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Series GSE69387 Query DataSets for GSE69387
Status Public on Apr 10, 2017
Title Dynamics of chromatin accessibility during TGF-beta-induced EMT of Ras-transformed mammary gland epithelial cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary This SuperSeries is composed of the SubSeries listed below.
Epithelial-mesenchymal transition (EMT) is induced by transforming growth factor (TGF)-beta stimulation and facilitates tumor progression. We here performed global mapping of accessible chromatin in the mouse mammary gland epithelial EpH4 cell line and its Ras-transformed derivative (EpRas) using formaldehyde-assisted isolation of regulatory element (FAIRE)-sequencing (seq). We also searched for differentially expressed transcription factors by RNA-seq and found that Etv4, an ETS family oncogenic transcription factor, was strongly expressed in EpRas cells. Moreover, chromatin immunoprecipitation (ChIP)-seq showed that Etv4 bound to more than one-third of the accessible chromatin regions in EpRas cells treated with TGF-beta. We found by gene ontology analysis that genes encoding extracellular proteins are the most strongly down-regulated genes by Etv4 and Etv5 siRNAs. These findings suggest a mechanism of transcriptional regulation during TGF-beta-induced EMT that involves alterations of accessible chromatin.
Overall design Refer to individual Series
Citation(s) 28446749
Submission date May 29, 2015
Last update date May 15, 2019
Contact name Daizo Koinuma
Organization name University of Tokyo
Department Pathology
Street address Hongo 7-3-1, Bunkyo-ku
City Tokyo
ZIP/Postal code 113-0033
Country Japan
Platforms (1)
GPL18635 Ion Torrent Proton (Mus musculus)
Samples (28)
GSM2385533 Etv4 ChIP-seq, EpRas cells
GSM2385534 Etv5 ChIP-seq, EpRas cells
GSM2385535 RNA-seq, EpH4, untreated, 48 h, replicate 1
This SuperSeries is composed of the following SubSeries:
GSE69363 RNA-sequencing of EpH4 and EpRas cells treated with Etv4 and Etv5 siRNAs and/or TGF-beta.
GSE69364 Dynamics of chromatin accessibility during TGF-beta-induced EMT of Ras-transformed mammary gland epithelial cells [FAIRE-Seq]
GSE89618 Etv4 and Etv5 binding sites in EpRas mouse mammary gland epithelial cell line [ChIP-seq]
BioProject PRJNA285342

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Supplementary file Size Download File type/resource
GSE69387_RAW.tar 1.8 Gb (http)(custom) TAR (of BED, BEDGRAPH, WIG)
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