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Table 2 The effect of methylation of every of the 22 CpGs on 5-year OS time

From: Large-scale analysis of DFNA5 methylation reveals its potential as biomarker for breast cancer

CpG Genomic coordinate (GRCh37) All breast adenocarcinomas Ductal adenocarcinomas Lobular adenocarcinomas
Regression coefficient S.E. P value Regression coefficient S.E. P value Regression coefficient S.E. P value
CpG17790129 24738572 5.1 1.9 8.2 × 10−3 * 6.0 2.5 0.019 * 2.3 3.8 0.54
CpG14205998 24748668 5.1 2.1 0.015 * 4.9 2.1 0.023 * 13.9 11.9 0.24
CpG04317854 24762562 1.8 1.3 0.16 2.6 1.4 0.064 − 2.6 3.5 0.46
CpG12922093 24767644 3.1 1.2 0.012 * 3.8 1.4 6.2 × 10−3 * − 1.9 4.2 0.66
CpG17569154 24781545 3.0 1.2 0.012 * 3.6 1.3 6.3 × 10−3 * − 2.3 4.4 0.61
CpG19260663 24791121 5.3 1.9 4.2 × 10−3 * 5.7 2.0 5.5 × 10−3 * 7.5 6.3 0.23
CpG09333471 24796355 2.5 1.3 0.059 1.7 1.4 0.22 11.4 6.8 0.093
CpG00473134 24796494 0.81 1.4 0.57 0.78 1.6 0.62 4.3 4.8 0.37
CpG03995857 24796553 − 0.19 1.0 0.85 − 0.75 1.1 0.49 7.4 5.2 0.16
CpG07320646 24796981 − 0.49 0.84 0.55 − 1.3 1.0 0.22 7.0 5.3 0.19
CpG07293520 24797192 − 0.17 1.2 0.89 − 1.7 1.6 0.29 9.5 5.3 0.072
CpG04770504 24797363 − 1.3 1.2 0.27 − 2.4 1.4 0.098 11.7 8.8 0.18
CpG24805239 24797486 − 0.19 1.2 0.87 − 0.91 1.3 0.49 6.4 4.5 0.16
CpG01733570 24797656 0.97 1.0 0.34 0.77 1.0 0.44 3.9 3.9 0.32
CpG25723149 24797680 0.14 1.0 0.89 0.18 1.0 0.86 2.2 4.1 0.59
CpG22804000 24797691 − 0.092 1.1 0.93 0.087 1.1 0.94 0.51 3.9 0.90
CpG07504598 24797786 − 0.31 1.1 0.77 − 0.13 1.1 0.91 0.87 4.2 0.83
CpG15037663 24797835 − 0.21 1.1 0.85 − 0.086 1.1 0.94 3.4 4.8 0.48
CpG19706795 24797839 0.29 1.2 0.80 0.67 1.2 0.58 0.13 4.3 0.98
CpG20764575 24797884 − 0.77 1.1 0.46 − 0.60 1.1 0.57 0.84 5.0 0.87
CpG06301139 24798175 4.2 2.3 0.064 5.0 2.6 0.052 2.9 5.9 0.63
CpG26712096 24798855 2.4 1.2 0.053 2.7 1.3 0.036 * 3.9 4.2 0.35
  1. For each of the 22 CpGs, the effect size (= regression coefficient) with standard error (S.E.) and the p value (likelihood ratio test) are reported for the effect on 5-year OS time in all breast adenocarcinoma patients, only the ductal, or only the lobular carcinoma patients. CpG17790129–CpG19260663 are located in the gene body, CpG09333471–CpG20764575 are located in the putative gene promoter, and the last two CpGs, CpG06301139 and CpG26712096, are located upstream from the putative gene promoter
  2. *Significant p values