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RNA-seq of skin lesions at day 2 post infection with Group A Streptococcus from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

ABSTRACT: RNA-seq of skin lesions at day 2 post infection with Group A Streptococcus from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

PROVIDER: PRJEB46187 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR6212593_1.fastq.gz	Fastqsanger.gz
	ERR6212593_2.fastq.gz	Fastqsanger.gz
	ERR6212594_1.fastq.gz	Fastqsanger.gz
	ERR6212594_2.fastq.gz	Fastqsanger.gz
	ERR6212595_1.fastq.gz	Fastqsanger.gz

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RNA-seq of skin lesions at day 2 post infection with Group A Streptococcus from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

Project description:Changes of the transcriptional program in response to bacterial infections at a skin-wide level by deletion of HIF-1α in skin-lesions-infiltrating NK cells.

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Project description:Purpose: We compared the transcriptomes of murine CD4 T cells lacking either the vhl gene ( vhlfl/fl cd4 cre (vhl cKO) ) or both vhl and hif1a (hif1afl/fl vhlfl/fl cd4 cre (dcKO)) with WT controls before and 24 h after T cell receptor stimulation using anti-CD3/CD28. Results: Using an optimized data analysis workflow, about 45-60 million sequence reads per sample to the mouse genome (build mm10) and identified ca 12500 transcripts in the CD4 T cells of WT and mutant mice after performing HISAT2 alignements to the mm10 reference. Conclusion: the segregation of the transcriptome of unstimulated WT CD4 T cells as compared to the other groups. Within the TCR-stimulated groups the gene expression of vhl cKO CD4 T cells differed to that of WT and vhl hif1a dcKO CD4 T cells which showed in comparison important similarity between them

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