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Screening and analysis of differentially expressed circRNAs and miRNAs in chronic diabetic extremity wounds [miRNA-Seq]

ABSTRACT: To investigate the expression of circRNAs, miRNAs, and related co-expression and competitive endogenous RNA (ceRNA) in diabetic chronic refractory wounds

ORGANISM(S): Homo sapiens

PROVIDER: GSE212164 | GEO | 2022/08/30

REPOSITORIES: GEO

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Screening and analysis of differentially expressed circRNAs and miRNAs in chronic diabetic extremity wounds [array]

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Screening and analysis of differentially expressed circRNAs and miRNAs in chronic diabetic extremity wounds

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Screening and analysis of differentially expressed circRNAs and miRNAs in chronic diabetic extremity wounds

Project description:This SuperSeries is composed of the SubSeries listed below.

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Circular RNA expression profiling in diabetic foot ulcers and human normal acute wounds

Project description:Circular RNA (circRNA) microarray analysis was performed to examine the expression profiles of circRNAs in diabetic foot ulcers (DFU) and in human excisional skin wounds 7 days after injury.

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CircARHGAP12 triggers MSC autophagy to facilitate its effect on repairing diabetic wounds by sponging miR-301b-3p/ATG16L1 and miR-301b-3p/ULK2

Project description:Circular RNAs (circRNAs) have been found to play critical roles in the development and progression of human diseases. However, the role of circRNAs in regulating MSCs (mesenchymal stromal cells) to repair diabetic wounds remains unclear. Here, we showed that MSCs subjected to high glucose stress showed an obvious decrease in circARHGAP12, while circARHGAP12-mediated autophagy inhibited high glucose-induced apoptosis of MSCs. Mechanistically, circARHGAP12 could directly interact with miR-301b-3p, and subsequently act as a miRNA sponge to regulate the expression of the miR-301b-3p target genes ATG16L1 and ULK2 and the downstream signaling pathway. Furthermore, circARHGAP12 led to a decrease in apoptosis of MSCs in wounds and promoted wound healing. Taken together, these data indicated that circARHGAP12/ miR-301b-3p/ATG16L1 and ULK2 regulatory networks may be a potential therapeutic target for MSCs in repairing diabetic wounds.

2021-03-15 | GSE168890 | GEO

Analyzing the interactions of mRNAs, miRNAs, lncRNAs and circRNAs to predict competing endogenous RNA networks in glioblastoma

Project description:Cross-talk between competitive endogenous RNAs (ceRNAs) may play a critical role in revealing potential mechanisms of tumor development and physiology. Glioblastoma is the most common type of malignant primary brain tumor, and the mechanisms of tumor genesis and development in glioblastoma are unclear. Here, to investigate the role of non-coding RNAs and the ceRNA network in glioblastoma, we performed paired-end RNA sequencing and microarray analyses to obtain the expression profiles of mRNAs, lncRNAs circRNAs and miRNAs. We identified that the expression of 501 lncRNAs, 1789 mRNAs, 2038 circRNAs and 143 miRNAs were often altered between glioblastoma and matched normal brain tissue. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed on these differentially expressed mRNAs and miRNA-mediated target genes of lncRNAs and circRNAs. Furthermore, we used a multi-step computational framework and several bioinformatics methods to construct a ceRNA network combining mRNAs, miRNAs, lncRNAs and circRNA, based on co-expression analysis between the differentially expressed RNAs. We identified that plenty of lncRNAs, CircRNAs and their downstream target genes in the ceRNA network are related to glutamatergic synapse, suggesting that glutamate metabolism is involved in glioma biological functions. Our results will accelerate the understanding of tumorigenesis, cancer progression and even therapeutic targeting in glioblastoma. We hope to inspire researchers to study the role of non-coding RNAs in glioblastoma.

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Genome-wide differential expression profiling of ovarian circRNAs associated with litter size in pigs

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Construction of a ceRNA network and screening of potential biomarkers and molecular targets in male smokers with chronic obstructive pulmonary disease

Project description:Background. Circular RNAs (circRNAs) play an important role in the occurrence and development of diseases. However, the role of circRNAs in male smokers with chronic obstructive pulmonary disease (COPD) remains unclear. Methods. Stable COPD patients and healthy controls were recruited. Peripheral blood mononuclear cells (PBMCs) were extracted. After high-throughput RNA sequencing (RNA-Seq) of PBMCs, a bioinformatics method was used to analyse differentially expressed (DE) circRNAs (DEcircRNAs) and mRNAs (DEmRNAs). Results. Total of 114 DEcircRNAs and 58 DEmRNAs were identified. Functional enrichment analysis showed that processes related to COPD include the regulation of interleukin (IL)-18, IL-5 and the NLRP3 inflammasome; differentiation of T helper type 1 (Th1), Th2, and Th17 cells, and the AMPK, Wnt, JAK-STAT, and PI3K-Akt signalling pathways. In the protein–protein interaction (PPI) network, the core genes were MYO16, MYL4, SCN4A, NRCAM, HMCN1, MYOM2, and IQSEC3. Small-molecule prediction results revealed potential drugs for the COPD treatment. Additionally, the circRNA-miRNA-mRNA competitive endogenous RNA (ceRNA) regulatory network was constructed. Conclusion. This study identified a set of dysregulated circRNAs and mRNAs and revealed potentially important genes, pathways, new small-molecule drugs and ceRNA regulatory networks in male smokers with COPD. These circRNAs might be prospective biomarkers or potential molecular targets of the ceRNA mechanism for COPD.

2024-06-09 | GSE268499 | GEO

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