Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

PRM for JEV infected BV2 cells proteomics

ABSTRACT: Quantification of Differentially Expressed Proteins (DEPs) by PRM For the JEV-infected group, 15 upregulated DEPs were selected for validation by PRM. Protein extraction and tryptic digestion were performed following the same protocol used for the label-free quantitative proteomics experiment.

INSTRUMENT(S):

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Cell Culture

SUBMITTER: Guanyu Zhao

LAB HEAD: Guanyu Zhao

PROVIDER: PXD035938 | Pride | 2022-09-09

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	FA684PRM1_BV2_0_1.raw	Raw
	FA684PRM1_BV2_0_2.raw	Raw
	FA684PRM1_BV2_0_3.raw	Raw
	FA684PRM1_BV2_12_1.raw	Raw
	FA684PRM1_BV2_12_2.raw	Raw

Items per page:

1 - 5 of 15

Similar Datasets

JEV Infected BV2 Cells with Proteomics

Project description:We sought to paint a panoramic picture of JEV-infected BV2 cells. High depth TMT labelling for quantitative proteomics was used to assess JEV infection with BV2 and compared immune response profiles at 6h, 12h, and 24h post-infection (hpi).According to gene ontology and KEGG enrichment analysis, immune response-related proteins were enriched among the elevated proteins.

2022-09-09 | PXD033575 | Pride

Global gene expression profile of Japanese encephalitis virus(JEV) infected cytolytic B16F10 and Non-cytolytic JEV resistant B16F10r

Project description:B16F10, a murine melanoma cel line is cytolytic to JEV infection. We have identified a B16F10 cell line variant which is non-cytolytic to JEV infection. This variant cell line has two types of cells, one which is persistently infected JEV and another which is resistant to JEV infection. The JEV-resistant cells (B16F10r) were seperated from the presistently infected cells by single cell cloning. To understand the mechanism of JEV resistance microarray analysis was caried out to Identify and characterize genes differentially expressed during in uninfected/JEV-infected B16F10 and B16F10r cells.

2013-08-01 | GSE42942 | GEO

Global gene expression profile of Japanese encephalitis virus(JEV) infected cytolytic B16F10 and Non-cytolytic JEV resistant B16F10r

2013-08-01 | E-GEOD-42942 | biostudies-arrayexpress

Whole transcriptome analysis after JEV infection in SH-SY5Y

Project description:Infection by neurotropic virus Japanese Encephalitis Virus (JEV) is characterized by profound neuronal cell death and neuroinflammation. Long non-coding RNAs (lncRNAs) are critical regulatory players in diverse biological processes, including viral pathogenesis. We use whole transcriptomic sequencing to identify a lncRNA JINR1 (JEV-induced non-coding RNA 1) induced upon JEV infection in neuronal cells. Transcription factor NF-κB triggers JINR-1 expression during JEV infection. Loss of JINR-1 impairs virus replication and reduces JEV-induced neuronal cell death and expression of genes involved in ER stress and neuroinflammation. Mechanistically, JINR1 inhibits the expression of mir-216-5p, which inhibits host factors GRP78 and c-JUN and the viral genome. In line with its role as a pro-viral host factor, JINR1 interacts with RBM10 and NF-κB to promote the expression of genes involved in ER stress and neuroinflammation. Our results suggest a role for JINR-1 in promoting JEV-induced cell death and neuroinflammation.

