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Table 1 The 23 CpG units showing area under the curve (AUC) values larger than 0.95 in receiver operating characteristic curve analysis for discrimination of CpG island methylator phenotype (CIMP)-positive clear cell renal cell carcinomas (ccRCCs) from CIMP-negative ccRCCs in the learning cohort

From: Prognostication of patients with clear cell renal cell carcinomas based on quantification of DNA methylation levels of CpG island methylator phenotype marker genes

ID of CpG unit1 Gene symbol Chromo-
some
Position of CpG site2 AUC value Cutoff value3(%) Sensitivity4
(%)
Specificity4
(%)
81 TRH 3 129693406, 129693412 0.973 30.8 100.0 88.6
85 TRH 3 129693518, 129693521, 129693528 0.950 18.2 100.0 78.4
89 TRH 3 129693586 0.952 11.0 92.3 92.0
94 TRH 3 129693635 0.967 6.6 100.0 87.5
8 FAM150A 8 53478477 0.968 27.2 83.3 94.1
11 FAM150A 8 53478511 0.968 27.2 83.3 94.1
78 PRAC 17 46799755 0.957 40.7 92.9 89.8
102 SLC13A5 17 6616733 0.983 7.5 92.9 96.6
105 SLC13A5 17 6616812 0.983 18.5 100.0 94.3
106 SLC13A5 17 6616826, 6616828 0.951 23.3 100.0 88.6
107 SLC13A5 17 6616851, 6616854, 6616857 0.954 14.8 100.0 87.5
110 SLC13A5 17 6616927, 6616929 0.951 23.3 100.0 88.6
30 ZNF540 19 38042496 0.983 41.0 100.0 98.3
32 ZNF540 19 38042518 0.960 35.7 100.0 93.1
33 ZNF540 19 38042530, 38042532 0.991 36.4 100.0 96.6
43 ZNF154 19 58220567 0.956 13.3 92.9 90.9
44 ZNF154 19 58220627 0.966 14.8 85.7 95.5
45 ZNF154 19 58220657, 58220662 0.959 22.2 92.9 95.5
149 ZNF671 19 58238780 0.954 15.2 85.7 89.7
158 ZNF671 19 58238928 0.965 10.5 100.0 88.5
160 ZNF671 19 58238954 0.954 15.2 85.7 89.7
161 ZNF671 19 58238987 0.954 15.2 85.7 89.7
163 ZNF671 19 58239012 0.951 10.5 85.7 92.0
  1. 1ID of CpG unit is defined in Additional file 4: Table S4.
  2. 2National Center for Biotechnology Information (NCBI) Database (Genome Build 37).
  3. 3The Youden index was used as a cutoff value for discriminating CIMP-positive ccRCCs in the learning cohort from CIMP-negative ccRCCs. When the cancerous tissue shows a DNA methylation level equal to or higher than the cutoff value, the ccRCC is considered to be CIMP-positive; when the cancerous tissue shows a DNA methylation level lower than the cutoff value, the ccRCC is considered to be CIMP-negative.
  4. 4Sensitivity and specificity for discrimination of CIMP-positive ccRCCs in the learning cohort from CIMP-negative ccRCCs using individual CpG units.