Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Host response to IAV infections in human patients

ABSTRACT: Using influenza infection as a disease model, we used a systems biology approach to analyse host response and to identify immune pathways that might contribute to disease progression. We recruited influenza patients with varying severity of infection (n=154) and collected peripheral blood samples within 24 hours of their presentation to hospitals. Gene-expression arrays of these samples were analysed using weighted gene co-expression network analysis to detect disease-driving modules. These modules were then ranked based on the weight of their contribution to disease progression and fatality.

ORGANISM(S): Homo sapiens

PROVIDER: GSE101702 | GEO | 2019/04/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Arhgdia regulates disease tolerance in IAV-infected epithelial cells

Project description:When challenged with an invading pathogen, host defense mechanisms are engaged to eliminate the pathogen (resistance) and limit tissue damage that results from host-pathogen interactions (disease tolerance). We identified Arhgdia as a driver of the molecular disease-tolerance response in epithelial cells. The effect of Arhgdia on disease tolerance and resistance was evaluated at early stages of influenza A virus (IAV) infection. Our observations indicates that Arhgdia has an effect on disease tolerance during IAV infection.

2022-12-27 | GSE193160 | GEO

Transcriptional profile from peripheral blood in patients infected with avian influenza H7N9 virus

Project description:Avian influenza A (H7N9) viruses have emerged in China in 2013 and caused zoonotic disease associated with a case-fatality ratio of over 30%. Transcriptional profile from peripheral blood has been shown to reflect host responses against a specific respiratory pathogen and can be used to understand the disease. Methods: We correlated the clinical data and blood transcriptomic profile of patients with avian influenza A (H7N9) disease and determined the biological significance of the infection from the analysis.

2018-05-31 | GSE114466 | GEO

Investigation of ripk3-dependent IAV-induced genes

Project description:Ripk3-deficient fibroblasts and lung epithelial cells are resistant to influenza-induced cell deaths. However, Ripk3 is required for protection against influenza infection in vivo. Here, we examine the influenza-regulated gene expressions between wild type and knock out MEFs as well as an involvement of kinase activity if any.

2016-10-14 | GSE80740 | GEO

Effect of depletion of ATG7 on gene expression in IAV-infected A549 cells

Project description:To analyse differential expression genes（LncRNA and mRNA） in ATG7 knockdown cells and control cells upon influenza virus infection, transcriptome RNA sequencing was performed

2024-01-11 | GSE211357 | GEO

Streptococcus pneumoniae and IAV co infection induces altered polyubiquitination in A549 cells

Project description:Epithelial cells are the first line of defense within the lung. Disruption of the epithelial barrier by pathogens enables the systematic dissemination of bacteria or viruses within the host, leading to severe diseases with fatal outcomes. Thus, the lung epithelium can be damaged by seasonal and pandemic influenza A viruses. Influenza A virus infection induced dysregulation of the immune system is beneficial for the dissemination of bacteria to the lower respiratory tract, causing bacterial and viral co-infection. Host cells regulate protein homeostasis and the response to different stimuli, for instance pathogen infections, by post translational modification of proteins. Aside from protein phosphorylation, ubiquitination of proteins is an essential regulatory tool in virtually every cellular process, such as protein homeostasis, the host immune response, cell morphology, and in clearing of cytosolic pathogens. Here, we analyzed the proteome and ubiquitinome of A549 cells in response to Streptococcus pneumoniae D39 Δcps and influenza A virus H1N1 as well as bacterial and viral co-infection. Pneumococcal infection induced alterations in the ubiquitination of proteins involved in the organization of the actin cytoskeleton and Rho GTPases, but had minor effects on the abundance of host proteins. H1N1 infection is reflected by an anti-viral state of A549 cells. Finally, co infection resembled the imprints of both infecting pathogens with a minor increase in the observed alterations in protein and ubiquitination abundance.

