GEO DataSets

(Submitter supplied) Interferon-regulatory factors (IRFs) are a family of transcription factors (TFs) that play critical roles in translating viral recognition into antiviral responses, including type I IFN production. Dengue virus (DENV) and other clinically important flaviviruses are controlled by functional type I interferon (IFN) responses. Using an experimental model of DENV infection that recapitulates key aspects of the human disease in mice, we demonstrate that while mice lacking the type I IFN receptor (Ifnar1-/-) succumb to DENV infection, mice that are deficient in IRF-3, IRF-5, and IRF-7 – the three transcription factors thought to regulate type I IFN production – survive DENV challenge. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18061

24 Samples

Download data: TXT

(Submitter supplied) We investigated the roles of IRF-3 and IRF-7 in innate antiviral immunity against dengue virus (DENV). Double-deficient Irf-3-/-7-/- mice infected with the DENV2 strain S221 possessed 1,000-150,000 fold higher levels of viral RNA than wild-type and single-deficient mice 24 hours after infection; however, they remained resistant to lethal infection. IFN-α/β was induced similarly in wild-type and Irf-3-/- mice post DENV infection, whereas in the Irf-7-/- and Irf-3-/-7-/- mice, significantly low levels of IFN-α/β expression was observed within 24 hours post-infection. more...

Organism:

Mus musculus

Type:

Expression profiling by RT-PCR

Platform:

GPL17574

40 Samples

Download data: TXT

(Submitter supplied) Myeloid dendritic cells from WT, Irf3-/-xIrf7-/-, Irf3-/-xIrf5-/-xIrf7-/-, Mavs-/- (IPS1-/-)and Ifnar-/- mice were infected with West Nile virus to assess the contributions of specific signaling and transcription factors in initiating the antiviral response

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

29 Samples

Download data: TXT

(Submitter supplied) Using integrative bioinformatics analyses, we identified new IRF5 primary target genes in mouse DCs in response to virus infection. This study provides novel insights into the distinct and unique innate immune and immune gene regulatory program directed by IRF5.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

16 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17021 GPL19057

69 Samples

Download data

(Submitter supplied) Using integrative bioinformatics analyses, we identified new IRF5 primary target genes in mouse DCs in response to virus infection. This study provides novel insights into the distinct and unique innate immune and immune gene regulatory program directed by IRF5.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

36 Samples

Download data: TXT

(Submitter supplied) Using integrative bioinformatics analyses, we identified new IRF5 primary target genes in mouse DCs in response to virus infection. This study provides novel insights into the distinct and unique innate immune and immune gene regulatory program directed by IRF5.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17021

17 Samples

Download data: BED

(Submitter supplied) Protocols for the treatment of sepsis and septic shock are restricted to early administration of appropriate antibiotics and supportive organ care. To date, there has been limited success in addressing the characteristically dysregulated host response once it is underway. Furthermore, virus-induced sepsis remains poorly appreciated, and treatment strategies are similarly limited to supportive measures. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

48 Samples

Download data: IDAT, TXT

(Submitter supplied) L-type voltage gated Ca channels play a critical role in E-C coupling in cardiac muscle. alpha1C is associated with beta auxiliary subunits (b1-b4), which regulate cardiac Ca channel gating properties. Here we report a preliminary exploratory study suggesting a novel role of beta4 subunit in heart. We observed that overexpression of beta4 subunit increases the expression of a wide variety of endogenous genes related to antiviral activity. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14844

2 Samples

Download data: XLS

(Submitter supplied) Listeriosis is an infectious disease caused by the intracellular bacterium Listeria monocytogenes. To control the infection effectively, the host immune response is directed by intercellular signalling molecules called cytokines that are produced by immune cells following sensing of the bacteria. In this study we used gene expression analysis to examine complex immune signalling networks in the blood and tissues of mice infected with L. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

192 Samples

Download data: TXT

(Submitter supplied) To investigate the role of the IRF family in the regulation of interferon stimulated genes, we conducted CRISPR/Cas9 mediated genome editing of Irf3, Irf7 or Irf9 in sgScd2 Th1 cells. We then performed gene expression profiling analysis using data obtained from RNA-seq of control, sgScd2, sgScd2/sgIrf3, sgScd2/sgIrf7 or sgScd2/sgIrf9 Th1 cells.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL30172 GPL19057

25 Samples

Download data: TXT

(Submitter supplied) To investigate the role of IRF9 in the transcriptional regulation of interferon stimulated genes in sgScd2 Th1 cells, we assessed the genome-wide binding pattern of IRF9 by chromatin immunoprecipitation DNA-sequencing (ChIP-seq).

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19057

24 Samples

Download data: BIGWIG

(Submitter supplied) Microarray analysis of differentially expressed genes in wild-type and NFAT5-deficient BMDM.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL16570

18 Samples

Download data: CEL

(Submitter supplied) The Interferon Regulatory Factors (IRFs) are essential regulators of the innate immune response to viruses. IRFs 3, 5, and 7 drive type­-1­-interferon and cytokine production in a cell-­type and stimulus­-specific manner, suggesting regulatory complexity. IRFs ­3, ­5 and ­7 bind DNA as phosphorylation-­activated dimers and are classically described as binding a doublet of the canonical IRF binding site: 5'-­AANNGAAA­-3’. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL24506

14 Samples

Download data: GPR

(Submitter supplied) To examine innate immune signalling, IFN baseline and IRF-regulation, we profile Pteropus alecto bat kidney epithelial cells (PakiT03) with Deep NGS coverage. Clonal cell lines were also isolated with CrispR KO for IRF1, IRF3, IRF7, IFNAR2 or IFNAR2/IRF7 double KO.

Organism:

Pteropus alecto

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26396

52 Samples

Download data: TXT

(Submitter supplied) To examine the fundamental immunity in bats, particularly the status of their innate immune system in the basal healthy state, we profile Pteropus alecto bat tissue with Deep NGS coverage. This is coupled to a paired experiment where bats were stimulated in vivo with various PRR ligands to activate immune pathways.

Organism:

Pteropus alecto

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26396

13 Samples

Download data: TXT

(Submitter supplied) To examine the fundamental immunity in bats, particularly the status of their innate immune system in the basal healthy state, we profile Eonycteris spelaea bat tissue with Deep NGS coverage. This is coupled to a paired experiment where bats were stimulated in vivo with various PRR ligands to activate immune pathways.

Organism:

Eonycteris spelaea

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26376

6 Samples

Download data: TXT

(Submitter supplied) Commensal bacteria have been shown to influence the reactivity of immune cells in the gut and in other organs. This study aims to assess the impact of microbiota on transcription signatures in lung stroma cells. Samples were generated from mice that were either left on plain water, on water with antibiotics, or on water with antibiotics followed by faecal transplant to reverse the antibiotics effect. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

11 Samples

Download data: TXT

(Submitter supplied) Mycobacterium avium infection in mice induces granuloma necrosis in the lung which is dependent on IFNg. IRF1 is a transcription factor activated by IFNg signaling. The effect of IFNg and IRF1 on immunopathology and transcriptional changes in the lung were analysed using gene-deficient mice. The data from the Ifng-/- experiment have been described (Aly et al. 2007. J Pathol 212:295). Keywords: Infection, Genotype comparison

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL8321

23 Samples

Download data: CEL

(Submitter supplied) To identify which genes could be modulated by DENV infection in human dendritic cells (DCs)

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

2 Samples

Download data: CEL