GEO DataSets

(Submitter supplied) Abstract Objectives: HIV infection dysregulates the innate immune system and alters leukocyte gene expression. The objectives were two fold: to characterize the impact of HIV infection on peripheral monocyte gene expression and to identify the predominant factor(s) responsible for altered gene expression. Design and methods: In a cross-sectional study, CD14+ monocytes were isolated from 11 HIV seronegative controls, 22 HIV seropositive subjects with low viral loads (LVL, <= 10,000 RNA copies/ml) and 22 HIV seropositive subjects with high viral loads (HVL, > 10,000 RNA/copies/ml). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2895

55 Samples

Download data: TXT

(Submitter supplied) Chronic immune activation is a hallmark of human immunodeficiency virus (HIV) infection and the best prognostic indicator of disease progression. Suppressing HIV viremia by antiretroviral therapy (ART) restores normal immune response and effectively prolongs life. In HIV-infected individuals who are coinfected with hepatitis C virus (HCV) the immune system is activated despite effective HIV antiretroviral therapy controlling viral load. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2895

53 Samples

Download data: TXT

(Submitter supplied) Expression profiling of whole blood from HIV-1 progressors and non-progressors. The comparison results showed differently expressed genes associated with disease progress.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6884

26 Samples

Download data: TXT

(Submitter supplied) Expression profiling of LY6E-silent THP-1 cells (THP-1-shLY6E) and control cells (THP-1-shCtrl). Results provide evidence that LY6E is effectively knocked down in THP-1shLY6E, compared to THP-1-shCtrl, and show the different expressed genes following LY6E silence in THP-1 cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

2 Samples

Download data: TXT

(Submitter supplied) On the basis of the cell-surface molecule expression, CD16+ monocytes are likely comprised of distinct subpopulations of monocytes rather than a continuum of CD14+ monocytes with differing levels of cell activation. To better study this, we used gene array analysis that compared overall gene expression profiles of CD16+ subpopulations (CD14+CD16+ and CD16+) with that of CD14+CD16-. Gene expression in three FACS-sorted monocyte subsets was assessed by Affymetrix rhesus macaque oligonucleotide gene arrays that contain 52,024 probe sets covering 47,000 monkey genes. more...

Organism:

Macaca mulatta

Type:

Expression profiling by array

Platform:

GPL3535

6 Samples

Download data: CEL, CHP

(Submitter supplied) Monocytes are a heterogeneous cell population with subset-specific functions and phenotypes. The differential expression of CD14 and CD16 distinguishes classical CD14++CD16-, intermediate CD14++CD16+ and non-classical CD14+CD16++ monocytes. However, CD14++CD16+ monocytes remain the most poorly characterized subset so far. Therefore we analyzed the transcriptomes of the three monocyte subsets using SuperSAGE in combination with high-throughput sequencing. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL10999

3 Samples

Download data: TXT

(Submitter supplied) Mechanisms that may allow circulating monocytes to persist as CD4 T cells diminish in HIV-1 infection have not been investigated. We have characterized steady-state gene expression signatures in circulating monocytes from HIV-infected subjects and have identified a stable anti-apoptosis gene signature comprised of 38 genes associated with p53, CD40L, TNF and MAPKinase signaling networks. The significance of this gene signature is indicated by our demonstration of cadmium chloride- or Fas ligand-induced apoptosis resistance in circulating monocytes in contrast to increasing apoptosis in CD4 T cells from the same infected subjects. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL8104

33 Samples

Download data: TXT

(Submitter supplied) Although extensive studies have demonstrated the gene expression patterns of antigen-specific CD4+ and CD8+ T-cells during chronic hepatitis C virus (HCV) infection, the transcriptional profiles of global CD4+ and CD8+ T-cells remains unclear. In this report, we recruited 10 long-term (~20 years) treatment-naïve chronic HCV (CHC) patients and 5 healthy donors (HDs) to investigate differences in global CD4+ and CD8+ T-cells gene expression profile. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4880

Platform:

GPL570

30 Samples

Download data: CEL

Analysis of antigen-specific CD4+ and CD8+ T-cells from treatment-naive, chronic hepatitis C virus (CHC) patients with high or low viral loads. Results provide insight into molecular mechanisms underlying functional impairment differences between CD4+ and CD8+ T-cells during CHC infection.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 cell type, 3 disease state sets

Platform:

GPL570

Series:

