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Germline whole exome sequencing and large-scale replication identifies FANCM as a likely high grade serous ovarian cancer susceptibility gene.

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Author information

Affiliations

  • 1. Centre for Cancer Genetic Epidemiology, Department of Oncology, University of Cambridge, Cambridge, UK.
      Authors
    • Dicks E 1
    • Song H 1
    • Tyrer JP 1
    • Kar S 1
    • Harrington P 1
    • Alsop J 1
    (6 authors)
  • 2. The Kinghorn Cancer Centre, Garvan Institute of Medical Research, Sydney, Australia.
      Authors
    • Ramus SJ 2
    (1 author)
  • 3. Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
      Authors
    • Van Oudenhove E 3
    • Piskorz A 3
    • Goranova T 3
    • Brenton JD 3
    (4 authors)
  • 4. School of Women's and Children's Health, University of New South Wales, Sydney, Australia.
      Authors
    • Intermaggio MP 4
    (1 author)
  • 5. Ovarian Cancer Action Research Centre, Department of Surgery and Cancer, Imperial College London, London, UK.
      Authors
    • Bowtell DD 5
    (1 author)
    • Show all (26)

ORCIDs linked to this article

Oncotarget, 03 Mar 2017,
https://doi.org/10.18632/oncotarget.15871 PMID: 28404948 

Abstract 

We analyzed whole exome sequencing data in germline DNA from 412 high grade serous ovarian cancer (HGSOC) cases from The Cancer Genome Atlas Project and identified 5,517 genes harboring a predicted deleterious germline coding mutation in at least one HGSOC case. Gene-set enrichment analysis showed enrichment for genes involved in DNA repair (p = 1.8x10-3). Twelve DNA repair genes - APEX1, APLF, ATX, EME1, FANCL, FANCM, MAD2L2, PARP2, PARP3, POLN, RAD54L and SMUG1 - were prioritized for targeted sequencing in up to 3,107 HGSOC cases, 1,491 cases of other epithelial ovarian cancer (EOC) subtypes and 3,368 unaffected controls of European origin. We estimated mutation prevalence for each gene and tested for associations with disease risk. Mutations were identified in both cases and controls in all genes except MAD2L2, where we found no evidence of mutations in controls. In FANCM we observed a higher mutation frequency in HGSOC cases compared to controls (29/3,107 cases, 0.96 percent; 13/3,368 controls, 0.38 percent; P=0.008) with little evidence for association with other subtypes (6/1,491, 0.40 percent; P=0.82). The relative risk of HGSOC associated with deleterious FANCM mutations was estimated to be 2.5 (95% CI 1.3 - 5.0; P=0.006). In summary, whole exome sequencing of EOC cases with large-scale replication in case-control studies has identified FANCM as a likely novel susceptibility gene for HGSOC, with mutations associated with a moderate increase in risk. These data may have clinical implications for risk prediction and prevention approaches for high-grade serous ovarian cancer in the future and a significant impact on reducing disease mortality.

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Read article at publisher's site: https://doi.org/10.18632/oncotarget.15871

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