Table 3. List of predicted lncRNA drivers at Q < 0.1.
| Cancer | Gene Name | Gene ID | Ex mut | Ex len | Intr mut | Intr len | Pval | Qval | Ex mut rate | Intr mut rate | Ratio |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Breast | AP000469.2 | ENSG00000224832 | 9 | 238824 | 2 | 1176908 | 4.38E-06 | 5.05E-03 | 3.77E-02 | 1.70E-03 | 22.2 |
| Stad | PCA3 | ENSG00000225937 | 10 | 392190 | 20 | 2702680 | 2.86E-03 | 5.49E-02 | 2.55E-02 | 7.40E-03 | 3.4 |
| KICH | RP11-308N19.1 | ENSG00000234323 | 1 | 26384 | 1 | 2437289 | 2.13E-02 | 6.39E-02 | 3.79E-02 | 4.10E-04 | 92.4 |
| Stad | SAMMSON | ENSG00000240405 | 5 | 208795 | 1 | 697899 | 3.14E-03 | 5.49E-02 | 2.39E-02 | 1.43E-03 | 16.7 |
| GBM | lncRNA-ATB | ENSG00000244306 | 4 | 314168 | 4 | 1347296 | 4.68E-02 | 9.36E-02 | 1.27E-02 | 2.97E-03 | 4.3 |
| Super_Pc | NEAT1 | ENSG00000245532 | 163 | 25316741 | 16 | 5559984 | 4.98E-04 | 2.19E-02 | 6.44E-03 | 2.88E-03 | 2.2 |
| Pc_TCGA | NEAT1 | ENSG00000245532 | 96 | 11497239 | 7 | 2524993 | 9.28E-04 | 4.08E-02 | 8.35E-03 | 2.77E-03 | 3.0 |
| PRAD | RP11-455B3.1 | ENSG00000248202 | 7 | 16573 | 1 | 380379 | 1.70E-09 | 1.19E-08 | 4.22E-01 | 2.63E-03 | 160.7 |
| KICH | RP11-332J15.1 | ENSG00000249734 | 3 | 8277 | 15 | 314985 | 1.03E-02 | 6.39E-02 | 3.62E-01 | 4.76E-02 | 7.6 |
| Breast | RP11-707A18.1 | ENSG00000250125 | 6 | 485395 | 9 | 6908893 | 2.38E-04 | 9.16E-02 | 1.24E-02 | 1.30E-03 | 9.5 |
| KICH | RP11-6C14.1 | ENSG00000250488 | 1 | 5369 | 1 | 687929 | 1.54E-02 | 6.39E-02 | 1.86E-01 | 1.45E-03 | 128.1 |
| Super_Pc | MALAT1 | ENSG00000251562 | 83 | 9683213 | 40 | 7768392 | 4.45E-03 | 9.79E-02 | 8.57E-03 | 5.15E-03 | 1.7 |
| Breast | RP11-1101K5.1 | ENSG00000253434 | 6 | 165285 | 19 | 4878981 | 1.28E-04 | 7.38E-02 | 3.63E-02 | 3.89E-03 | 9.3 |
| HNSC | RP11-354A14.1 | ENSG00000254689 | 3 | 12579 | 4 | 697784 | 1.84E-04 | 8.14E-02 | 2.38E-01 | 5.73E-03 | 41.6 |
| BRCA | RP11-189E14.4 | ENSG00000261623 | 9 | 352599 | 1 | 1252991 | 9.53E-06 | 9.25E-03 | 2.55E-02 | 7.98E-04 | 32.0 |
| SKCM | BCAR4 | ENSG00000262117 | 6 | 50458 | 8 | 533056 | 6.81E-04 | 2.11E-02 | 1.19E-01 | 1.50E-02 | 7.9 |
Known cancer genes from CRL are marked in bold face. “Pc” - PanCancer. Ex mut: Number of exonic mutations; Ex len: total exonic length of gene (bp); Intr mut: Number of background mutations; Intr length: background region length for gene (bp); Pval: uncorrected P-value; Qval: Q-value, equivalent to False Discovery Rate; Ex mut rate: Exonic mutation rate (mutations per kb); Intr mut rate: Background mutation rate (mutations per kb); Ratio: Ratio of mutation ratio in exonic and background regions; Super_pc: Super pancancer – all cancers combined.