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Links from GEO DataSets

Items: 20

1.

IRF-3, IRF-5, and IRF-7 coordinately regulate the type I IFN response in myeloid dendritic cells downstream of MAVS signaling

(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
Series
Accession:
GSE41355
ID:
200041355
2.

Global gene expression in response to West Nile virus in mouse spleen and liver

(Submitter supplied) Purpose of this experiment was to further understand how innate immune defenses impact host response and West Nile virus tissue tropism. This study examined host-transcriptional response to West Nile virus in permissive and nonpermissive tissues using wildtype mice and mice with genetically altered interferon signaling pathways.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL7202
40 Samples
Download data: TXT
Series
Accession:
GSE39259
ID:
200039259
3.

Expression data of Brain CD45+ cells from WT and STI knockout mice after WNV infection

(Submitter supplied) West Nile virus (WNV) is the most important cause of endemic encephalitis in the USA. Strikingly, only a small percentage of patients develop clinical disease and of these patients, approximately 1 out of 150 patients develops encephalitis. The basis for this great variability in disease outcome is unknown, but may be related to the innate immune response. Innate immune responses, critical for control of WNV infection, are initiated by signaling through pathogen recognition receptors (PRR) such as RIG-I and MDA5. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL16570
8 Samples
Download data: CEL, CHP
Series
Accession:
GSE79417
ID:
200079417
4.

Type I and type III interferons drive redundant amplification loops to induce a transcriptional signature in influenza-infected airway epithelia

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
62 Samples
Download data: CEL
Series
Accession:
GSE43710
ID:
200043710
5.

Expression data from Influenza A infected mouse primary tracheal epithelial cell cultures (MTEC), from both wild-type and MAVS-/- mice

(Submitter supplied) We used microarrays to detail the global programme of gene expression in response to Influenza A (PR8) infection
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
12 Samples
Download data: CEL, TXT
Series
Accession:
GSE43709
ID:
200043709
6.

Expression data from Influenza A infected mouse primary tracheal epithelial cell cultures (MTEC), from wild-type, IFNAR1-/-, IL28Ra-/- and IFNAR1-/- IL28Ra-/- double ko

(Submitter supplied) We used microarrays to detail the global programme of gene expression in response to Influenza A (PR8) infection
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
40 Samples
Download data: CEL, TXT
Series
Accession:
GSE43708
ID:
200043708
7.

Expression data from Influenza A infected mouse primary tracheal epithelial cell cultures (MTEC)

(Submitter supplied) We used microarrays to detail the global programme of gene expression in response to Influenza A (PR8) infection
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
10 Samples
Download data: CEL, TXT
Series
Accession:
GSE43707
ID:
200043707
8.

The roles of IRF-3 and IRF-7 in innate antiviral immunity against dengue virus

(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
Series
Accession:
GSE49871
ID:
200049871
9.

Genome-wide RNA-seq transcriptional analysis of splenocyte responses to Dengue virus infection in WT, Irf3(-/-)×Irf7(-/-) (DKO), Irf3-/-xIrf5-/-xIrf7-/- (TKO), and Ifnar1-/- (AB6) mice.

(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
Series
Accession:
GSE104189
ID:
200104189
10.

VAMP8 contributes to TRIM6-mediated type-I interferon antiviral response upon West Nile virus (WNV) infection

(Submitter supplied) Purpose: Several members of the tripartite motif (TRIM) family of E3 ubiquitin ligases regulate immune pathways including the antiviral type I interferon (IFN-I) system. Therefore, we aimed to investigate the mechanism of IFN-I regulation upon West Nile virus infection using TRIM6 knockout (TRIM6-KO) human airway epithelial cells (A549). Methods: RNAs were extracted from wild-type (WT) and TRIM6KO A549 cells infected with WNV or mock-treated. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18460
8 Samples
Download data: TXT
Series
Accession:
GSE138841
ID:
200138841
11.

A systems approach reveals MAVS signaling in myeloid cells as critical in resistance to Ebola virus in murine models of infection

(Submitter supplied) The unprecedented 2013-16 outbreak of Ebola virus (EBOV) in West Africa resulted in over 11,300 human deaths. Host resistance to EBOV is thought to involve RIG-I-like receptor (RLR) signaling through the adaptor protein, mitochondrial antiviral signaling (MAVS), but role of RLR-MAVS in orchestrating anti-EBOV responses in vivo is not known. Here, we apply a systems approach to MAVS-deficient mice infected with either wild-type or mouse-adapted EBOV. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL21810
64 Samples
Download data: TXT
Series
Accession:
GSE83309
ID:
200083309
12.

