Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of RNA uptake on gene expressions in human NK and CD8-positive T cells

ABSTRACT: In the blood, non-vesicular extracellular RNA functions as a cell-cell communication molecule. We have identified that IL1b-mRNA fragment binds ZC3H12D protein on the cell surface. This protein expresses on NK and T cells. When extracellular RNA binds ZC3H12D on the cell surface, the RNA-ZC3H12D complex goes inside the cell to modulate cell character, and as a result, the RNA stimulated-immune cell became anti-tumor rather than pro-tumor. To decipher the molecular mechanisms to govern the extracellular RNA-mediated signaling, we carried out NGS analysis to find out the difference in gene expression profiles after external RNA stimulation.

ORGANISM(S): Homo sapiens

PROVIDER: GSE262314 | GEO | 2025/01/06

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Novel surface functionalized superparamagnetic nanoparticles with engineered cellular uptake as a means for intracellular omics

Project description:Superparamagnetic nanoparticles (SPMNPs) are appealing for use in organelle isolation strategies. Yet, this potential remains largely unexplored because thus far research has focused on either physicochemical design or on their application in micron-sized beads. For their use in life sciences, the biocompatibility of SPMNPs goes beyond their chemical composition and shape, and features like their size and more importantly their surface properties are becoming more important to exploit extra- and intracellular interactions. Here we introduce thermal decomposition to manufacture iron oxide based SPMNPs (Ø10nm) and demonstrate how different surface functionalizations can lead to different types of cellular interactions. Cationic aminolipid-coated SPMNPs reside surprisingly strong at the outer cell surface. In contrast, anionic dimercaptosuccinic acid-coated SPMNPs are efficiently internalized and accumulate in a time-dependent manner in endosomal and lysosomal populations. These features allowed us to establish a standardized magnetic isolation procedure to selectively isolate plasma membranes and intracellular late endosomes/lysosomes with high yields and purities as consolidated by biochemical and ultrastructural analyses. Subsequent quantitative and qualitative proteome analysis underpins the overall high enrichment for hydrophobic (membrane) proteins as well as plasma membrane and lysosomal constituents in the respective purified fractions. This nano based technology provides therefore a breakthrough in the field of subcellular ‘omics’ as it allows the identification of subtle alterations in the biomolecular composition of different SPMNP-isolated compartments that would be otherwise not detected in total cell or tissue analysis.

2017-02-06 | PXD001225 | Pride

8OHdG receptors on the cell surface of CCDC25 overexpressed HEK293T cells identified by SPIDER assay

Project description:It has been reported that the membrane protein CCDC25 binds to neutrophil extracellular traps (NET)-DNA whose hallmark is 8-OHdG. Here we used SPIDER to identify 8OHdG DNA receptors on the cell surface of CCDC25 overexpressed HEK293T cells

2021-06-04 | PXD026520 |

The transpeptidase sortase A, binds nucleic acids, which can be used and to mediates their cell labeling

Project description:We found the transpeptidase Sortase A also binds nucleic acids and mediates mammalian cell labeling. We confiremed the labeling reaction using . Furthermore, a variety of additional classes of wild-type sortase and engineered mutants of sortase A exhibited the ability to label the surface of mammalian cells with nucleic acids. Heparin on the cell surface appears to be involved, and sortase might serve as an anchor for the nucleic acids. Interestingly, the bacterial sortases of Staphylococcus aureus spontaneously bind extracellular oligonucleotides, which seems to be related to the involvement of sortase and the participation of extracellular nucleic acids in the formation of bacterial biofilms. Finally, we utilized the cell-labeling capability of mgSrtA to enable highly efficient and ready-to-use multiplexed cell labeling for single-cell RNA-seq (scRNA-seq).

2024-04-10 | GSE235152 | GEO

TCM-stimulated mouse spleen

Project description:Comparison of RNA expression in mouse spleens between wild-type and ZC3h12d homozygotes.

2020-09-30 | GSE104002 | GEO

Expression data from Clear cell odontogenic carcinoma cell line

Project description:The aim to the study was to elucidate the character of Clear cell odontogenic carcinoma cell line in comparison with mucoepidermoid carcinoma cell line by carrying out a geome-wide expression analysis.

2016-07-13 | GSE84300 | GEO

An insulin-stimulated proteolytic mechanism links energy expenditure with glucose uptake

Project description:Mechanisms to coordinately regulate oxidative metabolism and glucose transport into cells are not well described. In muscle and fat, insulin mobilizes GLUT4 glucose transporters to the cell surface in part by stimulating the site-specific endoproteolytic cleavage of TUG proteins. Here, we show that the TUG C-terminal cleavage product enters the nucleus, binds the transcriptional 30 regulators PGC-1a and PPARg, and increases oxidative metabolism, thermogenic protein expression, and energy expenditure. The PPARg2 Pro12Gly polymorphism, which confers reduced diabetes risk, enhances TUG binding. The TUG cleavage product stabilizes PGC-1a, so that both proteins are susceptible to an Ate1 arginyltransferase -dependent degradation mechanism. We conclude that TUG cleavage coordinates energy expenditure with glucose 35 uptake, and that alterations in this pathway may contribute to metabolic disease.

2020-07-23 | GSE134846 | GEO

Natural display of nuclear-encoded RNA on the cell surface and its impact on cell interaction [Single Cell RNA-seq]

Project description:Compared to proteins, glycans, and lipids, much less is known about RNAs on the cell surface. We developed a series of technologies to test for any nuclear-encoded RNAs that are stably attached to the cell surface and exposed to the extracellular space, hereafter called membrane-associated extracellular RNAs (maxRNAs). We visualized maxRNAs on the cell surface, sequenced selected maxRNAs, and validated two maxRNAs by RNA fluorescence in situ hybridization. To test for cell-type specificity of maxRNA, we used randomized antisense oligos to hybridize to single-stranded transcripts exposed on the surface of human peripheral blood mononuclear cells (PBMCs). Combining this strategy with imaging flow cytometry, single-cell RNA sequencing, and maxRNA sequencing, we identified monocyte as the major type of maxRNA+ PBMCs and prioritized 11 maxRNAs for functional tests. Extracellular hybridization of antisense oligos to the cell surface-exposed fragments of FNDC3B and CTSS transcripts inhibited monocyte adhesion to vascular endothelial cells. Collectively, these data highlight maxRNAs as a functional component of the cell surface, suggesting an expanded role for RNA in cell-cell interaction and communication.

2020-08-11 | GSE150233 | GEO

Natural display of nuclear-encoded RNA on the cell surface and its impact on cell interaction [surfaceSeq]

2020-08-11 | GSE150235 | GEO

Natural display of nuclear-encoded RNA on the cell surface and its impact on cell interaction [Surface-FISHSeq]

2020-08-11 | GSE150234 | GEO

Novel surface functionalized superparamagnetic nanoparticles with engineered cellular uptake as a means for intracellular omics

2017-03-28 | MSV000080688 | MassIVE