Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DNA microarrays of SKOM transduced MEFs with added Tgfb1 or co-expressing Snail

ABSTRACT: The Tgf-b signaling pathway plays an important role in both embryonic development and epithelial to mesenchymal transition (EMT), but the influence of this pathway and its relationship with EMT in fibroblast reprogramming is not defined. Using Affymetrix mouse genome array and mouse embryonic fibroblast cells (MEFs), we analyzed the expression profiles of Tgf-b1 and one of its important mediators in EMT, Snail, regulated genes at Day 10 during the process of reprogramming. A total of 535 genes were differentially expressed (2-fold change) in cells activated by Tgf-b1 and 970 genes were differentially expressed in cells over-expressing Snail. Among them, 170 genes were shared in both categories. The differentially expressed genes involve in many biological processes, including Tgf-b signaling pathway, cell communication, ECM-receptor interaction, cell adhesion, focal adhersion, and Hedgehog signaling pathway

ORGANISM(S): Mus musculus

PROVIDER: GSE21064 | GEO | 2010/06/01

SECONDARY ACCESSION(S): PRJNA129683

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

DNA microarrays of SKOM transduced MEFs with added Tgfb1 or co-expressing Snail

Project description:The Tgf-b signaling pathway plays an important role in both embryonic development and epithelial to mesenchymal transition (EMT), but the influence of this pathway and its relationship with EMT in fibroblast reprogramming is not defined. Using Affymetrix mouse genome array and mouse embryonic fibroblast cells (MEFs), we analyzed the expression profiles of Tgf-b1 and one of its important mediators in EMT, Snail, regulated genes at Day 10 during the process of reprogramming. A total of 535 genes were differentially expressed (2-fold change) in cells activated by Tgf-b1 and 970 genes were differentially expressed in cells over-expressing Snail. Among them, 170 genes were shared in both categories. The differentially expressed genes involve in many biological processes, including Tgf-b signaling pathway, cell communication, ECM-receptor interaction, cell adhesion, focal adhersion, and Hedgehog signaling pathway MEFs derived from a OG2 mouse is a typical kind of fibroblast cells used in most reprogramming studies. Cells were cultured in MEF medium in an incubator with 5% CO2 at 37oC before retrovirus infection and the medium was changed into ES medium after infection of the reprogramming cocktail (Sox2, Klf4, Oct4 and cMyc). At Day 10 after infection, cells were collected and total RNA were extracted from the cells and was hybridized on Affymetrix GeneChip Mouse Genome 430 2.0 Array.

2010-06-08 | E-GEOD-21064 | biostudies-arrayexpress

Long noncoding RNA ELIT-1 acts as a Smad3 cofactor to facilitate TGF-β/Smad signaling and promote epithelial-mesenchymal transition

Project description:TGF-β is involved in various biological processes, including development, differentiation, growth regulation, and epithelial-mesenchymal transition (EMT). In TGF-β/Smad signaling, receptor-activated Smad complexes activate or repress their target gene promoters. Smad cofactors are a group of Smad-binding proteins that promote recruitment of Smad complexes to these promoters. Long noncoding RNAs (lncRNAs), that behave as Smad cofactors have thus far not been identified. Here, we characterize a novel lncRNA EMT-associated lncRNA induced by TGF-β-1(ELIT-1). ELIT-1 was induced by TGF-β-stimulation via the TGF-β/Smad pathway in TGF-β-responsive cell lines. ELIT-1-depletion abrogated TGF-β-mediated EMT progression and expression of TGF-β target genes including Snail, a transcription factor critical for EMT. A positive correlation between high expression of ELIT-1 and poor prognosis in lung adenocarcinoma and gastric cancer patients suggests that ELIT-1 may be useful as a prognostic and therapeutic target. RIP assays revealed that ELIT-1 bound to Smad3, but not Smad2. In conjunction with Smad3, ELIT-1 enhanced Smad-responsive promoter activities by recruiting Smad3 to the promoters of its target genes including Snail, other TGF-β-target genes, and ELIT-1 itself. Collectively, these data show that ELIT-1 is a novel trans-acting lncRNA that forms a positive feedback loop to enhance TGF-β/Smad3 signaling and promote EMT progression.

2019-04-12 | GSE129008 | GEO

Long noncoding RNA ELIT-1 acts as a Smad3 cofactor to facilitate TGF-β/Smad signaling and promote epithelial-mesenchymal transition

2019-04-12 | GSE128965 | GEO

TGF-β and RREB1 coordinate EMT programs in NMuMG cells

Project description:Epithelial-to-mesenchymal transitions (EMT) play prominent roles during development, regeneration and tumor progression. EMTs are triggered by TGF-β, RAS and other signals that cooperatively induce the expression of master EMT transcription factors such as SNAIL. Here, we elucidate how the TGF-β and RAS pathways jointly trigger EMTs and tie them to broader developmental programs. We identify RAS response element binding protein 1 (RREB1) as a critical partner of TGF-β-activated SMAD transcription factors in driving SNAIL expression and EMT program in mammary gland epithelial cells.

