DEmiRNA-mRNA regulatorynetwork reveals miR-122-5p as aregulatory factor of argininemetabolism in necrotizingenterocolitis
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1209570 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR31969186.fastq.gz | Fastqsanger.gz | |||
| SRR31969187.fastq.gz | Fastqsanger.gz | |||
| SRR31969188.fastq.gz | Fastqsanger.gz | |||
| SRR31969189.fastq.gz | Fastqsanger.gz | |||
| SRR31969190.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 6 |
Similar Datasets
Project description:To further explore the mechanism of miR-122-5p in mice with NEC.
2025-01-17 | GSE286479 | GEO
Project description:Emerging evidence shows that small extracellular vesicles (S-EVs) play a critical role in cancer biology. However, the role of S-EVs in pediatric anaplastic large cell lymphoma (ALCL) is still largely unknown. Small RNA sequencing of plasma S-EVs revealed a peculiar microRNA profile in pediatric ALCL patients compared to healthy donors (HD). In particular, the liver-specific miR-122-5p was more abundant in ALCL plasma S-EVs compared to HD. Elevated levels of miR-122-5p correlated with advanced stage disease and impaired hepatic function in ALCL patients. In vitro experiments demonstrated that miR-122-5p inhibits glucose consumption in stromal cells, and the increased glucose availability enhances ALCL cell aggressiveness. Moreover, miR-122-5p promoted tumor dissemination in vivo. This study identified a new molecular factor promoting ALCL cell dissemination. This finding sets the ground for investigating the clinical use of miR-122-5p antagonists in ALCL patients to potentially improve the clinical outcome.
2023-08-08 | GSE209838 | GEO
Project description:Renal interstitial fibrosis (RIF) is a common pathological feature and final manifestation of chronic progressive kidney disease. Although exosome-mediated intercellular communication is known to play a crucial role in RIF, the mechanism by which injured tubular epithelial cells (TECs) contribute to fibrogenesis remains incompletely understood. In this study, we investigated the role of exosomal miR-122-5p derived from TECs in modulating fibroblast activation and renal fibrosis. Exosomes were isolated from kidneys of unilateral ureteral obstruction (UUO) mice and from TGF-β1-stimulated HK-2 cells. These exosomes were either co-cultured with fibroblasts (NRK-49F cells) or injected into UUO mice via the tail vein. High-throughput miRNA profiling was used to identify differentially expressed miRNAs in exosomes derived from HK-2 cells, and miR-122-5p was selected for further investigation based on expression level and bioinformatic prediction. Functional analyses were performed using miRNA mimics, inhibitors, and target validation assays. The results showed that exosomal miR-122-5p was significantly downregulated in both fibrotic kidneys and TGF-β1-induced HK-2 cells. In vivo and in vitro, restoration of miR-122-5p levels markedly attenuated renal fibrosis, as evidenced by the reduction of fibrotic markers including α-smooth muscle actin, fibronectin, and collagen I. Mechanistically, miR-122-5p was found to directly target hypoxia-inducible factor 1-alpha (HIF-1α), thereby inhibiting activation of the TGF-β1/Smad signaling pathway. These findings suggest that decreased expression of miR-122-5p in TEC-derived exosomes promotes renal fibrosis through the HIF-1α/TGF-β1/Smad axis, while reintroduction of miR-122-5p can effectively reverse these effects. Taken together, our study provides new insights into the intercellular communication between TECs and fibroblasts via exosomal miRNAs, and identifies miR-122-5p as a potential therapeutic target for the treatment of renal interstitial fibrosis.
