Table 1.
Statistics of cancer genes with not less than 100 mutations.
| Gene name | Total mutation number | Number of base substitutionsa | Number of indels | S/I ratio | Category of S-I linkage | Gene type |
|---|---|---|---|---|---|---|
| APC | 808 | 266 (11, 255) | 542 | 0.49 | Apparent | Tumor suppressor gene |
| PTEN | 769 | 407 (19, 388) | 362 | 1.12 | Insignificant | Tumor suppressor gene |
| VHL | 756 | 296 (38, 258) | 460 | 0.64 | Significant | Tumor suppressor gene |
| CDKN2A | 457 | 302 (57, 245) | 155 | 1.95 | Insignificant | Tumor suppressor gene |
| NF2 | 385 | 80 (5, 75) | 305 | 0.26 | Significant | Tumor suppressor gene |
| CEBPA | 358 | 43 (8, 35) | 315 | 0.14 | Insignificant | Other |
| KIT | 312 | 148 (25, 123) | 164 | 0.90 | Apparent | Oncogene |
| TP53 | 300 | 232 (5, 227) | 68 | 3.41 | Significant | Tumor suppressor gene |
| EGFR | 269 | 208 (19, 189) | 61 | 3.41 | Apparent | Oncogene |
| CTNNB1 | 229 | 143 (17, 126) | 86 | 1.66 | Apparent | Oncogene |
| NOTCH1 | 222 | 98 (9, 89) | 124 | 0.79 | Apparent | Tumor suppressor gene |
| PIK3CA | 204 | 190 (9, 181) | 14 | 13.57 | Apparent | Oncogene |
| PTCH1 | 189 | 125 (10, 115) | 64 | 1.95 | Insignificant | Tumor suppressor gene |
| NF1 | 182 | 83 (5, 78) | 99 | 0.84 | Insignificant | Tumor suppressor gene |
| RB1 | 174 | 87 (4, 83) | 87 | 1.00 | Significant | Tumor suppressor gene |
| ATM | 162 | 124 (2, 122) | 38 | 3.26 | Insignificant | Other |
| WT1 | 156 | 44 (0, 44) | 112 | 0.39 | Apparent | Tumor suppressor gene |
| SMAD4 | 147 | 108 (4, 104) | 39 | 2.77 | Insignificant | Tumor suppressor gene |
| RUNX1 | 135 | 60 (6, 54) | 75 | 0.80 | Apparent | Tumor suppressor gene |
| CDH1 | 133 | 70 (6, 64) | 63 | 1.11 | Insignificant | Tumor suppressor gene |
| FLT3 | 124 | 35 (4, 31) | 89 | 0.39 | Apparent | Oncogene |
| MEN1 | 122 | 45 (1, 44) | 77 | 0.58 | Insignificant | Tumor suppressor gene |
| BRAF | 118 | 109 (16, 93) | 9 | 12.11 | Apparent | Oncogene |
| STK11 | 111 | 66 (8, 58) | 45 | 1.47 | Significant | Tumor suppressor gene |
| GATA1 | 106 | 20 (2, 18) | 86 | 0.23 | Apparent | Other |
| Mean | 277 | 136 (12, 124) | 142 | 0.96 | - | - |
S/I is the ratio of base substitution number and indel number. S-I represents the linkage between substitutions and indels. In column a, the two numbers in parentheses are synonymous and non-synonymous somatic base substitutions, respectively. Gene type is "Oncogene" or "Tumor suppressor gene" whenever there is strong evidence according to previous publications (otherwise "Other" is assigned).