2023-02-28 | GSE221680 | GEO

WNV- and JEV-infected adult mouse brain

Project description:Flaviviruses, particularly Japanese encephalitis virus (JEV) and West Nile virus (WNV), are important causes of virus-induced central nervous system (CNS) disease in humans. We used microarray analysis to identify cellular genes that are differentially regulated following infection of the brain with JEV (P3) or WNV (New York 99). Gene expression data for these flaviviruses was compared to that induced following infection of the brain with reovirus (Type 3 Dearing), an unrelated neurotropic virus. Although several studies have described gene expression changes following virus infection of the brain, this report is the first to directly compare large-scale gene expression data from different viruses. We found that a large number of genes were up-regulated in common to infections with all 3 viruses (fold change > 2, P < 0.001), including genes associated with interferon signaling, the immune system, inflammation and cell death/survival signaling. In addition, genes associated with glutamate signaling were down-regulated in common to infections with all 3 viruses (fold change > 2, P < 0.001). These genes may serve broad spectrum therapeutic targets for virus-induced CNS disease. A distinct set of genes were up-regulated following flavivirus-infection, but not following infection with reovirus. These genes were associated with tRNA charging and may serve as therapeutic targets for flavivirus-induce CNS disease. Gene expression in the brain following WNV or JEV infection. WNV- or JEV-infected (N=3) vs. mock-infected (N=3) mouse brain.

2014-01-03 | E-GEOD-53784 | biostudies-arrayexpress

CLIP-seq diagram of ZAP-binding RNA mapped to JEV genome

Project description:To elucidate the possible regions of JEV genome targeted by ZAP, we performed CLIP to pull down the RNA interacting with ZAP in JEV-infected ZAP-S overexpressing cells. The enriched RNA population was subjected to NGS by use of the Ion Torrent platform.

2018-07-31 | GSE115747 | GEO

Integrative Transcriptomic and Proteomic Analysis Reveals Mechanisms of Silica-induced Pulmonary Fibrosis in Rats

Project description:To explore proteomic and transcriptomic changes in rat model of silicosis, transcriptomic analysis by microarray and tandem mass tags (TMT)-based proteomic analysis were performed to reveal the expression of mRNAs and proteins in lung tissues. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) were applied to analyze the alterated genes and proteins. The integrated analysis was performed between transcriptome and proteome. Furthermore, the data were further verified by RT-qPCR and parallel reaction monitoring (PRM). In total, 244 differentially expressed proteins (DEPs) showed the same trend as that of the corresponding differentially expressed genes (DEGs) (named DEPs/DEGs). GM2a, CHI3L1, LCN2 and GNAI1, which were validated consistently by RT-qPCR and PRM, are involved in the extracellular matrix (ECM) and inflammation contributed to fibrosis in silicosis.

2022-01-12 | GSE188520 | GEO

Transcriptome profiling of dendritic cells during JEV infection

Project description:Characterization of transcriptional signature of innate immune response and metabolic pathways in monocytes derived dendritic cells (MoDCs) of healthy donors during JEV infection.

2021-07-07 | GSE160178 | GEO

JEV NS1'-interacting cellular proteins

Project description:We identify NS1' interacting proteins via immunopreciptation of JEV-infected cell lysates with an NS1'-specific antibody.

2022-02-17 | PXD027412 | Pride

JEV and ZIKV NS5 interactome

Project description:Among the flaviviral proteins, NS5 is the largest and most conserved. NS5 contains major enzymatic components of the viral replication complex. Disruption of the common key NS5-host protein-protein interactions critical for viral replication could aid in the development of broad-spectrum anti-flaviviral therapeutics. To this end, we investigated the JEV- and ZIKV-NS5 interactomes in human cells using GFP pull-downs with mass spectrometry analysis in a label-free fashion. A total of 138 cellular proteins interacting with NS5 from JEV, ZIKV, or both were identified as Protein classification analysis of identified cellular targets revealed the enrichment of RNA binding, processing and splicing including spliceosomal and spliceosome-associated proteins in both datasets. Comparison of our data with literature not only revealed several cellular NS5 interacting proteins shared among flaviviruses, but also identified proteins that have no known function in flavivirus biology such as RNA polymerase II-associated Paf1 complex, protein phosphatase 6, and s-adenosylmethionine synthetase. Our study generates the first landscape of the JEV and ZIKV NS5 interactome in human cells and identifies cellular proteins that are potentially targetable for broad-spectrum anti-flaviviral therapy.

2022-05-04 | PXD009523 | Pride

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