Gene | Total number of samples | Level of methylation | TCGA HNSCC(n = 305) | TCGA OTSCC(n = 86) | |||||
---|---|---|---|---|---|---|---|---|---|
0% | <10% | 10 to 25% | 25 to 50% | >50% | Heterogeneous | β-value >0.2 | β-value >0.2 | ||
ABO | 107 | 78 (73%) | 7 (7%) | 3 (3%) | 0 | 0 | 19 (17%) | 139 (46%) | 32 (37%) |
cg13506600, cg07241568 | |||||||||
APC | 105 | 102 (97%) | 0 | 0 | 3 (3%) | 0 | 0 | 50 (16%) | 12 (14%) |
cg14479889, cg03667968, cg16970232 | |||||||||
ATM | 48 | 48 (100%) | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
cg18457775, cg06750635 | |||||||||
BRCA1 | 45 | 44 (98%) | 1 (2%) | 0 | 0 | 0 | 0 | 0 | 0 |
cg20187250, cg15419295, cg16963062, cg16630982, cg21253966, cg04110421, cg04658354 | |||||||||
CDH1 | 114 | 91 (80%) | 10 (9%) | 0 | 0 | 0 | 13 (11%) | 1 (0%) | 1 (0%) |
cg16739895, cg23989635, cg11255163 | |||||||||
CDH13 | 111 | 107 (96%) | 1 (1%) | 0 | 0 | 0 | 3 (3%) | 41 (13%) | 9 (10%) |
cg08747377 | |||||||||
CDKN2A[96] | 113 | 78 (69%) | 15 (13%) | 8 (7%) | 6 (5%) | 6 (5%) | 0 | 55 (18%) | 21 (24%) |
cg04026675, cg13601799 | |||||||||
DAPK1 | 91 | 87 (96%) | 4 (4%) | 0 | 0 | 0 | 0 | 46 (15%) | 8 (9%) |
cg08797471, cg13932603 | |||||||||
ERCC1 | 47 | 47 (100%) | 0 | 0 | 0 | 0 | 0 | 11 (4%) | 3 (3%) |
cg20467502, cg23902435 | |||||||||
MGMT | 50 | 37 (74%) | 13 (26%) | 0 | 0 | 0 | 0 | 23 (8%) | 5 (6%) |
cg02941816, cg05068430 | |||||||||
MLH1 | 49 | 49 (100%) | 0 | 0 | 0 | 0 | 0 | 1 (0%) | 0 |
cg23658326 | |||||||||
RASSF1A | 49 | 48 (98%) | 1 (2%) | 0 | 0 | 0 | 0 | 11 (4%) | 0 |
cg04743654, cg27569446 | |||||||||
RUNX3 | 108 | 90 (83%) | 0 | 0 | 0 | 0 | 18 (17%) | 37 (12%) | 16 (19%) |
cg19590532, cg06377278 | Â | Â | Â | Â | Â | Â | Â | Â | Â |