Table 2. Validation of the relationship between methylation and mRNA expression of crucial genes in TCGA.
| Crucial gene | mRNA expression in HCC | Methylation status in HCC | ||||
|---|---|---|---|---|---|---|
| mRNA expression | P-value | Methylation | Position | Pearson correlation | P-value | |
| NDC80 | High expression | <2.2E-16 | Hypomethylation | chr18:2571606 | −0.150 | 1.64E-03 |
| chr18:2571747 | −0.282 | <2.2E-16 | ||||
| ZWINT | High expression | <2.2E-16 | Hypomethylation | chr10:58121299 | −0.142 | 0.03 |
| NCAPG | High expression | <2.2E-16 | Hypomethylation | chr4:17812759 | −0.236 | 2.26E-11 |
| chr4:17813558 | −0.544 | <2.2E-16 | ||||
| CENPF | High expression | <2.2E-16 | Hypomethylation | chr1:214776904 | −0.243 | 1.48E-12 |
| chr1:214777596 | −0.304 | 1.60E-14 | ||||
| chr1:214780880 | −0.174 | 6.27E-11 | ||||
| chr1:214781456 | −0.154 | 1.38E-04 | ||||
| chr1:214781663 | −0.217 | 1.21E-05 | ||||
| chr1:214788192 | −0.150 | 7.40E-07 | ||||
| ESR1 | Low expression | <2.2E-16 | Hypermethylation | chr6:152002969 | −0.139 | 2.58E-02 |
| chr6:152003038 | −0.142 | 5.60E-05 | ||||
| ENO3 | Low expression | 7.46E-14 | Hypermethylation | chr17:4850943 | −0.160 | 1.39E-03 |
| chr17:4851808 | −0.146 | 5.41E-12 | ||||
| chr17:4852013 | −0.139 | 8.45E-04 | ||||
| chr17:4852349 | −0.118 | 9.08E-12 | ||||
| chr17:4854754 | −0.705 | 8.20E-05 | ||||
| chr17:4855149 | −0.604 | 2.24E-06 | ||||