RIG-I-Like-Receptors Induce Unique and Complimentary Transcriptional Programs Following West Nile Virus Infection Leading to Macrophage Polarization and Protection

(Submitter supplied) The study shows that RLRs drive distinct immune gene activation and polarization of the immune response. In our data, the RLR-dependent, WNV-induced immune response polarization overshadows the classical drivers of viral innate immune responses, interferon I (IFN) and IFN-stimulated genes, thus underscoring the importance of innate immune activation for channeling the adaptive immune system into specific effector pathways
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
63 Samples
Download data: TXT
Series
Accession:
GSE104817
ID:
200104817
13.

Constitutively-active MAVS inhibits HIV-1 replication via type I interferon secretion and induction of HIV-1 restriction factors

(Submitter supplied) Type I interferon plays a critical role in the control of viral infections, including HIV-1. Interferon induces a number of restriction factors that block HIV-1 entry, replication and release from the host cell. Currently, systemic treatment of HIV-1 infection with interferon has little efficacy in the clinic due to side effects including fatigue and flu-like symptoms. However, understanding the role of interferon in HIV-1 restriction, and developing molecular tools to generate type I interferons locally, provide an opportunity to inhibit HIV-1 replication while avoiding the side effects associated with systemic administration. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
12 Samples
Download data: TXT
Series
Accession:
GSE65541
ID:
200065541
14.

Sequential MAVS- and MyD88/TRIF-signaling triggers anti-viral responses of tick-borne encephalitis virus-infected murine astrocytes

(Submitter supplied) Upon tick borne encephalitis virus exposure of brain-resident cells, astrocytes are important IFN-β producers that followed a biphasic response, which initially depends on MAVS- and later on MyD88/TRIF-signaling
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
18 Samples
Download data: CSV
Series
Accession:
GSE175823
ID:
200175823
15.

Single cell sequencing identifies novel sub-populations of breast cancer cells selected under hypoxia

(Submitter supplied) During tumour growth cancer cells are subject to and selected by microenvironmental stress. The selection of such cells allows for continued growth and survival, during hypoxia, acidosis, nutritional deprivation, drug treatment and radiation. However, there is great microenvironmental heterogeneity in every tumour. Must studies of gene regulation in vitro investigate whole cell populations, often by western blotting or mRNA expression. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
384 Samples
Download data: TSV
Series
Accession:
GSE134038
ID:
200134038
16.

Chromatin response to hypoxia in MCF7 cells

(Submitter supplied) Oxygen is essential for cell growth, however in tumours quick growth can cause hypoxic conditions. To determine the changes in the chromatin landscape in response to hypoxia in breast cancer we have performed ATAC-seq dugin normoxia and hypoxia.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
11 Samples
Download data: BW
Series
Accession:
GSE133327
ID:
200133327
17.

Genome-wide analysis of LPS-responsive gene expression in human macrophages

(Submitter supplied) Analysis of gene expression changes in human macrophages in response to LPS in the absence or presence of a CD11b agonist LA1. The hypothesis being tested in the present study was that LA1 mediated CD11b activation suppresses TLR signaling.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
12 Samples
Download data: TXT
Series
Accession:
GSE76802
ID:
200076802
18.

Lung transcriptome from M. avium infected WT, IFNg-/- and IRF1-/- mice

(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
Series
Accession:
GSE11809
ID:
200011809
19.

IFNb/LPS activates convergence of inflammatory gene expression patterns between adipocytes and myeloid cells.

(Submitter supplied) We examined the transciptomic changes to primary adipocytes resulting from exposure to IFNb and/or LPS, in order to define the mechanisms driving adipocyte inflammatory capacity and resulting transcriptomic convergence with iinflammatory myeloid cells. Inguinal adipose tissue was obtained from 8 weeks old aged male C57BL/6 mice and stromal vascular fraction was maximally differentiated into primary adipocytes. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
8 Samples
Download data: TXT
Series
Accession:
GSE110236
ID:
200110236
20.

RNAseq of C57BL/6J and C57BL6/J Sarm1-deficient mice to determine if genes surrounding the knockout locus are B6 or 129 sequence

(Submitter supplied) The Toll/IL-1R domain-containing adaptor protein SARM1 is expressed primarily in the brain, where it mediates axonal degeneration. Additional roles for SARM1 in a number of other processes including TLR-signaling, viral infection, chemokine expression, and XAF1 expression have also been described. Here we report defects in the induction of Ccl3, Ccl4, and Ccl5 in Sarm1-/- macrophages, for which we were unable to find mechanistic support. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
4 Samples
Download data: BAM, TXT
Series
Accession:
GSE136284
ID:
200136284
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