Dataset Information


Gene expression analysis to identify Myc-regulated long noncoding RNAs in B cells with variable Myc levels

ABSTRACT: Myc is a well known transcription factor with important roles in cell cycle, apoptosis and cellular transformation. Long non-coding (lnc)RNAs have recently emerged as a important class of regulatory RNAs. Here, we show that lncRNAs are an extensive component of the Myc-regulated transcriptional program. Using the P493-6 inducible Myc model we demonstrate that both Myc-induced mRNAs and lncRNAs were significant enriched for Myc binding sites. In contrast to Myc-repressed mRNAs, Myc-repressed lncRNAs were significantly enriched for Myc binding sites. Subcellular localization analysis revealed that Myc-repressed lncRNAs and mRNAs are enriched in the nucleus while Myc-induced lncRNAs and mRNAs are enriched both in the cytoplasm and nucleus. Parallel analysis of differentially expressed lncRNAs and mRNAs identified 105 lncRNA-mRNA pairs that were in close vicinity, indicative for regulation in cis. To support the potential relevance of the Myc-regulated lncRNAs in cellular transformation, we analyzed their expression in primary Myc-high and Myc-low B-cell lymphomas. In total, 54% of the lncRNAs differentially expressed between the lymphoma subsets were identified as Myc-regulated in P493-6 cells. This study is the first to show that lncRNAs are an important factor within the Myc-regulated transcriptional program and indicates a marked difference between Myc-repressed lncRNAs and mRNAs. P493-6: 72h Tet treated (low c-myc levels), t=4h (intermediate c-myc levels), t=24h (high c-myc levels), untreated (steady state c-myc levels) Expression of all known mRNAs and >10 000 lncRNAs was assessed in P493-6 B cells with different c-myc levels

ORGANISM(S): Homo sapiens  

SUBMITTER: Gertrud Kortman  Melanie Winkle   Debora de Jong   Jantine Sietzema   Arjan Diepstra   Martijn Terpstra   Klaas Kok   Masoumeh Tayari   Lydia Visser   Joost Kluiver   Anke van den Berg    

PROVIDER: E-GEOD-59477 | ArrayExpress | 2015-02-08



altmetric image


Sorry, this publication's infomation has not been loaded in the Indexer, please go directly to PUBMED or Altmetric.

Similar Datasets

2015-02-08 | E-GEOD-59478 | ArrayExpress
2015-02-08 | E-GEOD-59479 | ArrayExpress
2013-03-11 | E-GEOD-42262 | ArrayExpress
2015-08-19 | E-GEOD-59145 | ArrayExpress
2015-08-19 | E-GEOD-59146 | ArrayExpress
2010-02-25 | GSE19703 | GEO
2015-04-30 | E-GEOD-60223 | ArrayExpress
2014-05-02 | E-GEOD-19703 | ArrayExpress
2011-09-29 | E-GEOD-32219 | ArrayExpress
2014-07-15 | E-GEOD-51011 | ArrayExpress