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ATAC-seq profiling of control or Ptpn2-null P14 CD8+ T-cell subsets from mice chronically infected with LCMV clone 13

ABSTRACT: ATAC-seq profiling of control or Ptpn2-null P14 CD8+ T-cell subsets from mice chronically infected with LCMV clone 13

PROVIDER: PRJNA554959 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9695860_1.fastq.gz	Fastqsanger.gz
	SRR9695860_2.fastq.gz	Fastqsanger.gz
	SRR9695870_1.fastq.gz	Fastqsanger.gz
	SRR9695870_2.fastq.gz	Fastqsanger.gz
	SRR9695880_1.fastq.gz	Fastqsanger.gz

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ATAC-seq profiling of control or Ptpn2-null P14 CD8+ T-cell subsets from mice chronically infected with LCMV clone 13

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10X single-cell RNASeq profiling of control or Ptpn2-null P14 CD8+ T-cells from mice chronically infected with LCMV Clone 13

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10X single-cell RNASeq profiling of control or Ptpn2-null P14 CD8+ T-cells from mice chronically infected with LCMV Clone 13

Project description:5 distinct populations of exhausted CD8+ T cells occur in chronic LCMV Clone 13 infected mice depleted of CD4+ T cells

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RNA-seq of LCMV GP33-specific CD8 TCR transgenic cells (P14) primed at the onset versus in the midst of persistent LCMV-Clone 13 viral infection

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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.

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Bulk RNA sequencing of DGKa deficient and wildtype P14 CD8 T cells after LCMV Clone 13 infection

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10X single-cell RNASeq profiling of GP33-tetramer+ CD8+ T-cells from mice chronically infected with LCMV Clone 13

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Gene expression profile analysis of mouse whole spleen following infection by lymphocytic choriomeningitis virus (LCMV), comparing LCMV-Armstrong and LCMV-Clone 13 expression patterns at 0, 5, 9, and 30 days

Project description:To identify mechanisms behind immunosuppression during virus infections, we infected mice with LCMV-Armstrong and LCMV-Clone 13 expression patterns. LCMV-Armstrong induces a T-cell reaction that resolves infection within 8-10 days, while LCMV-Clone13 generates a persisten infection through immunosuppression. We used microarray to uncover splenic gene expression patterns specific to each LCMV infection at 5, 9, and 30 days C57BL6 mice, 6-10 weeks old, were infected with LCMV-Armstrong and LCMV-Clone 13 or left uninfected (naïve). At days 5, 9, and 30 whole spleens were harvested for RNA extraction and hybridization on Affymetric microarray.

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