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The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s.

ABSTRACT: The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s.

PROVIDER: PRJNA1130866 | ENA |

REPOSITORIES: ENA

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			Action	DRS
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	SRR29680017_1.fastq.gz	Fastqsanger.gz
	SRR29680017_2.fastq.gz	Fastqsanger.gz
	SRR29680022_1.fastq.gz	Fastqsanger.gz
	SRR29680022_2.fastq.gz	Fastqsanger.gz

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The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s

Project description:To investigate the role of IRF4 in the regulation of ILC3 development and function, we used the wildtype mice as control and carried out single-cell RNA sequencing (BD Rhapsody) on gut ILC3s.

2025-06-09 | GSE281331 | GEO

The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s.

Project description:To investigate the role of IRF4 in the regulation of ILC3 development and function, we used the IRF4flox/floxRorccre mice and C57BL/6 mice(6-8 weeks-old ) to carry out single-cell RNA sequencing (BD Rhapsody) on gut ILC3s.

2025-06-09 | GSE271288 | GEO

The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s

Project description:The transcription factor IRF4 regulates the differentiation and function of intestinal ILC3s

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Comparison of transcriptional profiles of cultured intestinal ILC3s to freshly isolated splenic and intestinal ILC3s

Project description:ILC3s from the spleen (SP) and small intestine (SI) have been shown to be phenotypically and functional different. Intestinal factors are likely to regulate transcriptional profiles and thereby function of ILC3s. The goal of this study is to analyze if SI ILC3s acquire a SP-similar transcriptional profile after in vitro culture. Therefore transcriptional profiles of cultured SI ILC3s were compared to freshly isolated ILC3s of the murine SP and the SI by RNA seq technology. Cell suspension were generated from both organs and ILC3s (CD117+, Thy1.2+, KLRG1-, lin- (CD3, CD8, CD11b, CD11c, CD19, B220, Gr-1, TCRβ, TCRγδ, TER-119, NK1.1)) were sort purified. SI ILC3 were cultured for 7 days in vitro with IL-2, IL-7 and SCF. RNA was isolated and RNA sequencing was done using Ilumina Hiseq 2500 system and NuGEN Ovation RNA Seq System V2, with biological replicates. We show that intestinal ILC3 acquire a splenic-similar transcriptional profile after in vitro culture.

2020-03-17 | GSE114750 | GEO

Comparison of transcriptional profiles of (1) intestinal ILC3s isolated from WT and IL-17D-deficient mice; (2) CD93+ILC3s and CD93-ILC3s from WT mice

Project description:IL-17D/CD93 axis was essential for ILC3s hemostasis. In order to further understand how IL-17D-CD93 axis regulate ILC3s function, we conducted RNA-seq analysis of ILC3s.

2021-05-20 | GSE165788 | GEO

IRF4, a master transcription factor, regulates genes involved in BCR signaling, antigen processing and presentation, and GC development [expression array]

Project description:Interferon regulatory factor 4 (IRF4) is a master transcription factor required for the maturation of germinal center B cells that eventually develop into antibody secreting plasma cells and memory B cells. IRF4-deficient mice exhibit a profound reduction in serum immunoglobulin levels. In spite of wealth of the information relating to IRF4 and B cell biology, little is known about the intricate molecular details of the role of this transcription factor during B cell development. We therefore examined the genome-wide targets of IRF4 by ChIP-chip analysis in GC derived BL2 Burkittâs lymphoma cells. ChIP studies were further supplemented by whole genome expression analysis after shRNA-mediated knockdown of IRF4. Our study revealed that IRF4 regulates expression of genes important for a) BCR signaling b) antigen processing and presentation by MHC. In addition we found that IRF4 possibly in some way involved to regulate LTA, LTB and CXCR5 those involved in immune system development, particularly light zone development related genes such as FDC clustering regulating and IL21R and IL10 who are involved in B cell development.. On the other hand, IRF4 suppressesd genes in the oxidative phosphorylation pathway. Our findings illuminate hitherto unexplored roles of IRF4 in GC B cell development. BL2 Burkitt's lymphoma-derived B cells were infected with lentivirus expressing shRNA for IRF4 or control, and total RNA was subjected to Illumina BeadsExpression Arrays analysis.

2015-12-15 | E-GEOD-64269 | biostudies-arrayexpress

Elucindating the role of the transcription factor IRF4 in Th17 and Treg cells

Project description:- transcription factor interferon regulatory factor 4 (IRF4) = crucial transcription factor for different immune cells, incl pro-inflammatory Th17 and anti-inflammatory Treg cells - IRF4 is essential for the cell differentiation and fate determination - however molecular mechanisms of IRF4-mediated gene expression in fully differentiated Th17/Treg cells are still not fully understood - integration of data derived from affinity-purification and full mass spectrometry-based proteome analysis with chromatin immune precipitation sequencing (ChIP-Seq) - characterization of proteins generally involved in the T cell development as well as subtype-specific differentiation and identification of novel, yet uncharted IRF4 interactors

2024-08-02 | PXD044298 | JPOST Repository

A new type of pathogenic transcription factor mutation targeting interferon regulatory factor 4 (IRF4) in human lymphoma

Project description:We report the characterization of a recurrent somatic mutation c.295T>C (p.C99R) in the Interferon Regulatory Factor 4 (IRF4) gene in human lymphoma in the α3-recognition helix of the IRF4 DNA-binding domain. IRF4-C99R fundamentally alters IRF4 DNA-binding, combining loss-of-binding at canonical IRF motifs and neomorph gain-of-binding at canonical and non-canonical IRF composite elements (CEs). IRF4-C99R thoroughly modifies IRF4 function, blocking IRF4-dependent plasma cell induction, and specifically up-regulating lymphoma-specific genes in a degenerate Activator Protein-1 (AP-1)-IRF-CE (AICE)-dependent manner.

2023-07-21 | E-MTAB-12522 | biostudies-arrayexpress

The transcription factor IRF4 impedes human CD8 T-cell function and promotes cells proliferation and PD-1 expression

Project description:The transcription factor IRF4 is well known to be quickly upregulated after TCR activation, and magnitude of IRF4 expression is proportional to the strength of TCR activation. However, contradictory reports have been published as to the role of IRF4 in mouse T-cells during acute and chronic viral infections. Furthermore, no data have been published as to the role of IRF4 in human CD8 T-cells, both in normal and pathological conditions. In this work, we subjected CD8 T-cells from healthy donors to IRF4 overexpression or knock-out and assessed the impact of these modifications on T-cell functions and transcriptome.

2024-05-31 | GSE245739 | GEO

Brg1 restrains the pro-inflammatory properties of ILC3s and modulates intestinal immunity [ATAC-seq]

Project description:To determine the molecular regulation of ILC3s by Brg1, small intestinal ILC3s (Lin-Thy1highCD45low) from Brg1-deficient and control ILC3s were subjected to assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq).

2020-07-01 | GSE148078 | GEO

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