2025-09-19 | GSE305699 | GEO
Project description:Objective: The objective was to study the expression profile of serum exosomal ncRNAs in patients with PBC and to explore their potential molecular mechanisms. Methods: The expression profile of ncRNAs in serum exosomes of PBC patients was analyzed by RNA-sequence. Bioinformatics analysis predicted target genes and related signaling pathways. Spearson correlation analysis and receiver operating characteristic (ROC) curve were used to explore the relationship between ncRNAs and PBC clinical indicators and application value. Primary human intrahepatic biliary epithelial cells (HIBECs) were cultured in vitro and lipopolysaccharide (LPS) induced HIBECs inflammatory injury model. The expression of miR-122-5p is regulated by miR-122-5p mimics and inhibitors. Enzyme linked immunosorbent assay (Elisa) measured levels of inflammatory cytokines. HIBECs cycle and apoptosis were detected by flow cytometry and HIBECs activity was detected by CCK8. The biomarkers of epithelium-mesenchymal transition (EMT), fibrogenesis, and p38 mitogen-activated protein kinase (MAPK) pathway were detected by real time quantitative polymerase chain reaction (RT-qPCR) and Western blot (WB). Dual luciferase reporter assay to confirm the binding of miR-122-5p. Results: 8531 differential expressed (DE) lncRNAs and 263 DE miRNAs were identified in serum exosomes of PBC patients. RNA-sequence and verification results showed that miR-122-5p was increased in serum exosomes of PBC patients, and was positively correlated with liver injury and cholestasis indexes. Exosomal miR-122-5p combined with gp210 and sp100 could improve the sensitivity of PBC diagnosis. In vitro experiments showed that the high expression of miR-122-5p promoted the proliferation of HIBECs, and inhibited the apoptosis, EMT and fibrosis of HIBEC. TNFRSF19, p38, p-p38, and inflammatory cytokines interleukin (IL)-1β, IL-6, IL-8, IL-12, IL-17, tumor necrosis factor (TNF)-α, transforming growth factor (TGF)-β1, and interferon (IFN)-γ were down-regulated and the effect was largely reversed after blocking p38 MAPK pathway. In addition, TNFRSF19 has binding site with miR-122-5p, which is the target gene of miR-122-5p, and could regulate the level of apoptosis signal-regulated kinase 1 (ASK1). Then ASK1 further regulate the downstream p38 MAPK signaling pathway. Conclusion: MiR-122-5p regulates ASK1 by targeting TNFRSF19 and plays an important role in EMT and fibrosis of PBC through p38 MAPK signaling pathway. MiR-122-5p may be a new marker for the diagnosis of PBC and a potential therapeutic target.
2025-10-29 | GSE231432 | GEO
Project description:The liver-specific microRNA, miR-122, is an essential host factor for replication of hepatitis C virus (HCV), an important infectious cause of chronic liver disease and hepatocellular carcinoma. miR-122 stabilizes the positive-strand HCV RNA genome and promotes viral RNA synthesis by binding two closely spaced sites (S1 and S2) near the 5’ end of the genome in association with Ago2. Ago2 is essential for both host factor activities, but whether other host proteins are involved is unknown. Using a quantitative proteomics approach, we identified TNRC6A (GW182) and its paralogs (TNRC6B and TNRC6C), as functionally important components of the miR-122/Ago2 host factor complex binding HCV RNA. Depletion of any two TNRC6 proteins reduced HCV replication in Huh-7.5 cells,but did not reduce viral RNA stability or translational activity, but rather dampened miR-122 stimulation of viral RNA synthesis. However, TNRC6 depletion had no effect on replication of HCV in which S2 was mutated so that miR-122 binds only S1, whereas it significantly enhanced replication when S1 was mutated and only S2 bound by miR-122. Consistent with this, we found that TNRC6 proteins preferentially associate with the S1 site, and that the association of Ago2 with S2 is increased in TNRC6-depleted cells. Collectively, these data suggest a model in which TNRC6 proteins, which are known to interact with Ago2, preferentially direct the miR-122/Ago2 complex to S1 while restricting its association with S2, thereby fine tuning the spatial organization of miR-122/Ago2 complexes bound to the viral RNA.
2019-04-24 | PXD013054 | Pride
Project description:Post-transcriptional regulation of gene expression by miRNAs likely makes significant contributions to mRNA abundance at the embryo-maternal interface. In this study, we investigated how miR-26a-5p and miR-125b-5p contribute to molecular changes occurring in the uterine luminal epithelium, which serves as the first site of signal exchange between the mother and developing embryo. To measure de novo protein synthesis after miRNA delivery to primary uterine luminal epithelial cells, we employed pulsed stable isotope labeling by amino acids (pSILAC). We found that both miRNAs alter the proteome of luminal epithelial cells, impacting numerous cellular functions, immune responses, as well as intracellular and second messenger signaling pathways. Additionally, we identified several features of miRNA-mRNA interactions that may influence the targeting efficiency of miR-26a-5p and miR-125b-5p. Overall, our study suggests a complex interaction of miR-26a-5p and miR-125b-5p with their respective targets. However, both appear to cooperatively function in modulating the cellular environment of the luminal epithelium, facilitating the morphological and molecular changes that occur during the intensive communication between the embryo and uterus at pregnancy.
