GEO DataSets

(Submitter supplied) Here we use RNAseq and ATACseq to study the transcriptomics and epigenetic landscape of longitudinally sampled naïve and memory CD4+ and CD8+ T cells in two species of non-human primates prior to SIV infection, during chronic SIV infection, and after administration of ARVs. We find that SIV infection leads to significant alteration to the transcriptomic profile of all T cell subsets that are only partially reversed by administration of ARVs. more...

Organism:

Macaca mulatta; Macaca nemestrina

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27943 GPL33261

116 Samples

Download data: TXT

(Submitter supplied) Here we use RNAseq and ATACseq to study the transcriptomics and epigenetic landscape of longitudinally sampled naïve and memory CD4+ and CD8+ T cells in two species of non-human primates prior to SIV infection, during chronic SIV infection, and after administration of ARVs. We find that SIV infection leads to significant alteration to the transcriptomic profile of all T cell subsets that are only partially reversed by administration of ARVs. more...

Organism:

Macaca nemestrina; Macaca mulatta

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL33261 GPL27943

120 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) The major obstacle to human immunodeficiency type 1 (HIV-1) eradication is a reservoir of latently-infected cells that persists despite long-term antiretroviral therapy (ART) and is maintained through cellular proliferation. Long-lived memory CD4+ T-cells with high self-renewal capacity such as central memory T-cells (CM) and T memory stem cells (SCM) are major contributors to the viral reservoir in HIV-infected individuals on ART. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23804

47 Samples

Download data: TXT

(Submitter supplied) In contrast to pathogenic HIV and SIV infection of humans and macaques, SIV infection of sooty mangabeys (SMs) is typically non-pathogenic despite high virus replication. A key feature of primary SIV infection of SMs is a strong type I interferon (IFN-I) response, characterized by massive up-regulation of interferon-stimulated genes (ISG), followed by rapid resolution during the acute-to-chronic phase transition and establishment of an immune quiescent state that persists throughout the chronic infection. more...

Organism:

Cercocebus atys; Macaca mulatta

Type:

Expression profiling by array

Dataset:

GDS4237

Platform:

GPL3535

47 Samples

Download data: CEL

Temporal analysis of whole blood from 8 naturally SIV-infected SMs treated with recombinant RM IFNalpha2-IgFc (rmIFNα2) for 16 weeks. SIV infection of SMs is typically non-pathogenic. Results provide insight into effects of experimentally-augmented IFN-I signaling in chronically SIV-infected SMs.

Organism:

Cercocebus atys; Macaca mulatta

Type:

Expression profiling by array, transformed count, 2 agent, 8 individual, 6 time sets

Platform:

GPL3535

Series:

GSE35460

47 Samples

Download data: CEL

(Submitter supplied) Objective: To evaluate the effect of short-term type I IFN treatment on the latent viral reservoir in SIV-infected rhesus macaques on ART; Methods: We infected twelve RMs intrarectally with 10,000 TCID of SIVmac239. After 6 weeks of infection, all RMs started a three-class, four-drug ART regimen. Once viral loads were consistently undetectable, six animals were administered 1 dose of pegylated IFN-α2a per week for 4 weeks with each weekly intramuscular application being 6 µg/kg.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23804

35 Samples

Download data: TXT

(Submitter supplied) Pathogenic HIV/SIV infection of humans and rhesus macaques (RMs) induces persistently high production of type-I interferon (IFN-I) which is thought to contribute to disease progression. To elucidate the specific role of IFN in SIV pathogenesis, 12 RMs were treated prior to i.v. SIVmac239 infection with a high or a low dose of an antibody (AGS-009) that neutralizes most IFN subtypes, and compared with six mock-infused, SIV-infected controls. more...

Organism:

Macaca mulatta; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

107 Samples

Download data: TXT

(Submitter supplied) High levels of HIV-1 replication during the chronic phase of infection are usually associated with rapid disease progression (RP). However, a minority of HIV-infected individuals remain asymptomatic and show persistently high CD4+ T cell counts despite high viremia for many years (viremic non progressors, VNP). The latter profile is reminiscent of the non-pathogenic model of SIV infection in natural hosts such as the sooty mangabey. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6884

79 Samples

Download data: TXT

(Submitter supplied) Therapeutic strategies that enhance anti-viral immunity and reduce the viral reservoir are critical to achieving durable remission of HIV. The co-inhibitory receptor programmed death-1 (PD-1) regulates CD8+ T cell dysfunction during chronic HIV and SIV infections 1-4. In addition, PD-1+ CD4+ T cells constitute a significant fraction of the HIV/SIV viral reservoir5-7. We previously demonstrated that in vivo blockade of PD-1 during chronic SIV infection improves the function of anti-viral CD8+ T cells and B cells 4,8. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23804

60 Samples

Download data: TXT

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

Organism:

Macaca mulatta; Homo sapiens

Type:

Expression profiling by array; Expression profiling by RT-PCR

Platforms:

GPL16027 GPL17837

39 Samples

Download data: TXT

(Submitter supplied) The study describes miRNA expression in colon tissue following delta 9 tetrahydrocannabinol (Δ9-THC) administration to chronically SIV-infected rhesus macaques. To identify the underlying molecular mechanisms underlying its anti-inflammatory effects, we simultaneously profiled miRNA and mRNA expression in colon of chronically simian immunodeficiency virus (SIV)-infected rhesus macaques (RMs) administered either vehicle (VEH/SIV; n=9) or Δ9- tetrahydrocannabinol (THC; THC/SIV; n=8). more...

Organism:

Homo sapiens; Macaca mulatta

Type:

Expression profiling by RT-PCR

Platform:

GPL17837

23 Samples

Download data: XLSX

(Submitter supplied) We profiled and characterized mRNA expression in colon of 12 chronically SIV-infected rhesus macaques (RMs) receiving vehicle (n=7) or delta-9-tetrahydrocannabinol (THC) and 4 uninfected control macaques. Further analysis identified significant downregulation of genes associated with ion transport, epithelial barrier integrity/function, protection against oxidative injury, double stranded DNA damage repair and autophagy. more...

Organism:

Macaca mulatta

Type:

Expression profiling by array

Platform:

GPL16027

16 Samples

Download data: TXT