Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Enhancer activation during EGF response

ABSTRACT: We investigated the acetylation of H3K27, in normal condition and after stimulation of EGF and before or after the depletion of INTS11. Additionally, we examined transcription by sequencing the chromatin-bound fraction of RNA and by fractionating total RNA into polyadenylated and non-polyadenylated compartement.

ORGANISM(S): Homo sapiens

PROVIDER: GSE68401 | GEO | 2015/08/25

SECONDARY ACCESSION(S): PRJNA282652

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Enhancer activation during EGF response

Project description:We investigated the acetylation of H3K27, in normal condition and after stimulation of EGF and before or after the depletion of INTS11. Additionally, we examined transcription by sequencing the chromatin-bound fraction of RNA and by fractionating total RNA into polyadenylated and non-polyadenylated compartement. Comparison of the genome wide profiles of H3K27ac and RNA in HeLa cells

2015-08-25 | E-GEOD-68401 | biostudies-arrayexpress

Integrator orchestrates RAS/ERK1/2 signaling transcriptional programs

Project description:We investigated the occupancy of RNA PolII and INTS11 during the stimulation of EGF and compared with drug treated condition using inhibitors against MAPK pathway and Integrator. Additionally, we examined transcription by sequencing the chromatin-bound fraction of RNA.

2017-10-08 | GSE85089 | GEO

Genome-wide analysis of the Integrator complex (BeadChip)

Project description:We investigated the genomic occupancy of INTS11, in normal condition and after stimulation of EGF. Total RNAPII was profiled in the presence or absence of INTS11, along with the Super Elongation Complex proteins AFF4 and ELL2. Additionally, we extensively examined the transcriptional response to EGF, before and after depletion of INTS11, using RNA-seq on ribosome-depleted total RNA and Global Run-on sequencing (GRO-seq). EGF stimulation of Hela cells, trasnfected with a control shRNA, INTS1 shRNA or INTS11 shRNA

2014-09-09 | E-GEOD-58254 | biostudies-arrayexpress

Genome-wide analysis of the Integrator complex (BeadChip)

2014-09-09 | GSE58254 | GEO

Genome-wide analysis of the Integrator complex (HTS)

2014-09-09 | GSE40632 | GEO

Differential functional effects of EGF along the human fetal intestine

Project description:Transcriptional profiling of small and large intestinal explants cultured in the absence or in the presence of EGF (50 ng/mL). Two-condition experiment, control intestinal explants vs EGF intestinal explants

2012-01-11 | E-GEOD-18367 | biostudies-arrayexpress

Enhancer Analysis in Peripheral Nerve Injury

Project description:ChIP-seq of H3K27acetylation in sham and injured nerve. Schwann cells play an important role in the response of peripheral nerve to injury. This study was designed to identify enhancers that are altered in sciatic nerve at 3 days post-injury to help identify pathways that mediate the gene expression reprogramming that occurs in Schwann cells after nerve injury. We employed ChIP-seq analysis of H3K27 acetylation as a mark of actively engaged enhancers, and compared enhancers in the distal stump of transected sciatic nerve compared to contralateral (sham) condition.

2014-12-15 | GSE63103 | GEO

Effect of INTS11, INTS9, CPSF73 knockdown on transcription

Project description:As a key component for transcription, Transcriptional results of INTS11 knockdown were analyzed by chromatin associated RNA sequencing (ChrRNA-seq). We used ChrRNA-seq data of HCT116-INTS11-AID cells under normal condition, induction condition and recovery condition, and HCT116-INTS9-AID cells, Chrna-seq data of HCT116-CPSF73-AID cells before and after protein knockdown were analyzed for gene expression profile.

2023-07-25 | GSE207268 | GEO

Cut&Run-seq of MUTZ3 cells to investigate changes in a translocated enhancer following CRISPR treatment

Project description:We examined the effects of targeting the GATA2 super-enhancer on EVI1 expression in MUTZ3. To that end, we conducted genome editing with CRISPR and assessed H3K27 acetylation with Cut&Run. The protocol described by the Henikoff group was used to generate these data.

2021-07-26 | E-MTAB-9946 | biostudies-arrayexpress

Transcriptional profiling of retinal progenitors, exposed to endothelial cells or EGF

Project description:Retinal histogenesis occurs over an extended period, which necessitates retinal progenitors to self-renew to sustain the temporal generation of diverse cell types. Embryonic day 18 retinal cells showed self-renewal properties such as clonal propagation without compromising multipotentiality when grown in the presence of endothelial cell conditioned medium and not EGF alone. Timed pregnant Sprague Dawley (Embryonic day 18) rats were obtained from Charles River Laboratories. Embryos were harvested and enucleated. Retinae were dissected out and dissociated by trypsin-EDTA followed by manual trituration. The retinal cells obtained from 10 embryos were cultured in the presence of EGF (condition1) or EGF and Endothelial cell conditioned medium (condition 2) to obtain neurospheres. To get biological replicate for both conditions, another batch of embryos were pooled and subjected to neurosphere formation. Total RNA was extracted from both conditions using Qiagen RNeasy mini kit following manufacturer's protocol. The RNA was subjected to microarray analysis using Affymetrix Rat 230 2.0 platform by UNMC microarray Core facility. RMA analysis was performed using Genepattern software. Log2 transformed values of each condition was used to obtain fold change of specific genes.

2013-12-14 | E-GEOD-53305 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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