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Effect of trans-vaccenic acid(TVA) treatment on gene expression of mouse CD8+ T cells

ABSTRACT: To investigate the TVA's effect on mouse CD8+ T cells in vitro, we treated activated mouse CD8+ T cells with DMSO or 20 µM TVA for 24 hours. We then performed gene expression profiling analysis using data obtained from RNA-seq.

ORGANISM(S): Mus musculus

PROVIDER: GSE202276 | GEO | 2023/09/21

REPOSITORIES: GEO

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Effect of trans-vaccenic acid(TVA) treatment on gene expression of mouse CD8+ T cells

Project description:To investigate the TVA's effect on mouse CD8+ T cells in vitro, we treated activated mouse CD8+ T cells with 20 µM TVA for various timepoints (or untreated cell control) followed by kethoxal labeling of single stranded DNA (ssDNA) We then performed differential analysis of ssDNA levels following the KAS-pipe pipeline

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Effect of Creb1 KD on TVA dependent CD8+ T cell activation

Project description:To investigate the role of Creb1 in TVA dependent CD8+ T cell activation, we knocked down Creb1 of mouse CD8+ T cells with siRNAs then treated with DMSO or TVA We then performed gene expression profiling analysis using data obtained from RNA-seq.

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Effect of trans-vaccenic acid(TVA) diet on 16S ribosomal RNA (rRNA) expression of mouse gut microbiome

Project description:To investigate the TVA diet's effect on mouse gut microbiome, we fed C57/BL6 mice with TVA diet or CON diet for 18 days We then collected feces of the mice and performed 16S ribosomal RNA (rRNA) sequencing.

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Project description:we reported the identification of a small molecule, Mebendazole (MBZ) that modulates GSA in Arabidopsis thaliana roots. To identify pathways immediately response to MBZ, we performed an mRNA-seq using roots of 14-days-old Arabidopsis grown on DMSO plates treated with DMSO or 10 µM MBZ for 4 hours. Differenetial expressed genes between DMSO and MBZ_4h treatments were analyzed. It has 8 samples in total, with 4 replicates for each treatment.

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Whole proteome and phosphoproteome profiling of CD8+ and CD8- dendritic cells

Project description:Analyzing and comparing proteome and phosphoproteome profiling between CD8+ DC and CD8- DC not only will be very helpful to understand the molecular mechanisms regulating CD8+/- DC differentiation and function but also can screen CD8+ or CD8- DC specific regulatory pathways or molecules.

2018-06-11 | PXD006875 | Pride

Next generation sequencing quantitative analysis of C3H10T1/2 cells treated with purmorphamine, DMSO, purmorphamine and Picoberin or DMSO and Picoberin for 24h, 48h, 96h or 7 days

Project description:Purpose: Analysis of the differential gene expression of C3H10T1/2 cells undergoing Hedgehog (Hh) induced osteoblast differentiation compared to unstimulated (DMSO treated) cells and investigation of the differential gene expression caused by Picoberin, a highly potent inhibitor of Hh induced osteoblast differentiation (Comparison of purmorphamin + Picoberin treated C3H10T1/2 cells with purmorphamin + DMSO treated cells) Methods: 80 % confluent C3H10T1/2 cells were treated either with 1.5 µM purmorphamine + DMSO, only DMSO, 1.5 µM purmorphamine + 1 nM Picoberin, 1.5 µM purmorphamine +100 nM Picoberin or DMSO + 100 nM Picoberin for 24h, 48h, 96h or 7 days. Results: Picoberin inhibits osteoblast differentiation

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Expression data from GW8510 treatment of pancreatic cells

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SPOP mass spec in different treatment

Project description:293T cells were transfected with S, Flag, and Biotin-binding-protein-(streptavidin)-binding-peptide (SFB) triple-tagged backbone vector or SFB-tagged SPOP. Twenty-four h after transfection, control cells were treated with DMSO (Group 1) and SFB-SPOP transfected cells were treated with DMSO (Group 2) or DNA damaging agents including mitomycin C (MMC, 1 µM) (Group 3), camptothecin (CPT, 50 nM) (Group 4), cisplatin (10 µM) (Group 5) and etoposide (10 µM) (Group 6) for 24 h. The cells were lysed by NETN buffer (20 mM Tris-HCl, pH8.0, 100 mM NaCl, 1mM EDTA, 0.5% Nonidet P-40) with 50 mM β-glycerophosphate, 10 mM NaF, and 1μg/mL pepstatin-A at 4°C for 3 h, followed by tandem affinity purification using streptavidin beads and S tag beads and LC-MS. A total of six groups of cell lysate were analyzed (n=6), including one group of cells transfected with empty vector and treated with DMSO as a control.

2021-09-06 | PXD028210 | iProX

Effect of BAF disruption on chromatin accessibility in activated CD8+ T cells [ATAC-seq]

Project description:To investigate the role of cBAF in regulation of Tbet binding, polyclonal naive CD8 T cells were stimulated for 48h with anti-CD3, CD28, and hIL-2. Cells were then treated with DMSO, ACBI1, or BRM014 for 6 hours, and treated with recombinant mouse IL-12 for the last two hours of inhibitor treatment. Chromatin accessibility profiling was performed via ATAC-seq.

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