Table 1.
Finding endogenous miRNAs
| Input genes | miRNA and rank | Seed ΔG score | Total average seed score |
|---|---|---|---|
| E2F1, E2F2, E2F3, RBL2 | miR20 (66/93) | 0.44 | 0.54 |
| E2F1, E2F2, E2F3, CCND1, p21 | miR-20 (2/8) | 0.44 | 0.52 |
| E2F1, E2F2, E2F3, CCND1, p21, RBL2 | miR-20 (1/2) | 0.44 | 0.56 |
| E2F1, E2F2, E2F3, CCND1, p21, RBL2 PTPPRO | miR-20 (1/3) | 0.44 | 0.55 |
| E2F1, E2F2, E2F3, CCND1, p21, RBL2 NCOA3 | miR-20 (1/1) | 0.44 | 0.56 |
| E2F1,E2F2, E2F3, CCND1, p21, RBL2, PTPRO, NCOA3, HIF1 TGFBR2 | miR-20 (1/1) | 0.44 | 0.55 |
| FSTL1, UTRN, GJA1 | miR-206 (8/41) | 0.34 | 0.62 |
| PDCD4, BCL2, SPROUTY2, MTAP, SOX5 | miR-21 (1/1) | 0.38 | 0.54 |
| PAFAH1B1, CIDSPL, SDC1, CTDSYL, ID4 | miR-10a (3/24) | 0.63 | 0.62 |
| PTEN, NDEL1, IL13RA1 | miR-22 (2/33) | 0.74 | 0.65 |
| PTEN, NDEL1, IL13RA1, PLAG2, PTPN9, Cul3 | miR-22 (1/1) | 0.74 | 0.66 |
The endogenous miRNAs are found given their corresponding target genes. All these targets have perfect seed binding sites. The ranking refers to the scores of the solutions found by the algorithm (ranking/number of solutions). The highest scores are ranked first. The scores are between 0 and 1, where 1 indicates perfect matching (see Supplementary methods for their definition).