05 July 2021: Clinical Research
Identification and Characterization of Non-Coding RNAs in Thymoma
Guanglei Ji 1AE , Rongrong Ren 2BCDF , Xichao Fang 3BCDF*DOI: 10.12659/MSM.929727
Med Sci Monit 2021; 27:e929727
Table 4 lncRNAs dysregulated in thymoma discovered by RNA-seq and validated by TCGA.
| Transcript ID | Gene ID | Gene symbol | logFC | logCPM | p-Value | lncRNA type | Regulation type | FDR |
|---|---|---|---|---|---|---|---|---|
| ENST00000608442 | ENSG00000272620 | AFAP1-AS1 | 5.9488 | 3.5952 | 0.0000 | Antisense | Up | 0.0000 |
| ENST00000315707 | ENSG00000178977 | LINC00324/ C17ORF44 | 5.8974 | 3.6420 | 0.0000 | lincRNA | Up | 0.0000 |
| ENST00000601022 | ENSG00000241158 | ADAMTS9-AS1 | −5.7239 | 3.9160 | 0.0000 | antisense | Down | 0.0000 |
| ENST00000453601 | ENSG00000236404 | VLDLR-AS1 | 5.7215 | 3.6212 | 0.0000 | antisense | Up | 0.0000 |
| ENST00000523664 | ENSG00000246430 | LINC00968 | −5.3190 | 3.2842 | 0.0000 | lincRNA | Down | 0.0000 |
| ENST00000616315 | ENSG00000245532 | NEAT1 | −5.1874 | 3.0155 | 0.0000 | lincRNA | Down | 0.0000 |
| ENST00000425914 | ENSG00000224609 | HSD52 | −4.4465 | 2.2834 | 0.0000 | lincRNA | Down | 0.0000 |
| ENST00000423808 | ENSG00000232079 | LINC01697 | −4.1166 | 3.4826 | 0.0000 | lincRNA | Down | 0.0000 |
| ENST00000330148 | ENSG00000182366 | FAM87A | 4.0398 | 3.1122 | 0.0000 | lincRNA | Down | 0.0000 |
| ENST00000553575 | ENSG00000258498 | DIO3OS | 3.9456 | 5.7375 | 0.0000 | lincRNA | Up | 0.0001 |
| ENST00000609696 | ENSG00000225670 | CADM3-AS1 | −3.9167 | 4.9436 | 0.0000 | antisense | Down | 0.0001 |
| ENST00000484765 | ENSG00000242268 | LINC02082 | 3.9025 | 2.1784 | 0.0000 | lincRNA | Up | 0.0003 |
| ENST00000577000 | ENSG00000185168 | LINC00482 | −3.7068 | 2.9948 | 0.0000 | lincRNA | Down | 0.0001 |
| ENST00000500381 | ENSG00000246363 | LINC02458 | 3.4937 | 5.3952 | 0.0000 | lincRNA | Up | 0.0001 |
| ENST00000530198 | ENSG00000255176 | AP000941.1 | 3.4311 | 2.5965 | 0.0001 | antisense | Up | 0.0102 |
| ENST00000603439 | ENSG00000271579 | AC078880.3 | −3.3799 | 2.5707 | 0.0001 | lincRNA | Down | 0.0158 |
| ENST00000242109 | ENSG00000122548 | KIAA0087 | −3.3738 | 6.4171 | 0.0000 | lincRNA | Down | 0.0088 |
| ENST00000523301 | ENSG00000245812 | LINC02202 | 3.3481 | 5.4172 | 0.0000 | lincRNA | Up | 0.0001 |
| ENST00000575424 | ENSG00000262097 | LINC02185 | −3.2869 | 2.3678 | 0.0000 | lincRNA | Down | 0.0019 |
| ENST00000605631 | ENSG00000270412 | AL136084.2 | −3.2391 | 3.6568 | 0.0000 | antisense | Down | 0.0002 |
| ENST00000626206 | ENSG00000238018 | AC093110.1 | −3.1506 | 4.6319 | 0.0000 | antisense | Down | 0.0087 |
| ENST00000603514 | ENSG00000271334 | LINC02104 | 3.1179 | 2.7402 | 0.0000 | lincRNA | Up | 0.0000 |
| ENST00000418372 | ENSG00000233117 | LINC00702 | 3.0428 | 4.4037 | 0.0001 | lincRNA | Up | 0.0158 |
