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Table 4 In silico validation of TACSTD2 methylation results using TCGA KIRC data

From: DNA methylation of tumor associated calcium signal transducer 2 (TACSTD2) loci shows association with clinically aggressive renal cell cancers

Locus Position on chromosome 1 1Clinicopathology 2survival data
Metastasis Tumor stage Differentiation  
p OR p OR p OR p HR
cg21536783 59,041,407 3.10*10−03 65.32 2.40*10−01 2.58 6.11*10−01 1.50 2.97*10−02 1.88
cg00667789 59,042,065 3.91*10−05 44.44 8.56*10−05 14.03 1.34*10−05 18.92 2.97*10−04 2.50
cg00554413 59,042,113 2.14*10−04 104.97 3.34*10−03 14.66 1.32*10− 03 18.75 3.27*10− 02 1.56
cg24851854 59,042,275 5.51*10−07 68.88 3.67*10−08 39.14 3.39*10−08 47.07 4.95*10−06 2.83
cg05065507 59,042,931 1.11*10− 06 65.79 2.03*10−05 31.81 6.40*10−04 19.86 7.70*10− 06 2.66
cg10347335 59,042,971 4.47*10− 07 359.26 2.05*10−05 74.78 8.85*10−04 32.63 1.54*10−03 1.98
cg13443627 59,043,070 8.56*10−07 95.42 2.77*10−06 28.12 1.07*10−05 23.73 4.99*10−04 2.05
cg17210938 59,043,173 2.82*10−05 116.62 1.05*10−05 65.44 1.11*10−03 21.10 1.80*10−05 2.54
cg16080552 59,043,199 5.62*10−06 47.95 3.98*10−05 17.08 1.18*10−04 15.43 4.76*10−07 2.88
cg04863005 59,043,208 5.34*10−06 36.00 1.39*10−05 14.05 2.96*10−04 8.81 1.34*10−05 2.66
cg16699148 59,043,255 2.53*10−04 54.55 3.32*10−03 13.26 1.47*10−02 8.66 6.59*10−03 1.76
cg01821018 59,043,280 3.04*10−04 180.71 1.03*10−02 13.66 1.12*10−02 12.72 7.23*410−02 1.48
cg19813884 59,043,370 8.42*10−06 2179.41 2.3*10−03 80.46 3.10*10−02 23.44 1.61*10−03 1.93
cg05346878 59,043,576 8.10*10−04 16.72 5.51*10−01 1.48 3.58*10−01 1.83 2.82*10−02 1.93
cg27398499 59,043,873 1.13*10−04 27.96 7.97*10−01 1.19 4.06*10−01 1.76 1.19*10−01 1.46
  1. HR Hazard ratio, OR Odds ratio, p p-value, NA not available
  2. 1 univariate logistic regression for methylation comparison of dichotomized tumors for detection of statistical association with distant metastasis (M), high (> = T3) and low stage (< T3), as well as low (< G3) and high grade (> = G3) tumor subsets. Please note that two cpg sites could not be analysed
  3. 2 cox regression analysis for methylation and recurrence free survival