Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected myotubes

ABSTRACT: We used high throughput sequencing to analyze the transcriptional profiling of myotubes. By comparing the transcriptional profiling of myotubes with or without H19 knockdown,1131 genes or transcripts were found at least 1.5-fold up-regulated in siH19 relative to siCon cells, meanwhile 508 genes or transcripts were found at least 1.5-fold down-regulated in siH19 over siCon cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE72941 | GEO | 2015/11/09

SECONDARY ACCESSION(S): PRJNA295374

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected myotubes

Project description:We used high throughput sequencing to analyze the transcriptional profiling of myotubes. By comparing the transcriptional profiling of myotubes with or without H19 knockdown,1131 genes or transcripts were found at least 1.5-fold up-regulated in siH19 relative to siCon cells, meanwhile 508 genes or transcripts were found at least 1.5-fold down-regulated in siH19 over siCon cells. 40h following initiation of differentiation, myotubes were transfected with either control siRNA or siH19. 48h later after transfection, total RNA was extracted for library preparation and RNA-seq analysis to compare trancript profiles between siCon and siH19 cells.

2015-11-09 | E-GEOD-72941 | biostudies-arrayexpress

RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected uterine smooth muscle cells (USMC)

Project description:We used high throughput sequencing to analyze the gene expression profiling of human uterine smooth muscle cells (USMC). By comparing the gene expression profiling of USMC with or without H19 knockdown, 215 genes were found at least 1.5-fold up-regulated in siH19 relative to siCon cells, meanwhile 228 genes were found at least 1.5-fold down-regulated in siH19 over siCon cells.

2019-10-01 | GSE110557 | GEO

RNA-seq analysis reveals profound changes in transcript profiles between siCon and siH19 transfected aortic smooth muscle cells (AoSMC)

Project description:We used high throughput sequencing to analyze the gene expression profiling of human aortic smooth muscle cells (AoSMC). By comparing the gene expression profiling of AoSMC with or without H19 knockdown, 2940 genes were found at least 1.5-fold up-regulated in siH19 relative to siCon cells, meanwhile 2790 genes were found at least 1.5-fold down-regulated in siH19 over siCon cells.

2021-02-13 | GSE110556 | GEO

Genome-wide DNA methylation change due to lncRNA H19 knockdown in myotubes

2015-11-09 | GSE73013 | GEO

Genome-wide DNA methylation change due to lncRNA H19 knockdown in myotubes

Project description:We used Methyl-MiniSeq platform from Zymo Research company to identify genome-wide methylation changes affected by lncRNA H19 knockdown in myotubes. Following H19 knockdown, we observed extensive genome-wide mthylation pattern changes relative to siCon cells, with some genes showing incresed methylation, others showing decreased methylation, and a third group with no significant change. Myotubes differentiated from mouse C3H myoblasts were transfected with either control siRNA or siH19, 48h later, cellular genomic DNA was extracted and subjected to genome-scale DNA methylation mapping using the platform of an improved version of Reduced Representation Bisulfite Sequencing (RRBS).

2015-11-09 | E-GEOD-73013 | biostudies-arrayexpress

RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected EVT cells

Project description:We used high throughput sequencing to analyze the transcriptional profiling of EVT. By comparing the transcriptional profiling of EVT with or without H19 knockdown, numerous genes showed significantly altered expression as a result of H19 repression.

2017-02-14 | GSE80237 | GEO

RNAseq of MDA-MB-231 siCon and siCD81 cells

Project description:We conducted an RNA sequencing analysis comparing MDA-MB-231 siCon and siCD81 cells.

2022-05-01 | GSE174087 | GEO

Protein Identification and Post-translational Analysis of DMD and its associated Proteins in H19-proficient and -deficient Cells

Project description:Dystrophin proteomic regulation in Muscular Dystrophies (MD) remains unclear. We report that a long noncoding RNA (lncRNA) H19 associates with dystrophin. To investigate the biological roles of this interaction in vivo, we performed mass spectrometry analysis of dystrophin and its associated proteins in H19-proficient and -deficient C2C12 myotubes. Mass spectrometry data indicated that in H19-proficient myotubes, dystrophin associates with components of dystrophin-associated protein complex (DPC); however, in H19-deficient myotubes, dystrophin associated with UBA1, UB2G1, TRIM63 ubiquitin E3 ligase and ubiquitin. In H19-deficient myotubes, dystrophin was post-translationally modified with K48-linked poly-ubiquitination at Lys3577 (referred to as Ub-DMD). This mass spectrometry study demonstrated that lncRNA H19, associates with dystrophin and inhibits E3 ligase-dependent Ub-DMD formation and its subsequent proteasomal degradation. Based on this study, H19 RNA oligonucleotides conjugated with a muscle homing ligand Agrin (referred to as AGR-H19) and Nifenazone, a TRIM63-specific small molecule inhibitor, reverses the dystrophin degradation in iPSC-derived skeletal muscle cells from Becker Muscular Dystrophy patients. Furthermore,treatment of mdx mice with exon-skipping reagent, in combination with either AGR-H19 or Nifenazone, dramatically stablized dystrophin, preserved skeletal/cardiac muscle histology, and improved strength/heart function. In summary, this mass spectrometry study paves the way to meaningful targeted therapeutics for BMD and certain DMD patients.

2020-08-19 | PXD020566 | Pride

Genome-wide DNA methylation change due to H19 knockdown and TET3 knockdown in UtLM

Project description:We used Methyl-MiniSeq platform from Zymo Research company to identify genome-wide methylation changes affected by H19 knockdown and TET3 knockdown in human UtLM. Following H19 and TET3 knockdown, we observed extensive genome-wide methylation pattern changes relative to siCon cells, with some genes showing increased methylation, others showing decreased methylation, and a third group with no significant change.

2021-07-16 | GSE117190 | GEO

Identification of genes regulated by H19 in cornea epithelium

Project description:To understand the gene-regulatory role of H19 in corneal epithelial cells and to explore whether CLIM activation of H19 might account for non-cell proliferation effects of CLIM, we used siRNA to knock down H19 in primary human corneal epithelial cells. Microarray gene expression analysis revealed that 1,249 genes are down regulated 1.5 fold or more by siH19 compared to scramble control, and that 944 genes are up regulated

2016-04-28 | GSE80387 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data