GEO DataSets

(Submitter supplied) We investigated the effects of HIV infection on immune cell exhaustion at the transcriptomic level by analyzing single-cell RNA sequencing of peripheral blood mononuclear cells from four healthy subjects (37,847 cells) and six HIV-infected donors (28,610 cells). We identified nine immune cell clusters and eight T cell subclusters according to their unique gene expression programs; three of these (exhausted CD4+ and CD8+ T cells and interferon-responsive CD8+ T cells) were detected only in samples from HIV-infected donors. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

7 Samples

Download data: MTX, TSV

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

251 Samples

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(Submitter supplied) During acute viral infections in mice, IL-7Rα and KLRG1 together are used to distinguish the short-lived effector cells (SLEC; IL-7RαloKLRGhi) from the precursors of persisting memory cells (MPEC; IL-7RαhiKLRG1lo). We here show that these markers can be used to define distinct subsets in the circulation and lymph nodes during the acute phase and in ‘steady state’ in humans. In contrast to the T cells in the circulation, T cells derived from lymph nodes hardly contain any KLRG1-expressing cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

18 Samples

Download data: TXT

(Submitter supplied) We examined the gene expression profiles in ex vivo human CD4+ and CD8+ T cells from untreated HIV-infected individuals at different clinical stages and rates of disease progression. Profiles of pure CD4+ and CD8+ T cells subsets from HIV-infected nonprogressors who controlled viremia were indistinguishable from HIV-uninfected individuals. Similarly, no gene clusters could distinguish T cells from individuals with early from chronic progressive HIV infection, whereas differences were observed between uninfected or nonprogressors versus early or chronic progressors. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2649

Platform:

GPL96

40 Samples

Download data: CEL

Analysis of CD4+ and CD8+ T cells from HIV patients at different clinical stages and rates of disease progression. Changes in T-cell function are a hallmark of HIV infection. Results provide insight into the pathogenic mechanisms in HIV infections that lead to these changes in T-cell function.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 cell type, 4 disease state sets

Platform:

GPL96

Series:

GSE6740

40 Samples

Download data: CEL

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

140 Samples

Download data

(Submitter supplied) Bulk RNA-sequencing of sorted CD8 T cell subsets from recent-onset T1D subjects treated with alefacept

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

24 Samples

Download data: CSV

(Submitter supplied) Bulk RNA-sequencing of sorted CD8 T cells from recent-onset T1D subjects treated with alefacept.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

116 Samples

Download data: CSV

(Submitter supplied) We investigate the role of resident memory T cells in protective immunity in HIV infection Funding sources: Michael R. Betts: NIH/NIAID R01 AI076066 and R01 AI118694 Marcus Buggert: Swedish Research Council (Dnr 537-2014-6829), Karolinska Institutet, Magnus Bergvall and Lars Hiertas Stiftelse

Organism:

Homo sapiens

Type:

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

Platforms:

GPL21697 GPL20301

217 Samples

Download data: BW, CSV, TXT

(Submitter supplied) PD-1 checkpoint inhibition has shown promising results in patients with hepatocellular carcinoma, inducing objective responses in approximately 20% of the treated patients. The role of other co-inhibitory molecules and their individual contribution to T cell dysfunction in liver cancer, however, remain largely elusive. Here we perform for the first time a comprehensive mRNA profiling of CD8 T cells in a murine model of autochthonous liver cancer by comparing the whole genome transcriptome of naive, functional effector and exhausted, tumor-specific CD8 T cells. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL19096

11 Samples

Download data: TXT

(Submitter supplied) HIV-1 infection of resting memory CD4+ T cells forms a barrier to curing HIV-1. Identification of immune biomarkers that correlate with HIV-1 reservoir size could aid with assessing efficacy of HIV-1 eradication strategies, especially in pediatric infections where blood sampling is limited. In adults, the immune exhaustion marker PD-1 on central memory CD4+ T cells (Tcm) correlates with HIV-1 reservoir size. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

16 Samples

Download data: TXT

(Submitter supplied) The mechanisms by which HIV increases susceptibility to tuberculosis and other respiratory infections are incompletely understood. We used transcriptomics of paired whole bronchoalveolar lavage (BAL) fluid and peripheral blood mononuclear cells to compare the effect of HIV at the lung mucosal surface and in the peripheral blood. The large majority of HIV-induced differentially expressed genes (DEGs) were specific to either the peripheral or lung mucosa compartments (1,307/1,404, 93%). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

28 Samples

Download data: DIFF

(Submitter supplied) We utilized CITESeq to investigate changes in immune cell frequencies and their transcriptomic signatures in between PBMCs obtained from healthy women and matched subjects living with HIV or cardiovascular disease from the WIHS cardiovascular sub-study

Organism:

Homo sapiens

Type:

Other

Platform:

GPL24676

5 Samples

Download data: CSV

(Submitter supplied) The study identifies cell type specific differentially expressed genes in peripheral blood mononuclear cells affected by THC infusion in two human subjects. Individual gene expression gene analysis and gene set enrichment analysis show that THC affects gene expression in the functional domains of immune response and cell proliferation. One of THC receptor genes, CNR2, is highly expressed in B cells and THC perbute CNR2 co-expressed genes in B cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

4 Samples

Download data: MTX, TSV

(Submitter supplied) Chronic HIV-1 infection is characterized by T-cell dysregulation that is partly restored by antiretroviral therapy. Autophagy is a critical regulator of T-cell function. Here, we demonstrate a protective role for autophagy in HIV-1 disease pathogenesis. Targeted analysis of genetic variation in core autophagy gene ATG16L1 revealed the previously unidentified rs6861 polymorphism, which correlated functionally with enhanced autophagy and clinically with improved survival of untreated HIV-1-infected individuals. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

32 Samples

Download data: TXT

(Submitter supplied) The primary goal was to determine the phenotype of PD-1+CD57- CD8+ T cells compared to other CD8+ memory T cells based on single cell RNA sequencing. Peripheral blood mononuclear cells (PBMCs) from control and hypertensive samples were included. Secondary analyses include comparing gene expression changes in these cells between control and hypertensive individuals.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

2 Samples

Download data: MTX, TSV

(Submitter supplied) We identified decreases in circulating CCR10+ Tregs in human hypertension. In order to better determine the phenotype of these cells, we performed bulk RNA sequencing of flow sorted human CCR10+ versus CCR10- Tregs from healthy control individuals. Results revealed evidence of increased T cell activation in CCR10+ Tregs.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: CSV