2025-05-07 | PXD056243 | Pride
Project description:Background Behçet’s disease (BD) is a life-threatening systemic vasculitis characterized by polymorphonuclear neutrophil (PMN) and macrophage activation. This study aimed to elucidate the potential dysregulation of BD PMN exosomes on macrophage activation. Methods BD PMN exosomes were isolated, quantified, incubated with macrophages, and analyzed by miRNA sequencing (n=4). RNA sequencing of miRNA-transfected macrophages (n=6) was analyzed using transcription factor co-regulation network and miRNA target prediction to identify key regulatory factors, which were validated by dual luciferase reporter assay and miRNA/siRNA transfection. Results BD PMN exosomes were decreased and negatively correlated with CRP. PMN exosomes suppressed IL-6, TNF-α, CD80 and CD86 expressions on macrophages, which were attenuated in BD PMN exosomes. miRNA sequencing showed decreased miR-122-5p in BD PMN exosomes, which targeted IRF5, suppressed TLR4 signaling and IFN-β autocrine, and downregulated macrophage activation. Conclusions BD PMN exosomes were decreased in both quantity and miR-122-5p, which impaired the immunoregulatory potential on macrophages through degrading IRF5 and suppressing IFN-β autocrine, indicating a new interaction mechanism between PMNs and macrophages.
2025-07-23 | GSE252885 | GEO
Project description:Hepatitis C virus uniquely requires the liver specific microRNA-122 for replication, yet global effects on endogenous miRNA targets during infection are unexplored. Here, high-throughput sequencing and crosslinking immunoprecipitation (HITS-CLIP) experiments of human Argonaute (Ago) during HCV infection showed robust Ago binding on the HCV 5’UTR, at known and predicted miR-122 sites. On the human transcriptome, we observed reduced Ago binding and functional mRNA de-repression of miR-122 targets during virus infection. This miR-122 “sponge” effect could be relieved and redirected to miR-15 targets by swapping the miRNA tropism of the virus. Single-cell expression data from reporters containing miR-122 sites showed significant de-repression during HCV infection depending on expression level and number of sites. We describe a quantitative mathematical model of HCV induced miR-122 sequestration and propose that such miR-122 inhibition by HCV RNA may result in global de-repression of host miR-122 targets, providing an environment fertile for the long-term oncogenic potential of HCV.
2015-01-06 | GSE64679 | GEO
Project description:This is a prospective-retrospective study to determine if the expression of the miRNA’s miR-31-3p and miR-31-5p are prognostic of patient outcomes or predictive of the benefit from anti-EGFR therapy in stage III Colon Cancer. The present study will utilize FFPE tumor samples collected from patients enrolled in the PETACC-8 study conducted by the Fédération Francophone de Cancérologie Digestive (FFCD). This phase 3 clinical trial prospectively randomized fully resected stage III colon cancer patients to receive adjuvant treatment with either FOLFOX-4 plus cetuximab or FLOFOX-4 alone.
| 2260465 | ecrin-mdr-crc
Project description:miR-493-5p, miR-3662, and miR-589-3p were estimated as working microRNAs in bleomycin- and methotrexate-induced phenotypic changes in A549 cells via microRNAs-Proteins Analysis of Integrative Relationship (miR-PAIR). To verify the effect of these miRNAs on the their target protein expression levels, comprehensive expression of proteins in A549 cells treated with miR-493-59, miR-3662, and miR-589-3p mimic was examined by SWATH-MS method. As expected by a miR-PAIR mehtod, almost target proteins were succesfully regulated by miR-493-5p and miR-589-3p mimics.
2025-07-25 | PXD053397 | Pride