2020-01-09 | GSE128958 | GEO

Transcription profiling of mouse mammary epithelial cells NMuMG treatd with TGF-b1 - time series experiment

Project description:Response of mouse mammary epithelial cells NMuMG to TGF-b1 - time course experiment. Identification of novel gene targets involved in TGF-b1-driven regulation of epithelial-mesenchymal transition (EMT).

2004-10-01 | E-MEXP-139 | biostudies-arrayexpress

Basonuclin-1 modulates epithelial plasticity and TGF-β1-induced loss of epithelial cell integrity [BNC1]

Project description:TGF-b1-stimulation induces an epithelial dedifferentiation-process, throughout which epithelial cell sheets disintegrate and gradually switch into fibroblastic-appearing cells (EMT-like transition). Several transcription factors, some of them being TGF-b1-responsive, are functionally involved in such a switch and affect epithelial differentiation and plasticity. We used microarray-based gene expression profiling of mammary epithelial cells that actively undergo TGF-b1-induced epithelial dedifferentiation. Further, we determined gene expression changes in Basonuclin-1 knock-down cells in conjunction with TGF-b1-stimulation in order to determine a possible effect of Bnc1 on TGF-b1-responsive genes.

2014-03-01 | GSE54715 | GEO

Gene expression profie of OSMF (Oral Submucous Fibrosis) tissues compared with the expression in normal oral tissues

Project description:ABSTRACT: Background: Oral Submucous Fibrosis (OSF) is a chronic inflammatory disease resulting in progressive fibrosis of the oral soft tissues. Habit of chewing betel quid has been proposed as an important etiological factor in the development of this disease. But the exact mechanism of pathogenesis is still not clear. Methods: We took microarray approach to identify differentially regulated genes in 10 OSF tissues against 8 pooled normal tissues using oligonucleotide arrays. Microarray results have been confirmed by qRT-PCR. Regulation of genes in epithelial and fibroblast cells was studied after treatment with arecoline, TGF-b and LAP followed by qRT-PCR. Results: Total number of genes found to be commonly regulated in OSF (p<=0.05 and Fold change>=1.5) tissues are 5288 and among them 2884 are up-regulated and 2404 are down-regulated. Extra cellular matrix genes that have been reported in OSF such as collagens, fibronectin and cytokines ET1, CTGF and TGF-b1 are among the up regulated genes. The list of up and down regulated genes also includes RARRES1, TGM2, THBS1, CHGB, MMP3, SPP1 and ALOX12, C4orf7 respectively. Analysis of microarray data revealed TGF-? pathway as a principal gene network involved in the development of OSF. Intriguingly, there was no regulation of CTGF and THBS1 in fibroblasts by arecoline. However, TGF-b1 treatment regulated all these genes in both epithelial and fibroblast cells. Conclusion: We demonstrate over expression of novel genes in OSF and suggest that OSF development involves TGF-b pathway in an epithelial-stromal cooperation. Targeting TGF-b signaling could be an alternate strategy to treat OSF. Two-condition experiment: 10 OSF tissues against 8 pooled normal tissues

2010-07-30 | E-GEOD-20170 | biostudies-arrayexpress

Basonuclin-1 modulates epithelial plasticity and TGF-?1-induced loss of epithelial cell integrity [BNC1]

2014-03-01 | E-GEOD-54715 | biostudies-arrayexpress

Transcriptome analysis to investigate the oncogenic TGF-β-Smad-Snail signaling pathway

Project description:Our study shows that TGF-β signaling promotes tumorigenesis in the liver through upregulation of its target gene, Snail. We explored gene expression changes in tumors following TGF-β inhibition, and tumors ectopically expressing Snail with the TGF-β inhibition. RNA samples were harvested from tumors expressing Smad7 (S7HP tumors), firefly luciferase (LHP tumors), and Smad7 plus Snail (S7HP+Snail), respectively. Differentially expressed genes were investigated in LHP and S7HP+Snail tumors, compared with S7HP tumors.

2017-07-24 | GSE90024 | GEO

Analysis of gene expression changes during long-term induction of EMT in EpRas tumor cells by TGF-b1.

Project description:EMT is a developmental process, which can be reactivated in cancer cells. Cancer cells maintaining EMT in the circulation may have pro-metastatic properties. We used microarrays to profile EMT-related gene expression changes after 14 d of TGF-b1 treatment. EpRas cells were cultured in standard conditions either in the presence of absence of recombinant TGF-b1 (2 ng/ml) for 14 d. After this period, RNA was isolated from triplicate wells of treated and non-treated cells, and hybridized on Affymetrix microarrays.

2014-09-01 | E-GEOD-59922 | biostudies-arrayexpress

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