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

2022-06-01 | GSE190791 | GEO

RNA-seq of CD4 T cells from the lungs of M. tuberculosis infected WT and vhl fl/fl cd4 cre mice

Project description:Purpose: We compared the transcriptomes of mouse CD4 T cells lacking the vhl gene ( vhlfl/fl cd4 cre= vhl cKO) with WT controls from the lungs of mice 8 weeks after aerosol infection with Mycobacterium tuberculosis. Results: Using an optimized data analysis workflow, between 40-55 million sequence reads per sample to the mouse genome (build mm10) and identified 14700 transcripts in the CD4 T cells of WT and mutant mice after performing HISAT2 alignements to the mm10 reference. Conclusion: The transcriptome of WT anf vhl cKO was compared. Groups did cluster differentially with regards to their transcript abundance. The WT group has enriched DNA synthesis/ proliferation pathways whereas the Vhl cKO was enriched in hypoxia pathways. Transcripts assocaited with T cell differentiation were increased in WT group while T cell inhibitory molecules was elevated in the transcriptome of vhl cKO CD4 T cells.

2022-06-01 | GSE190909 | GEO

RNA-seq of skin wounds at day 2 post wounding from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

Project description:RNA-seq of skin wounds at day 2 post wounding from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

| PRJEB46179 | ENA

Single cell RNA sequencing of intestinal NKp46+ innate lymphoid cells (ILCs) from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

Project description:Single cell RNA sequencing of intestinal NKp46+ innate lymphoid cells (ILCs) from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

| PRJEB49270 | ENA

RNA-seq of small intestine tissues from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

Project description:Global alterations in gene expression in the small intestine triggered by HIF-1a loss in NKp46+ cells.

2021-12-10 | E-MTAB-11213 | biostudies-arrayexpress

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: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

| PRJEB46187 | ENA

B cells sorted from VHL floxed MB1- Cre

Project description:ProB-PreB, immature and mature B cells were sorted from the bone marrow of mice and the RNA subsequently sequenced. The mice were all Mb1-Cre +/- and either Vhl flox/flox or VHL flox/WT

2020-07-13 | GSE129513 | GEO

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