Table 1.
The top 10 significant down- and up-regulated genes associated with lymph node metastasis or TNM stages
| Genes | logFC | logCPM | p value | FDR | |
|---|---|---|---|---|---|
| Lymph node metastasis | |||||
| Down-regulated | 7SK | − 6.38529 | 5.376253 | 1.92E−54 | 1.62E−50 |
| SNORA73B | − 4.89863 | 3.941633 | 2.30E−47 | 1.29E−43 | |
| SNORD17 | − 4.59669 | 2.395325 | 2.50E−44 | 1.20E−40 | |
| SCARNA6 | − 4.33589 | − 0.05263 | 1.57E−42 | 5.85E−39 | |
| SCARNA5 | − 6.21022 | 2.186735 | 1.80E−42 | 6.05E−39 | |
| SCARNA10 | − 5.72043 | 1.274605 | 4.91E−41 | 1.45E−37 | |
| MSTN | − 4.5735 | 1.589033 | 3.65E−39 | 9.44E−36 | |
| SCARNA7 | − 3.88216 | − 0.07935 | 7.12E−37 | 1.68E−33 | |
| SCARNA13 | − 3.0861 | 0.701175 | 3.84E−36 | 7.73E−33 | |
| RNU4-1 | − 6.06981 | 1.417159 | 3.91E−36 | 7.73E−33 | |
| Up-regulated | NNAT | 3.773884 | 2.325209 | 2.37E−89 | 7.97E−85 |
| LRRC38 | 5.827189 | 1.230182 | 1.32E−68 | 2.23E−64 | |
| VSX2 | 4.728637 | − 1.57565 | 1.85E−55 | 2.07E−51 | |
| AC087257.2 | 3.860068 | − 2.07862 | 1.84E−52 | 1.24E−48 | |
| LINC01433 | 3.163173 | − 2.46671 | 3.82E−43 | 1.61E−39 | |
| FAM205C | 3.293196 | − 2.91757 | 7.49E−37 | 1.68E−33 | |
| AL161668.1 | 4.428092 | − 3.68113 | 1.56E−35 | 2.77E−32 | |
| RTP1 | 3.811513 | − 2.18471 | 1.65E−34 | 2.64E−31 | |
| GSG1L2 | 4.357816 | − 3.36664 | 1.11E−31 | 1.44E−28 | |
| CALB1 | 3.446571 | 3.71567 | 4.30E−31 | 5.16E−28 | |
| TNM stages | |||||
| Down-regulated | 7SK | − 6.062979794 | 5.353737093 | 6.74E−31 | 6.13E−28 |
| SNORA73B | − 4.647298488 | 3.923197774 | 1.76E−27 | 1.26E−24 | |
| SNORD17 | − 4.325760083 | 2.373029662 | 1.51E−25 | 9.39E−23 | |
| SCARNA5 | − 5.981744956 | 2.167025263 | 5.95E−25 | 3.63E−22 | |
| SCARNA6 | − 4.052245334 | − 0.070346602 | 2.75E−24 | 1.62E−21 | |
| SCARNA10 | − 5.377554867 | 1.251887603 | 1.35E−23 | 7.42E−21 | |
| MSTN | − 4.340706495 | 1.520356478 | 1.70E−23 | 8.96E−21 | |
| SCARNA7 | − 3.7237236 | − 0.10084326 | 2.81E−22 | 1.26E−19 | |
| RNU4-1 | − 5.712216563 | 1.396659528 | 6.97E−21 | 2.79E−18 | |
| RNU4-2 | − 5.357340472 | 2.502793386 | 1.26E−20 | 4.94E−18 | |
| Up-regulated | PPIAP46 | 4.012250624 | − 0.902056299 | 1.92E−100 | 6.46E−96 |
| HNRNPA1P52 | 3.896195799 | − 1.852379148 | 4.95E−96 | 8.32E−92 | |
| LRRC38 | 6.291094962 | 1.168289657 | 3.92E−92 | 4.39E−88 | |
| AC087257.2 | 4.527651209 | − 2.097876396 | 1.53E−81 | 1.28E−77 | |
| VSX2 | 5.232030072 | − 1.594431836 | 1.90E−76 | 1.28E−72 | |
| PSG11 | 7.901940389 | − 1.563148972 | 2.93E−58 | 1.64E−54 | |
| FAM205C | 3.883821429 | − 2.930755861 | 6.97E−55 | 3.35E−51 | |
| FXNP2 | 3.718917178 | − 3.212051642 | 1.45E−53 | 6.09E−50 | |
| MARCH4 | 2.823672408 | 0.803655353 | 1.61E−45 | 6.02E−42 | |
| RTP1 | 4.254620305 | − 2.219012962 | 5.41E−45 | 1.82E−41 |