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Table 3 Summary of the frequency of methylation of the genes in lung tumors based of their main clinicopathologic variables.

From: Multiplexed methylation profiles of tumor suppressor genes and clinical outcome in lung cancer

Gene Overall (%) Histology (%) Differentation Grade (%) Tumor stage (%)
  Methylation n = 54 SCC n = 21 ADC n = 32 Good n = 11 Moderate n = 16 Poor n = 27 Local n = 22 Advanced n = 32
PRDM2 22 (40.7) 10 (45.4) 12 (37.5) 21 (45.6) 0 (0) 12 (44.4) 10 (45.4) 12 (37.5)
RUNX3 23 (42.5) 13 (59.1) 10 (31.2) 19 (41.3) 2 (33.3) 10 (37.0) 13 (59.1) 10 (31.2)
RARB 20 (37) 8 (36.4) 12 (37.5) 17 (36.9) 3 (50.0) 10 (37.0) 8 (36.4) 12 (37.5)
HLTF 8 (14.8) 1 (4.5) 7 (21.9) 8 (17.4) 0 (0) 7 (25.9) 1 (4.5) 7 (21.9)
HLT-2 17 (31.5) 9 (40.9) 8 (25.0) 14 (30.4) 2 (33.3) 10 (37.0) 9 (40.9) 8 (25.0)
SCGB3A1 27 (50.0) 15 (68.2) 12 (37.5) 24 (52.2) 2 (33.3) 15 (55.5) 15 (68.2) 12 (37.5)
SCGB3A1-2 17 (31.5) 12 (54.5) 5 (15.6) 12 (26.0) 4 (66.7) 9 (33.3) 12 (54.5) 5 (15.6)
ID4 25 (46.3) 12 (54.5) 13 (40.6) 23 (50.0) 1 (1.7) 12 (44.4) 12 (54.5) 13 (40.6)
ID4-2 11 (20.4) 5 (22.7) 6 (18.7) 10 (21.7) 1 (1.7) 7 (25.9) 5 (22.7) 6 (18.7)
TWIST1 21 (38.9) 9 (40.9) 12 (37.5) 19 (41.3) 2 (33.3) 10 (37.0) 9 (40.9) 12 (37.5)
SFRP4 10 (18.5) 7 (31.8) 3 (9.4) 9 (19.5) 1 (1.7) 5 (18.5) 7 (31.8) 3 (9.4)
SFRP4-2 16 (29.6) 11 (50.0) 5 (15.6) 12 (26.0) 3 (50.0) 8 (29.6) 11 (50.0) 5 (15.6)
DLC1 22 (40.7) 12 (54.5) 10 (31.2) 18 (39.1) 3 (50.0) 13 (48.1) 12 (54.5) 10 (31.2)
DLC1-2 27 (50.0) 15 (68.2) 12 (37.5) 21 (45.6) 5 (83.3) 14 (51.8) 15 (68.2) 12 (37.5)
SFRP5 17 (31.5) 8 (36.4) 9 (28.1) 15 (32.6) 2 (33.3) 10 (37.0) 8 (36.4) 9 (28.1)
SFRP5-2 12 (22.2) 6 (27.3) 6 (18.7) 9 (19.6) 2 (33.3) 8 (29.6) 6 (27.3) 6 (18.7)
BNIP3 24 (44.4) 12 (54.5) 12 (37.5) 20 (43.5) 2 (33.3) 13 (48.1) 12 (54.5) 12 (37.5)
H2AFX 10 (18.5) 5 (22.7) 5 (15.6) 9 (19.5) 1 (1.7) 6 (22.2) 5 (22.7) 5 (15.6)
H2AFX-2 9 (16.7) 6 (27.3) 3 (9.4) 8 (17.4) 1 (1.7) 5 (18.5) 6 (27.3) 3 (9.4)
CCND2 26 (48.1) 13 (59.1) 13 (40.6) 22 (47.8) 3 (50.0) 15 (55.5) 13 (59.1) 13 (40.6)
CCND2-2 29 (53.7) 14 (63.6) 15 (46.9) 25 (54.3) 4 (66.7) 15 (55.5) 14 (63.6) 15 (46.9)
CACNA1G 21 (38.9) 12 (54.5) 9 (28.1) 19 (41.3) 1 (1.7) 12 (44.4) 12 (54.5) 9 (28.1)
TGIF 10 (18.5) 5 (22.7) 5 (15.6) 9 (19.5) 1 (1.7) 6 (22.2) 5 (22.7) 5 (15.6)
BCL2 8 (14.8) 4 (18.2) 4 (12.5) 8 (17.4) 0 (0) 5 (18.5) 4 (18.2) 4 (12.5)
CACNA1A 18 (33.3) 11 (50.0) 7 (21.9) 13 (28.3) 4 (66.7) 8 (29.6) 11 (50.0) 7 (21.9)
TIMP3 10 (18.5) 7 (31.8) 3 (9.4) 9 (19.6) 1 (1.7) 5 (18.5) 7 (31.8) 3 (9.4)
TIMP3-2 11 (20.4) 7 (31.8) 4 (12.5) 9 (19.6) 1 (1.7) 6 (22.2) 7 (31.8) 4 (12.5)
  1. The number of samples (n) displaying a methylation ratio higher than 0.3, as well as their percentual frequency within each group of specimens under analyses was included.
  2. Highlighted genes in bold represented novel candidates never reported methylated in lung cancer to date. Ys: years; SCC: squamous cell carcinoma; ADC: adenocarcinoma.