GEO DataSets

Analysis of Vdelta1 (Vd1) and Vdelta2 (Vd2) gamma delta (gd) T cells following stimulation with a non-TCR mediated agonist, PMA/ionomycin. Vd1 and Vd2 cells differ in tissue tropism, TCR usage, and agonist response. Results provide insight into the functional differences between Vd1 and Vd2 cells.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 agent, 2 cell type, 3 other sets

Platform:

GPL571

Series:

GSE3720

12 Samples

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(Submitter supplied) The two major human gd T cell subsets, Vd1 and Vd2, display differences in tissue tropism and agonist responses, but we have little insight into global differences that may exist at the gene expression level. This is due to the small numbers of these cells that can be obtained from healthy donors, which limit comprehensive, comparative gene expression analyses. We established a culture method that expands Vd1 and Vd2 cells from the same PBL preparation to levels sufficient for sorting and microarray analysis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1735

Platform:

GPL571

12 Samples

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(Submitter supplied) Comparison of gd T cell clones with ab T cell clones that responded to the same antigen. Clones were identically stimulated with ConA/IL-2 and analyzed with two separate microarrays. Keywords: other

Organism:

Bos taurus

Type:

Expression profiling by array

Platforms:

GPL2113 GPL2112

4 Samples

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(Submitter supplied) Vaccination of animals with leptospiral vaccine results in the generation of antigen-responsive CD4 alphabeta T cells and WC1 gammadelta T cells which proliferate and produce effector cytokines following secondary encounter with antigen. In these studies we compared the gene expression of these antigen-stimulated T cell subsets to each other by microarray. In addition, each activated T cell population was compared to a reference sample, consisting of unstimulated peripheral blood mononuclear cells. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL363

12 Samples

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(Submitter supplied) gd T cell infiltration into tumours usually correlates with improved patient outcome, but both tumour-promoting and tumoricidal effects of γδ T cells have been documented. Human γδ T cells can be divided into functionally distinct subsets based on T cell receptor Vd usage. Still, the contribution of these different subsets to tumour immunity remains elusive. Here, we provide a detailed gd T cell profiling in colon tumours, comprising mRNA quantification using the Nanostring platform, in combination with mass and flow cytometry and TCR sequencing. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL32993

11 Samples

Download data: RCC

(Submitter supplied) Gene expression analysis comparison of ex vivo isolated GD T cell subpopulations Under non-pathological conditions, human gd T cells represent a small fraction of CD3+ T cells in peripheral blood (1-10%). They constitute a unique subset of T lymphocytes that recognize stress ligands or non-peptide antigens through MHC-independent presentation. Major human gd T cell subsets, Vd1 and Vd2, expand in response to microbial infection or malignancy, but possess distinct tissue localization, antigen recognition, and effector responses. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

8 Samples

Download data: TXT

(Submitter supplied) To elucidate the difference between CD161-negative TCR Vdelta1 and CD161-positive TCR Vdelta1 cells, we performed GeneChip analysis of these two types of cells in peripheral blood mononuclear cells from healthy donors. Such analysis identified 192 genes that were expressed at two-fold or higher levels on CD161-positive TCR Vdelta1 cells than on CD161-negative TCR Vdelta1 cells. Expression of three genes (CCL3, CCL4 and CD161) from this signature was quantified in the same RNA samples by real-time PCR.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

6 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:

GPL10558 GPL11154

140 Samples

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(Submitter supplied) We performed RNA-Seq transcriptome profiling on 29 immune cell types consituting peripheral blood mononuclear cells (PBMCs) sorted from 4 Singaporean-Chinese individuals (S4 cohort). We also performed RNA-Seq and microarray transcriptome profiling of PBMCs from an extended cohort of 13 individuals (S13 cohort). The data was used first to characterize the transcriptomic signatures and relationships among the 29 immune cell types. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

127 Samples

Download data: TXT

(Submitter supplied) The experiment aims to identify mRNAs illustrating the unique nature of the gd T-cell subtype The overall aim of the study was to elucidate gdT-cells as a producer of specific cytokines

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

22 Samples

Download data: CEL

(Submitter supplied) γδ T lymphocytes represent ~1% of human PBMC and even more cells in most tissues of vertebrates. Although they have important anticancer functions, most current scRNA-Seq studies do not identify γδ T lymphocytes since their transcriptomes at the single cell level are unknown. Here we show that high resolution clustering of large scRNA-Seq data sets and a combination of gene signatures allow the specific detection of human γδ T lymphocytes and identification of their TCRVδ1 and TCRVδ2 subsets in large data sets from complex cell mixtures. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21697 GPL21290

