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Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulation CD8 Repeat]

ABSTRACT: Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulation CD8 Repeat]

PROVIDER: PRJNA823723 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18645904.fastq.gz	Fastqsanger.gz
	SRR18645905.fastq.gz	Fastqsanger.gz
	SRR18645906.fastq.gz	Fastqsanger.gz
	SRR18645907.fastq.gz	Fastqsanger.gz
	SRR18645908.fastq.gz	Fastqsanger.gz

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Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulation CD8 Repeat]

Project description:Here, we provide a dataset from a repeat RNA-seq from mouse antigen-specific CD8+ T cells in naïve, antigen-primed, and antigen-primed plus costimulated states. These were used to measure splicing changes between groups and compare levels of RNA Binding Protein transcript expression.

2022-04-08 | GSE200237 | GEO

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulated CD8]

Project description:Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulated CD8]

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Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [splicing]

Project description:Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [splicing]

| PRJNA823721 | ENA

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo

Project description:Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo

| PRJNA823718 | ENA

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [splicing]

Project description:Here, we provide deep RNA-seq from mouse antigen-specific CD8+ T cells in naïve, antigen-primed, and antigen-primed plus costimulated states. This was used to measure splicing changes between groups.

2022-04-08 | GSE200239 | GEO

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [Costimulated CD8]

Project description:Here, we provide RNA-seq from mouse antigen-specific CD8+ T cells in naïve, antigen-primed, and antigen-primed plus costimulated states. This was used to compare levels of RNA Binding Protein transcript expression.

2022-04-08 | GSE200236 | GEO

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [CRISPR]

Project description:Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [CRISPR]

| PRJNA823722 | ENA

Antigen-specific CD8+ T cell transcriptome and splicing changes after costimulation in vivo [CRISPR]

Project description:Here we provide a dataset of deep RNA sequencing from mouse CD8+ T cell CRISPR-mediated knockout of RBP Tardbp after adoptive transfer and antigen+costimulatory stimulus (in mice) which we show is critical for optimal CD8+ T effector function.

2022-04-08 | GSE200238 | GEO

Gene expression signature of in vitro activated CD8 T cells in response to antigen and B7-1 alone or along with IL-21

Project description:Differentiation of naive CD8 T cells into cytotoxic effector cells requires three distinct signals- antigen (signal 1), costimulation -B7-1 (signal 2) and cytokine, either interleukin-12, interferon-a/b, or IL-21 (signal 3). Interaction of naive CD8 T cells with antigen and B7-1 programs cell division and proliferation whereas the presence of cytokines- IL-12, IFNa/b or IL-21 promote survival, differentiation and memory establishment. In the absence of signal 3, the cells interacting with antigen/B7-1 undergo tolerance induction. Previous work had analyzed the regulation of mRNA expression changes induced by IL-12 and IFN-a and cells stimulated with antigen, B7-1 and cytokine by comparing mRNA expression levels in naïve CD8 T cells, cells stimulated with 2 signals (antigen and B7-1) (Agarwal, P.A., A. Raghavan, S.L. Nandiwada, J.M. Curtsinger, P.R. Bohjanen, D.L. Mueller and M.F. Mescher. Gene regulation and chromatin remodeling by IL-12 and Type I interferon in programming for CD8 T cell effector function and memory. J. Immunol. 183:1695-1704 (2009). PMCID: PMC2893405). That microarray data was deposited in the NCI GEO database and can be found at http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc_GSE15930. The objective of the current study was to carry out the same analysis to determine IL-21-dependent changes in mRNA expression in CD8 T cells responding to antigen and B7-1-dependent costimulation in the absence or presence of IL-21.

2015-09-30 | GSE70136 | GEO

Myeloid Niches Sustain Antitumor T Cells and License PD-1 Blockade via CD28 Costimulation

Project description:The local mechanisms regulating exhaustion of tumor-infiltrating lymphocytes (TILs) and responsiveness to PD-1 blockade remain partly elucidated. In human ovarian cancer we show that tumor-reactive intraepithelial (ie)CD8+ TILs engaged by antigen are polyfunctional and upregulate PD-1, which restrains their effectiveness. PD-1+ TILs exhibit a continuum of TCR-engaged/exhausted states with variable effector fitness related to CD28 costimulation, which they receive in intraepithelial niches involving myeloid antigen-presenting cells (mAPC). Following PD-1 blockade, activation of TILs requires CD28 costimulation mediated in situ by tumor mAPCs, which is locally enhanced by CTLA-4 blockade. CD40 ligand also amplifies TIL responses in situ, especially in tumors in which mAPCs are not activated. Thus, dysfunctional and exhausted TILs, in a state of TCR engagement but without proper CD28 costimulation by mAPCs in situ, are unlikely to fully benefit from PD-1 blockade.

2021-10-12 | GSE178245 | GEO

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