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Single-cell RNA sequencing of CD45+ cells resided in the small intestine of wild-type and Dusp6 knockout mice

ABSTRACT: Single-cell RNA sequencing of CD45+ cells resided in the small intestine of wild-type and Dusp6 knockout mice

PROVIDER: PRJNA734865 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14715112.fastq.gz	Fastqsanger.gz
	SRR14715113.fastq.gz	Fastqsanger.gz
	SRR14715114.fastq.gz	Fastqsanger.gz
	SRR14715115.fastq.gz	Fastqsanger.gz
	SRR14715116.fastq.gz	Fastqsanger.gz

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Single-cell RNA sequencing of CD45+ cells resided in the small intestine of wild-type and Dusp6 knockout mice

Project description:To assess whether Dusp6 deficiency exerts alteration to intestinal immune cells specifically, we further applied the single-cell RNA sequencing with 10X Genomics platform in Dusp6-knockout (D6KO) mice and littermate wild-type (WT) control mice under chow diet. The intestines of wild-type and Dusp6-knockout mice (11 weeks old) were harvested and the live intestinal immune cells from the intraepithelial compartment and the laminar propria were collected with CD45+ marker by magnetic-activated cell sorting (MACS) MicroBeads and fluorescence-activated cell sorting (FACS) for downstream 10X Genomics Chromium Single Cell 3' Solution.

2022-02-08 | GSE176087 | GEO

Gene expression data of BCR-ABL1 transformed B cell precursors from Dusp6 wild-type and Dusp6 knockout mice

Project description:To elucidate the mechanism of Dusp6-mediated pre-B cell survival signaling, we investigated the gene expression pattern in BCR-ABL1-transformed Dusp6+/+ and Dusp6-/- B cell precursors. BCR-ABL1 transformed B cell precursors of Dusp6 wildtype and Dusp6 knockout mice were subjected to RNA isolation

2013-06-03 | E-GEOD-34832 | biostudies-arrayexpress

Gene expression data of BCR-ABL1 transformed B cell precursors from Dusp6 wild-type and Dusp6 knockout mice

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scRNAseq of small intestine-derived lamina propria CD45+ cells from untreated wild type (WT), untreated intestinal epithelial specific LSD1 knockout (cKO), antibiotic-treated WT mice and antibiotic-treated cKO mice

Project description:Mice with an intestinal epithelial specific knockout of LSD1 have changes in the intestinal epithelium including loss of Paneth and Goblet cells along with a general status of epithelial immaturity. To assess the influence of these epithelial specific changes on the mucosal immune system we performed a scRNAseq on CD45+ immune cells from the small intestine of mice with an epithelial specific LSD1 deletion (Villin-Cre+; Lsd1f/f) and wild type mice (Villin-Cre -; Lsd1f/f). To rule out a possible influence of the bacterial microbiome in the observed changes in CD45+ cell types we performed the same experiment in mice treated with antibiotics. These data allowed us to pinpoint changes in the cell populations of the mucosal immune system upon loss of LSD1 in the intestinal epithelium such as IgA producing cells and ILCs.

2023-08-02 | E-MTAB-10492 | biostudies-arrayexpress

Phospho-proteomic analysis of DUSP6 deficient Caco-2 cells

Project description:Dual-specificity phosphatase 6 (Dusp6)-deficiency enhances baseline colon barrier integrity and confers amelioration of dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 is a phosphatase, and therefore it is plausible that DUSP6 knockout alters the phosphorylation status of other proteins. To access the protein phosphorylation landscape and functional network in DUSP6 deficient Caco-2 cells, we applied phosphopeptide enrichment and isobaric labeling strategies with MS-based proteomics, and identified 1323 phosphorylation sites on 580 phosphoproteins.

2021-11-02 | PXD029014 | Pride

Differential expression caused by Dicer knockout in small intestine

Project description:This SuperSeries is composed of the following subset Series: GSE34905: Differential gene expression caused by Dicer knockout in small intestine GSE34909: Differential miRNA expression caused by Dicer knockout in small intestine Refer to individual Series

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Large intestine lamina propria CD45 positive cells

Project description:Large intestine lamina propria CD45 positive cells

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Global gene expression profile of small intestine from wild-type and NHE2-knockout mice.

Project description:The objective of this study was to identify changes in gene expression levels between wild-type and NHE2-knockout small intestine.

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RNA sequencing analysis of WT and Dusp6-/- rat cardiac infiltrated macrophages transcriptomes

Project description:Dual-specificity phosphatase 6 (DUSP6), a member of MAPK phosphatase, serves a specific and conserved function on the dephosphorylation of extracellular signal-regulated kinase 1/2 (ERK1/2) in multiple species. Utilizing a rat strain harboring nonsense mutation of Dusp6, we found that Dusp6 deficiency improves cardiac function by attenuating cardiomyocyte death and fibrosis in acute inflammatory phase after MI. To investigate the effect of DUSP6 on macrophages in acute inflammatory phase of MI, we performed RNA-seq analysis using CD45+HIS36+ macrophages isolated from Dusp6-deficient and WT infarcted LV tissues 72 h after MI by fluorescent activated cell sorting (FACS).

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