Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A time-resolved meta-analysis of consensus gene expression profiles during human T-cell activation

ABSTRACT: A time-resolved meta-analysis of consensus gene expression profiles during human T-cell activation

PROVIDER: PRJNA808752 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

A time-resolved meta-analysis of consensus gene expression profiles during human T-cell activation

Project description:The coordinated transcriptional regulation of activated T-cells is based on a complex dynamic behavior of signaling networks. Given an external stimulus, T-cell gene expression is characterized by impulse and sustained patterns over the course. Here, we analyzed the temporal pattern of activation across different T-cell populations to develop consensus gene signatures for T-cell activation. We applied a meta-analysis of anti-CD3/CD28 induced CD4+ T-cell activation kinetics of publicly available transcriptome-wide time series using a random effects model. We used non-negative matrix factorization, an unsupervised deconvolution method, to infer changes in biological patterns over time. For verification and to further map a wider variety of the T-cell landscape, we performed a time series of transcriptome-wide RNA sequencing on activated Pan T-cells.

2023-11-16 | GSE197067 | GEO

A time-resolved meta-analysis of consensus gene expression profiles during human T-cell activation.

Project description:BackgroundThe coordinated transcriptional regulation of activated T-cells is based on a complex dynamic behavior of signaling networks. Given an external stimulus, T-cell gene expression is characterized by impulse and sustained patterns over the course. Here, we analyze the temporal pattern of activation across different T-cell populations to develop consensus gene signatures for T-cell activation.ResultsHere, we identify and verify general biomarker signatures robustly evaluating T-cell activation in a time-resolved manner. We identify time-resolved gene expression profiles comprising 521 genes of up to 10 disjunct time points during activation and different polarization conditions. The gene signatures include central transcriptional regulators of T-cell activation, representing successive waves as well as sustained patterns of induction. They cover sustained repressed, intermediate, and late response expression rates across multiple T-cell populations, thus defining consensus biomarker signatures for T-cell activation. In addition, intermediate and late response activation signatures in CAR T-cell infusion products are correlated to immune effector cell-associated neurotoxicity syndrome.ConclusionThis study is the first to describe temporally resolved gene expression patterns across T-cell populations. These biomarker signatures are a valuable source, e.g., monitoring transcriptional changes during T-cell activation with a reasonable number of genes, annotating T-cell states in single-cell transcriptome studies, or assessing dysregulated functions of human T-cell immunity.

| S-EPMC10722659 | biostudies-literature

Time-resolved RNA atlas of early human T cell activation (miRNA)

Project description:MicroRNAs are central regulators of the T cell function. We explored RNA expression profiles over the initial 24 h of human CD4+ T cell activation. We found high similarity in time-resolved miRNA expression courses comparing independent activations and different donors. The detected miRNA expression patterns could be grouped into six classes only, each with a defined time course. MiR-155-5p known for its role in T cell immunity showed the most prevalent expression changes, quantified with an hourly increase of about 60 molecules/cell. As demonstrated for miRNA-155-5p, the analysis of time-resolved miRNA and mRNA expression data allowed to increase the validation rate of predicted miRNA targets to close to 90 %. Combining our time-resolved expression analysis with an absolute quantification of miRNA expression changes, gives new insights into miRNA regulatory networks and indicates the functional dominance of specific miRNAs within the early T cell activation.

2020-09-04 | GSE136626 | GEO

Time-resolved RNA atlas of early human T cell activation (mRNA)

2020-09-04 | GSE136625 | GEO

Time-resolved RNA atlas of early human T cell activation (mRNA)

Project description:Time-resolved RNA atlas of early human T cell activation (mRNA)

| PRJNA562891 | ENA

Time-resolved RNA atlas of early human T cell activation (miRNA)

Project description:Time-resolved RNA atlas of early human T cell activation (miRNA)

| PRJNA562892 | ENA