Table 3. microRNAs differentially expressed in both TCGA and cell lines.
|
Cell lines |
TCGA |
||||
|---|---|---|---|---|---|
| MicroRNA | Fold change | P-value | MicroRNA | Fold change | P-value |
| Cluster 1—immune-evasion subtype | |||||
| Upregulated miRs | |||||
| hsa-miR-30a | 7.80 | 0.0211 | hsa-miR-30a | 1.64 | 1.58E−07 |
| hsa-miR-29a | 7.37 | 0.0144 | hsa-miR-29a | 1.44 | 5.45E−08 |
| hsa-miR-29b | 4.89 | 0.0166 | hsa-miR-29b-2 | 1.36 | 0.0004605 |
| 0.0166 | hsa-miR-29b-1 | 1.38 | 0.0004026 | ||
| hsa-miR-21 | 3.78 | 0.0049 | hsa-miR-21 | 1.21 | 0.0000343 |
| hsa-miR-29c | 2.36 | 0.0175 | hsa-miR-29c | 1.36 | 0.0015875 |
| hsa-miR-1976 | 1.10 | 0.0232 | hsa-miR-1976 | 1.33 | 0.0018874 |
| Downregulated miRs | |||||
| hsa-miR-1301 | 0.81 | 0.0065 | hsa-miR-1301 | 0.58 | 1.62E−08 |
| hsa-miR-345 | 0.76 | 0.0341 | hsa-miR-345 | 0.60 | 1.52E−06 |
| hsa-miR-454 | 0.72 | 0.0422 | hsa-miR-454 | 0.78 | 0.0011665 |
| hsa-miR-16 | 0.70 | 0.0389 | hsa-miR-16-1 | 0.78 | 0.0022378 |
| 0.0389 | hsa-miR-16-2 | 0.69 | 3.48E−06 | ||
| hsa-miR-421 | 0.65 | 0.0012 | hsa-miR-421 | 0.61 | 9.57E−07 |
| hsa-miR-944 | 0.60 | 0.0263 | hsa-miR-944 | 0.42 | 0.0000337 |
| hsa-miR-105 | 0.57 | 0.0058 | hsa-miR-105-1 | 0.43 | 0.0053822 |
| 0.0058 | hsa-miR-105-2 | 0.40 | 0.0017061 | ||
| hsa-miR-215 | 0.55 | 0.0132 | hsa-miR-215 | 0.77 | 0.0362918 |
| hsa-miR-192 | 0.52 | 0.0139 | hsa-miR-192 | 0.58 | 4.74E−06 |
| hsa-miR-194 | 0.50 | 0.0021 | hsa-miR-194 | 0.71 | 0.0001613 |
| hsa-miR-20a | 0.49 | 0.0261 | hsa-miR-20a | 0.59 | 2.51E−09 |
| hsa-miR-17 | 0.48 | 0.0195 | hsa-miR-17 | 0.61 | 4.22E−11 |
| hsa-miR-20b | 0.46 | 0.0106 | hsa-miR-20b | 0.43 | 8.69E−07 |
| hsa-miR-301b | 0.45 | 0.0200 | hsa-miR-301b | 0.38 | 6.40E−12 |
| hsa-miR-183 | 0.40 | 0.0278 | hsa-miR-183 | 0.52 | 5.04E−11 |
| hsa-miR-301a | 0.36 | 0.0233 | hsa-miR-301a | 0.61 | 0.0000269 |
| hsa-miR-363 | 0.30 | 0.0417 | hsa-miR-363 | 0.65 | 0.0020219 |
| hsa-miR-196b | 0.20 | 0.0098 | hsa-miR-196b | 0.54 | 0.0001893 |
| hsa-miR-9 | 0.16 | 0.0096 | hsa-miR-9-2 | 0.42 | 4.51E−06 |
| 0.0096 | hsa-miR-9-1 | 0.42 | 0.0000041 | ||
| hsa-miR-200a | 0.11 | 0.0189 | hsa-miR-200a | 0.68 | 0.0000433 |
| hsa-miR-429 | 0.09 | 0.0099 | hsa-miR-429 | 0.62 | 0.0000735 |
| hsa-miR-204 | 0.08 | 0.0222 | hsa-miR-204 | 0.31 | 6.08E−07 |
| hsa-miR-200b | 0.08 | 0.0389 | hsa-miR-200b | 0.66 | 0.0000202 |
| hsa-miR-200c | 0.06 | 0.0403 | hsa-miR-200c | 0.77 | 0.000397 |
| Cluster 2—Replication-stress subtype | |||||
| Upregulated miRs | |||||
| hsa-miR-205 | 221.50 | 0.0107 | hsa-miR-205 | 3.35 | 5.56E−11 |
| hsa-miR-203 | 14.99 | 0.0084 | hsa-miR-203 | 2.77 | 5.08E−11 |
| hsa-miR-944 | 3.03 | 0.0000 | hsa-miR-944 | 5.15 | 5.37E−18 |
