TABLE 3.
CpG sites Displaying Association between U-tAs DNA Methylation and mRNA Expression Levels
| CpG Probe ID | Refgene Symbol | Gene Name | Expression Fold Change (HEQ /LEQ) | P-value (U-tAs) | q-value (U-tAs) | R | P-value (Expression) |
|---|---|---|---|---|---|---|---|
| cg16360836 | HDAC4 | Histone deacetylase 4 | 0.94 | 7.02E-05 | 2.03E-02 | −0.57 | 2.00E-04 |
| cg24671666 | PLEKHG3 | Pleckstrin homology domain containing, family G member 3 | 0.76 | 3.30E-04 | 3.62E-02 | 0.49 | 1.90E-03 |
| cg10632215 | CERK | Ceramide kinase | 0.86 | 5.06E-04 | 4.30E-02 | 0.46 | 4.00E-03 |
| cg15601244 | SH2B2 | SH2B adaptor protein 2 | 0.85 | 7.31E-05 | 2.05E-02 | −0.46 | 4.10E-03 |
| cg26489875 | MALAT1 | Metastasis associated lung aadenocarcinoma transcript 1 | 1.12 | 4.82E-04 | 4.20E-02 | −0.45 | 4.40E-03 |
| cg15883181 | RNF213 | Ring finger protein 213 | 0.83 | 7.63E-05 | 2.07E-02 | −0.45 | 4.90E-03 |
| cg18054302 | GAK | Cyclin G associated kinase | 0.89 | 3.06E-04 | 3.53E-02 | −0.44 | 5.30E-03 |
| cg22798758 | PTPRE | Protein tyrosine phosphatase, receptor type, E | 0.86 | 2.95E-04 | 3.48E-02 | −0.44 | 6.00E-03 |
| cg09112262 | WDR55 | WD repeat domain 55 | 0.83 | 4.63E-04 | 4.13E-02 | −0.44 | 6.10E-03 |
| cg20851790 | RNF213 | Ring finger protein 213 | 0.83 | 4.25E-04 | 3.98E-02 | −0.44 | 6.10E-03 |
| cg07199894 | ULK1 | Unc-51 like autophagy activating kinase 1 | 1.15 | 6.51E-04 | 4.69E-02 | −0.43 | 7.80E-03 |
| cg00627621 | TRIB1 | Tribbles homolog 1 (Drosophila) | 0.84 | 3.35E-04 | 3.65E-02 | −0.40 | 1.22E-02 |
| cg15574972 | MALAT1 | Metastasis associated lung adenocarcinoma transcript 1 | 1.12 | 1.82E-04 | 2.89E-02 | −0.40 | 1.30E-02 |
| cg18312113 | SSU72 | SSU72 RNA polymerase II CTD phosphatase homolog (Saccharomyces cerevisiae) | 0.88 | 4.22E-04 | 3.97E-02 | −0.39 | 1.72E-02 |
| cg20689294 | PTPRE | Protein tyrosine phosphatase, receptor type, E | 0.86 | 5.48E-04 | 4.40E-02 | −0.38 | 1.77E-02 |
| cg06719391 | KCNQ1 | Potassium voltage-gated channel, KQT-like subfamily, member 1 | 0.86 | 2.91E-05 | 1.49E-02 | −0.38 | 1.80E-02 |
| cg02582997 | GAK | Cyclin G associated kinase | 0.89 | 5.43E-04 | 4.40E-02 | −0.37 | 2.07E-02 |
| cg03041730 | GAK | Cyclin G associated kinase | 0.89 | 2.99E-05 | 1.50E-02 | −0.37 | 2.30E-02 |
| cg24725201 | KCNQ1 | Potassium voltage-gated channel, KQT-like subfamily, member 1 | 0.86 | 1.08E-04 | 2.36E-02 | −0.36 | 2.67E-02 |
| cg24089935 | KCNQ1 | Potassium voltage-gated channel, KQT-like subfamily, member 1 | 0.86 | 7.98E-05 | 2.10E-02 | −0.36 | 2.77E-02 |
| cg06107260 | HDAC4 | Histone deacetylase 4 | 0.94 | 9.26E-06 | 1.04E-02 | −0.35 | 2.94E-02 |
| cg03926050 | PPTC7 | PTC7 protein phosphatase homolog (S. cerevisiae) | 0.81 | 2.93E-04 | 3.47E-02 | 0.34 | 3.86E-02 |
| cg01693193 | KCNQ1 | Potassium voltage-gated channel, KQT-like subfamily, member 1 | 0.86 | 3.04E-05 | 1.51E-02 | 0.34 | 3.94E-02 |
| cg04295928 | PGAP2 | Post-GPI attachment to proteins 2 | 0.87 | 3.41E-05 | 1.57E-02 | −0.33 | 4.62E-02 |
| cg08438705 | SBNO2 | Strawberry notch homolog 2 (Drosophila) | 0.85 | 4.91E-04 | 4.24E-02 | −0.32 | 4.79E-02 |
Associations were calculated using Pearson correlations.