GSE49954

30 Samples

Download data: CEL

(Submitter supplied) Monocytes/macrophages are activated in several autoimmune diseases, including systemic sclerosis (scleroderma, SSc), with increased expression of IFN-regulatory genes and inflammatory cytokines, suggesting dysregulation of the innate immune response in autoimmunity. Recently, we found that EBV is deregulated in SSc with abnormal expression of viral lytic-genes in PBMCs and skin. Since monocytes/macrophages are involved in innate immune recognition of EBV/lytic infection, we sought to determine whether EBV might contribute to their activation in SSc. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17930

8 Samples

Download data: CEL

(Submitter supplied) Longitudinal analysis of monocyte gene expressions patterns before and after cessation of HAART: understanding the impact of HIV viremia on the monocyte tranascritome. We used microarrays to detail the global program of gene expression underlying defects in monocytes from HIV infected patients during viremia.. Diminished Production of Monocyte Proinflammatory Cytokines During HIV Viremia is Mediated by Interferon-alpha: The in vivo effect of high-level HIV replication on the function of monocytes was investigated. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2168

Platform:

GPL96

16 Samples

Download data

Analysis of CD14+ monocytes from 8 HIV patients at the aviremic state during highly active antiretroviral therapy (HAART) and at the viremic state after the cessation of HAART. Results provide insight into the impact of HIV infection and high-level HIV viremia on the function of monocytes.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 8 individual sets

Platform:

GPL96

Series:

GSE5220

16 Samples

Download data

(Submitter supplied) Introduction: Chronic inflammation and immune dysfunction play a key role in the development of non-AIDS related comorbidities. The aim of our study was to characterize the functional phenotype of immune cells in people living with HIV (PLWHIV). Methods: We enrolled a cross-sectional cohort study of PLWHIV on stable antiretroviral therapy (cART; n=211) and HIV uninfected controls (n=56). We performed peripheral blood mononuclear cell stimulation to assess ex vivo cytokine production and transcriptomics of monocytes and T lymphocytes upon bacterial, fungal and viral stimulation. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

12 Samples

Download data: XLSX

(Submitter supplied) We report ChIP-sequencing data obtained of freshly isolated human CD14+ monocytes obtained from 3 HIV- controls and 6 HIV+ subjects. Persons living with HIV (PLWH) are at higher risk of developing secondary illnesses than their uninfected counterparts, suggestive of a dysfunctional immune system in these individuals. Upon exposure to pathogens, monocytes undergo epigenetic remodeling that results in either a trained or a tolerant phenotype, characterized by hyper-responsiveness or hypo-responsiveness to secondary stimuli, respectively. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

18 Samples

Download data: BED

(Submitter supplied) HIV transmission involves the adhesion to and migration of infected cells, including monocytes across biological barriers comprising extracellular matrix components. Recently, semen exosomes (SE) from HIV uninfected (HIV-) and HIV infected (HIV+) subjects were shown to contain molecules that were adhesive to Jurkat T cells. Since monocyte trafficking across various biological barriers are intensified by HIV and/or illicit substances, such as cocaine, we sought to understand how SE from HIV infected subjects’ comorbid with illicit drug abuse influence monocyte gene expression and behavior. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL23159

15 Samples

Download data: CEL

(Submitter supplied) Immunologic dysfunction, mediated via monocyte activity, has been implicated in the development of HIV-associated neurocognitive disorder (HAND). We hypothesized that transcriptome changes in peripheral blood monocytes relate to neurocognitive functioning in HIV+ individuals, and that such alterations could be useful as biomarkers of worsening HAND. METHODS: mRNA was isolated from the monocytes of 86 HIV+ adults and analyzed with the Illumina HT-12 v4 Expression BeadChip. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

86 Samples

Download data: TXT

(Submitter supplied) HIV-related fatigue is multi-causal in origin and potentially related to mitochondrial dysfunction caused by toxicity from nucleoside reverse transcriptase inhibitor (NRTI) antiretroviral therapy. CD14+ cells are undifferentiated macrophages, vulnerable to HIV infection, and easily accessible for gene expression experiments in a purified cell population. We utilized a novel mitochondrially-specific gene expression microarray to assess mitochondrial and nuclear genes in CD14+ cells of low- and high-fatigued, NRTI-treated HIV/AIDS patients (n=5 each). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL9392

15 Samples

Download data: CEL