MINCR is a MYC-induced lncRNA able to modulate MYC’s transcriptional network in Burkitt lymphoma cells
Despite the established role of the transcription factor MYC in cancer, little is known about the impact of a new class of transcriptional regulators, the long non-coding RNAs (lncRNAs), on the way MYC is able to influence cellular transcriptome. To this aim we have intersected RNA-sequencing data from two MYC-inducible cell lines and from a cohort of 91 mature B-cell lymphomas carrying, or not carrying, genetic variants resulting in MYC over-expression. By this approach, we identified 13 lncRNAs differentially expressed in IG-MYC-positive Burkitt lymphoma and regulated in the same direction by MYC in the model cell lines. Among them we focused on a lncRNA that we named MINCR, for MYC-Induced long Non-Coding RNA, showing a strong correlation with MYC expression in MYC-positive lymphomas and also in pancreatic ductal adenocarcinomas. To understand its cellular role we performed RNA interference (RNAi) experiments and found that MINCR knock-down is associated with a reduction in cellular viability, due to an impairment in cell cycle progression. Differential gene expression analysis following RNAi showed a strongly significant enrichment of cell cycle genes among the genes down-regulate following MINCR knock-down. Interestingly these genes are enriched in MYC binding sites in their promoters, suggesting that MINCR acts as a modulator of MYC transcriptional program. Accordingly, following MINCR knock-down, we observed a reduction in the binding of MYC to the promoters of selected cell cycle genes. Finally we provide evidences that down-regulation of AURKA, AURKB and CTD1 may explain the reduction in cellular proliferation observed upon MINCR knock-down. We therefore suggest that MINCR is a newly identified player in the MYC transcriptional network able to control the expression of cell cycle genes.
- 01/10/2015
- 49 samples
- DAC: EGAC00001000010
- Technologies: Illumina HiSeq 2000, Illumina HiSeq 2500
- HMB DUO:0000006 (version: 2021-02-23)health or medical or biomedical researchThis data use permission indicates that use is allowed for health/medical/biomedical purposes; does not include the study of population origins or ancestry.
- NPUNCU DUO:0000018 (version: 2021-02-23)not for profit, non commercial use onlyThis data use modifier indicates that use of the data is limited to not-for-profit organizations and not-for-profit use, non-commercial use.
- PS DUO:0000027 (version: 2021-02-23)project specific restrictionThis data use modifier indicates that use is limited to use within an approved project.
- GRU DUO:0000042 (version: 2021-02-23)general research useThis data use permission indicates that use is allowed for general research use for any research purpose.
ICGC Data Access
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS00001001199 | Other |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Located in | |
|---|---|---|---|---|
| EGAF00000780147 | fastq.gz | 8.7 GB | ||
| EGAF00000780148 | fastq.gz | 8.9 GB | ||
| EGAF00000780229 | fastq.gz | 8.6 GB | ||
| EGAF00000780230 | fastq.gz | 8.7 GB | ||
| EGAF00000780231 | fastq.gz | 7.1 GB | ||
| EGAF00000780232 | fastq.gz | 7.1 GB | ||
| EGAF00000780420 | fastq.gz | 7.3 GB | ||
| EGAF00000780421 | fastq.gz | 7.4 GB | ||
| EGAF00000780422 | fastq.gz | 9.5 GB | ||
| EGAF00000780423 | fastq.gz | 9.7 GB | ||
| EGAF00000780424 | fastq.gz | 8.0 GB | ||
| EGAF00000780425 | fastq.gz | 8.2 GB | ||
| EGAF00000780426 | fastq.gz | 11.3 GB | ||
| EGAF00000780427 | fastq.gz | 11.5 GB | ||
