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Title: Enrichment of putative PAX8 target genes at serous epithelial ovarian cancer susceptibility loci.
Authors: Kar SP,  Adler E,  Tyrer J,  Hazelett D,  Anton-Culver H,  Bandera EV,  Beckmann MW,  Berchuck A,  Bogdanova N,  Brinton L,  Butzow R,  Campbell I,  Carty K,  Chang-Claude J,  Cook LS,  Cramer DW,  Cunningham JM,  Dansonka-Mieszkowska A,  Doherty JA,  Dörk T,  Dürst M,  Eccles D,  Fasching PA,  Flanagan J,  Gentry-Maharaj A,  Glasspool R,  Goode EL,  Goodman MT,  Gronwald J,  Heitz F,  Hildebrandt MA,  Høgdall E,  Høgdall CK,  Huntsman DG,  Jensen A,  Karlan BY,  Kelemen LE,  Kiemeney LA,  Kjaer SK,  Kupryjanczyk J,  Lambrechts D,  Levine DA,  Li Q,  Lissowska J,  Lu KH,  Lubiński J,  Massuger LF,  McGuire V,  McNeish I,  Menon U,  Modugno F,  Monteiro AN,  Moysich KB,  Ness RB,  Nevanlinna H,  Paul J,  Pearce CL,  Pejovic T,  Permuth JB,  Phelan C,  Pike MC,  Poole EM,  Ramus SJ,  Risch HA,  Rossing MA,  Salvesen HB,  Schildkraut JM,  Sellers TA,  Sherman M,  Siddiqui N,  Sieh W,  Song H,  Southey M,  Terry KL,  Tworoger SS,  Walsh C,  Wentzensen N,  Whittemore AS,  Wu AH,  Yang H,  Zheng W,  Ziogas A,  Freedman ML,  Gayther SA,  Pharoah PD,  Lawrenson K
Journal: Br J Cancer
Date: 2017 Feb 14
Branches: CGB, MEB, OD, OEEB
PubMed ID: 28103614
PMC ID: PMC5318969
Abstract: BACKGROUND: Genome-wide association studies (GWAS) have identified 18 loci associated with serous ovarian cancer (SOC) susceptibility but the biological mechanisms driving these findings remain poorly characterised. Germline cancer risk loci may be enriched for target genes of transcription factors (TFs) critical to somatic tumorigenesis. METHODS: All 615 TF-target sets from the Molecular Signatures Database were evaluated using gene set enrichment analysis (GSEA) and three GWAS for SOC risk: discovery (2196 cases/4396 controls), replication (7035 cases/21 693 controls; independent from discovery), and combined (9627 cases/30 845 controls; including additional individuals). RESULTS: The PAX8-target gene set was ranked 1/615 in the discovery (PGSEA<0.001; FDR=0.21), 7/615 in the replication (PGSEA=0.004; FDR=0.37), and 1/615 in the combined (PGSEA<0.001; FDR=0.21) studies. Adding other genes reported to interact with PAX8 in the literature to the PAX8-target set and applying an alternative to GSEA, interval enrichment, further confirmed this association (P=0.006). Fifteen of the 157 genes from this expanded PAX8 pathway were near eight loci associated with SOC risk at P<10-5 (including six with P<5 × 10-8). The pathway was also associated with differential gene expression after shRNA-mediated silencing of PAX8 in HeyA8 (PGSEA=0.025) and IGROV1 (PGSEA=0.004) SOC cells and several PAX8 targets near SOC risk loci demonstrated in vitro transcriptomic perturbation. CONCLUSIONS: Putative PAX8 target genes are enriched for common SOC risk variants. This finding from our agnostic evaluation is of particular interest given that PAX8 is well-established as a specific marker for the cell of origin of SOC.