Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

56 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Corticosteroid treatment of glial cell types

ABSTRACT: Primary mixed glial cultures were prepared from dissociated cerebral cortices of Sprague-Dawley rats at postnatal day 1 to 3 and glial populations were isolated by sequential rotary shaking procedures using well-established protocols. Cultured cells were exposed to 1 micromol dexamethasone for 24hours prior to RNA isolation. Control samples were exposed to equal volume of carrier. For each cell type, RNA samples from four cultures were dispatched to Source Bioscience UK Ltd. (Nottingham) for processing and hybridisation. RNA integrity was determined using the Bioanalyzer (Agilent) and the three RNA samples with the highest quality per condition were selected for microarray analysis. 750ng of processed cRNA was hybridised to Illumina RatRef-12 bead chips.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Richard Emes

PROVIDER: E-MTAB-1695 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNA-seq of human iCell microglia treated with IFN-β for 6 and 24 h

Project description:iCell human microglia were treated in triplicate (replicates a, b and c) with vehicle or 5 ng/mL human IFN-β for 6 or 24 h followed by RNA-sequencing (RNA-seq). The sample preparation, RNA-seq and transcriptomics data analysis were performed by AstraZeneca. The raw FASTQ data files cannot be made publicly available in accordance with the UK General Data Protection Regulation and the Data Protection Act 2018.

2023-11-17 | E-MTAB-13404 | biostudies-arrayexpress

Translational profiling shows aberrant translational regulation in primary mesothelioma cells compared to untransformed mesothelium control cells

Project description:Malignant mesothelioma (MpM) is an aggressive, fatal tumour, associated with asbestos exposure, for which there is no curative therapy and the mechanism of carcinogenesis is poorly understood. We use translational profiling to show that dysregulated post-transcriptional control makes a major contribution to aberrant cell growth in primary MpM cells, with elevated signalling through the mTOR axis activating mRNA translation initiation.

2020-11-10 | E-MTAB-8167 | biostudies-arrayexpress

Transcription profiling of effect of icv administration of LPS (4 + 16 hr) on mouse hippocampal and microgial samples

Project description:Effect of icv (intracerebroventricular) adminstration of LPS (vehicle controled) evaluated both, 4 and 16 hours after the injection.

2006-01-01 | E-MEXP-420 | biostudies-arrayexpress

Genome-wide analysis of the transcriptomes of mouse embryonic stem cells (mESC) maintained in different indicated conditions.

Project description:Analysis of genes involved in the mESC maintainance between different conditions of growth. The hypothesis tested in the present study was that Myc can sustain mESC self renewal and pluripotency. Results provide important information on the mechanism by which Myc supports mESC self renewal, in comparison with the routinely used LIF+serum culture condition, such as a Myc-dependent specific transcriptional program, which involves induction of an alternative Core Regulatory Network, modulation of signallign pathways (Wnt/bcat) and repression of developmental genes. Total RNA obtained from mESC growth 3 days in the indicated condition compared to the routinely used LIF+serum culture condition. Total RNA obtained from EpiSC growth 3 days in standard condition were also used as control for primed stem cell state.

2016-03-31 | E-GEOD-58656 | biostudies-arrayexpress

RNA-Seq of Drosophila cell line Dmel2

Project description:Deep Sequencing of mRNA from the Drosophila melanogaster cell line D.Mel-2 Analysis of poly(A)+ RNA of D.Mel-2 cell line

2010-04-09 | E-GEOD-21283 | biostudies-arrayexpress

RNA-seq of rat microglia, mouse neurons and human astrocytes in co-culture, both in control conditions and challenged with LPS.

Project description:We investigated non-cell-autonomously regulated gene expression in microglia, neurons and astrocytes by co-culturing these cell types (derived from different mammalian species) together, and then separating the RNA-seq reads from each cell type/species in silico.

