Skip to main content

Advertisement

Table 3 Summary of SNP associations with recurrence-free and overall survival

From: Melanoma risk loci as determinants of melanoma recurrence and survival

A. Survival association results from genetic univariate Cox proportional hazards models.
SNP Locus Gene prior GWAS associations MAF Genotype Recurrence-free survival Overall survival
       HR 95% CI P HR 95% CI P
rs966321 1p36.32 - Tanning; β = -.14, p = 1e-9 0.49 AA Ref    Ref   
      CA 0.82 0.62-1.08   0.76 0.52-1.09  
      CC 0.61 0.43-0.88 0.02 0.71 0.45-1.12 0.23
      Additive 0.79 0.66-0.94 0.007 0.83 0.66-1.05 0.11
rs7538876 1p36.13 Near RCC2 BCC; OR = 1.28, p = 4e-12 0.32 GG Ref    Ref   
      AG 1.09 0.83-1.43   0.97 0.68-1.38  
      AA 1.69 1.18-2.43 0.02 1.09 0.67-1.77 0.89
      Additive 1.25 1.04-1.50 0.01 1.03 0.81-1.29 0.83
rs10861741 12q23.3 BTBD11 Hair; β = .12, p = 1e-4 0.15 CC Ref    Ref   
      TC 0.91 0.68-1.21   0.60 0.39-0.91  
      TT 0.13 0.02-0.94 0.01 0.31 0.04-2.20 0.01
      Additive 0.78 0.60-1.01 0.06 0.59 0.40-0.87 0.008
rs154659 16q24.3 Near MC1R Tanning; β = .14, p = 7e-8 0.28 TT Ref    Ref   
      CT 1.18 0.90-1.53   0.97 0.69-1.37  
      CC 1.84 1.21-2.79 0.02 1.14 0.63-2.05 0.88
      Additive 1.29 1.06-1.56 0.009 1.03 0.80-1.32 0.84
rs7188458 16q24.3 Near MC1R CM; OR = 1.3, p = 1e-12 0.44 GG Ref    Ref   
    Tanning; β = .13, p = 8e-7   AG 1.54 1.13-2.10   1.43 0.95-2.15  
    Hair; β = .16, p = 4e-12   AA 1.29 0.88-1.89 0.01 1.04 0.62-1.75 0.12
      Additive 1.15 0.96-1.37 0.12 1.04 0.82-1.31 0.76
rs9960018 18p11.31 DLGAP1 Tanning; β = -.15, p = 1e-5 0.12 CC Ref    Ref   
      TC 1.29 0.96-1.75   1.63 1.13-2.36  
      TT 1.83 0.90-3.72 0.09 1.65 0.67-4.06 0.03
      Additive 1.32 1.03-1.68 0.02 1.47 1.10-1.96 0.009
rs6088520 20q11.22 Near CM; OR = .86, p = .02 0.49 CC Ref    Ref   
   MAP1LC3A    TC 0.80 0.60-1.07   0.92 0.63-1.34  
      TT 0.61 0.42-0.87 0.02 0.68 0.42-1.09 0.22
      Additive 0.78 0.65-0.93 0.006 0.83 0.66-1.04 0.10
B. Survival association results from multivariable Cox proportional hazards models.
rs7538876 1p36.13 Near RCC2 BCC; OR = 1.28, p = 4e-12 0.32 GG Ref    Ref   
      AG 1.25 0.90-1.72   1.38 0.68-2.83  
      AA 2.41 1.58-3.68 0.0002 1.49 0.43-5.19 0.61
      Additive 1.48 1.20-1.83 0.0005 1.08 0.82-1.41 0.60
rs12913832 15q13.1 HERC2 Tanning; β = -.19, p = 1e-10 0.36 GG Ref    Ref   
    Hair; β = -.44, p = 9e-78   AG 0.79 0.58-1.09   0.55 0.26-1.15  
    CM; OR = 0.69, p = 4e-8   AA 0.55 0.34-0.86 0.02 0.29 0.09-1.01 0.05
      Additive 0.75 0.61-0.93 0.007 0.75 0.56-0.98 0.03
rs7188458 16q24.3 Near MC1R CM; OR = 1.3, p = 1e-12 0.44 GG Ref    Ref   
    Tanning; β = .13, p = 8e-7   AG 1.52 0.97-2.37   1.05 0.45-2.45  
    Hair; β = .16, p = 4e-12   AA 1.85 1.26-2.70 0.005 1.39 0.50-3.81 0.78
      Additive 1.23 1.01-1.52 0.04 1.12 0.84-1.48 0.44
rs7195066 16q24.3 FANCA/ Hair; β = -.11, p = 2e-6 0.27 CC Ref    Ref   
   Near MC1R    TC 1.47 1.08-2.01   1.71 0.85-3.46  
      TT 1.03 0.60-1.77 0.04 0.46 0.05-3.90 0.16
      Additive 1.16 0.94-1.43 0.17 0.98 0.75-1.30 0.91
rs9960018 18p11.31 DLGAP1 Tanning; β = -.15, p = 1e-5 0.12 CC Ref    Ref   
      TC 1.17 0.82-1.68   1.59 0.71-3.58  
      TT 3.73 1.76-7.87 0.01 4.86 1.24-19.0 0.09
      Additive 1.43 1.07-1.91 0.01 1.52 1.09-2.12 0.01
rs6088520 20q11.22 Near CM; OR = .86, p = .02 0.50 CC Ref    Ref   
   MAP1LC3A    TC 0.75 0.53-1.07   0.59 0.27-1.30  
      TT 0.55 0.35-0.85 0.02 0.58 0.22-1.51 0.36
      Additive 0.74 0.59-0.92 0.007 0.90 0.68-1.19 0.46
  1. A) Results from the univariate Cox proportional hazards model. B) Results from the multivariate Cox proportional hazards model stratified by stage and adjusted by age, gender, ethnicity, tumor thickness, ulceration status, anatomic site, and histological type. Shown in bold are associations remaining significant after Bonferroni correction based on the number of independent tests (n = 64). Associations with melanoma and melanoma related host phenotypes observed in prior GWAS studies are also listed for each SNP.
  2. † Bonferroni adjusted p-value = 0.01. ‡ Bonferroni adjusted p-value = 0.03.