| hsa-miR-149 | 3.02 | 0.0116 | hsa-miR-149 | 2.34 | 2.92E−11 |
| hsa-miR-663 | 2.53 | 0.0248 | hsa-miR-663 | 1.41 | 0.0004309 |
| hsa-miR-345 | 1.53 | 0.0073 | hsa-miR-345 | 1.43 | 0.0005957 |
| hsa-miR-3652 | 1.53 | 0.0057 | hsa-miR-3652 | 1.31 | 0.0038245 |
| hsa-miR-421 | 1.50 | 0.0389 | hsa-miR-421 | 1.39 | 0.0008246 |
| hsa-miR-513c | 1.36 | 0.0173 | hsa-miR-513c | 1.57 | 0.0000372 |
| hsa-miR-3687 | 1.33 | 0.0389 | hsa-miR-3687 | 1.60 | 0.0001114 |
| hsa-miR-378b | 1.14 | 0.0370 | hsa-miR-378b | 1.28 | 0.0008767 |
| Downregulated miRs | |||||
| hsa-miR-181b | 0.24 | 0.0389 | hsa-miR-181b | 0.68 | 5.2E−08 |
| hsa-miR-181a | 0.18 | 0.0161 | hsa-miR-181a | 0.71 | 2.33E−07 |
| Cluster 3—Neuroendocrine subtype | |||||
| Upregulated miRs | |||||
| hsa-miR-9 | 15.51 | 0.0014 | hsa-miR-9-2 | 3.55 | 4.31E−08 |
| 0.0014 | hsa-miR-9-1 | 3.53 | 4.47E−08 | ||
| hsa-miR-335 | 6.67 | 0.0109 | hsa-miR-335 | 1.62 | 0.0000279 |
| hsa-miR-19b | 5.70 | 0.0012 | hsa-miR-19b-1 | 1.34 | 0.0136969 |
| 0.0012 | hsa-miR-19b-2 | 1.33 | 0.004951 | ||
| hsa-miR-301b | 4.50 | 0.0000 | hsa-miR-301b | 1.75 | 0.0019509 |
| hsa-miR-17 | 3.78 | 0.0002 | hsa-miR-17 | 1.46 | 0.0000667 |
| hsa-miR-20a | 3.67 | 0.0004 | hsa-miR-20a | 1.48 | 0.0004789 |
| hsa-miR-18a | 3.50 | 0.0164 | hsa-miR-18a | 1.67 | 0.0000272 |
| hsa-miR-20b | 3.49 | 0.0005 | hsa-miR-20b | 1.89 | 0.0031859 |
| hsa-miR-18b | 2.89 | 0.0060 | hsa-miR-18b | 1.47 | 0.0030779 |
| hsa-miR-592 | 2.74 | 0.0024 | hsa-miR-592 | 1.48 | 0.0266718 |
| hsa-miR-92a | 2.47 | 0.0063 | hsa-miR-92a-2 | 1.63 | 0.0000072 |
| 0.0063 | hsa-miR-92a-1 | 1.73 | 0.0000134 | ||
| hsa-miR-105 | 2.38 | 0.0003 | hsa-miR-105-2 | 4.31 | 0.0000456 |
| 0.0003 | hsa-miR-105-1 | 5.36 | 0.0000057 | ||
| hsa-miR-194 | 2.13 | 0.0174 | hsa-miR-194-2 | 1.38 | 0.0044099 |
| 0.0174 | hsa-miR-194-1 | 1.36 | 0.00697 | ||
| hsa-miR-181c | 1.74 | 0.0311 | hsa-miR-181c | 1.44 | 0.0000283 |
| hsa-miR-1301 | 1.29 | 0.0138 | hsa-miR-1301 | 1.38 | 0.0088744 |
| Downregulated miRs | |||||
| hsa-miR-424 | 0.23 | 0.0198 | hsa-miR-424 | 0.80 | 0.040225 |
| hsa-miR-222 | 0.18 | 0.0023 | hsa-miR-222 | 0.64 | 7.04E−06 |
| hsa-miR-221 | 0.18 | 0.0016 | hsa-miR-221 | 0.68 | 0.0000452 |
| hsa-miR-23a | 0.14 | 0.0001 | hsa-miR-23a | 0.75 | 6.79E−06 |
| hsa-miR-27a | 0.13 | 0.0002 | hsa-miR-27a | 0.70 | 0.0000629 |
| hsa-miR-21 | 0.10 | 5.27E-07 | hsa-miR-21 | 0.73 | 1.12E−08 |
| hsa-miR-22 | 0.08 | 0.000038 | hsa-miR-22 | 0.71 | 7.96E−08 |
| hsa-miR-29b | 0.05 | 0.0000397 | hsa-miR-29b-2 | 0.68 | 0.0002611 |
| 0.0000397 | hsa-miR-29b-1 | 0.66 | 0.0001657 | ||
| hsa-miR-29a | 0.02 | 0.0000187 | hsa-miR-29a | 0.74 | 0.0003523 |