2018-08-08 | E-MTAB-5987 | biostudies-arrayexpress

Transcription profiling of mouse primary microglial cultures with and without neurovirulent (FrCasE) and non-neurovirulent (Fr57E) virus infection

Project description:We undertook a survey of gene expression changes in primary microglial cultures with and without neurovirulent (FrCasE) and non-neurovirulent (Fr57E) virus infection to identify physiological changes that could be relevant to the induction of spongiform neurodegeneration. These gene expression analyses were performed using Affymetrix 430A mouse GeneChips (5 chips for each of the three experimental conditions, representing over 14,000 murine genes and ESTs. RNA from 5 separate microglial culture preparations were analyzed for Control (mock infected), Fr57E-, and FrCasE-infected microglia. Present/absent calls were based on MicroArray Suite 5.0 from Affymetrix. Affymetrix CEL files were analyzed using dChip software after normalization of the data between all 15 arrays. Statistical analyses were performed using ANOVA.

2005-05-11 | E-MEXP-459 | biostudies-arrayexpress

The Dynamic Proteome of Oligodendrocyte Lineage Differentiation Features Planar Cell Polarity and Macroautophagy Pathways

Project description:Generation of oligodendrocytes (OLs) is a sophisticated multistep process, mechanistic underpinnings of which are not fully understood and demand further investigation. To systematically profile proteome dynamics during human embryonic stem cell (hESC) differentiation into OLs, we applied in-depth quantitative proteomics at different developmental stages and monitored changes in protein abundance using a multiplexed tandem mass tag (TMT) based proteomics approach. Findings: Our proteome data provided a comprehensive protein expression profile that highlighted specific expression clusters based on the protein abundances over the course of human OL lineage differentiation. The proteome profile of OL lineage cells revealed 378 proteins that were specifically up-regulated only in one differentiation stage. In addition, comparative pairwise analysis of differentiation stages demonstrated that abundances of 352 proteins differentially changed between consecutive differentiation time points. Our results highlighted the eminence of the planar cell polarity (PCP) signaling and autophagy (particularly macroautophagy) in the progression of OL lineage differentiation

2020-09-16 | PXD017649 | Pride

Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction

Project description:Metabolic reprogramming is a hallmark of the immune cells in response to inflammatory stimuli. This metabolic process involves a switch from oxidative phosphorylation (OXPHOS)to glycolysis, or alterations in other metabolic pathways. However, most of the experimental findings have been acquired in murine immune cells and little is known about the metabolic reprogramming of human microglia. In this study, we investigated the transcriptomic and metabolic profiles of mouse and iPSC-derived human microglia challenged with the TLR4 agonist LPS. We found that both species displayed a metabolic shift and an overall increased glycolytic gene signature in response to LPS treatment. The metabolic reprogramming was characterized by the upregulation of hexokinases in mouse microglia and phosphofructokinases in human microglia. This study provides the first direct comparison of energy metabolism between mouse and human microglia, highlighting the species-specific pathways involved in immunometabolism and the importance of considering these differences in translational research.

2023-09-02 | PXD043836 | Pride

Generation of oligodendroglial cells by direct lineage conversion

Project description:We report the generation of induced oligodendrocyte precursor cells (iOPCs) by direct lineage conversion. Forced expression of the three transcription factors Sox10, Olig2 and Zfp536 was sufficient to convert mouse and rat fibroblasts into iOPCs with morphologies and gene expression signatures that resemble OPCs. We compared the global gene expression pattern of iOPCs, fibroblasts, primary OPCs from the neonatal rat brain, and their differentiated progeny. We purified iOPCs by O4 immunopanning three weeks after infection and extracted total RNA. Acutely isolated rat cortical OPCs were either used directly for RNA extraction or expanded in mitogen-containing media for 24h before switching into differentiation medium, lacking PDGF/NT-3 and containing T3. Cells were harvested for microarray analysis 3 and 6 days after induction of differentiation.

2013-04-07 | E-GEOD-40421 | 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