Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hi-C2 of mouse splenic macrophages and pDCs

ABSTRACT: Hi-C2 of mouse splenic macrophages and pDCs

PROVIDER: PRJNA720099 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR14152350_1.fastq.gz	Fastqsanger.gz
	SRR14152350_2.fastq.gz	Fastqsanger.gz
	SRR14152351_1.fastq.gz	Fastqsanger.gz
	SRR14152351_2.fastq.gz	Fastqsanger.gz
	SRR14152352_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

Hi-C2 of mouse splenic macrophages and pDCs

Project description:The transcriptional repressor Zeb2 regulates development of many cell fates among somatic, neural and hematopoietic lineages, but the basis for its requirement in these diverse linages is unclear. Our recent study uncovered a mutually repressive regulatory circuit between Id2 and Zeb2, and predicted that Zeb2 should be positively regulated by members of the E protein family of transcription factors. Here, we identified a 400bp enhancer region located 165 kilobases (kb) upstream of the Zeb2 transcriptional start site (TSS) that binds the E proteins E2A and E2-2 at several E-box motifs and is active in hematopoietic lineages. Germline deletion of this 400bp region (Zeb2 –165–/– mice) specifically prevented Zeb2 expression in hematopoietic stem cell (HSC) derived lineages. Zeb2 –165–/– mice lacked development of pDCs, monocytes, and B cells. Surprisingly, all macrophages in Zeb2 –165–/– mice were exclusively of embryonic origin. Using single-cell chromatin profiling, we identified a second Zeb2 enhancer located at +164kb that is selectively active in embryonically derived lineages, but not in lineages derived from HSCs. Thus, Zeb2 expression in adult, but not embryonic, hematopoiesis is selectively controlled by the –165kb Zeb2 enhancer.

2021-11-10 | GSE171564 | GEO

Gene expression profiles of splenic pDCs in C57Bl6/J and Siglec-H deficient mice

Project description:The steady-state gene expression of pDCs of two different mouse strains was analyzed. Splenic plasmacytoid dendritic cells (pDCs) of Siglec-H knock-out mice on C57Bl& background and the Siglec-H expression littermates (+/+) were enriched and sorted by FACS before generating RNA, followed by cDNA generation and sequencing.

2021-09-15 | GSE179840 | GEO

IFN? expression is restricted to a subpopulation of splenic pDCs exhibiting a specific immune modulatory transcriptome signature

Project description:Type I IFNs are critical in initiating protective antiviral immune responses and plasmacytoid DCs (pDCs) represent a major source of these cytokines. Here we show that only few pDCs are capable to produce IFN? after virus infection or CpG stimulation. Utilizing IFN?/YFP reporter mice, we identify these IFN?-producing cells in the spleen as a CCR9+CD9- pDC subset exclusively localized within the T/B cell zones. IFN?-producing pDCs exhibit a distinct transcriptome profile with higher expression of genes encoding cytokines and chemokines, facilitating T cell recruitment and activation. These distinctive characteristics of IFN?-producing pDCs are independent of the type I IFN receptor mediated feedback loop. Furthermore, IFN?-producing pDCs exhibit enhanced CCR7-dependent migratory properties in vitro and in a peritoneal inflammation model they effectively recruit T cells in vivo. We define “professional type I IFN-producing cells” as a distinct subset of pDCs specialized in coordinating cellular immune responses. IFN? associated gene expression in ex vivo sorted IFN?/YFPpos vs. IFN?/YFPneg splenic pDCs was measured at 6 hr after i.v. injection of CpG 1668 complexed to DOTAP. Two independent experiments were performed using pooled samples of at least 12 mice per experiment.

2015-05-27 | E-GEOD-68788 | biostudies-arrayexpress

Gene expression profiles from human splenic macrophages, sinusoid lining cells and HUVECs

Project description:Compared to typical endothelial cells (HUVEC) and splenic macrophages (CD14+CD45+), SLCs have phenotype closer to splenic macrophages.

2016-12-31 | GSE69060 | GEO

Expression data from murine Hemophagocytes (HPCs) versus resting splenic macrophages

Project description:Hemophagocytes are activated macrophages seen morphologically to have engulfed other hematopoietic cells. Their function is unknown. Attempts to induce these cells in vitro or purify them ex vivo have been unsuccessful. We isolated HPCs and resting splenic macrophages by laser capture microdissection. RNA was isolated from captured cells and microarray performed to compare the activation state of HPCs versus resting splenic macrophages. We treated WT mice with PBS or CpG1826 and an IL-10receptor blocking antibody. Cells were captured from splenic touch preps on PEN-coated slides, RNA isolated by WT-Ovation One-Direct Amplification System and assayed on Affymetrix mouse gene ST 1.0 chips.

2013-12-31 | E-GEOD-47430 | biostudies-arrayexpress

Expression data from murine Hemophagocytes (HPCs) versus resting splenic macrophages

2013-12-31 | GSE47430 | GEO

Gene expression profiles of mouse splenic macrophages and CD8+ and CD8- conventional dendritic cells

Project description:The close functional relationship between macrophages and dendritic cells has long been recognised. Here, we have examined the gene expression profiles of splenic macrophages and the splenic resident dendritic cell subsets, and demostrate that macrophages and DC show different gene expression profiles. Further, we show that the DC subsets are closer to one another in gene expression profile than they are to macrophages. We here identify a list of differentially expressed genes between the DC subsets, and between DC and macrophages Splenic macrophages, CD8+ and CD8- cDC were analyzed

2011-06-17 | E-GEOD-30022 | biostudies-arrayexpress

Hi-C sequencing data of WT and Zeb2 enhancer mutant splenic CD8+ T cells

Project description:To evaluate the impact of -165-kb Zeb2 enhancer deletion on 3D chromatin structure, we performed in situ Hi-C analysis of WT and Zeb2 –165–/– splenic CD8+ T cells, which showed no significant global changes on the structure of chromosome 2

2021-11-10 | GSE171103 | GEO

Gene expression profiles of splenic pDCs in C57Bl6/J and Siglec-H deficient mice

Project description:Gene expression profiles of splenic pDCs in C57Bl6/J and Siglec-H deficient mice

| PRJNA745203 | ENA

Expression data from splenic cDC1, cDC2, and pDC from WT and Bcl6cKO mice

Project description:We used microarray gene analysis to compare the transcriptional profiles between WT and Bcl6cKO splenic cDC1, cDC2, and pDCs.

2019-10-01 | GSE135904 | GEO