Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression profile for male SD Rats with and without traumatic brain injury (TBI) by RNA-Seq (CA1 and WBC)

ABSTRACT: To investigate the effects of TBI on affecting the gene expressions in the hippocampus of male SD rats by RNA-Seq

ORGANISM(S): Rattus norvegicus

PROVIDER: GSE68207 | GEO | 2017/03/08

SECONDARY ACCESSION(S): PRJNA282032

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Gene expression profile for male SD Rats with and without traumatic brain injury (TBI) by RNA-Seq

Project description:To investigate the effects of TBI on affecting the gene expressions in the hippocampus of male SD rats by RNA-Seq..

2017-03-08 | GSE64978 | GEO

DNA methylation profile for male SD rats with and without traumatic brain injury (TBI) by RRBS

Project description:To investigate the effects of TBI on affecting the DNA methylation in the hippocampus of male SD rats by sequencing the methylome (RRBS).

2017-03-08 | GSE64984 | GEO

DNA Methylation profile for male SD Rats with and without traumatic brain injury (TBI) by RRBS-Seq

Project description:To investigate the effects of TBI on affecting DNA methylations in the WBC of male SD rats by RRBS.

2017-03-08 | GSE79270 | GEO

DNA Methylation profile for male SD Rats with and without traumatic brain injury (TBI) by RNA-Seq, batch2

Project description:To investigate the effects of TBI on affecting DNA methylations in the WBC of male SD rats by RRBS.

2017-03-08 | GSE83776 | GEO

Proteomics characterization of the neuroprotective effects of low-dose methamphetamine on rats with traumatic brain injury (TBI)

Project description:Traumatic brain injury (TBI) causes hospitalizations and mortality worldwide with no approved neuroprotective treatments available, partly due to a poor understanding of the molecular mechanisms underlying TBI neuropathology and neuroprotection. We previously reported that the administration of low-dose methamphetamine (MA) induced significant functional/cognitive improvements following severe TBI in rats. We further demonstrated that MA mediates neuroprotection in part, via dopamine-dependent activation of the PI3K-AKT pathway. Here, we further investigated the proteomic changes within the rat cortex and hippocampus following mild TBI (TM), severe TBI (TS), or severe TBI plus MA treatment (TSm) compared to sham operated controls (n=78 in total). We quantified >7,000 unique proteins in total and identified 402 and 801 altered proteins (APs) with high confidence in cortical and hippocampal tissues, respectively. The overall profile of APs observed in TSm rats more closely resembled those seen in TM rather than TS rats. Pathway analysis suggested beneficial roles for acute signaling through IL-6, TGFβ, and IL-1β. Moreover, changes in fibrinogen levels observed in TSm rats suggested a potential role for these proteins in reducing/preventing TBI-induced coagulopathies. These data facilitate further investigations to identify specific pathways and proteins that may serve as key targets for the development of neuroprotective therapies.

2021-03-02 | PXD024317 | Pride

DNA methylation profile for male SD Rats upon fructose and DHA treatment by RRBS

Project description:To investigate the beneficial effects of DHA (omega-3) on affecting fructose induced brain dysfunction and metabolic disorders by sequencing the methylome (RRBS) in the hypothalamus and hippocampus of male SD rats.

2016-10-19 | GSE64816 | GEO

Gene expression profile for male SD Rats upon fructose and DHA treatment by RNA-Seq

Project description:To investigate the beneficial effects of DHA (omega-3) on affecting fructose induced brain dysfunction and metabolic disorders by sequencing the transcripome (RNA-Seq) in the hypothalamus and hippocampus of male SD rats.

2016-07-13 | GSE64815 | GEO

Analysis of Post-TBI Gene Expression Signature Reveals Tubulins, NFE2L2, NFkB, CD44, and S100A4 as Treatment Targets for Traumatic Brain Injury

Project description:TBI was induced with lateral fluid-percussion injury in adult male rats. Genome-wide RNA-seq of the perilesional cortex, ipsilateral thalamus and dorsal hippocampus was performed at 3 months post-TBI. The data highlighted chronic transcriptional changes, particularly, in the perilesional cortex and thalamus. Genes showing a significantly altered expression both in the cortex and thalamus were submitted to the LINCS web query to identify novel pharmacotherapies to improve post-TBI outcome.

2017-02-09 | GSE80174 | GEO

Transcription profiling of liver, pancreas and lung tissue of male SD rats and CRISPR/Cas-9-mediated knockout SD-Nme7-/- male rats

Project description:We aimed to compare the transcriptome of liver, pancreas, and lung tissue of adult male SD rats and the novel CRISPR/Cas-9-mediated knockout SD-Nme7-/- adult male rats using Affymetrix Rat Gene 2.1 ST Array Strip. Total RNA was isolated from the liver, pancreas, and lung tissues (RNeasy Mini Kit, Qiagen) of SD and SDNme7-/- rats. The quality and integrity of the total RNA was evaluated on the Agilent 2100 Bioanalyzer system (Agilent, Palo Alto, CA). Microarray experiments were performed using the Rat Gene 2.1 ST Array Strip. The whole hybridization procedure was performed using the Affymetrix GeneAtlas® system according to the manufacturer's instructions. The quality control of the chips was performed using Affymetrix Expression Console. After applying quality filters and data normalization by the Robust Multichip Average (RMA) algorithm implemented in Affymetrix Expression Console, the set of obtained differentially expressed probesets was filtered by the false discovery rate (FDR) method implemented in PARTEK Genomics Suite 7 (Partek, St. Louis, Missouri). Transcriptomic data were then processed by a standardized sequence of analyses (hierarchical clustering and principal component analysis, gene ontology, gene set enrichment, Upstream Regulator Analysis, Mechanistic Networks, Causal Network Analysis, and Downstream Effects Analysis) using Ingenuity Pathway Analysis.

2021-04-06 | E-MTAB-10000 | biostudies-arrayexpress

Expression data from chemokine-deficient mus musculus subjected to traumatic brain injury (TBI)

Project description:We inflicted TBI to chemokine-deficient mouse lines in order to establish involvement of various signalling pathways that may be addressed therapeutically. Interacting chemokine pathways in brain regulate distinct inflammatory cells. Activated microglia are separate from invading phagocytes and dendritic cells. Findings show potential targets to interfere with specific inflammatory responses after brain injury. TBI was carried out in Ccl3-/- and Ccr2-/- mice, total RNA prepared from injured cerebral neocortex after three days. RNA samples were from uninjured Ccl3-/- and Ccr2-/- mice as reference for hybridization on Affymetrix microarrays.

2014-06-14 | E-GEOD-58483 | 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