Table 1. Gene sets with or without coordinate regulation of ncRNAs and mRNAs.
|
Genes with coordinated transcription* |
Genes without coordinated transcription† |
||
|---|---|---|---|
| Gene symbol | Gene length (bp) | Gene symbol | Gene length (bp) |
| SDK1 | 967,552 | ERBB2 | 40,523 |
| LRBA | 750,839 | BRD8 | 38,900 |
| RERE | 465,236 | SLC12A5 | 38,461 |
| ESR1 | 412,778 | CLN3 | 25,430 |
| USP34 | 283,260 | SIDT2 | 18,223 |
| SYNPO2 | 210,560 | DBNDD1 | 14,659 |
| KDMA2A | 138,811 | CASP14 | 8,813 |
| KYNU | 111,912 | ESRP2 | 7,687 |
| AVL9 | 88,604 | TUBG2 | 7,759 |
| CCDC50 | 68,586 | CYP1A1 | 5,995 |
| SYTL2 | 63,780 | VPS28 | 4,963 |
| AHNAK | 41,104 | APH1A | 3,811 |
| ATIC | 37,818 | MFSD10 | 3,677 |
| Average length | 280,142 | Average length | 16,839 |
*Genes that showed simultaneous up-regulation of mRNAs and ncRNAs under MCF7 to LTED conditions and subsequent down-regulation under LTED to LTED-RES conditions (denoted with single asterisk in Fig. 7d).
†Genes that showed up- and down-regulation of mRNAs in LTED and LTED-RES cells, respectively, while ncRNAs showed no co-regulation (denoted with double asterisks in Fig. 7d).