A Transcriptome-Wide Association Study Among 97,898 Women to Identify Candidate Susceptibility Genes for Epithelial Ovarian Cancer Risk.
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Date
2018-09-15ICR Author
Author
Lu, Y
Beeghly-Fadiel, A
Wu, L
Guo, X
Li, B
Schildkraut, JM
Im, HK
Chen, YA
Permuth, JB
Reid, BM
Teer, JK
Moysich, KB
Andrulis, IL
Anton-Culver, H
Arun, BK
Bandera, EV
Barkardottir, RB
Barnes, DR
Benitez, J
Bjorge, L
Brenton, J
Butzow, R
Caldes, T
Caligo, MA
Campbell, I
Chang-Claude, J
Claes, KBM
Couch, FJ
Cramer, DW
Daly, MB
deFazio, A
Dennis, J
Diez, O
Domchek, SM
Dörk, T
Easton, DF
Eccles, DM
Fasching, PA
Fortner, RT
Fountzilas, G
Friedman, E
Ganz, PA
Garber, J
Giles, GG
Godwin, AK
Goldgar, DE
Goodman, MT
Greene, MH
Gronwald, J
Hamann, U
Heitz, F
Hildebrandt, MAT
Høgdall, CK
Hollestelle, A
Hulick, PJ
Huntsman, DG
Imyanitov, EN
Isaacs, C
Jakubowska, A
James, P
Karlan, BY
Kelemen, LE
Kiemeney, LA
Kjaer, SK
Kwong, A
Le, ND
Leslie, G
Lesueur, F
Levine, DA
Mattiello, A
May, T
McGuffog, L
McNeish, IA
Merritt, MA
Modugno, F
Montagna, M
Neuhausen, SL
Nevanlinna, H
Nielsen, FC
Nikitina-Zake, L
Nussbaum, RL
Offit, K
Olah, E
Olopade, OI
Olson, SH
Olsson, H
Osorio, A
Park, SK
Parsons, MT
Peeters, PHM
Pejovic, T
Peterlongo, P
Phelan, CM
Pujana, MA
Ramus, SJ
Rennert, G
Risch, H
Rodriguez, GC
Rodríguez-Antona, C
Romieu, I
Rookus, MA
Rossing, MA
Rzepecka, IK
Sandler, DP
Schmutzler, RK
Setiawan, VW
Sharma, P
Sieh, W
Simard, J
Singer, CF
Song, H
Southey, MC
Spurdle, AB
Sutphen, R
Swerdlow, AJ
Teixeira, MR
Teo, SH
Thomassen, M
Tischkowitz, M
Toland, AE
Trichopoulou, A
Tung, N
Tworoger, SS
van Rensburg, EJ
Vanderstichele, A
Vega, A
Edwards, DV
Webb, PM
Weitzel, JN
Wentzensen, N
White, E
Wolk, A
Wu, AH
Yannoukakos, D
Zorn, KK
Gayther, SA
Antoniou, AC
Berchuck, A
Goode, EL
Chenevix-Trench, G
Sellers, TA
Pharoah, PDP
Zheng, W
Long, J
Type
Journal Article
Metadata
Show full item recordAbstract
Large-scale genome-wide association studies (GWAS) have identified approximately 35 loci associated with epithelial ovarian cancer (EOC) risk. The majority of GWAS-identified disease susceptibility variants are located in noncoding regions, and causal genes underlying these associations remain largely unknown. Here, we performed a transcriptome-wide association study to search for novel genetic loci and plausible causal genes at known GWAS loci. We used RNA sequencing data (68 normal ovarian tissue samples from 68 individuals and 6,124 cross-tissue samples from 369 individuals) and high-density genotyping data from European descendants of the Genotype-Tissue Expression (GTEx V6) project to build ovarian and cross-tissue models of genetically regulated expression using elastic net methods. We evaluated 17,121 genes for their cis-predicted gene expression in relation to EOC risk using summary statistics data from GWAS of 97,898 women, including 29,396 EOC cases. With a Bonferroni-corrected significance level of P < 2.2 × 10-6, we identified 35 genes, including FZD4 at 11q14.2 (Z = 5.08, P = 3.83 × 10-7, the cross-tissue model; 1 Mb away from any GWAS-identified EOC risk variant), a potential novel locus for EOC risk. All other 34 significantly associated genes were located within 1 Mb of known GWAS-identified loci, including 23 genes at 6 loci not previously linked to EOC risk. Upon conditioning on nearby known EOC GWAS-identified variants, the associations for 31 genes disappeared and three genes remained (P < 1.47 × 10-3). These data identify one novel locus (FZD4) and 34 genes at 13 known EOC risk loci associated with EOC risk, providing new insights into EOC carcinogenesis.Significance: Transcriptomic analysis of a large cohort confirms earlier GWAS loci and reveals FZD4 as a novel locus associated with EOC risk. Cancer Res; 78(18); 5419-30. ©2018 AACR.
Collections
Subject
Humans
Ovarian Neoplasms
Genetic Predisposition to Disease
Prognosis
Risk Factors
Cohort Studies
Gene Expression Profiling
Genotype
Polymorphism, Single Nucleotide
Quantitative Trait Loci
Female
Genome-Wide Association Study
Transcriptome
Carcinogenesis
Carcinoma, Ovarian Epithelial
Research team
Aetiological Epidemiology
Language
eng
Date accepted
2018-07-24
License start date
2018-09
Citation
Cancer research, 2018, 78 (18), pp. 5419 - 5430
Publisher
AMER ASSOC CANCER RESEARCH