Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ATAC-seq datasets for chromatin accessibility quantification in "Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems"

ABSTRACT: This dataset contains Assay for Transposase-Accessible Chromatin (ATAC) sequencing results from rat embryonic cortical, hippocampal, and striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 1hr.

ORGANISM(S): Rattus norvegicus

PROVIDER: GSE150589 | GEO | 2020/07/28

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA-seq datasets for enhancer RNA quantification in "Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems"

Project description:This dataset contains total RNA sequencing results from rat embryonic cortical, hippocampal, and striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 1hr prior to RNA extraction.

2020-07-28 | GSE150499 | GEO

RNA-seq datasets for "Temporally Specific Gene Expression and Chromatin Remodeling Programs Regulate a Conserved Pdyn Enhancer" [RNA-seq]

Project description:This dataset contains RNA-seq results from rat embryonic striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 4 h.

2023-08-07 | GSE233752 | GEO

RNA-seq datasets for "Temporally Specific Gene Expression and Chromatin Remodeling Programs Regulate a Conserved Pdyn Enhancer"

Project description:This dataset contains Assay for Transposase-Accessible Chromatin (ATAC) sequencing results from rat embryonic striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 4 h.

2023-08-07 | GSE233368 | GEO

A dopamine-induced coordinated gene expression program regulates neuronal function and cocaine response

Project description:The goal of this experiment was to determine how dopamine receptor activation in medium spiny neurons alters rapid transcriptional programs. To identify genes altered by dopamine, we used a rat primary striatal neuronal culture system in which striatal neurons were removed from the rat brain at embryonic day 18, cultured for 11 days in vitro using standard neuronal conditions, and treated neurons with either vehicle (neurobasal media) or dopamine (at a concentration of 1µM) for 1hr. This dataset contains PolyA+ RNA-seq results from this experiment, in which we identified 100 upregulated genes and 3 downregulated genes after dopamine stimulation using DESeq2 pipelines.

2020-06-24 | GSE137568 | GEO

Extra-coding RNAs regulate neuronal DNA methylation and long-term memory formation [RNA-seq]

Project description:This dataset contains whole-genome RNA sequencing results from cortical neuronal cultures and serves as the basis for characterization of extra-coding RNA species from neuronal systems. This experiment contains six biological samples, each of which underwent PolyA+ and PolyA- RNA-seq. Samples were either unstimulated (i.e., treated with media alone; samples V1 and V2), stimulated with 25mM potassium chloride for 1hr (K1, K2) or inactivated with tetrodotoxin for 1hr (T1, T2). Datasets were obtained using RNA-seq from PolyA+ fractions or PolyA- fractions of RNA. PolyA- fractions are denoted "ec". Thus, 12 samples are listed here due to the difference in RNA library preparation.

2016-05-31 | E-GEOD-64902 | biostudies-arrayexpress

Enhancer RNAs make multivalent interactions with NELF to stimulate Pol II pause release [Exo-seq]

Project description:5’ ExoSeq of total RNA (rRNA & signal recognition particle RNA depleted) from mouse cortical neurons before and after membrane depolarization by potassium chloride (KCl).

2022-03-08 | GSE163111 | GEO

Striatal cultured neurons single-nucleus RNA-seq dataset for "A dopamine-induced coordinated gene expression program regulates neuronal function and cocaine response"

Project description:This dataset contains single-nucleus RNA sequencing results from rat embryonic striatal neuronal cultures and serves as the basis for characterization of transcriptional response to dopamine (50µM), the Drd1 agonist SKF-38393 (1µM), and potassium chloride (25mM). The goal of this experiment was to define the transcriptional response to each of these stimulations across distinct cell types in cultured neurons. Single-cell sequencing was carried out on FACS-sorted nuclei isolated from these experiments using the 10X Genomics Chromium single cell sequencing platform.

2020-06-24 | GSE137759 | GEO

Expression analysis of big neurospheres generated in vitro

Project description:Expression analysis of neurospheres generated in vitro treated by potassium chloride (KCl) and norepinephrine Neurospheres generated in vitro were treated with norepinephrine or potassium chloride. Gene expression analysis was then carried out to identify genes that are up or down regulated due to chemical treatment.

2015-06-12 | E-GEOD-67304 | biostudies-arrayexpress

Expression analysis of big neurospheres generated in vitro

Project description:Expression analysis of neurospheres generated in vitro treated by potassium chloride (KCl) and norepinephrine

2015-06-12 | GSE67304 | GEO

Phosphoproteomics analysis in mouse primary hepatocytes with recombinant GP73 or glucagon

Project description:Isolated mouse primary hepatocytes were cultured at glucose- and phenol-free DMEM medium, supplemented with 10mM pyruvate sodium and 10mM sodium lactate, and the cells were incubated for 1hr with vehice, recombinant mGP73 (64nM), or glucagon (3μM) ,cells were washed twice with cold PBS and scraped with cold RIPA lysis buffer supplemented with proteases and phosphatases inhibitors. Phosphoproteomics assay was performed by Shanghai luming biological technology co., LTD (Shanghai, China).

2021-11-18 | PXD025381 |

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