Genome-wide association study identifies three new melanoma susceptibility loci

Barrett, J.H. et al. (2011) Genome-wide association study identifies three new melanoma susceptibility loci. Nature Genetics, 43(11), pp. 1108-1113. (doi: 10.1038/ng.959)

Abstract

We report a genome-wide association study for melanoma that was conducted by the GenoMEL Consortium. Our discovery phase included 2,981 individuals with melanoma and 1,982 study-specific control individuals of European ancestry, as well as an additional 6,426 control subjects from French or British populations, all of whom were genotyped for 317,000 or 610,000 single-nucleotide polymorphisms (SNPs). Our analysis replicated previously known melanoma susceptibility loci. Seven new regions with at least one SNP with P < 10−5 and further local imputed or genotyped support were selected for replication using two other genome-wide studies (from Australia and Texas, USA). Additional replication came from case-control series from the UK and The Netherlands. Variants at three of the seven loci replicated at P < 10−3: an SNP in ATM (rs1801516, overall P = 3.4 × 10−9), an SNP in MX2 (rs45430, P = 2.9 × 10−9) and an SNP adjacent to CASP8 (rs13016963, P = 8.6 × 10−10). A fourth locus near CCND1 remains of potential interest, showing suggestive but inconclusive evidence of replication (rs1485993, overall P = 4.6 × 10−7 under a fixed-effects model and P = 1.2 × 10−3 under a random-effects model). These newly associated variants showed no association with nevus or pigmentation phenotypes in a large British case-control series.

• Item Type: Articles (Letter)
• Status: Published
• Refereed: Yes
• Glasgow Author(s) Enlighten ID: Mackie, Professor Rona
• Authors: Barrett, J.H., Iles, M.M., Harland, M., Taylor, J.C., Aitken, J.F., Andresen, P.A., Akslen, L.A., Armstrong, B.K., Avril, M.-F., Azizi, E., Bakker, B., Bergman, W., Bianchi-Scarrà, G., Bressac-de Paillerets, B., Calista, D., Cannon-Albright, L.A., Corda, E., Cust, A.E., Dębniak, T., Duffy, D., Dunning, A.M., Easton, D.F., Friedman, E., Galan, P., Ghiorzo, P., Giles, G.G., Hansson, J., Hocevar, M., Höiom, V., Hopper, J.L., Ingvar, C., Janssen, B., Jenkins, M.A., Jönsson, G., Kefford, R.F., Landi, G., Landi, M.T., Lang, J., Lubiński, J., Mackie, R., Malvehy, J., Martin, N.G., Molven, A., Montgomery, G.W., van Nieuwpoort, F.A., Novakovic, S., Olsson, H., Pastorino, L., Puig, S., Puig-Butille, J.A., Randerson-Moor, J., Snowden, H., Tuominen, R., Van Belle, P., van der Stoep, N., Whiteman, D.C., Zelenika, D., Han, J., Fang, S., Lee, J.E., Wei, Q., Lathrop, G.M., Gillanders, E.M., Brown, K.M., Goldstein, A.M., Kanetsky, P.A., Mann, G.J., MacGregor, S., Elder, D.E., Amos, C.I., Hayward, N.K., Gruis, N.A., Demenais, F., Newton Bishop, J.A., and Bishop, D.T.
• College/School: College of Medical Veterinary and Life Sciences > School of Health & Wellbeing > Public Health
• Journal Name: Nature Genetics
• ISSN: 1061-4036
• ISSN (Online): 1546-1718
• Published Online: 09 October 2011