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Transcriptomic studies of mouse naïve and Th17 cell from wildtype or Malat1 deficient background

ABSTRACT: Transcriptomic studies of mouse naïve and Th17 cell from wildtype or Malat1 deficient background

PROVIDER: PRJNA787542 | ENA |

REPOSITORIES: ENA

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Transcriptomic studies of mouse naïve and Th17 cell from wildtype or Malat1 deficient background

Project description:Long non-coding RNAs (lncRNAs) are critical regulators of mammalian gene programs. Metastasis Associated Lung Adenocarcinoma Transcript 1 (Malat1) is the most abundant lncRNA expressed in intestinal Th17 cells critical for maintaining tissue homeostasis and regulating local inflammation. Here, we report that Malat1 negatively regulates IL-17A and IL-17F productions in intestinal Th17 cells during colitis and contributes to local inflammation. Global RNA interactions with DNA by deep sequencing (GRID-seq) coupled with transcriptomic studies revealed Malat1 is recruited to the Il17a-Il17f super enhancer in Th17 cells, and regulates Il17a-Il17f transcription.

2024-12-31 | GSE190561 | GEO

GRID-seq studies of mouse naïve and culture Th17 cells from wildtype mice

2024-12-31 | GSE190560 | GEO

Transcriptomic studies of mouse naïve and Th17 cell from wildtype or DDX5 deficient background [RNA-seq]

Project description:Gene expression in naïve and Th17 cell were characterized. We report a notable dynamic change in the expression of genes encoding RNA editing enzymes. Birefly, the transcript encoding ADAR2 (Adarb1) was significantly upregulated in Th17 cells, and the transcript encoding ADAR1 (Adar) was downregulated during the polarization from naive to Th17 cells. The altered expression of RNA editing genes results in the dynamic A-to-I editing in naive and Th17 cells. In addtion, loss of DDX5 dysregulated ADAR2 expression, resulting in altered A-to-I editing on a subset of Th17 transcripts.

2024-12-31 | GSE157578 | GEO

Transcriptomic studies of mouse naïve and Th17 cell from wildtype or DDX5 deficient background [RNA-seq]

Project description:Transcriptomic studies of mouse naïve and Th17 cell from wildtype or DDX5 deficient background [RNA-seq]

| PRJNA661773 | ENA

ChIP-seq studies of Th17 cells in Malat1 KO and WT mice

Project description:ChIP-seq studies of Th17 cells in Malat1 KO and WT mice

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GRID-seq studies of mouse naïve and culture Th17 cells from wildtype mice

Project description:GRID-seq studies of mouse naïve and culture Th17 cells from wildtype mice

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Analysis of Th17 gene signature in the presence of CD28 costimulation in human CD4 naïve T cells

Project description:We determined differentially regulated gene expression profile in CD4 naïve T cells cultured in presence or absence of Th17 inducing cytokines (IL23+IL1β) and anti-CD28. We reported that CD28 costimulation induced Th17-suppressive gene signature.

2018-03-12 | GSE110097 | GEO

Differential Gene expression in the mouse mammary tumors of PyMT-Malat1 wild-type (WT), PyMT-Malat1 knockout (KO) and PyMT-Malat1 knockout with Malat1 transgene expression (TG)

Project description:Previously, lncRNA Malat1 knockout mice were generated by insertional inactivation. By crossing this line to MMTV-PyMT mammary tumor mouse model, we produced PyMT;Malat1 wild-type (WT) and PyMT;Malat1 knockout (KO). Furthermore, we generated Malat1 transgenic mice by targeting ROSA26 locus and bred them to PyMT;Malat1 knockout mice to produce Malat1-rescued PyMT;Malat1 knockout;Malat1 transgenic animals (TG). Using mammary tumors from the three groups of animals, we performed RNA-Seq analysis to identify differentially up-regulated genes in KO tumors to find novel target genes of YAP-TEAD pathway.

2018-09-18 | GSE110239 | GEO

Chromatin accessibility timecourse of Naïve to Th17 polarization in wildtype mouse CD4 T cells [ATAC-seq]

Project description:We applied ATACseq technology for mapping chromatin accessibility during CD4+ T cells activation. Briefly, we generated genome-wide chromatin-state maps of naive, Th17 at 48 hours and 72 hours. Using a series of ATAC-seq timecourse experiment, we revealed that chromatin accessibility is dynamic between naive and Th17, especially at the Th17 singature gene loci. These open chromatin sites may function as important cis-regulate elements for cell-specific genes expression.

2024-12-31 | GSE157576 | GEO

Mouse gene expression in wild-type Th17 cells and Pten deficient Th17 cells

Project description:Transcriptional profiling of mouse Th17 cells comparing WT Th17 cells with Pten-deficient Th17 cells. Naïve CD4 T cells from each mice were cultured Th17 polarizing condition for 3 days. Goal was to determine the effects of Pten on global gene expression.

2017-08-10 | GSE102414 | GEO

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