Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Integrative Gene Network Analysis Identifies Key Signatures, Intrinsic Networks and Host Factors for Influenza Virus A Infections

ABSTRACT: Integrative Gene Network Analysis Identifies Key Signatures, Intrinsic Networks and Host Factors for Influenza Virus A Infections

PROVIDER: PRJNA411851 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR6061810.fastq.gz	Fastqsanger.gz
	SRR6061820.fastq.gz	Fastqsanger.gz
	SRR6061830.fastq.gz	Fastqsanger.gz
	SRR6061811.fastq.gz	Fastqsanger.gz
	SRR6061821.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 30

Similar Datasets

Integrative Gene Network Analysis Identifies Key Signatures, Intrinsic Networks and Host Factors for Influenza Virus A Infections

Project description:Influenza A virus, with the limited coding capacity of 10 to 14 proteins, requires the host cellular machinery for many aspects of its life cycle. Knowledge of these host cell requirements not only reveals molecular pathways exploited by the virus or triggered by the immune system, but also provides further targets for antiviral drug development. To uncover novel pathways and key targets of influenza infection, we assembled a large amount of data from 12 cell-based gene-expression studies of influenza infection for an integrative network analysis. We systematically identified differentially expressed genes and gene co-expression networks induced by influenza infection. We revealed the dedicator of cytokinesis 5 (DOCK5) played potentially an important role for influenza virus replication. CRISPR/Cas9 knockout of DOCK5 reduced influenza virus replication, indicating that DOCK5 is a key regulator for the viral life cycle. DOCK5’s targets determined by the DOCK5 knockout experiments strongly validated the predicted gene signatures and networks. This study systematically uncovered and validated fundamental patterns of molecular responses, intrinsic structures of gene co-regulation, and novel key targets in influenza virus infection.

2018-02-14 | GSE104168 | GEO

Integrative gene network analysis identifies key signatures, intrinsic networks and host factors for influenza virus A infections.

Project description:Influenza A virus, with the limited coding capacity of 10-14 proteins, requires the host cellular machinery for many aspects of its life cycle. Knowledge of these host cell requirements not only reveals molecular pathways exploited by the virus or triggered by the immune system, but also provides further targets for antiviral drug development. To uncover novel pathways and key targets of influenza infection, we assembled a large amount of data from 12 cell-based gene-expression studies of influenza infection for an integrative network analysis. We systematically identified differentially expressed genes and gene co-expression networks induced by influenza infection. We revealed the dedicator of cytokinesis 5 (DOCK5) played potentially an important role for influenza virus replication. CRISPR/Cas9 knockout of DOCK5 reduced influenza virus replication, indicating that DOCK5 is a key regulator for the viral life cycle. DOCK5's targets determined by the DOCK5 knockout experiments strongly validated the predicted gene signatures and networks. This study systematically uncovered and validated fundamental patterns of molecular responses, intrinsic structures of gene co-regulation, and novel key targets in influenza virus infection.

| S-EPMC5712526 | biostudies-literature

Integrative miRNA networks predict prostate cancer recurrence

Project description:Integrative miRNA networks predict prostate cancer recurrence

| PRJNA559178 | ENA

Linking cell dynamics with coexpression networks to characterize key events in chronic virus infections

Project description:Linking cell dynamics with coexpression networks to characterize key events in chronic virus infections

| PRJNA507617 | ENA

Linking cell dynamics with coexpression networks to characterize key events in chronic virus infections

Project description:The host immune response against an infection requires the coordinated action of many diverse cell subsets that dynamically adapt to the pathogen threat. Here we combined WGCNA and DCQ to analyse time-resolved mouse splenic transcriptomes in acute and chronic LCMV infections. This approach allowed to better characterize the dynamic cell events occurring in complex tissues such as the induction of the adaptive T cell response which requires the coordination of monocytes/macrophages and CD8+ T cells.

2019-05-15 | GSE123134 | GEO

Integrative genetic and genomic networks identify microRNA associated with COPD and ILD

Project description:Integrative genetic and genomic networks identify microRNA associated with COPD and ILD

| PRJNA828514 | ENA

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

Integrative analysis of intrinsic and adaptive resistance to KRASG12C inhibitors in lung adenocarcinoma models

Project description:Integrative analysis of intrinsic and adaptive resistance to KRASG12C inhibitors in lung adenocarcinoma models

| PRJNA689906 | ENA

LPS-induced IFN networks predict severe viral Lower Respiratory tract Infections in infancy

Project description:LPS-induced IFN networks predict severe viral Lower Respiratory tract Infections in infancy

| PRJNA764259 | ENA

Gene regulatory networks underlying intrinsic properties in human hematopoietic stem cell ontogeny

Project description:Human hematopoiesis starts at early yolk sac and undergoes site- and stage-specific changes over development. However, the gene regulatory networks (GRN) that drive the developmental changes in naive hematopoietic stem/progenitor cells (HSPCs) remain poorly understood. Here, we analyzed single-cell transcriptome of human naive HSPCs in different developmental stages, including yolk-sac (YS), AGM, fetal liver (FL), umbilical cord blood (UCB) and adult peripheral blood (PB) mobilized HSPCs. These stage-specific HSPCs display differential intrinsic properties, such as metabolism, self-renewal, differentiating potentialities etc. We generated highly co-related GRN modules underlying the differential HSC key properties. Particularly, we identified GRNs and key regulators controlling lymphoid potentiality, self-renewal and aerobic respiration in human HSCs. Introducing selected regulators promotes establishing key HSC functions in HSPCs derived from human pluripotent stem cells. Therefore, GRNs underlying key intrinsic properties of human HSCs provide a valuable guide to generate fully functional HSCs in vitro.

2024-03-19 | GSE224972 | GEO

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