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Table 3 Comparison of the frequency of over- and undermethylated genes detected in the gastric non-cancerous and cancerous tissues

From: The overmethylated genes in Helicobacter pylori-infected gastric mucosa are demethylated in gastric cancers

Gene Noncancerous tissue Microsatellite genotype of gastric cancers (%) Bone marrow
  H. pylorinegative
(n = 100)
H. pyloripositive
(n = 100)
LOH-B
(n = 13)
LOH-L
(n = 29)
LOH-H
(n = 24)
MSI
(n = 4)
(n = 18)
(%)
Overmethylation frequency        
   CDH1 21 77* 0 (0)* 7 (24) 3 (13) 0 (0) 0 (0)
   ARRDC4 20 62* 3 (23) 8 (28) 1 (4)* 1 (25) 0 (0)
   PPARG 40 82* 5 (38) 7 (24) 6 (25) 1 (25) 0 (0)
   CDKN2A 46 90* 9 (69) 16 (55) 9 (38) 2 (50) 4 (22)
   TRAPPC2L 6 21* 6 (46)* 8 (28)* 1 (4) 1 (25) 0 (0)
   DUSP6 12 36* 3 (23) 3 (10) 1 (4) 2 (50) 0 (0)
   MLH1 19 37* 4 (31) 17 (59)* 11 (46) 3 (75) 0 (0)
   RUNX3 42 85* 10 (77) 26 (90)* 19 (79)* 4 (100) 18 (100)
   PGA5 12 13 5 (38) 8 (28) 1 (4) 0 (0) 0 (0)
   PGC 4 10 4 (31) 4 (14) 5 (21) 1 (25) 18 (100)
   TFF1 37 52 5 (38) 3 (10)* 3 (13)* 0 (0) 18 (100)
   TFF2 4 3 4 (31) 4 (14) 1 (4) 0 (0) 2 (11)
   MSLN 12 11 8 (62)* 16 (55)* 6 (25) 1 (25) 18 (100)
   KRT6A 18 16 4 (31) 16 (55)* 4 (17) 3 (75) 3 (17)
Undermethylation frequency        
   CDH1 0 0 0 (0) 0 (0) 0 (0) 0 (0) 0 (0)
   ARRDC4 0 0 0 (0) 0 (0) 0 (0) 0 (0) 0 (0)
   PPARG 0 0 0 (0) 0 (0) 0 (0) 0 (0) 0 (0)
   CDKN2A 0 0 0 (0) 0 (0) 0 (0) 0 (0) 0 (0)
   TRAPPC2L 13 11 1 (8) 2 (7) 7 (29) 1 (25) 16 (89)
   DUSP6 26 25 3 (23) 13 (45) 12 (50) 2 (50) 18 (100)
   MLH1 20 18 7 (54) 6 (21) 9 (38) 1 (25) 17 (94)
   RUNX3 5 1 0 (0) 1 (3) 2 (8) 0 (0) 0 (0)
   PGA5 10 14 0 (0) 3 (10) 5 (21) 0 (0) 0 (0)
   PGC 29 18 4 (31) 8 (28) 5 (21) 2 (50) 0 (0)
   TFF1 11 1* 7 (54) 19 (66)* 17 (71)* 3 (75) 0 (0)
   TFF2 36 26 4 (31) 11 (38) 8 (33) 3 (75) 13 (72)
   MSLN 0 0 0 (0) 1 (3) 1 (4) 2 (50) 0 (0)
   KRT6A 17 16 3 (23) 3 (10) 3 (13) 1 (25) 5 (28)
  1. The gastric cancers were categorized into baseline-level LOH (LOH-B), low-level LOH (LOH-L), high-level LOH (LOH-H) and microsatellite instability (MSI). The details are described in the material and methods section.
  2. *H. pylori-positive gastric mucosa and gastric cancers were compared with H. pylori-negative gastric mucosa. Significant differences were determined using Fisher's exact test (P < 0.01).