Table 4.
Top RE-linked CpGs, RE class/family, associated protein-coding or non-coding genes, and functional annotations
| repFamily (class) | Gene Symbol | Log2FC | Annotated Function |
|---|---|---|---|
| Alu (SINE) | PIK3CD | −1.73 | Immune cell activation |
| Alu (SINE) | RASSF1 | −1.39 | Cell cycle control |
| Alu (SINE) | RPS18 | −1.01 | mRNA translation |
| Alu (SINE) | HLA-E | −1.03 | NK cell non class MHC molecule |
| L1 (LINE) | HTT | −1.25 | ScaLold vesicular |
| L1(LINE) | HSPA1L | −1.01 | Protein folding/ Immune activation |
| L1(LINE) | ZC3H3 | −1.05 | Nuclear export |
| L1 (LINE) | LINC02953 | −1.20 | Cell proliferation regulation |
| L1 (LINE) | CD81 | −1.04 | Immune activation |
| L1 (LINE) | RAB11FIP3 | 1.44 | EMT |
| ERVL (LTR) | LINC02613 | 1.51 | Cell cycle regulation, immune modulation |
| ERV1 (LTR) | SUCLG2-DT | −1.36 | lncRNA for TCA cycle |
| ERV1 (LTR) | HCG17 | −1.08 | Cytokine production |
| ERVL-MaLR (LTR) | RPS18 | −1.22 | mRNA translation |
| ERV1 (LTR) | ELMO1 | −1.22 | EMT cytoskeleton |
| ERVL (LTR) | RIMKLB | −1.02 | Ribosomal protein modification |