Table 1.
Regression Analysis for Estimating Gene Expression Level and Bias from Epigenetic Marks
| Gene Expression Level |
Gene Expression Bias |
|||||
|---|---|---|---|---|---|---|
| Effect | R2 (single term) | Coefficient (single term) | Coefficient (full model) | R2 (single term) | Coefficient (single term) | Coefficient (full model) |
| DNA-methylation | 0.279 | 1.875**** | 0.424**** | 0.165 | −0.401**** | −0.170**** |
| H3K4me3 | 0.273 | 1.869**** | −0.128** | 0.151 | −0.476**** | 0.162**** |
| H3K4me1 | 0.222 | 1.684**** | 0.238**** | 0.086 | −0.504**** | −0.067*** |
| H3K27me3 | 0.081 | 1.020**** | −0.537**** | 0.002 | 0.021**** | 0.161**** |
| H3K27ac | 0.343 | 2.096**** | 0.891**** | 0.207 | −0.567**** | −0.272**** |
| H3K36me3 | 0.344 | 2.097**** | 1.382**** | 0.205 | −0.618**** | −0.373**** |
| H3K9me3 | 0.307 | −1.983**** | −0.610**** | 0.279 | 0.723**** | 0.233**** |
| H3K9ac | 0.082 | 1.022**** | −0.119** | 0.084 | −0.390**** | −0.255**** |
| PolII | 0.124 | 0.558**** | −0.256**** | 1.22E-05 | −0.010*** | 0.164**** |
| R2 adj. (full model) | 0.5086 | 0.4126 | ||||
Note.—Coefficients for both single-term tests and full model are provided. *P < 0.05, **P < 0.01, ***P < 0.001, ****P < 0.0001. N = 15,165.