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Deep sequencing reveals increased DNA methylation in chronic rat epilepsy (MBD-seq)

ABSTRACT: Explore DNA methylation in chronic epilepsy and its relationship to gene expression. Examination of methylation changes in pilocarpine-treated rats compared to controls and pilocarpine-treated rats on a ketogenic diet.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Assam El-Osta

PROVIDER: E-GEOD-50077 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Deep sequencing reveals increased DNA methylation in chronic rat epilepsy (mRNA-seq)

Project description:Explore DNA methylation in chronic epilepsy and its relationship to gene expression. Examination of expression changes in pilocarpine-treated rats compared to controls and pilocarpine-treated rats on a ketogenic diet.

2013-09-09 | E-GEOD-50079 | biostudies-arrayexpress

Deep sequencing reveals increased DNA methylation in chronic rat epilepsy

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-09-09 | E-GEOD-50080 | biostudies-arrayexpress

Genome-wide analysis of long non-coding RNA expression in the mouse Pilocarpine model of temporal lobe epilepsy

Project description:Profiling of LncRNAs and mRNAs in the mouse pilocarpine model in specific brain regions, the hippocampus and cortex, and compared the results to those of the control mouse.

2017-10-06 | E-MTAB-5995 | biostudies-arrayexpress

Transcriptional profiling of dentate granule cells in 4 rat epilepsy models

Project description:Global expression profiling of epileptogenesis has been confounded by variability across laboratories, epilepsy models, tissue sampled and experimental platforms, with the result that very few genes demonstrate consistent expression changes. The present study minimizes these confounds by combining Affymetrix microarray datasets from seven laboratories, using three status epilepticus (SE) models of epilepsy in rats (pilocarpine, kainate, self-sustained SE or SSSE) and the rat kindling model. Total RNA was harvested from laser-captured dentate granule cells from 6 rats at three times during the early-to-mid latent phase that precedes epilepsy symptoms in the SE models (1, 3 and 10 days after SE), or 24 hr after the first stage 2, stage 4 and stage 5 seizure in the kindling model. Each epilepsy model was studied in two independent laboratories except SSSE. The initial goals of this study were to a) identify model-independent transcriptional changes in dentate granule cells that could point to novel intervention targets for epileptogenesis, b) characterize the basal transcriptional profile of dentate granule cells, and c) identify genes that have highly variable expression. Each experimental group consists of 6 rats (biological replicates) from one laboratory at a single time point, except for the SSSE group (6 at day 1 after SSSE, 5 controls and at day 3 after SSSE, 4 at day 10). Thus granule cells were harvested from 164 rats.

2013-06-08 | E-GEOD-47752 | biostudies-arrayexpress

microRNAs profiling in hippocampal cells of mouse with Pilocarpine-induced Status Epilepticus (SE)

Project description:SE was induced in mice (NMRI) chemically by a single dose of Pilocarpine (300mg/kg;i.p.). RNA was extracted from the hippocampi of treated and wild-type mice at 24 h and 28 d after induction. microRNA expressions were measured via microarray technology using Exiqon's miCURY™ LNA Arrays. 4 conditions, Pilocarpine treated mice at 24 h and 28 d, and the control wild-type at the same types, each of 8 replicates.

2014-01-01 | E-GEOD-51841 | biostudies-arrayexpress

Proteomic profile of mouse hippocampus following kainate-induced epileptogenesis C4PR_LIV

Project description:Anti-epileptogenic agents that prevent the development of epilepsy following a brain insult remain the holy grail of epilepsy therapeutics. In order to identify such drugs, it is necessary to first understand the cellular and molecular events that underlie the epileptogenic process, from initial insult to the onset of spontaneous recurrent seizures. We have employed a label-free proteomic approach that allows quantification of large numbers of brain-expressed proteins in a single analysis in the well-established kainate (KA) mouse (C57BL/6J) model of epileptogenesis. In addition, we have incorporated two putative antiepileptogenic drugs, PSD95BP and 1400W, to give an insight into how such agents might ameliorate the epileptogenesis. The test drugs were administered at appropriate time-points after induction of status epilepticus (SE) and animals were euthanized at 7 days, their hippocampi removed, and subjected to LC-MS/MS analysis. A total of 2,579 proteins were identified; their normalized abundance was compared between treatment groups using ANOVA, with correction for multiple testing by false discovery rate. Significantly altered proteins were subjected to gene ontology analysis to look for enrichment of specific biological processes. KA-induced SE was most robustly associated with an increase in proteins involved in neuroinflammation, oxidative stress, cell-cell interactions and synaptic plasticity. Treatment with PSD95BP (Tat-NR2B9c) or an iNOS inhibitor, 1400W modulated several of these proteins. Our observations require validation in a larger-scale investigation, with candidate proteins explored in more detail. Nevertheless, this study has identified several mechanisms by which epilepsy might be developed and several targets for novel drug development.

2019-05-23 | PXD010986 | Pride

Transcription profiling of hippocampi from scopolamine treated adult rats following stimulation in a spatial memory task

Project description:Hippocampal gene expression profiling in scopolamine treated adult rats following stimulation in a spatial memory task

2006-12-30 | E-MEXP-920 | biostudies-arrayexpress

miRNA transcription profiling in Status Epilepticus Induced Epileptogenic Process

Project description:miRNA array comparing the transcription profile of control rats and rats after intra-hippocampal pilocarpine-induced Status Epilepticus (PILO-SE).

2016-04-28 | E-MTAB-4633 | biostudies-arrayexpress

Mass spectrometry analysis of ABC transporter proteins in pilocarpine mouse model of epilepsy

Project description:Hippocampal tissue from pilocarpine treated mice was examined by mass spectrometry to determine the change in levels of ABC transporter proteins.

2022-12-03 | PXD037454 | Pride

Etiology matters - Comparing Genomic DNA Methylation Patterns in Three Rat Models of Acquired Epilepsy (Amygdala stimulation â mRNA-seq)

Project description:Explore DNA methylation in focal amygdala stimulation model of epilepsy and its relationship to gene expression. Examination of expression changes in stimulated rats compared to sham operated animals in focal amygdala stimulation model of epilpesy.

2016-09-06 | E-GEOD-75402 | biostudies-arrayexpress

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