Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1299552 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:CD4+CD8+ double-positive T (DPT) cells are typically associated with thymic development but have also been observed in peripheral blood under physiological and pathological conditions. However, their identity, functional significance, and developmental origin in the periphery remain poorly defined. This project was conducted to comprehensively characterize peripheral DPT cells in healthy human donors using single-cell transcriptomic and T cell receptor (TCR) profiling. We aimed to define the molecular features that distinguish peripheral DPT cells from conventional single-positive CD4+ and CD8+ T (SPT) cells. Through the integration of single-cell RNA sequencing and paired TCR sequencing, we explored their transcriptional profiles, clonal architecture, and potential developmental trajectories. This allowed us to uncover unique gene expression patterns and TCR usage biases that suggest peripheral DPT cells represent a distinct, stable T cell subset rather than a transient or intermediate population. In addition, we developed a machine learning-based classifier that can accurately distinguish DPT cells from conventional T cell subsets using transcriptomic features. This approach enabled the identification of key marker genes and molecular pathways underlying the functional specialization of DPT cells. This dataset provides a valuable resource for the immunology community to further investigate peripheral DPT cells in health and disease. Generated from healthy individuals, it serves as a high-quality reference map of normal peripheral T cell states. In our study, this dataset was further integrated with publicly available single-cell datasets derived from patients with immune-related diseases, enabling comparative analyses to explore how the transcriptional identity and abundance of DPT cells may be altered under pathological conditions. By making this healthy reference dataset publicly available, we aim to support future investigations into T cell heterogeneity, immune dysregulation, and disease-specific perturbations of the T cell compartment.
2026-08-01 | GSE304309 | GEO
Project description: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. CD161-negative and CD161-positive TCR Vdelta1cells of three healthy volunteers were isolated from freshly peripheral blood mononuclear cells.
2014-01-09 | E-GEOD-43402 | biostudies-arrayexpress
Project description:Single cell transcriptome and TCR sequencing of FACS-sorted Measles-reactive memory T cells of the peripheral blood of a healthy donor
2021-02-09 | GSE158036 | GEO
Project description: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.
2014-01-09 | GSE43402 | GEO
Project description:This study utilizes multi-omic biological data to perform deep immunophenotyping on the major immune cell classes in COVID-19 patients. 10X Genomics Chromium Single Cell Kits were used with Biolegend TotalSeq-C human antibodies to gather single-cell transcriptomic, surface protein, and TCR/BCR sequence information from 254 COVID-19 blood draws (a draw near diagnosis (-BL) and a draw a few days later (-AC)) and 16 healthy donors.
2020-10-29 | E-MTAB-9357 | biostudies-arrayexpress
Project description:Conventional CD4 and CD8 single positive T cell lineages constitute the main differentiation pathway in the thymus. In human thymus, a minor TCRαβ differentiation pathway diverges from the early double positive stage, consisting of CD10+ PD-1+ cells. These cells are phenotypically and functionally similar to murine agonist-selected intraepithelial T lymphocyte precursors (IELps) which home to the small intestine. Here, the progeny of the human agonist-selected IEL lineage was identified in antigen-inexperienced cord blood (CB) with a polyclonal T cell receptor (TCR) repertoire exhibiting a bias towards early TCR alpha chain rearrangements and elevated autoreactive indices. Single-cell RNA sequencing allowed further delineation of this unconventional lineage in CB. Trajectory analysis, along with TCR repertoire analysis, transcriptomics and proteomics, suggests a precursor-progeny relationship with the thymic IELps. The distinct, heterogeneous CB population can now be defined as CD3+ TCRαβ+ CD4- CCR7- CD26-. Besides recent thymic emigrants, this population also consists of newly identified effector clusters and previously described populations: the suppressive NK receptor expressing CD8+ Treg population, the KIR/NKG2A+ EOMES+ virtual memory population and the CD8αα+ T cell populations. The population shows a discriminating stable HELIOS expression and is exclusively able to downregulate CD8β expression, resulting in double negative T cells. The functional properties of this population suggest that the cells expand on inflammatory cues and exert cytotoxic and proinflammatory activity.
2023-02-10 | PXD033392 | Pride
Project description:This study generated single-cell transcriptomic and surface-protein datasets to examine the heterogeneity of human liver sinusoidal γδ T cells and their association with latent human cytomegalovirus infection. γδ T cells isolated from liver perfusates of healthy living donors were profiled using single-cell RNA sequencing with antibody-derived tags. The dataset includes Vγ9Vδ2 and non-Vγ9Vδ2 γδ T-cell populations from HCMV-seropositive and HCMV-seronegative donors and enables comparison of their transcriptional states, surface phenotypes, differentiation patterns, and TCR repertoires. Paired peripheral-blood γδ T-cell samples were additionally profiled for comparison with liver-derived populations.eir diverse functions.
2026-07-27 | GSE301771 | GEO
Project description:Single cell profiling of peripheral blood mononuclear cells from healthy human donor
| PRJNA474047 | ENA
Project description:We performed whole-genome transcriptomic profiling of RNA from mononuclear cells from bone marrow aspirates taken from healthy individuals. This study complements GSE58335: transcriptomic profiling of peripheral blood mononuclear cells from healthy individuals.
2014-10-27 | GSE61410 | GEO