2022-02-24 | PXD028465 | Pride

Stimulation of PSTPIP1 to trigger proinflammatory responses in asymptomatic SARS-CoV-2 infections

Project description:A hyperinflammatory response to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection gravely worsens the clinical progression of coronavirus disease 2019 (COVID-19). Although the undesirable effects of inflammasome activation have been correlated to the severity of COVID-19, the mechanisms of this process in the asymptomatic infection and disease progression have not yet been clearly elucidated. Our results indicate potential preventive targets for COVID-19 disease development and progression.

2023-07-11 | GSE236651 | GEO

Heterotypic Influenza Infections Mitigate Susceptibility to Secondary Bacterial Infection

Project description:Influenza associated bacterial super-infections have devastating impacts on the lung and can result in increased risk of mortality. New strains of influenza circulate throughout the population yearly promoting the establishment of immune memory. Nearly all individuals have some degree of influenza memory prior to adulthood. Due to this we sought to understand the role of immune memory during bacterial super-infections. An influenza heterotypic immunity model was established using influenza A/PR/8/34 and A/X31. We report here that influenza experienced mice are more resistant to secondary bacterial infection with methicillin-resistant Staphylococcus aureus as determined by wasting, bacterial burden, pulmonary inflammation, and lung leak, despite significant ongoing lung remodeling. Multidimensional flow cytometry and lung transcriptomics revealed significant alterations in the lung environment in influenza-experienced mice compared with naïve animals. These include changes in the lung monocyte and T cell compartments, characterized by increased expansion of influenza tetramer specific CD8+ T cells. The protection that was seen in memory experienced mouse model is associated with the reduction in inflammatory mechanisms making the lung less susceptible to damage and subsequent bacterial colonization. These findings provide insight into how influenza heterotypic immunity re-shapes the lung environment and the immune response to a re-challenge event, which is highly relevant to the context of human infection.

2022-06-27 | GSE206095 | GEO

Expression data from A549 cell line infected with influenza A virus (IAV) and treated with/without Itaconate

Project description:Analysis of gene expression in A549 cells infected with influenza A virus or Mock and treated with Itaconic acid (IA), or Dimethyl itaconate (DI) to investigate the effects itaconate have on transcriptional response in A549 cells. We particularly looked at anti-inflammatory effects of itaconate in inflammation followed by Influenza A virus infection.

2021-10-31 | GSE162260 | GEO

Human patients with influenza virus and bacterial infections

Project description:Peripheral blood was collected from human patients infected with influenza A virus only or in addition with bacterial pathogens and at different days after hospital admission. For comparison, blood from healthy controls was collected. Gene expression differences were detected in influenza and bacterial infections compared to healthy controls, and at various days post infection.

2022-08-31 | GSE185576 | GEO

Global Protein Abundance and Phosphorylation Analyses of Influenza A Virus (IAV)-Infected Human Cells

Project description:Influenza A Virus (IAV) is a recurring respiratory virus with antiviral therapies of limited use. Understanding host proteins essential for IAV infection can identify targets for alternative host-directed therapies (HDTs). Using affinity purification-mass spectrometry and global phosphoproteomic and protein abundance analyses with three IAV strains (pH1N1, H3N2, H5N1) in three human cell types (A549, NHBE, THP-1), we mapped 332 IAV-human protein-protein interactions and identified 13 IAV-modulated kinases. Whole exome sequencing of patients who experienced severe influenza revealed several genes, including the structural scaffold protein AHNAK, with predicted loss-of-function variants that were also identified in our proteomic analyses. Of our identified host factors, 54 significantly altered IAV infection upon siRNA knockdown, and two factors, COPB1 and AHNAK, were also essential for productive infection by SARS-CoV-2. Finally, 16 compounds targeting our identified host factors suppressed IAV replication, with three targeting ATP6V1A, CDK2 and FLT3 showing pan-antiviral activity across influenza and coronavirus families. This study provides a comprehensive network model of IAV infection in human cells, identifying functional host targets for pan-viral HDT. This project includes the global proteomic data (abundance and phosphorylation), the AP-MS data has been submitted separately as its own dataset and has its own dataset identifier.

2023-07-25 | PXD035900 | Pride

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