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Single cell transcriptomic analysis (InDrops) of mouse splenic FoxP3+ regulatory CD4+ T cells isolated from different bins of Nr4a1-GFP expression

ABSTRACT: Single cell transcriptomic analysis (InDrops) of mouse splenic FoxP3+ regulatory CD4+ T cells isolated from different bins of Nr4a1-GFP expression

OTHER RELATED OMICS DATASETS IN: GSE111070GSE109742GSE110547

PROVIDER: PRJNA434261 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6730270.fastq.gz	Fastqsanger.gz
	SRR6730280.fastq.gz	Fastqsanger.gz
	SRR6730290.fastq.gz	Fastqsanger.gz
	SRR6730300.fastq.gz	Fastqsanger.gz
	SRR6730310.fastq.gz	Fastqsanger.gz

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Single cell transcriptomic analysis (InDrops) of mouse splenic FoxP3+ regulatory CD4+ T cells isolated from different bins of Nr4a1-GFP expression

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Single cell transcriptomic analysis (InDrops) of FoxP3+ regulatory CD4+ T cells isolated from the spleen and visceral adipose tissue of wild-type and VAT-TCR transgenic mice

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Single cell RNA-seq of splenic Foxp3+ Treg from WT and Lta-/- mice

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Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and poh1-/- splenic foxp3＋Treg cells

Project description:Purpose: The goals of this study are to compare the transcriptome profiling of Wild Type and poh1-/- splenic foxp3＋Treg cells Methods:Splenic CD4+Foxp3+ (YFP+) cells mRNA profiles of 2-week-old poh1+/+ Foxp3Cre+ wild type and poh1fl/fl Foxp3Cre+ mice were generated by deep sequencing, using Illumina HiSeq 2500. The sequence reads that passed quality filters were analyzed with edgeR. qRT–PCR validation was performed using SYBR Green assays Results:Using an optimized data analysis workflow, we mapped about 50 million sequence reads per sample to the mouse genome (build mm10). Among all genes expressed, 1067 genes were upregulated and1391 genes were downregulated in poh1−/− Foxp3+ Treg cells relative to their expression in POH1 +/+ Treg cells. The gene-expression altered in POH1-ablated cells adversely correlated with those expressed in Treg cells in TCR-dependent manner. The gene sets were downreglated in POH1-deficiency Treg cells encoding various cell-surface receptors and intracellular molecules involved in migration, suppressive function and signature of Treg cells. Conclusions:Gene expression in POH1-deficiency Treg cells was markedly diverse compared with that in POH1-sufficient Treg cells.

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