| ENST00000572479 | ENSG00000263257 | AC040173.1 | −3.0091 | 2.0691 | 0.0003 | lincRNA | Down | 0.0408 |
| ENST00000519795 | ENSG00000253978 | CTB-113P19.1 | 2.9814 | 2.1697 | 0.0001 | antisense | Up | 0.0158 |
| ENST00000609941 | ENSG00000272823 | AL445423.1 | 2.9430 | 2.9938 | 0.0000 | lincRNA | Up | 0.0049 |
| ENST00000505254 | ENSG00000249669 | CARMN | 2.9374 | 5.3167 | 0.0000 | lincRNA | Up | 0.0009 |
| ENST00000417193 | ENSG00000213373 | LINC00671 | −2.8571 | 3.3597 | 0.0000 | lincRNA | Down | 0.0033 |
| ENST00000574724 | ENSG00000228157 | AC007952.2 | 2.8459 | 3.0662 | 0.0004 | retained_intron | Up | 0.0463 |
| ENST00000556053 | ENSG00000259134 | LINC00924 | 2.8254 | 4.6589 | 0.0001 | lincRNA | Up | 0.0158 |
| ENST00000418029 | ENSG00000223901 | AP001469.1 | −2.8033 | 2.8406 | 0.0000 | antisense | Down | 0.0004 |
| ENST00000505807 | ENSG00000250208 | FZD10-AS1 | 2.7905 | 5.3926 | 0.0001 | lincRNA | Up | 0.0191 |
| ENST00000620326 | ENSG00000277631 | PGM5P3-AS1 | 2.7716 | 3.3111 | 0.0000 | lincRNA | Up | 0.0050 |
| ENST00000417354 | ENSG00000230630 | DNM3OS | 2.7346 | 5.5551 | 0.0001 | antisense | Up | 0.0098 |
| ENST00000619486 | ENSG00000274080 | AC005089.1 | 2.7190 | 3.0662 | 0.0000 | sense_intronic | Up | 0.0087 |
| ENST00000427825 | ENSG00000230623 | AC104461.1 | −2.6769 | 2.4333 | 0.0004 | lincRNA | Down | 0.0454 |
| ENST00000577295 | ENSG00000263586 | HID1-AS1 | 2.6724 | 3.0135 | 0.0000 | antisense | Up | 0.0029 |
| ENST00000430895 | ENSG00000234484 | AL032821.1 | −2.6391 | 2.1961 | 0.0002 | antisense | Down | 0.0265 |
| ENST00000446355 | ENSG00000237813 | AC002066.1 | 2.6230 | 2.1554 | 0.0003 | antisense | Up | 0.0398 |
| ENST00000563759 | ENSG00000260868 | LINC01960 | −2.6040 | 2.7845 | 0.0001 | lincRNA | Down | 0.0182 |
| ENST00000624364 | ENSG00000280339 | AP001528.2 | 2.5928 | 5.5979 | 0.0000 | TEC | Up | 0.0022 |
| ENST00000538077 | ENSG00000255874 | LINC00346 | 2.5205 | 5.8892 | 0.0004 | lincRNA | Up | 0.0478 |
| ENST00000434306 | ENSG00000234235 | BOK-AS1 | −2.5061 | 2.1082 | 0.0000 | antisense | Down | 0.0003 |
| ENST00000513055 | ENSG00000237187 | NR2F1-AS1 | 2.4916 | 6.0892 | 0.0002 | antisense | Up | 0.0265 |
| ENST00000573168 | ENSG00000262319 | AC007952.6 | 2.4867 | 2.9364 | 0.0002 | antisense | Up | 0.0272 |
| ENST00000600473 | ENSG00000269688 | AC008982.2 | −2.4289 | 3.8376 | 0.0001 | sense_intronic | Down | 0.0158 |
| ENST00000450804 | ENSG00000227467 | LINC01537 | 2.4021 | 4.2479 | 0.0000 | lincRNA | Up | 0.0050 |
| ENST00000435312 | ENSG00000230148 | HOXB-AS1 | 2.2070 | 6.9580 | 0.0001 | antisense | Up | 0.0120 |
| ENST00000567984 | ENSG00000260953 | AC009093.4 | 2.1585 | 2.9114 | 0.0001 | lincRNA | Up | 0.0158 |
| ENST00000437930 | ENSG00000180139 | ACTA2-AS1 | 2.0767 | 5.4572 | 0.0002 | antisense | Up | 0.0299 |
| ENST00000508887 | ENSG00000237125 | HAND2-AS1 | 2.0078 | 3.8768 | 0.0003 | antisense | Down | 0.0021 |