Table 2C.
SPNT-HCC vs CNTL: Top 20 genes with concordance of hypomethylated promoter regions and upregulation of gene expression. Genes with at least 4 probes overlapping +/− 2Kb of TSS and P-value <=0.005 ordered according to gene expression fold change.
| Gene Symbols | Gene Name | RefSeq Gene | Methylation Foldchange | Methylation P-value | Expression Foldchange | Expression P-value |
|---|---|---|---|---|---|---|
| D17H6S56E-5 | DNA segment, Chr 17, human D6S56E 5 | NM_033075 | −1.2201 | 0.0034 | 22.2847 | 0.0000 |
| Tspan8 | Tetraspanin 8 | NM_001168679 /// NM_001168680 /// NM_146010 | −1.4400 | 0.0008 | 14.6112 | 0.0000 |
| Tnfsf13 | TNF superfamily member 13 |
NM_001159505 /// NM_023517 | −1.3919 | 0.0000 | 13.0511 | 0.0000 |
| Tlr1 | Toll like receptor 1 | NM_030682 | −1.3132 | 0.0000 | 13.0444 | 0.0000 |
| Tmem71 | Transmembrane protein 71 | NM_172514 | −1.2584 | 0.0051 | 12.1900 | 0.0000 |
| Btg2 | BTG anti-proliferation factor 2 | NM_007570 | −1.2715 | 0.0072 | 7.1245 | 0.0000 |
| Casp12 | Caspase 12 | NM_009808 | −1.2002 | 0.0060 | 4.8237 | 0.0001 |
| B4galt6 | Beta-1,4-galactosyltransferase 6 | NM_019737 | −1.2585 | 0.0000 | 4.5903 | 0.0000 |
| Mmp12 | Matrix metalloproteinase 12 | NM_008605 | −1.3047 | 0.0043 | 4.2464 | 0.0235 |
| Casp4 | Caspase 4 | NM_007609 | −1.2710 | 0.0087 | 4.0187 | 0.0001 |
| Pold4 | DNA polymerase delta 1, catalytic subunit | NM_027196 | −1.3624 | 0.0018 | 3.9744 | 0.0000 |
| Wfdc15b | WAP four-disulfide core domain 15B | NM_001045554 /// NM_138685 | −1.2233 | 0.0067 | 3.5051 | 0.0393 |
| Casp1 | Caspase 1 | NM_009807 | −1.2136 | 0.0045 | 3.1855 | 0.0001 |
| Cd48 | CD48 | NM_007649 | −1.2149 | 0.0002 | 2.3810 | 0.0122 |