| EGAF00000780428 | fastq.gz | 7.7 GB | ||
| EGAF00000780429 | fastq.gz | 7.8 GB | ||
| EGAF00000780430 | fastq.gz | 7.8 GB | ||
| EGAF00000780431 | fastq.gz | 8.0 GB | ||
| EGAF00000780432 | fastq.gz | 8.5 GB | ||
| EGAF00000780433 | fastq.gz | 8.7 GB | ||
| EGAF00000780434 | fastq.gz | 7.5 GB | ||
| EGAF00000780435 | fastq.gz | 7.7 GB | ||
| EGAF00000780436 | fastq.gz | 7.3 GB | ||
| EGAF00000780437 | fastq.gz | 7.5 GB | ||
| EGAF00000780438 | fastq.gz | 6.8 GB | ||
| EGAF00000780439 | fastq.gz | 6.9 GB | ||
| EGAF00000780440 | fastq.gz | 6.7 GB | ||
| EGAF00000780441 | fastq.gz | 6.8 GB | ||
| EGAF00000780442 | fastq.gz | 8.3 GB | ||
| EGAF00000780443 | fastq.gz | 8.5 GB | ||
| EGAF00000780444 | fastq.gz | 5.2 GB | ||
| EGAF00000780445 | fastq.gz | 5.3 GB | ||
| EGAF00000780446 | fastq.gz | 6.9 GB | ||
| EGAF00000780447 | fastq.gz | 6.9 GB | ||
| EGAF00000780448 | fastq.gz | 6.0 GB | ||
| EGAF00000780449 | fastq.gz | 6.1 GB | ||
| EGAF00000780450 | fastq.gz | 7.2 GB | ||
| EGAF00000780451 | fastq.gz | 7.1 GB | ||
| EGAF00000780452 | fastq.gz | 4.8 GB | ||
| EGAF00000780453 | fastq.gz | 4.9 GB | ||
| EGAF00000780454 | fastq.gz | 9.9 GB | ||
| EGAF00000780455 | fastq.gz | 9.8 GB | ||
| EGAF00000780456 | fastq.gz | 5.5 GB | ||
| EGAF00000780457 | fastq.gz | 5.5 GB | ||
| EGAF00000780458 | fastq.gz | 5.6 GB | ||
| EGAF00000780459 | fastq.gz | 5.6 GB | ||
| EGAF00000780460 | fastq.gz | 1.8 GB | ||
| EGAF00000780461 | fastq.gz | 1.8 GB | ||
| EGAF00000780462 | fastq.gz | 3.1 GB | ||
| EGAF00000780463 | fastq.gz | 3.2 GB | ||
| EGAF00000780464 | fastq.gz | 3.9 GB | ||
| EGAF00000780465 | fastq.gz | 4.0 GB | ||
| EGAF00000780466 | fastq.gz | 4.6 GB | ||
| EGAF00000780467 | fastq.gz | 4.7 GB | ||
| EGAF00000780468 | fastq.gz | 3.1 GB | ||
| EGAF00000780469 | fastq.gz | 3.2 GB | ||
| EGAF00000780470 | fastq.gz | 2.8 GB | ||
| EGAF00000780471 | fastq.gz | 2.8 GB | ||
| EGAF00000780472 | fastq.gz | 3.7 GB | ||
| EGAF00000780473 | fastq.gz | 3.7 GB | ||
| EGAF00000780474 | fastq.gz | 3.9 GB | ||
| EGAF00000780475 | fastq.gz | 4.0 GB | ||
| EGAF00000780476 | fastq.gz | 3.8 GB | ||
| EGAF00000780477 | fastq.gz | 3.9 GB | ||
| EGAF00000780478 | fastq.gz | 4.6 GB | ||
| EGAF00000780479 | fastq.gz | 4.6 GB | ||
| EGAF00000780480 | fastq.gz | 3.6 GB | ||
| EGAF00000780481 | fastq.gz | 3.7 GB | ||
| EGAF00000780482 | fastq.gz | 3.2 GB | ||
| EGAF00000780483 | fastq.gz | 3.2 GB | ||
| EGAF00000780484 | fastq.gz | 8.5 GB | ||
| EGAF00000780485 | fastq.gz | 8.5 GB | ||
| EGAF00000780486 | fastq.gz | 7.4 GB | ||
| EGAF00000780487 | fastq.gz | 7.3 GB | ||
| EGAF00000780488 | fastq.gz | 8.2 GB | ||
| EGAF00000780489 | fastq.gz | 8.2 GB | ||
| EGAF00000780490 | fastq.gz | 8.6 GB | ||
| EGAF00000780491 | fastq.gz | 8.6 GB | ||
| EGAF00000780492 | fastq.gz | 7.3 GB | ||
| EGAF00000780493 | fastq.gz | 7.3 GB | ||
| EGAF00000780494 | fastq.gz | 7.7 GB | ||
| EGAF00000780495 | fastq.gz | 7.7 GB | ||
| EGAF00000780496 | fastq.gz | 2.7 GB | ||
| EGAF00000780497 | fastq.gz | 2.8 GB | ||
| EGAF00000780498 | fastq.gz | 3.5 GB | ||
| EGAF00000780499 | fastq.gz | 3.5 GB | ||
| EGAF00000780500 | fastq.gz | 2.9 GB | ||
| EGAF00000780501 | fastq.gz | 3.0 GB | ||
| EGAF00000780502 | fastq.gz | 4.0 GB | ||
| EGAF00000780503 | fastq.gz | 4.1 GB | ||
| EGAF00000780504 | fastq.gz | 3.7 GB | ||
| EGAF00000780505 | fastq.gz | 3.7 GB | ||
| EGAF00000780506 | fastq.gz | 6.7 GB | ||
| EGAF00000780507 | fastq.gz | 6.7 GB | ||
| EGAF00000780508 | fastq.gz | 7.4 GB | ||
| EGAF00000780509 | fastq.gz | 7.5 GB | ||
| EGAF00000780510 | fastq.gz | 7.0 GB | ||
| EGAF00000780511 | fastq.gz | 7.0 GB | ||
| 98 Files (602.6 GB) | ||||