Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome sequencing data sets for mice brain infected with Sindbis virus and treated with glucosylceramide synthase inhibitor

ABSTRACT: The goal of this study is to determine the brain pathology upon infection of mice with neuroinvasine Sindbis virus (SVNI) and the affect of treatmant wuth the glucosylceramide inhibitor GZ-161 . For this purpose, C57BL/6 mice wasinfected with SVNI and treted or not with GZ-161. 5 days post infection, brains were harvested and total RNA was extracted. RNA-seq libraries were constructed and sequencing of 100bp paired-end was performed on the Illumina NovaSeq 6000 system. Sequencing yielded about 30M reads per sample that were mapped to the mouse genome

ORGANISM(S): Mus musculus

PROVIDER: GSE171912 | GEO | 2023/03/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Sindbis survivors

Project description:Microarray analysis comparing cells that are resistant to Sindbis virus-induced cell death (clones 9, 43) versus cells that are sensitive to Sindbis virus-induced cell death (WT293) Keywords = Sindbis alphavirus functinal phenotype Keywords: repeat sample

2004-05-01 | GSE1264 | GEO

Sindbis virus

Project description:Sindbis virus Raw sequence reads

| PRJNA361123 | ENA

The effects of Sindbis viral vectors on neuronal function

Project description:Viral vectors are attractive tools to express genes in neurons. Transduction of neurons with a recombinant, replication-deficient Sindbis viral vector is a method of choice for studying the effects of short-term protein overexpression on neuronal function. However, to which extent Sindbis by itself may affect neurons is not fully understood. We assessed effects of neuronal transduction with a Sindbis viral vector on the transcriptome and proteome in organotypic hippocampal slice cultures, and analyzed the electrophysiological properties of individual CA1 neurons, at 24h and 72h after viral vector injection. Whereas Sindbis caused substantial gene expression alterations, changes at the protein level were less pronounced. Alterations in transcriptome and proteome were predominantly limited to proteins involved in mediating anti-viral innate immune responses. Sindbis transduction did not affect the electrophysiological properties of individual neurons: the membrane potential, excitability and synaptic currents were similar between transduced and nontransduced CA1 neurons up to 72h after Sindbis injection. We conclude that Sindbis viral vectors are suitable for studying short-term effects of a protein of interest on electrophysiological properties of neurons, but not for studies on the regulation of gene expression.

2019-08-26 | PXD013634 | Pride

Transcription profiling of resistant and sensitive human cell lines infected with Sindbis virus

2007-08-03 | E-GEOD-1264 | biostudies-arrayexpress

Sindbis virus

Project description:Sindbis virus structural polyprotein -1 PRF deep mutational scan

| PRJNA720960 | ENA

Sindbis virus strain:MRE16

Project description:Sindbis virus strain:MRE16 Raw sequence reads

| PRJNA699225 | ENA

Transcriptome analysis of tumors isolated from ovarian cancer tumor bearing mice treated with Sindbis Virus vectors and untreated controls

Project description:Gene expression analysis of tumors isolated from mice after they received treatments with Sindbis Virus vectors for 1 week. The hypothesis tested changes in the transcriptome profiles of tumors isolated from Sindbis virus vectors treated and untreated mice. Expression profiling by high throughput sequencing of MOSEC.Fluc.p11 tumors

2022-12-20 | GSE216750 | GEO

Transcription profiling of Aedes infected with alphavirus, Sindbis (MRE16 Malaysian strain)

Project description:The midgut of hematophagous insects is the initial site of infection by arthropod-borne viruses (arboviruses) and plays a crucial role in vector competence. To further understand processes that occur in the midgut in response to infection by an arbovirus, DNA microarrays were used to analyze gene expression changes following infection by the alphavirus, Sindbis (MRE16 Malaysian strain). Midgut transcription profiles from mosquitoes fed blood containing 108 pfu/ml of virus were compared with those from mosquitoes ingesting blood meals having no virus. Transcription profiles from both experimental groups were analyzed at 1, 4, and 8 days post feeding. Among the many transcription changes observed by microarray analysis, the most dramatic involved three genes that had twenty-five to forty-fold increases in transcript levels in virus infected mosquitoes at 4 days post infection . These genes were synaptic vesicle protein-2 (SV2), potassium-dependent sodium/calcium exchanger (NCKX), and a homologue of C. elegans Unc-93, a putative component of a two-pore potassium channel. We speculate that these changes represent changes in vesicle transport processes. In addition to these observations, transcript changes were observed in infected mosquitoes that suggested involvement of Toll and JNK immune cascades as a response to viral infection

2005-08-01 | E-MEXP-381 | biostudies-arrayexpress

Viral small RNAs in Sindbis virus-infected mammalian cells

Project description:Small RNAs play a critical role in host-pathogen interaction. In insects, for instance, small RNA-mediated silencing or RNA interference (RNAi) represents the main antiviral defense system. However, the antiviral role of RNAi has not been clearly proven in higher vertebrates. On the contrary, it is well established that the cell response relies on the recognition of viral RNAs by host pattern recognition receptors (PRR) to trigger the activation of the interferon pathway. Based on this evidence, we wished to contribute to this research field by identifying and characterizing small non-coding RNAs produced in mammalian cells upon RNA virus infection. We focused on Sindbis virus (SINV), the prototypical arbovirus, which by definition, is able to infect both vertebrate hosts and invertebrate vectors and triggers the interferon pathway or RNAi, respectively.

2013-11-19 | GSE48831 | GEO

Expression profile of adult Drosophila melanogaster expressing a self-replicating RNA of Sindbis virus

Project description:Alphaviruses establish a persistent infection in arthropod vectors, which is essential for effective transmission of the virus to vertebrate hosts. The development of persistence in insects is not well understood, although it is thought to involve the innate immune response. Using a transgenic fly system (SINrep) expressing a self-replicating viral genome, we have previously demonstrated the antiviral response of the Drosophila Imd (Immune Deficiency) and Jak-STAT innate immunity pathways. In the current study, microarray analysis of SINrep flies in comparison to control GFP flies aims to detect genes that are sensitive to Sindbis viral RNA replication.

2013-01-31 | GSE42726 | GEO

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