Journal of Korean Neurosurgical Society

The Korean Neurosurgical Society (대한신경외과학회)
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Identification of Hub Genes in the Pathogenesis of Ischemic Stroke Based on Bioinformatics Analysis

  • Yang, Xitong (Genetic Testing Center, The First Affiliated hospital of Dali University) ;
  • Yan, Shanquan (Clinical Colllege of Dali University) ;
  • Wang, Pengyu (Clinical Colllege of Dali University) ;
  • Wang, Guangming (Genetic Testing Center, The First Affiliated hospital of Dali University)
  • Received : 2021.08.06
  • Accepted : 2022.02.03
  • Published : 2022.09.01
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Abstract

Objective : The present study aimed to identify the function of ischemic stroke (IS) patients' peripheral blood and its role in IS, explore the pathogenesis, and provide direction for clinical research progress by comprehensive bioinformatics analysis. Methods : Two datasets, including GSE58294 and GSE22255, were downloaded from Gene Expression Omnibus database. GEO2R was utilized to obtain differentially expressed genes (DEGs). Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis of DEGs were performed using the database annotation, visualization and integrated discovery database. The protein-protein interaction (PPI) network of DEGs was constructed by search tool of searching interactive gene and visualized by Cytoscape software, and then the Hub gene was identified by degree analysis. The microRNA (miRNA) and miRNA target genes closely related to the onset of stroke were obtained through the miRNA gene regulatory network. Results : In total, 36 DEGs, containing 27 up-regulated and nine down-regulated DEGs, were identified. GO functional analysis showed that these DEGs were involved in regulation of apoptotic process, cytoplasm, protein binding and other biological processes. KEGG enrichment analysis showed that these DEGs mediated signaling pathways, including human T-cell lymphotropic virus (HTLV)-I infection and microRNAs in cancer. The results of PPI network and cytohubba showed that there was a relationship between DEGs, and five hub genes related to stroke were obtained : SOCS3, KRAS, PTGS2, EGR1, and DUSP1. Combined with the visualization of DEG-miRNAs, hsa-mir-16-5p, hsa-mir-181a-5p and hsa-mir-124-3p were predicted to be the key miRNAs in stroke, and three miRNAs were related to hub gene. Conclusion : Thirty-six DEGs, five Hub genes, and three miRNA were obtained from bioinformatics analysis of IS microarray data, which might provide potential targets for diagnosis and treatment of IS.

Keywords

Acknowledgement

The data used in this study were downloaded from the GEO database. The data used to support the findings of this study are available from corresponding websites upon request. The National Natural Science Foundation of China (821602 44); Colleges joint specific project in Yunnan Province (2019FH001-(020)); The key construction disciplines of The First Affiliated Hospital of Dali University; Reserve Talent cultivation of The First Affiliated Hospital of Dali University. This study used the GEO database as a data source. The authors acknowledge the efforts of the National Center for Biotechnology Information (NCBI) for the creation and distribution of the GEO database.

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