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Transcriptional single-cell study of Nanoparticle-derived TR1-like cells in NOD.Prdm1 flox/floxCD4-Cre+ mice.

ABSTRACT: Transcriptional single-cell study of Nanoparticle-derived TR1-like cells in NOD.Prdm1 flox/floxCD4-Cre+ mice.

PROVIDER: PRJNA757242 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15593029_1.fastq.gz	Fastqsanger.gz
	SRR15593029_2.fastq.gz	Fastqsanger.gz
	SRR15593030_1.fastq.gz	Fastqsanger.gz
	SRR15593030_2.fastq.gz	Fastqsanger.gz
	SRR15593031_1.fastq.gz	Fastqsanger.gz

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Transcriptional single-cell study of Nanoparticle-derived TR1-like cells in NOD.Prdm1 flox/floxCD4-Cre+ mice.

Project description:10X technology single-cell RNA-seq was used on tetramer-sorted CD4+ T cells from nanoparticle-treated control mice (NOD.CD4-Cre+ and NOD.Prdm1 flox/flox) and NOD.Prdm1 flox/floxCD4-Cre+ mice to study the role of Prmd1 on the differentiation of TFH cells into TR1 cells. Study evidencies the devolopment linkage between tetramer positive TFH and TR1 based on gene expression gradient. Remarkably, mice lacking Prmd1 fail to develop TR1 cells and their differentation is blocked.

2023-03-27 | GSE182636 | GEO

Gene expression of microglia from wild type, Gba flox/flox; Nestin-Cre, and Gba flox/flox; Nestin-Cre; Mincle-/- mice

Project description:To investigate the contribution of Mincle in neuronopathic Gaucher disease, we established Gba flox/flox; Nestin-Cre mice and crossed them with Mincle deficient mice. RNA sequencing of microglia from these mice revealed Axl, a phaogocytic receptor was upregulated in Gba flox/flox; Nestin-Cre mice. In addition, Tnf was upregulated in Gba flox/flox; Nestin-Cre mice in a Mincle-dependent manner. Our further study elucidated that Mincle, Axl and TNF are involved in the pathology of Gaucher disease.

2023-02-03 | GSE202711 | GEO

Gene expression of microglia from wild type, Gba flox/flox Nestin-Cre, and Gba flox/flox Nestin-Cre Mincle-/- mice

Project description:Gene expression of microglia from wild type, Gba flox/flox Nestin-Cre, and Gba flox/flox Nestin-Cre Mincle-/- mice

| PRJNA842510 | ENA

Adiponectin-cre FTO flox/flox and FTO flox/flox mouse white fat tissues

Project description:Single nucleotide polymorphisms in intron 1 of the fat mass and obesity-associated (FTO) gene were found to be associated with an increased risk of adult obesity. Enhanced FTO expression in mice leads to hyperphagia, increased fat mass, and higher body weight. Neuronal-specific FTOâ??deleted mice have an identical lean body weight phenotype to global FTO-deleted mice. The physiological role of adipose FTO in the homeostasis of energy regulation remains to be elucidated. We used microarrays to elucidate the metabolic pathways that are regulated by FTO in the white fat. FTO flox/flox and Adiponectin-cre FTO flox/flox (AFO) mice were fed with chow diet. White fat tissues from epididymal adipose pad were harvested under ad lib condition for RNA isolation. Three independent pools of FTO flox/flox and AFO mouse white fat RNA were included in the study.

2016-07-03 | E-GEOD-65098 | biostudies-arrayexpress

Gene expression of brain cells from wild type and Gba flox/flox; Nestin-Cre mice

Project description:To investigate neuronopathic Gaucher disease brain cell gene expression, we established Gba flox/flox; Nestin-Cre mice and performed scRNA sequencing of whole brain cells from these and wild type mice. Unbiased clustering analysis revealed that most remarkable change between wild type and Gba flox/flox; Nestin-Cre mice was the appearance of an activated microglia cluster, which exclusively expressed Tnf. Our further study elucidated the mechanism by which activated microglia and TNF contribute to Gaucher disease pathology.

