MicroRNA profiling in serum reveals host-virus interactions associated with Epstein-Barr virus in persons with multiple sclerosis
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ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE347948 | GEO | 2026/09/22
REPOSITORIES: GEO
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Project description:MicroRNAs (miRNAs) are important regulators of many biological functions, including embryo implantation and development. Recently, it is reported that miRNAs in biofluids are predictive for physiological and pathological processes. In this study, we aim to investigate whether the miRNAs secreted by human embryos in culture medium can be used as embryonic biomarkers. The culture media were prospectively collected from embryos of patients who underwent routine in vitro fertilization (IVF) or intracytoplasmic sperm injection (ICSI) at reproductive medicine center with informed consent. A high-throughput miRNA sequencing method was applied to detect the miRNAs profiles in culture media of embryos with different reproductive outcomes. Compared with embryos with failed pregnancy, the embryos with successful pregnancy secreted different miRNA profiles into the culture media. These differentially expressed miRNAs were predicted to be involved in multiple biological processes, cellular components and molecular functions. After bioinformatics analysis, 18 miRNAs were selected for validation by quantitative real-time polymerase chain reaction (qRT-PCR) and droplet digital PCR (ddPCR). We found that the cleavage embryos with successful pregnancy presented decreased expression of hsa-miR-26b-5p and hsa-miR-21-5p in the culture media. Moreover, the Receiver Operating Characteristic (ROC) curve analysis indicated that hsa-miR-26b-5p and hsa-miR-21-5p could serve as potential biomarkers for reproductive outcomes. Together, our findings highlight the important predictive potential of miRNAs secreted by human embryos in culture media, which is meaningful for noninvasive embryo selection during IVF cycles.
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Project description:iPSC-derived neurons were treated with mimics and inhibitors of the miRNAs miR-150-5p, hsa-mir-193a-3p and hsa-miR-19b-3p.
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Project description:Using the highly sensitive miRNA array, we screened 220 microRNAs abundant in physiological left ventricular hypertrophy (LVH) and we explored the functions of these miRNAs in the cardiac tissue by Gene Ontology and Kyoto Encyclopedia of Genes annotation. miRNAs showed a high score in the pathway enriched in autophagy. Moreover, the expression levels of miR-26b-5p, miR-204-5p, and miR-497-3p showed an obvious increase in rat hearts. Adenovirus-mediated overexpression of miR-26b-5p, miR-204-5p, and miR-497-3p markedly attenuated IGF-1-induced hypertrophy in H9C2 cells by suppressing autophagy. Furthermore, miR-26b-5p, miR-204-5p, and miR-497-3p attenuated autophagy in H9C2 cells through targeting ULK1, LC3B and Beclin 1, respectively. Taken together, our results demonstrate that swimming exercise induced physiological LVH, at least in part, by modulating the microRNA–autophagy axis, and that miR-26b-5p, miR-204-5p, and miR-497-3p may help distinguish physiological and pathological LVH.
2020-01-21 | GSE143935 | GEO
Project description:Applying Next Generation Sequencing technique we compared the miRNA expression pattern of tumor tissue sample of 6 GPs and peritumoral region of 6 lower grade (I-II) Glioma patients, serving as control group. To determine the difference on miRNA expresion level between GBM and control cases, we performed cluster analysis on the NGS dataset of 6 replicates for each of the two goups of samples with iDEP 96 software. In order to characterize the extent of up- or downregulation, log2FC values were calculated using the iDEP.96 web tool applying the DESeq2 algorithm. On the base of that 117 known miRNAs were identified to be differentially expressed using a threshold of false discovery rate (FDR) <0.05 and fold-change> 2 during the analysis. Among them, 35 miRNAs were upregulated (log2FC > 2) and 82 miRNAs were downregulated (log2FC < -2) with biological revelance in tissue samples comparing with the control samples. To validate our results obtained by NGS, five upregulated miRNAs: hsa-miR-196a-5p, hsa-miR-21-3p, hsa-miR-92b-5p, hsa-miR-10b-3p, hsa-miR-503-5p and three downregulated miRNAs: hsa-mir-383-5p, hsa-mir-490-3p, hsa-mir-1224-3p were chosen for RT-qPCR analysis. As the result of that hsa-miR-196a-5p, hsa-miR-21-3p, and hsa-miR-10b-3p was significantly upregulated while hsa-mir-383-5p and hsa-mir-490-3p was significantly downregulated, compared with those in the control samples. The other three miRNAs: hsa-miR-1224-3p, hsa-miR-92b-5p, hsa-miR-503-5p did not show significant difference between the control group and GPs.
2024-10-31 | GSE244332 | GEO
Project description:Next Generation Sequencing technique was performed to compare the miRNA expression pattern of tumor brain tissue sample of 6 Glioblastoma patients, and 6 patients with brain metastases (BM) originated from lung adenocarcinoma (LUAD). In order to analyse the difference on miRNA expresion level between GBM and LUAD-BM cases, we applied cluster analysis on the NGS dataset of 6 samples for each of the two goups with iDEP 1.1 software. Log2FC values were calculated to determine the exact level of up- and downregulation in case of the deregulated miRNAs, using the iDEP 1.1 web tool applying the DESeq2 algorithm. Evaluate the results of analysis 99 known miRNAs were detected with altered expression using a threshold of false discovery rate (FDR) <0.05 and fold-change> 2. Among them, 62 miRNAs were upregulated (log2FC > 2) and 37 miRNAs were downregulated (log2FC < -2) with biological revelance in tissue LUAD-BM samples compared with the GBM samples. To validate our results obtained by NGS, four upregulated miRNAs: hsa-miR-200c-5p, hsa-miR-141-5p, hsa-miR-200a-5p, hsa-miR-375-3p and two downregulated miRNAs: hsa-miR-410-3p, hsa-miR-9-5p were chosen for RT-qPCR analysis. As the result of that hsa-miR-200c-5p, hsa-miR-141-5p, hsa-miR-200a-5p, hsa-miR-375-3p was significantly upregulated, while hsa-miR-410-3p, hsa-miR-9-5p was significantly downregulated in LUAD-BM - GBM comparison.
