The majority of these GWAS susceptibility variants reside in noncoding regions and the causal genes underlying the associations are largely unknown. Here we performed a transcriptome-wide association study to search for novel risk loci and candidate causal genes at known GWAS loci using Genotype-Tissue Expression Project (GTEx) data to predict cis-predicted gene expression in relation to GBM and non-GBM risk in conjunction with GWAS summary statistics on 12,488 glioma cases (6,183 GBM and 5,820 non-GBM) and 18,169 controls. Imposing a Bonferroni-corrected significance level of P < 5.69 10 6 , we identified 31 genes, including GALNT6 at 12q13.33, as a candidate novel risk locus for GBM (mean Z ¼ 4.43; P ¼ 5.68 10 6 ). GALNT6 resides at least 55 Mb away from any previously identified glioma risk variant, while all other 30 significantly associated genes were located within 1 Mb of known GWAS-identified loci and were not significant after conditioning on the known GWAS-identified variants. These data identify a novel locus (GALNT6 at 12q13.33) and 30 genes at 12 known glioma risk loci associated with glioma risk, providing further insights into glioma tumorigenesis. Significance: This study identifies new genes associated with glioma risk, increasing understanding of how these tumors develop. ",
author = "Isabelle Atkins and Ben Kinnersley and Ostrom, {Quinn T.} and Karim Labreche and Dora Il'yasova and Armstrong, {Georgina N.} and Eckel-Passow, {Jeanette E.} and Schoemaker, {Minouk J.} and Nothen, {Markus M.} and Barnholtz-Sloan, {Jill S.} and Swerdlow, {Anthony J.} and Matthias Simon and Preetha Rajaraman and Chanock, {Stephen J.} and Joellen Shildkraut and Bernstein, {Jonine L.} and Per Hoffmann and Jockel, {Karl Heinz} and Lai, {Rose K.} and Claus, {Elizabeth B.} and Olson, {Sara H.} and Christoffer Johansen and Wrensch, {Margaret R.} and Beatrice Melin and Jenkins, {Robert B.} and Marc Sanson and Bondy, {Melissa L.} and Houlston, {Richard S.}",
year = "2019",
doi = "10.1158/0008-5472.CAN-18-2888",
language = "English",
volume = "79",
pages = "2065--2071",
journal = "Cancer Research",
issn = "0008-5472",
publisher = "American Association for Cancer Research",
number = "8",

}

RIS

TY - JOUR

T1 - Transcriptome-wide association study identifies new candidate susceptibility genes for glioma

AU - Atkins, Isabelle

AU - Kinnersley, Ben

AU - Ostrom, Quinn T.

AU - Labreche, Karim

AU - Il'yasova, Dora

AU - Armstrong, Georgina N.

AU - Eckel-Passow, Jeanette E.

AU - Schoemaker, Minouk J.

AU - Nothen, Markus M.

AU - Barnholtz-Sloan, Jill S.

AU - Swerdlow, Anthony J.

AU - Simon, Matthias

AU - Rajaraman, Preetha

AU - Chanock, Stephen J.

AU - Shildkraut, Joellen

AU - Bernstein, Jonine L.

AU - Hoffmann, Per

AU - Jockel, Karl Heinz

AU - Lai, Rose K.

AU - Claus, Elizabeth B.

AU - Olson, Sara H.

AU - Johansen, Christoffer

AU - Wrensch, Margaret R.

AU - Melin, Beatrice

AU - Jenkins, Robert B.

AU - Sanson, Marc

AU - Bondy, Melissa L.

AU - Houlston, Richard S.

PY - 2019

Y1 - 2019

N2 - Genome-wide association studies (GWAS) have so far identified 25 loci associated with glioma risk, with most showing specificity for either glioblastoma (GBM) or non-GBM tumors. The majority of these GWAS susceptibility variants reside in noncoding regions and the causal genes underlying the associations are largely unknown. Here we performed a transcriptome-wide association study to search for novel risk loci and candidate causal genes at known GWAS loci using Genotype-Tissue Expression Project (GTEx) data to predict cis-predicted gene expression in relation to GBM and non-GBM risk in conjunction with GWAS summary statistics on 12,488 glioma cases (6,183 GBM and 5,820 non-GBM) and 18,169 controls. Imposing a Bonferroni-corrected significance level of P < 5.69 10 6 , we identified 31 genes, including GALNT6 at 12q13.33, as a candidate novel risk locus for GBM (mean Z ¼ 4.43; P ¼ 5.68 10 6 ). GALNT6 resides at least 55 Mb away from any previously identified glioma risk variant, while all other 30 significantly associated genes were located within 1 Mb of known GWAS-identified loci and were not significant after conditioning on the known GWAS-identified variants. These data identify a novel locus (GALNT6 at 12q13.33) and 30 genes at 12 known glioma risk loci associated with glioma risk, providing further insights into glioma tumorigenesis. Significance: This study identifies new genes associated with glioma risk, increasing understanding of how these tumors develop.

AB - Genome-wide association studies (GWAS) have so far identified 25 loci associated with glioma risk, with most showing specificity for either glioblastoma (GBM) or non-GBM tumors. The majority of these GWAS susceptibility variants reside in noncoding regions and the causal genes underlying the associations are largely unknown. Here we performed a transcriptome-wide association study to search for novel risk loci and candidate causal genes at known GWAS loci using Genotype-Tissue Expression Project (GTEx) data to predict cis-predicted gene expression in relation to GBM and non-GBM risk in conjunction with GWAS summary statistics on 12,488 glioma cases (6,183 GBM and 5,820 non-GBM) and 18,169 controls. Imposing a Bonferroni-corrected significance level of P < 5.69 10 6 , we identified 31 genes, including GALNT6 at 12q13.33, as a candidate novel risk locus for GBM (mean Z ¼ 4.43; P ¼ 5.68 10 6 ). GALNT6 resides at least 55 Mb away from any previously identified glioma risk variant, while all other 30 significantly associated genes were located within 1 Mb of known GWAS-identified loci and were not significant after conditioning on the known GWAS-identified variants. These data identify a novel locus (GALNT6 at 12q13.33) and 30 genes at 12 known glioma risk loci associated with glioma risk, providing further insights into glioma tumorigenesis. Significance: This study identifies new genes associated with glioma risk, increasing understanding of how these tumors develop.

U2 - 10.1158/0008-5472.CAN-18-2888

DO - 10.1158/0008-5472.CAN-18-2888

M3 - Journal article

C2 - 30709929

AN - SCOPUS:85064463582

VL - 79

SP - 2065

EP - 2071

JO - Cancer Research

JF - Cancer Research

SN - 0008-5472

IS - 8

ER -

ID: 230250406