Table 1.
Five highest over-represented pathways 1 identified for validated target genes of the RRMS-specific miRNAs.
| Pathway | Adjusted p Value | miRNA | Target Transcripts |
|---|---|---|---|
| Vesicle-mediated transport | 2.41 × 108 | miR-16-5p | RAB9B, CAPZA2, DCTN5, GALNT1, RAB30, PPP6R3, RAB3IP, SBF1, TBC1D14, KIF2A, RACGAP1, KIF3B, KIF1B, TFRC, COL4A1 |
| miR-6840-3p | TRAPPC2, ACTR1A, FZD4, GNS, TBC1D24, GJC1, APOL1 | ||
| miR-6811-3p | RAB13, RAB30, PAFAH1B2, DENND6B | ||
| miR-5192 | CBL, CSNK1D, TBC1D13, SYT2, CALR | ||
| miR-4476 | RAB5B, ACTR2, PACSIN1 | ||
| miR-135b-5p | RAB3GAP2 | ||
| Membrane trafficking | 2.96 × 108 | miR-6840-3p | TRAPPC2, ACTR1A, FZD4, GNS, TBC1D24, GJC1 |
| miR-6811-3p | RAB13, RAB30, PAFAH1B2, DENND6B | ||
| miR-5192 | CBL, CSNK1D, TBC1D13, SYT2 | ||
| miR-4476 | RAB5B, ACTR2, PACSIN1 | ||
| miR-135b-5p | RAB3GAP2 | ||
| Post-translational protein modification | 1.87 × 107 | miR-16-5p | RAB9B, CAPZA2, DCTN5, GALNT1, RAB30, PPP6R3, BIRC5, MAP3K7, SOCS2, NUP155, NCOR2, BRCA1, CUL3, FBXL20, B3GNT2, RAB23, GALNT7, ASXL1 |
| miR-6840-3p | TRAPPC2, ACTR1A, APOL1, MLEC, RCE1, SUMF2, GGCX, DCAF10, FOXK1, CPM | ||
| miR-4476 | RAB5B, PSMD11, PHC2, TFAP2A, USP12, IGFBP4 | ||
| miR-1909-3p | CANX, TFAP2B, SENP5, DPH2, WAC | ||
| miR-5192 | CSNK1D, CALR, ST6GAL2, RECK | ||
| miR-6811-3p | RAB13, RAB30, KLHL21, PEX2 | ||
| miR-135b-5p | THBS2 | ||
| Signalling by interleukins | 1.87 × 107 | miR-16-5p | BIRC5, MAP3K7, SOCS2, VEGFA, RPS6KA3, UBE2V1, BCL2, IRAK3, PIM1, HNRNPDL |
| miR-5192 | CBL, SOD2, POU2F1, UBE2V1, STX3 | ||
| miR-4476 | PSMD11, SOD2, CFL1, IFNLR1 | ||
| miR-1909-3p | CANX, IRAK4, MCL1 | ||
| miR-6840-3p | CRK, IL6R, STAT2 | ||
| miR-135b-5p | STAT6 | ||
| miR-6811-3p | CCR2 | ||
| Cytokine signalling in immune system | 1.23 × 106 | miR-16-5p | BIRC5, MAP3K7, SOCS2, VEGFA, RPS6KA3, UBE2V1, BCL2, IRAK3, PIM1, HNRNPDL, NUP155, KRAS, CD44 |
| miR-5192 | CBL, SOD2, POU2F1, UBE2V1, STX3, EDAR | ||
| miR-4476 | PSMD11, SOD2, CFL1, IFNLR1 | ||
| miR-1909-3p | CANX, IRAK4, MCL1 | ||
| miR-6840-3p | CRK, IL6R, STAT2 | ||
| miR-6811-3p | CCR2, PDE12 | ||
| miR-135b-5p | STAT6 |
1 “Top five” over-represented pathways in the Reactome Pathway Database were defined as those with the lowest adjusted p values from the list of pathways with a BH-corrected p value ≤ 0.01 and with ≥3 RRMS-specific miRNAs having predictive mRNA targets inherent to the biological pathway.