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Murine cartilage tissues (tibia): Control vs ADAM10 flox/flox-Col2a1-Cre

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Quantitative proteomic analysis of the livers from 5-week-old HyD-LIRflox/flox and HyD-LIRflox/flox; Alb-Cre mice.

Project description:We have previously shown that the HyD-LIR-Venus probe can specifically inhibit selective autophagy by suppressing the interaction of LIR-containing selective autophagy substrates and receptors with ATG8-family proteins in vivo. We generated hepatocyte-specific HyD-LIR-Venus-expressing mice (HyD-LIRflox/flox; Alb-Cre) by crossing HyD-LIRflox/flox mice, in which HyD-LIR-Venus is expressed under CAG promoter in a Cre-recombinase-dependent manner, with Alb-Cre transgenic mice that express Cre under the control of the Albumin promoter. We performed quantitative proteomic analysis of the livers of 5-week-old HyD-LIRflox/flox and HyD-LIRflox/flox; Alb-Cre mice using the RTS-SPS-MS3 method on Tribrid mass spectrometry.

2023-04-24 | PXD037013 | JPOST Repository

RNA-seq analysis of synovial fibroblasts isolated from Ets1-flox/flox and Col6a1-Cre-Ets1-flox/flox mice of serum transfer-induced arthritis (STIA)

Project description:Synovial fibroblasts critically contribute to the pathogenesis of rheumatoid arthritis (RA) by acquiring either a pro-inflammatory or tissue-destructive phenotype. To explore the molecular mechanisms underlying the tissue-destructive fibroblast phenotype in arthritis, we performed bulk RNA-sequencing analysis on the synovial fibroblasts which were isolated from Col6a1-Cre-Ets1-flox/flox (Ets1ΔFib) and Ets1-flox/flox (Ets1flox) mice.

2022-07-06 | GSE201310 | GEO

RNA-seq analysis dataset: Hippocampal tissues from Emx1-Cre Auts2-flox/flox and Auts2-flox/flox mice at P14

Project description:RNA-seq analysis dataset: Hippocampal tissues from Emx1-Cre Auts2-flox/flox and Auts2-flox/flox mice at P14

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Expression data for Lck-Cre, Med23flox/flox and Med23flox/flox;Lck-Cre thymocytes +/- 3hr exposure to plate bound anti-CD3 antibody

Project description:MED23, a subunit of the Mediator coactivator complex, is important for the expression of a subset of MAPK/ERK pathway-dependent target genes; however, the genes in this subset varies between cell types. MAPK/ERK pathway-dependent processes are essential for T-cell development and function, but whether MED23 has a role in this context is unknown. We generated Med23 conditional knockout mice and induced Med23 deletion in early T cell development using the lineage specific Lck-Cre transgene. While the total cell number and distribution of cell populations in the thymuses of Med23flox/flox;Lck-Cre mice were essentially normal, MED23 null T-cells failed to efficiently populate the peripheral lymphoid organs. MED23 null thymocytes displayed decreased expression of the MAPK/ERK-responsive genes Egr1, Egr2, as well as of the membrane glycoprotein Cd52 (CAMPATH-1). MED23 null CD4 single-positive thymocytes also showed decreased expression of KLF2 (LKLF), a T cell master regulatory transcription factor. Indeed, similarities between the phenotypes of mice lacking MED23 or KLF2 in T-cells suggest that KLF2 deficiency in MED23 null T-cells is one of their key defects. Mechanistic experiments using MED23 null MEFs further suggest that MED23 is required for full activity of the MAPK-responsive transcription factor MEF2, which has previously been shown to mediate Klf2 expression. In summary, our data indicate that MED23 has critical roles in enabling T-cells to populate the peripheral lymphoid organs, possibly by potentiating MEF2-dependent expression of the T-cell transcription factor KLF2. 12 samples, 2 of each genotype (Lck-Cre, Med23flox/flox and Med23flox/flox;Lck-Cre) both with mock and anti-CD3 treatment

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