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Table 4 Differential APC methylation, odds ratio, area under the curve (AUC) between adenocarcinoma, squamous cell carcinoma and their counterparts

From: Quantitative assessment of the diagnostic role of APC promoter methylation in non-small cell lung cancer

  Adenocarcinoma Squamous Cell Carcinoma
CpG site MCaM (N = 535) MCoM (N = 56) P-valuea FDRa ORb P-valueb 95% CIb AUCb MCaM (N = 386) MCoM (N = 70) P-valuea FDRa ORb P-valueb 95% CIb AUC†
cg15020645 0.26(40.7%) 0.13(0%) 3.5 × 10-32 1.0 × 10 -31 190.6 7.7 × 10 -6 22.65 to 2,321 0.72 0.13(14.77%) 0.11(0%) 0.087466 0.131199 3.16 0.406 0.28 to 68.72 0.61
cg16970232 0.3(45.2%) 0.11(0%) 5.0 × 10-38 3.0 × 10 -37 108.9 5.1 × 10 -6 17.64 to 1,043 0.73 0.15(18.91%) 0.09(0%) 2.7 × 10-7 1.6 × 10 -6 7.54 0.035 1.39 to 64.07 0.45
cg20311501 0.33(48.4%) 0.16(5.3%) 1.4 × 10-22 2.1 × 10 -22 61.56 4.96 × 10 -6 11.94 to 420 0.73 0.18(19.95%) 0.14(0%) 0.001955 0.003909 2.48 0.257 0.57 to 13.74 0.49
cg21634602 0.33(47.4%) 0.16(7.1%) 3.6 × 10-17 4.3 × 10 -17 23.34 3.6 × 10 -5 5.75 to 116.0 0.71 0.16(20.47%) 0.14(7.14%) 0.222306 0.266767 1.27 0.726 0.35 to 5.42 0.53
cg24332422 0.26(40.5%) 0.16(0%) 1.0 × 10-26 2.0 × 10 -26 223.6 2.81 × 10 -5 21.11 to 3,463 0.71 0.16(17.36%) 0.15(0%) 0.338755 0.338755 1.6 0.656 0.23 to 14.30 0.52
  1. MCaM, MCoM represent the mean of case methylation (Beta) and mean of control methylation (Beta). Methylation levels are calculated with formula: Beta = (M/M + U).
  2. aP-values are from t-test or Wilcoxon rank-sum test after false discovery rate (FDR adjustment). The t-test will be chose when the variable is normally distributed, or else the rank-sum test will be chose. Significant P-values after FDR are bolded which indicate significant different methylation between case and control.
  3. bOR and its 95% CI, P-value and AUC from logistic regression analysis or prediction model.
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