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RNA-seq of P14 CD8 T cells during acute LCMV infection

ABSTRACT: RNA-seq of P14 CD8 T cells during acute LCMV infection

PROVIDER: PRJNA632046 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11781400.fastq.gz	Fastqsanger.gz
	SRR11781401.fastq.gz	Fastqsanger.gz
	SRR11781402.fastq.gz	Fastqsanger.gz
	SRR11781403.fastq.gz	Fastqsanger.gz
	SRR11781404.fastq.gz	Fastqsanger.gz

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P14 CD8 T cells during acute LCMV infection

Project description:P14 CD8 T cells during acute LCMV infection

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RNA-seq of P14 CD8 T cells during acute LCMV infection

Project description:We performed RNA-seq, ATAC-seq, and H3K27Ac ChIP-seq on P14 CD8 T cells during acute infection with LCMV Armstrong on days 0 (naïve cells), 9 (memory precursor effector cells (MPEC) and short-lived effector cells (SLECs)), and 40+ (memory cells) post infection.

2021-04-02 | GSE150441 | GEO

ATAC-seq of P14 CD8 T cells during acute LCMV infection

2021-04-02 | GSE150438 | GEO

H3K27Ac ChIP-seq of P14 CD8 T cells during acute LCMV infection

2021-04-02 | GSE150440 | GEO

Primary and secondary CD8 T cells during acute and chronic LCMV infection

Project description:Understanding the response of memory CD8 T cells to persistent antigen re-stimulation and the role of CD4 T cell help is critical to the design of successful vaccines for chronic diseases. However, studies comparing the protective abilities and qualities of memory and naïve cells have been mostly performed in acute infections, and little is known about their roles during chronic infections. Herein, we show that memory cells dominate over naïve cells and are protective when present in large enough numbers to quickly reduce infection. In contrast, when infection is not rapidly reduced, memory cells are quickly lost, unlike naïve cells. This loss of memory cells is due to (i) an early block in cell proliferation, (ii) selective regulation by the inhibitory receptor 2B4, and (iii) increased reliance on CD4 T cell help. These findings have important implications towards the design of T cell vaccines against chronic infections and tumors. 16 samples are analyzed: 3 replicates of secondary effector CD8 P14 T cells at day 8 post-acute lymphocytic choriomeningitis virus (LCMV) infection; 4 replicates of secondary effector CD8 P14 T cells at day 8 post-chronic LCMV infection; 4 replicates of primary effector CD8 P14 T cells at day 8 post-acute LCMV infection; and 5 replicates of primary effector CD8 P14 T cells at day 8 post-chronic LCMV infection.

2011-08-22 | E-GEOD-30962 | biostudies-arrayexpress

Expression data from LCMV-infected P14 and Akt transgenic P14 CD8 T cells

Project description:The PI3K/Akt signaling pathway impacts various aspects of CD8 T cell homeostasis, such as effect versus memory cell differentiation, during viral infection. We used microarrays to determine which downstream molecules were affected and what other signaling pathways were interconnected with the Akt pathway by constitutive activation of Akt in LCMV-infected CD8 T cells. Splenocytes from naive P14/WT or P14/Akt mice were stained with anti-CD8 and anti-Ly5.1, and CD8 T cells were sorted using a FACSAria II instrument. Purified Ly5.1+ CD8 T cells from P14/WT or P14/Akt mice were transferred into B6 mice, which were subsequently infected with LCMV Armstrong. At day 8 post infection, splenocytes were stained with anti-CD8, anti-Ly5.1, anti-KLRG1, and anti-CD127. Following staining, short-lived effector cells (SLECs) and memory precursor effector cells (MPECs) were sorted using the FACSAria II instrument; the purity of the sorted cells was >95%. A total of 5 samples were analyzed, including WT naive, WT SLEC, WT MPEC, Akt naive and Akt SLEC.

2012-03-01 | E-GEOD-36168 | biostudies-arrayexpress

ATAC-seq of P14 CD8 T cells during acute LCMV infection

Project description:ATAC-seq of P14 CD8 T cells during acute LCMV infection

| PRJNA632040 | ENA

Gene expression profile of splenic p14 effector T cells eight days after LCMV infection

Project description:Microarray analyses was employed to determine the gene expression profiles of LCMV-specific p14 CD8+ effector T cells eight days after an acute LCMV Armstrong infection providing a framework to compare and contrast effector function potential of distinct immune cell subsets to CD8+ effector T cells.

2015-06-01 | GSE44410 | GEO

H3K27Ac ChIP-seq of P14 CD8 T cells during acute LCMV infection

Project description:H3K27Ac ChIP-seq of P14 CD8 T cells during acute LCMV infection

| PRJNA632043 | ENA

Whole mouse genome analysis of LCMV-specific CD4 and CD8 T cells throughout acute and chronic LCMV infection.

Project description:CD4 and CD8 T cells display functional defects during chronic infection such as loss of certain cytokines. Recent studies have suggested that CD4 T cells may actually gain other functions, however. Here, we analyzed gene expression profiles from LCMV-specific CD4 and CD8 T cells throughout the response to either acute LCMV or chronic LCMV infection. This alllowed us to identify CD4-specific changes during chronic infection compared to acute infection but also revealed shared core regulators between CD4 and CD8 T cells. LCMV-specific CD4 and CD8 T cells were isolated 6, 8, 15 and 30 days post infection with LCMV Armstrong or LCMV clone 13. Naïve CD4 and CD8 T cells were also isolated from naïve mice as comparisons. Four replicates of each sample were hybridized. The only exception is LCMV-specific CD4 T cells isolated 6 days post infection with LCMV-Arm where only three replicates were hybridized.

2012-12-12 | E-GEOD-30431 | biostudies-arrayexpress

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