GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE114657 Query DataSets for GSE114657
Status Public on Oct 03, 2019
Title MyoD induced enhancer RNA interacts with hnRNPL protein via CAAA motif to activate target gene transcription during myogenic differentiation [GRO-Seq]
Organism Mus musculus
Experiment type Other
Summary Evidence of widespread transcription at active enhancers became apparent. However, our understanding about the functions of enhancer RNAs (eRNAs) and their mechanistic roles remains incomplete. Here, we study eRNA regulation and function using skeletal myoblast differentiation as a paradigm. We provide a panoramic view of enhancer transcription and uncover reprogramming in enhancer transcription occurring during myogenic differentiation. We demonstrate the critical role of MyoD in activating eRNAs production. Results from in depth dissection of two eRNAs transcribed from super enhancers (seRNA-1 and -2) suggest that seRNAs can promote myogenic differentiation in vitro and in vivo; the induction of the seRNAs is in coordination with the activation of the neighboring genes and seRNA loss largely impairs their expression. Mechanistically, we elucidate these seRNAs specifically bind to heterogeneous nuclear ribonucleoprotein L (hnRNPL) and modulate hnRNPL binding to the target promoter. A CAAA tract on the seRNA was identified to be essential in mediating the interaction between seRNA-1 and hnRNPL. Disruption of seRNA-hnRNPL interaction attenuates Pol II and H3K36me3 deposition at the target genes, in coincidence with the reduction of their expression. Furthermore, analyses of hnRNPL binding transcriptome-wide reveals its association with eRNAs is a general phenomenon in multiple cells. Collectively, we propose that eRNA-hnRNPL interaction contributes to target mRNA activation.
Overall design 2 RNA-seq, 1 hnRNPL CLIP-seq, 8 GRO-seq experiments performed.
Contributor(s) Wang H, Sun H, Zhao Y, Zhou J, He L, Sun K, Chen X, Li Y
Citation(s) 31857580
Submission date May 18, 2018
Last update date Dec 31, 2019
Contact name Jiajian Zhou
Organization name Southern Medical University
Department Dermatology Hospital
Street address No. 2 Lujing Road, Yuexiu District,
City Guangzhou
State/province Guangdong
ZIP/Postal code NA
Country China
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (8)
GSM3146548 MB_WT_GRO_rep1
GSM3146549 MT_WT_GRO_rep1
GSM3146550 MB_MYOD_KO_GRO_rep1
This SubSeries is part of SuperSeries:
GSE114659 MyoD induced enhancer RNA interacts with hnRNPL protein via CAAA motif to activate target gene transcription during myogenic differentiation
BioProject PRJNA472072
SRA SRP148464

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE114657_RAW.tar 689.9 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap