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Title: Cis-eQTL analysis and functional validation of candidate susceptibility genes for high-grade serous ovarian cancer.
Authors: Lawrenson K,  Li Q,  Kar S,  Seo JH,  Tyrer J,  Spindler TJ,  Lee J,  Chen Y,  Karst A,  Drapkin R,  Aben KK,  Anton-Culver H,  Antonenkova N,  Australian Ovarian Cancer Study Group,  Baker H,  Bandera EV,  Bean Y,  Beckmann MW,  Berchuck A,  Bisogna M,  Bjorge L,  Bogdanova N,  Brinton LA,  Brooks-Wilson A,  Bruinsma F,  Butzow R,  Campbell IG,  Carty K,  Chang-Claude J,  Chenevix-Trench G,  Chen A,  Chen Z,  Cook LS,  Cramer DW,  Cunningham JM,  Cybulski C,  Dansonka-Mieszkowska A,  Dennis J,  Dicks E,  Doherty JA,  Dörk T,  du Bois A,  Dürst M,  Eccles D,  Easton DT,  Edwards RP,  Eilber U,  Ekici AB,  Fasching PA,  Fridley BL,  Gao YT,  Gentry-Maharaj A,  Giles GG,  Glasspool R,  Goode EL,  Goodman MT,  Grownwald J,  Harrington P,  Harter P,  Hasmad HN,  Hein A,  Heitz F,  Hildebrandt MA,  Hillemanns P,  Hogdall E,  Hogdall C,  Hosono S,  Iversen ES,  Jakubowska A,  James P,  Jensen A,  Ji BT,  Karlan BY,  Kruger Kjaer S,  Kelemen LE,  Kellar M,  Kelley JL,  Kiemeney LA,  Krakstad C,  Kupryjanczyk J,  Lambrechts D,  Lambrechts S,  Le ND,  Lee AW,  Lele S,  Leminen A,  Lester J,  Levine DA,  Liang D,  Lissowska J,  Lu K,  Lubinski J,  Lundvall L,  Massuger LF,  Matsuo K,  McGuire V,  McLaughlin JR,  Nevanlinna H,  McNeish I,  Menon U,  Modugno F,  Moysich KB,  Narod SA,  Nedergaard L,  Ness RB,  Azmi MA,  Odunsi K,  Olson SH,  Orlow I,  Orsulic S,  Weber RP,  Pearce CL,  Pejovic T,  Pelttari LM,  Permuth-Wey J,  Phelan CM,  Pike MC,  Poole EM,  Ramus SJ,  Risch HA,  Rosen B,  Rossing MA,  Rothstein JH,  Rudolph A,  Runnebaum IB,  Rzepecka IK,  Salvesen HB,  Schildkraut JM,  Schwaab I,  Sellers TA,  Shu XO,  Shvetsov YB,  Siddiqui N,  Sieh W,  Song H,  Southey MC,  Sucheston L,  Tangen IL,  Teo SH,  Terry KL,  Thompson PJ,  Timorek A,  Tsai YY,  Tworoger SS,  van Altena AM,  Van Nieuwenhuysen E,  Vergote I,  Vierkant RA,  Wang-Gohrke S,  Walsh C,  Wentzensen N,  Whittemore AS,  Wicklund KG,  Wilkens LR,  Woo YL,  Wu X,  Wu AH,  Yang H,  Zheng W,  Ziogas A,  Monteiro A,  Pharoah PD,  Gayther SA,  Freedman ML
Journal: Nat Commun
Date: 2015
Branches: CGB, MEB, OD, OEEB
PubMed ID: 26391404
PMC ID: PMC4580986
Abstract: Genome-wide association studies have reported 11 regions conferring risk of high-grade serous epithelial ovarian cancer (HGSOC). Expression quantitative trait locus (eQTL) analyses can identify candidate susceptibility genes at risk loci. Here we evaluate cis-eQTL associations at 47 regions associated with HGSOC risk (P≤10(-5)). For three cis-eQTL associations (P<1.4 × 10(-3), FDR<0.05) at 1p36 (CDC42), 1p34 (CDCA8) and 2q31 (HOXD9), we evaluate the functional role of each candidate by perturbing expression of each gene in HGSOC precursor cells. Overexpression of HOXD9 increases anchorage-independent growth, shortens population-doubling time and reduces contact inhibition. Chromosome conformation capture identifies an interaction between rs2857532 and the HOXD9 promoter, suggesting this SNP is a leading causal variant. Transcriptomic profiling after HOXD9 overexpression reveals enrichment of HGSOC risk variants within HOXD9 target genes (P=6 × 10(-10) for risk variants (P<10(-4)) within 10 kb of a HOXD9 target gene in ovarian cells), suggesting a broader role for this network in genetic susceptibility to HGSOC.