Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single cell RNA sequencing analysis of sorted T and B cells following natural primary and secondary DENV infection

ABSTRACT: Viable T cells (CD3+ CD19-) and B cells (CD3- CD19+) were sorted from PBMC samples obtained from 6 individuals experiencing either natural primary or natural secondary DENV infection. Single cell RNA sequencing analysis was performed on 2-3 time points per subject

ORGANISM(S): Homo sapiens

PROVIDER: GSE145307 | GEO | 2020/04/22

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Detection of DENV infected cells following natural dengue infection

Project description:Viable T cells (CD3+ CD19-) and B cells (CD3- CD19+) were sorted from PBMC samples obtained from 1 individual experiencing a natural secondary DENV infection. Single cell RNA sequencing analysis was performed on 3 time points

2020-05-17 | GSE147104 | GEO

Temporally integrated single cell RNA sequencing analysis of controlled and natural DENV-1 infections

Project description:Controlled dengue human challenge studies present a unique opportunity to address many longstanding questions in the field of flavivirus biology. These fundamental questions include defining the early immunological signatures of infection, the host/environmental factors that impact disease severity, and the role of preexisting immunity on the development of symptomatic viral infection. However, while several controlled dengue human challenge studies have been performed and appear to clinically recapitulate may features of mild natural DENV infection, limited data are available on how the immunological and transcriptional response elicited by these attenuated challenge viruses compares to the profile associated with a natural, unattenuated DENV infection. To bridge this knowledge gap, we performed scRNAseq analysis on longitudinally collected PBMC samples obtained from 3 individuals (8 time points per subject) enrolled in the SUNY/WRAIR DENV-1 controlled human challenge study. In addition, 3 time points (two acute infection time points, one control time point) from two individuals experiencing a natural DENV-1 infection were analyzed and computationally integrated with the challenge model dataset. This temporally integrated dataset contains a total of 171,208 cells and 22 statistically distinct populations corresponding to all major anticipated leukocyte subsets. While all identified cell populations demonstrated significant and consistant perturbations in their transcriptional profile in response to either natural or experimental DENV infection, conventional monocytes respond most robustly to infection across all subjects and study groups from an unbiased transcriptional perspective. Using these data, core sets of genes that were consistently induced by either natural or experimental DENV were identified, and the overlap between the two arms of the study assessed.

2021-01-01 | GSE154386 | GEO

Detection of DENV infected cells following natural dengue infection

Project description:Detection of DENV infected cells following natural dengue infection

| PRJNA613039 | ENA

Single cell RNA sequencing analysis of sorted T and B cells following natural primary and secondary DENV infection

Project description:Single cell RNA sequencing analysis of sorted T and B cells following natural primary and secondary DENV infection

| PRJNA606739 | ENA

Single cell RNA sequencing analysis of CD8+ T cell subsets following DENV-vaccine administration

Project description:PBMC-derived CD8 T cell activation and gene expression profiles were assessed 14 days following a single dose of a candidate live-attenuated tetravalent denge virus vaccine (DENVax). Three distinct populations of CD8+ T cells were isolated by flow cytometric sorting: 1) CD3+ CD8+ CD38- HLA-DR- T cells, 2) CD3+ CD8+ CD38+ HLA-DR+ T cells, and 3) CD3+ CD8+ CD71+ HLA-DR+ T cells

2019-08-05 | GSE132950 | GEO

Bulk ATAC-Seq on sorted cord blood hematopoietic populations

Project description:Bulk ATAC-Seq was performed on human cord-blood derived hematopoietis popuations using the following markers: LT-HSC; CD34+CD38-CD45RA-CD90+CD49f+ ST-HSC; CD34+CD38-CD45RA-CD90-CD49f- MLP; CD34+CD38-CD45RA+ CMP; CD34+CD38+ CD10-CD45RA-Flt3+CD71- GMP; CD34+CD38+ CD10-CD45RA+ CD71- MEP; CD34+CD38+ CD10-CD45RA-Flt3-CD71+ T cell; CD3+CD19- B cell; CD19+CD3- NK cell; CD56+CD3-CD19-CD14- Granulocyte; CD14+CD15+CD3-CD19- Monocyte; CD14+CD15-CD3-CD19- DC; CD11c+CD45+ Erythroid cell; CD71+GPA+

| EGAS00001004742 | EGA

Expression profiling comparisons of human PBMC treated with class I/IIb or class IIa HDAC inhibitors

Project description:The aim of this study was to identify differential gene expression resulting from the inhibition of class IIa HDACs in human PBMC. Human PBMC were cultured ex vivo with a mitogenic stimulus (1 ug/ml phytohemagglutinin, PHA) for 60 hours concurrent with exposure to vehicle (DMSO), vorinostat (3 uM), or TMP195 (3 uM). In addition to the whole PBMC populations, a portion of the cultures treated with DMSO or TMP195 were used for FACS purification of mutually exclusive CD3+ (T cell), CD19+ (B cell), and CD14+ (monocyte) populations. All samples were then processed for RNA extraction, labeling, and hybridization to Affymetrix arrays. Vehicle vs. vorinostat vs. TMP195 treatments in PBMC; Vehicle vs. TMP195 treatment in CD3+, CD19+ or CD14+ cells

2013-03-24 | E-GEOD-44621 | biostudies-arrayexpress

Transcriptional analysis of DENV-elicited inflammation following experimental human DENV-1 challenge

Project description:The objective of this analysis was to determine the transcriptional signature associated with experimental DENV-1 infection in human volunteers. Nine flavivirus naive volunteers were challenged with an attenuated DENV-1 strain - 45AZ5 - and blood collected for RNA extraction and transcriptional analysis on days 0, 8, 10, 14, and 28 post challenge using PAXgene collection tubes. Total RNA was isolated from the collection tubes and subjected to RNAseq analysis to identify genes and gene sets that were differentially expressed across the infection time course.

2022-08-30 | GSE182482 | GEO

Transcriptional analysis of DENV-elicited inflammation following experimental human DENV-3 challenge

Project description:The objective of this analysis was to determine the transcriptional signature associated with experimental primary DENV-3 infection in human volunteers. Nine flavivirus naive volunteers were challenged with an attenuated DENV-3 strain - CH53489 - and blood collected for RNA extraction and transcriptional analysis on or around study days 0, 6, 8, 10, 14, and 28 post challenge using PAXgene collection tubes. Total RNA was isolated from the collection tubes and subjected to RNAseq analysis to identify genes and gene sets that were differentially expressed across the infection time course.

2024-02-26 | GSE216328 | GEO

Temporally integrated single cell RNA sequencing analysis of controlled and natural DENV-1 infections

Project description:Temporally integrated single cell RNA sequencing analysis of controlled and natural DENV-1 infections

| PRJNA646102 | ENA