6 Samples

Download data: TSV

(Submitter supplied) Analysis of gene expression at RNA level by 4 different cell sorted Vg9Vd2 subsets (Subset 1=CD28+CD27+, Subset2=CD28-CD27+, Subset 3=CD28-CD7-CD16-, Subset 4 = CD28-CD27-CD16+). Results highlight differences in RNA expression characterising these four cell populations into distinct phenotypic subsets with distinct functional potential

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

10 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL20301 GPL24676

46 Samples

Download data: CSV, JSON, MTX, TSV

(Submitter supplied) Gamma delta (γδ) T cells reside within human tissues including tumors, but their role in mediating anti-tumor response with immune checkpoint inhibition is unknown. Using single-cell approaches, we found that kidney cancers are infiltrated by diverse Vδ2- γδ T cells, with equivalent representation of Vδ1+ and Vδ1- cells, that are distinct from γδ T cells found in normal human tissues. These tumor-resident Vδ2- T cells can express the transcriptional program of exhausted alpha beta (ab) CD8+ T cells as well as canonical markers of terminal T cell exhaustion including PD-1, TIGIT and TIM-3. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL24676

4 Samples

Download data: CSV, JSON, MTX, TSV

(Submitter supplied) Gamma delta (γδ) T cells reside within human tissues including tumors, but their role in mediating anti-tumor response with immune checkpoint inhibition is unknown. Using single-cell approaches, we found that kidney cancers are infiltrated by diverse Vδ2- γδ T cells, with equivalent representation of Vδ1+ and Vδ1- cells, that are distinct from γδ T cells found in normal human tissues. These tumor-resident Vδ2- T cells can express the transcriptional program of exhausted alpha beta (ab) CD8+ T cells as well as canonical markers of terminal T cell exhaustion including PD-1, TIGIT and TIM-3. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

42 Samples

Download data: VCF

(Submitter supplied) More than 50% of all patients with colorectal cancer (CRC) develop liver metastasis (CLM) that are characterized by poor prognosis and lack of reliable prognostic markers. Vd1 T cells are gd T innate-like lymphocytes endowed with a broad array of antitumor functions at peripheral tissues, but little is known about their impact in the pathophysiology of CLM. We assessed the phenotype and functions by flow cytometry, clonotype by gdTCR-sequencing, transcriptional profiles by single cell RNA-sequencing and clinical impact of human Vd1 T cells isolated from peripheral blood (PB), tumor-free liver parenchyma surrounding CLM (TFLP) and metastatic tumor (MT) from a large cohort of CLM patients. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21697

3 Samples

Download data: MTX, TSV

(Submitter supplied) Early in ontogeny, gd T cells emerge from the thymus and directly seed peripheral tissues for in situ immunity, though their function in human tissues is not clear. Through analysis of gd T cells in mucosal and lymphoid tissues across the human lifespan, we reveal age- and site-specific differentiation states, functions, and dynamics. Pediatric tissues uniquely contain newly generated gd T cells with diverse repertoires, exhibiting tissue repair and effector functions. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: MTX, TSV, XLSX

(Submitter supplied) gd T cells recognize unprocessed or non-peptide antigens, respond rapidly to infection, and localize to mucosal surfaces. We have hypothesized that the innate functions of gd T cells may be more similar to those of cells of the myeloid lineage than to other T cells. To begin to test this assumption, we have analyzed the direct response of cultured human and peripheral blood bovine gd T cells to pathogen associated molecular patterns (PAMPs) in the absence of APCs using microarray, real time RT-PCR, proteome array, and chemotaxis assays. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

2 Samples

Download data: CEL

(Submitter supplied) Vdelta2+ TCR sequencing of Vgamma9Vdelta2 T cells from adults and newborns

Organism:

Homo sapiens

Type:

Other

Platform:

GPL15520

8 Samples

Download data: TXT

(Submitter supplied) Checkpoint inhibition (CPI), particularly that targeting the inhibitory co-receptor, programmed cell death protein (PD-1), has transformed cancer care. Although CPI can de repress cancer antigen-specific αβ T cells that ordinarily show PD-1-dependent exhaustion, it can also be efficacious against cancers evading αβ T cell recognition. In such settings γδ T cells have been implicated, but the immunological significance of PD-1 expression by tissue associated human Vδ1+ cells remains uncharacterised. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL33412

31 Samples

Download data: RCC, TXT