Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Sequencing for bystander-activated OT-1 memory T cells during PR8 infection

PROVIDER: PRJNA792841 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17356300.fastq.gz	Fastqsanger.gz
	SRR17356301.fastq.gz	Fastqsanger.gz
	SRR17356302.fastq.gz	Fastqsanger.gz
	SRR17356303.fastq.gz	Fastqsanger.gz
	SRR17356304.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 17

Similar Datasets

Gene expression profile of influenza virus antigen-activated or in vitro stimulated murine CD8+ T cells on day 7

Project description:The precise timing and pathway of memory CD8+ T cells differentiation from naïve T cells have remained undetermined. We found the smaller cell-size and slower cell cycling cells were segregated from the proliferative larger cell-size activated T cell pool at the peak of infection. Gene signature of the smaller cell-size slower cycling cells and the large cell-size proliferative cells was compared to the signature of naïve, effector, central and effector memory CD8+ T cells. Total RNA samples were prepared from sorted populations of larger or smaller cell-sized cells from spleens of influenza virus PR8-OVA-infected mice on day 7 p.i. or from in vitro 7 days culture after stimulation with plate-bound anti-CD3ε (1.0 μg ml−1) and anti-CD28 mAb (0.5 μg ml−1). Effector T-cell control samples were prepared from SIINFEKL (100 ng ml−1) stimulated OT-I cells after 4 days of in vitro culture with rIL-2 (10 ng/ml) and sorted as CD8+CD44hiCD62Llo. Control bona fide effector memory and central memory T cells were sorted from the spleens of PR8-OVA-infected mice on day 42 p.i. Naive cells were sorted as CD8+CD44loCD62Lhi cells from uninfected C57BL/6 mice.

2015-02-25 | E-GEOD-48219 | biostudies-arrayexpress

Tissue-resident memory T cell reactivation by diverse antigen-presenting cells imparts distinct functional responses [II]

Project description:Temporal transcriptome profiling of TCR-reactivated (P14) and bystander-reactivated (OT-I) memory T cells in the lung and mediastinal lymph node based on Nur77-GFP reporter expression and CD98 expression

2020-04-02 | GSE147907 | GEO

Chronic lymphocytic leukemia skews antigen-specific CD8 T cells leading to dysfunctional memory response

Project description:In a murine, adoptive transfer model of chronic lymphocytic leukemia we injected OT-I cells followed by infection with mCMV-OVA. On day 7 post-infection, OT-I cells from the spleen were FACS sorted and studied with ATAC sequencing and RNA sequencing. In additition to flow cytometry data demonstrating a skewing towards short-lived effector cells and a lower proportion of memory-precursor cells of OT-I cells from CLL mice compared to WT, we also found effector and memory genes epigenetically and transcriptionally altered.

2023-01-19 | GSE185387 | GEO

Transcription profiling of human CD4+ memory T cells reveals they are preferential targets for bystander activation and apoptosis

Project description:There is much evidence that T cells may be activated via mechanisms which act independently of direct TCR ligation. Despite this, the question of whether such forms of âbystanderâ T cell activation occur during immune responses is hotly debated. To address some outstanding questions, we set up an in vitro system within which to analyse bystander T cell activation in human T cells, in the absence of the possibility for TCR cross-reactivity. In addition, we have investigated the genetic, phenotypic, and functional characteristics of bystander activated T cells. Here, we show that bystander T cell activation is, indeed, observed during a specific immune response, and that it occurs preferentially amongst CD4+ memory T cells. Furthermore, bystander activated T cells display a distinct gene expression profile. The mechanism for bystander T cell activation involves soluble factors, and the outcome is an elevated level of apoptosis. This may provide an explanation for the attrition of T cell memory pools of heterologous specificity during immune responses to pathogens such as viruses. Experiment Overall Design: Three conditions tested with 4 biological repilicates in each: Experiment Overall Design: Resting cells - cells expressing a TCR which does not specifically recognize SEB (VÎ²13.1 T cells) and did not upregulate the activation marker CD25 in response to transwell SEB-stimulated co-culture over a 5 day period. Experiment Overall Design: Bystander activated cells - cells expressing a TCR which does not specifically recognize SEB (VÎ²13.1 T cells), but which did upregulate the activation marker CD25 in response to transwell SEB-stimulated co-culture over a 5 day period. Experiment Overall Design: Directly activated cells - cells expressing a TCR which is known to specifically recognize SEB (VÎ²17 T cells), and which did upregulate the activation marker CD25 in response to direct SEB stimulation over a 5 day period.

2009-02-21 | E-GEOD-13738 | biostudies-arrayexpress

Human CD4+ memory T cells are preferential targets for bystander activation and apoptosis

2009-02-11 | GSE13738 | GEO

Replicative history marks transcriptional and functional disparity in the memory T cell pool

Project description:Mice received DivisionRecorder+ or unmodified OT-I T cells and were challenged with LM-OVA. During memory phase we FACS sorted memory CD8+ OT-I T cells (and sub-sorted RFP+ and RFP- cells in the case of DivisionRecorder+ cells) from spleen material and performed single cell RNA sequencing.

2021-11-01 | GSE169154 | GEO

Gene expression comparing Memory Bystander T cell Function with and without LCMV infection

Project description:We compared the effect of chronic virus infection on the gene expression of memory bystander T cells.

2019-01-25 | E-MTAB-7594 | biostudies-arrayexpress

RNA-sequencing of bystander-activated memory-like CD4+ T cells

Project description:RNA-sequencing of bystander-activated memory-like CD4+ T cells

| PRJNA510605 | ENA

Gene expression profile of CD8+ T cell subtypes

Project description:OT-I naïve T cells, central memory T cells, effector memory T cells and skin infiltrating T cells were sorted out from mice at different timepoints post infection OT-I cells from 15-20 mice were pooled together for each microarray dataset

2017-02-21 | GSE79805 | GEO

Whole-genome microarray analysis of primary, secondary, tertiary and quaternary memory CD8 T cells

Project description:The transcriptome of naive OT-I T cells was compared to memory CD8 T cells after 1, 2, 3, or 4 infection with ovalbumin expressing Listeria monocytogenes (LM-OVA). Naive Thy1.1 OT-I T cells were adoptively transferred into Thy1.2 naive hosts prior to infection with LM-OVA. The resulting memory CD8 T cell population was again adoptively transferred into naive hosts and the recipient mice were again infected with LM-OVA. The adoptive transfer was repeated up to four times to generate memory CD8 T cells with up to four consecutive antigen stimulations. Three individual mice were analyzed for each group. For quaternary memory CD8 T cells, spleens from two to three mice were pooled for each sample. Naive OT-I T cells served as control samples. http://dx.doi.org/10.1016/j.immuni.2010.06.014

2010-07-09 | E-GEOD-21360 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data