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Screening and Interaction Analysis of Key Genes in miR-542-3p Over- Expressed Osteosarcoma Cells by Bioinformatics
Zhongqiu Li1, Peng Zhang2, Feifei Feng1
1Department of Toxicology, College of Public Health, Zhengzhou University, 100 Kexue Avenue, Zhengzhou, Henan Province 450001, China.
Background:
Osteosarcoma is one of the most serious primary malignant bone tumors that threaten the lives of children and adolescents. However, the mechanism underlying and how to prevent or treat the disease have not been well understood.
Aims And Objective:
This aim of the present study was to identify the key genes and explore novel insights into the molecular mechanism of miR-542-3p over-expressed Osteosarcoma.
Materials And Methods:
Gene expression profile data GDS5367 was downloaded from the Gene Expression Omnibus (GEO) database. The differentially expressed genes (DEGs) were screened using GEO2R, and Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed using the DAVID database. And protein-protein interaction (PPI) network was constructed by the STRING database. In addition, the most highly connected module was screened by plugin MCODE and hub genes by plugin CytoHubba. Furthermore, UALCAN and The Cancer Genome Atlas were performed for survival analysis.
Result:
In total, 1421 DEGs were identified, including 598 genes were up-regulated and 823 genes were down-regulated. GO analysis showed that DEGs were classified into three groups and DEGs mainly enriched in Steroid biosynthesis, Ubiquitin mediated proteolysis and p53 signaling pathway. Six hub genes (UBA52, RNF114, UBE2H, TRIP12, HNRNPC, and PTBP1) may be key genes with the progression of osteosarcoma.
Conclusion:
The results could better understand the mechanism of osteosarcoma, which may facilitate a novel insight into treatment targets.
Insights
This study identified six key genes, including UBA52 and RNF114, involved in osteosarcoma progression. These findings offer new insights into osteosarcoma mechanisms and potential treatment targets.
Area of Science:
- Oncology
- Genomics
- Molecular Biology
Background:
- Osteosarcoma is a severe primary malignant bone tumor affecting children and adolescents.
- The underlying mechanisms and effective treatments for osteosarcoma remain poorly understood.
Purpose of the Study:
- To identify key genes and explore molecular mechanisms in osteosarcoma, focusing on miR-542-3p.
- To gain novel insights into the pathogenesis of osteosarcoma.
Main Methods:
- Utilized Gene Expression Omnibus (GEO) data (GDS5367) to identify differentially expressed genes (DEGs) via GEO2R.
- Performed Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and protein-protein interaction (PPI) network analyses.
- Identified hub genes using MCODE and CytoHubba, and conducted survival analysis with UALCAN and The Cancer Genome Atlas.
Main Results:
- Identified 1421 DEGs (598 up-regulated, 823 down-regulated).
- GO analysis revealed enrichment in Steroid biosynthesis, Ubiquitin mediated proteolysis, and p53 signaling pathways.
- Six hub genes (UBA52, RNF114, UBE2H, TRIP12, HNRNPC, PTBP1) were identified as potentially key to osteosarcoma progression.
Conclusions:
- The study enhances understanding of osteosarcoma molecular mechanisms.
- Identified key genes may serve as novel therapeutic targets for osteosarcoma treatment.
