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Transcriptome analysis of various TOX+ and TOX- tumor-infiltrating CD8 T cells and in vitro TOX over-expressing T cells.

ABSTRACT: Transcriptome analysis of various TOX+ and TOX- tumor-infiltrating CD8 T cells and in vitro TOX over-expressing T cells.

PROVIDER: PRJNA523937 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8614920_1.fastq.gz	Fastqsanger.gz
	SRR8614920_2.fastq.gz	Fastqsanger.gz
	SRR8614930_1.fastq.gz	Fastqsanger.gz
	SRR8614930_2.fastq.gz	Fastqsanger.gz
	SRR8614940_1.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of various TOX+ and TOX- tumor-infiltrating CD8 T cells and in vitro TOX over-expressing T cells.

Project description:TOX is selectively expressed in tumor-infiltrating CD8 T cells however the role of TOX in peripheral CD8 T cells is not known. The two goals of this study are to elucidate transcriptional changes between TOX-sufficient and TOX-deficient tumor infiltrating CD8 T cells and to elucidate the molecular program induced by TOX overexpression in peripheral CD8 T cells.

2019-06-24 | GSE126973 | GEO

ATACseq profiling of various TOX+ and TOX- tumor-infiltrating CD8 T cells

Project description:TOX is selectively expressed in tumor-infiltrating CD8 T cells however the role of TOX in peripheral CD8 T cells is not known. The goal of this study is to elucidate changes in chromatin accessibility determined by ATAC-seq between TOX-sufficient and TOX-deficient tumor infiltrating CD8 T cells isolated from murine tumors.

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ATACseq profiling of various TOX+ and TOX- tumor-infiltrating CD8 T cells

Project description:ATACseq profiling of various TOX+ and TOX- tumor-infiltrating CD8 T cells

| PRJNA523939 | ENA

Next Generation Sequencing of CNS-infiltrating Tox-sufficient and -deficient OT-1 cells in ODC-OVA mice 7 days after LCMV-OVA infection

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goal of this study is to compare the transcriptome of CNS-infiltrating OT-1 WT and Tox-deficient cells during effector phase (7 days after infection with LCMV-OVA)

2018-05-17 | GSE93804 | GEO

Innate lymphoid cell development requires TOX-dependent generation of a common ILC progenitor

Project description:Subtypes of innate lymphoid cells (ILC), defined by effector function and transcription factor expression, have recently been identified. In the adult, ILC derive from common lymphoid progenitors in bone marrow, although transcriptional regulation of the developmental pathways involved remains poorly defined. TOX is required for development of lymphoid tissue inducer cells, a type of ILC3 required for lymph node organogenesis, and NK cells, a type of ILC1. We show here that production of multiple ILC lineages requires TOX, as a result of TOX-dependent development of common ILC progenitors. Comparative transcriptome analysis demonstrated failure to induce various aspects of the ILC gene program in the absence of TOX, implicating this nuclear factor as a key early determinant of ILC lineage specification. TOX KO vs. wild tyype

2015-04-27 | E-GEOD-65850 | biostudies-arrayexpress

Oncogenic role of TOX in CTCL

Project description:TOX is a nuclear factor essential for the development of CD4+ T cells in the thymus. TOX is found to be aberrantly up-regulated in the skin biopsies and in the blood CD4+ T cells of cutaneous T cell lymphoma. The goal of this study is to identify potential transcriptional targets of TOX in CTCL by comparison between TOX shRNA transfected CTCL cells (Hut78 and HH) and control CTCL cells. Two color experiment. Lentivirus transduced control vector vs. TOX shRNA vectors on Hut78 and HH cell lines. Biological replicates: 3 control replicates, 3 shRNA tansduced replicates for each cell line.

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Oncogenic role of TOX in CTCL

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TOX induces T cell IL-10 production in a BATF-dependent manner

Project description:TOX is a member of the HMG-Box transcription factors and plays important roles in thymic T cell development. Outside of the thymus, however, TOX is also highly expressed by CD8 and CD4 T cells in various states of activation and in settings of cancer and autoimmune disease. In CD4 T cells, TOX has been primarily studied in T follicular helper (TFH) cells where it , along with TOX2 promotes TFH differentiation by regulating key TFH-associated genes and suppressing CD4 cytotoxic T cell differentiation. However, the role of TOX in other Th cell subtypes is less clear. In our study, we show that TOX is expressed in several physiologically-activated Th subtypes and its ectopic expression modestly enhances the in vitro differentiation of Th2 and Treg cells. TOX overexpression also induced the expression of a small number of genes in unpolarized Th cells involved in cell activation (Pdcd1, PD-1), cellular trafficking (Ccl3, Ccl4, Xcl1) and in suppressing inflammation (Il10) that was conserved in multiple Th subtypes. We additionally show that TOX co-occupies these genes with the transcription factor BATF and that TOX-induced expression of IL-10, but not PD-1, is BATF-dependent. Based on these data, we propose a model where TOX regulates Th cell chemotactic genes involved in facilitating dendritic cell-T cell interactions and aids in the resolution or prevention of inflammation through the production of IL-10.

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Innate lymphoid cell development requires TOX-dependent generation of a common ILC progenitor

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TOX Transcriptionally and Epigenetically Programs CD8 T cell Exhaustion [WT vs TOX-KO RNA-Seq]

Project description:Transcriptional and epigenetic features were detected in WT versus TOX-/- P14 T cells following 8 days of Cl-13 infection and in in vitro differentiated CD8 T cells or NIH3T3 fibroblasts following retroviral transduction with control or TOX

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