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Next Generation Sequencing Facilitates Quantitative Analysis of Gene expression profile in CD8+ T cells with TOX-overexpression

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of Gene expression profile in CD8+ T cells with TOX-overexpression

PROVIDER: PRJNA492897 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7895510_1.fastq.gz	Fastqsanger.gz
	SRR7895510_2.fastq.gz	Fastqsanger.gz
	SRR7895511_1.fastq.gz	Fastqsanger.gz
	SRR7895511_2.fastq.gz	Fastqsanger.gz
	SRR7895506_1.fastq.gz	Fastqsanger.gz

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Next Generation Sequencing Facilitates Quantitative Analysis of Gene expression profile in CD8+ T cells with TOX-overexpression

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived TOX associated transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis. Methods: mRNA profiles of human CD8+ T cell overexpressed by TOX lentivirus or NC lentiviruswere generated by deep sequencing, in triplicate, using Illumina. qRT–PCR validation was performed using TaqMan and SYBR Green assays Conclusions: Our study represents the first detailed analysis of TOX associated transcriptomes generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of mRNA content within a cell or tissue. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.

2018-09-25 | GSE120364 | GEO

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.

2019-06-24 | GSE126970 | GEO

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

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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TOX Transcriptionally and Epigenetically Programs CD8 T cell Exhaustion [CT vs TOX ATAC-Seq CD8]

2019-06-19 | GSE132983 | GEO

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

2019-06-19 | GSE132987 | GEO

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

2019-06-19 | GSE132986 | GEO

TOX Transcriptionally and Epigenetically Programs CD8 T cell Exhaustion [CT vs TOX RNA-Seq NIH3T3]

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TOX Transcriptionally and Epigenetically Programs CD8 T cell Exhaustion [CT vs TOX ATAC-Seq CD8]

Project description:TOX Transcriptionally and Epigenetically Programs CD8 T cell Exhaustion [CT vs TOX ATAC-Seq CD8]

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