2025-03-05 | GSE284777 | GEO
Project description:Purpose:analysing the differential expression of miRNAs in tissue between GLM patients and healthy controls, provide a comprehensive differential expression profile of miRNAs, screen out possible biomarkers, and elucidate post-transcriptional regulation from the whole level.Methods: The expression profile of miRNAs was measured here by high-throughput sequencing in tissue of GLM patients and healthy controls. Significantly differentially expressed miRNAs were screened by threshold setting and cluster analysis, and their target genes were analysed by gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes(KEGG) enrichment.Results: a total of 31,077 miRNAs were predicted by high-throughput sequencing.Under the condition of threshold ∣log2 fold change (log2FC)|>2.5, qvalue<0.001, 13 miRNAs that were expected to be GLM biomarkers were sreened out. The expression of 13 miRNAs in the GLM group were higher than in the control group, as follows: hsa-miR-106a-5p, hsa-miR-155-5p, hsa-miR-20b-5p, hsa-miR-223-5p, hsa-miR-3916, hsa-miR-4433a-3p, hsa-miR-4433b-5p, hsa-miR-451a, hsa-miR-4659a-3p, hsa-miR-4802-3p, hsa-miR-5571-3p, hsa-miR-624-5p, and hsa-miR-942-3p. Cell and biological process were the most significantly enriched GO term and KEGG pathway.Conclusions: This is the first report detailing genome-wide miRNA profiling of GLM, and the possible targets and pathways of GLM were analysed from bioinformatic analysis. This study finds that 13 significantly differential expressed miRNAs may have important theoretical significance and potential application value and need subsequent large-sample clinical trials for further validation.
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Project description:Osteoporosis is a significant health concern, and the role of microRNAs (miRNAs) in cell growth and development regulation is well recognized. High-throughput sequencing technology is widely employed in current research. This study aimed to identify and validate miRNAs associated with osteoporosis. Bone specimens were collected from patients with osteoporosis (n=3) and without osteoporosis (n=3). High-throughput sequencing was utilized to screen for miRNAs, followed by analysis using volcano maps, Wayne maps, gene ontology (GO) analysis, and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. The identified miRNAs were further confirmed using qRT-PCR. Sequencing analysis revealed 12 down-regulated and five upregulated miRNAs in osteoporosis. GO and KEGG analysis indicated the association of these miRNAs with bone metabolism. qRT-PCR results demonstrated a significant decrease in miR-140-5p, miR-127-3p, miR-199b-5p, miR-181a-5p, miR-181d-5p, and miR-542-3p (all P<0.05) in osteoporosis compared to controls, while miR-486-3p and miR-486-5p exhibited a significant increase (P<0.05). This study utilized high-throughput sequencing to identify differential miRNA expression in individuals with osteoporosis. Specifically, six miRNAs (miR-140-5p, miR-127-3p, miR-199b-5p, miR-181a-5p, miR-181d-5p, and miR-542) showed decreased expression, whereas two miRNAs (miR-486-3p and miR-486-5p) exhibited increased expression. The differential expression of these miRNAs may serve as predictive indicators, potentially aiding in the prognosis and management of osteoporosis.
2024-08-28 | GSE273345 | GEO
Project description:Background: Congenital transmission remains an important source of new Chagas disease cases. This study aimed to identify placental microRNAs (miRNAs) associated with congenital transmission of Trypanosoma cruzi. Methods: Placental samples from T. cruzi-infected mothers were classified according to congenital transmission status and analyzed by small RNA sequencing. Differential expression was assessed using DESeq2 with Benjamini-Hochberg false discovery rate correction. Nine candidate miRNAs were subsequently assessed by RT-qPCR. Results: Small RNA sequencing was performed in 31 placental samples, including 13 from transmitting mothers and 18 from non-transmitting mothers. hsa-miR-155-5p was the only miRNA significantly upregulated in placentas from transmitting mothers after multiple-testing correction and was selected as a candidate for further validation. Seven additional miRNAs (hsa-miR-193a-5p, hsa-miR-187-3p, hsa-miR-512-5p, hsa-miR-515-5p, hsa-miR-526a-5p, hsa-miR-99b-3p, and hsa-miR-455-5p) were selected based on nominal p-value, expression abundance, and differences in mean normalized counts between groups. RT-qPCR assessment in 15 placental samples, including 5 from transmitting mothers and 10 from non-transmitting mothers, showed higher normalized expression of hsa-miR-193a-5p and hsa-miR-187-3p in transmitting mothers.Conclusion: Placental miRNA profiling identified hsa-miR-155-5p, hsa-miR-193a-5p, and hsa-miR-187-3p as candidates for further investigation in congenital transmission of T. cruzi. These findings require confirmation in larger cohorts.
2026-06-04 | GSE333874 | GEO