Volume 21 Issue 4
Apr.  2023
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Article Navigation >  Chinese Journal of General Practice  > 2023  >  21(4): 693-697
XIA Wenguang, ZHANG Hao, WEI Chuanxiong, Ali Haider, BI Jinzhe, ZENG Jiangzheng. Bioinformatics analysis of the competing endogenous RNA network associated with papillary thyroid carcinoma[J]. Chinese Journal of General Practice, 2023, 21(4): 693-697. doi: 10.16766/j.cnki.issn.1674-4152.002962
Citation: XIA Wenguang, ZHANG Hao, WEI Chuanxiong, Ali Haider, BI Jinzhe, ZENG Jiangzheng. Bioinformatics analysis of the competing endogenous RNA network associated with papillary thyroid carcinoma[J]. Chinese Journal of General Practice, 2023, 21(4): 693-697. doi: 10.16766/j.cnki.issn.1674-4152.002962
shu

Bioinformatics analysis of the competing endogenous RNA network associated with papillary thyroid carcinoma

doi: 10.16766/j.cnki.issn.1674-4152.002962
  • 1.

    Department of General Surgery, the First Affiliated Hospital of Hainan Medical College, Haikou, Hainan 570102, China

Funds:

 82160556

 20A200204

  • Received Date: 2022-04-25
    Available Online: 2023-05-31
    Abstract
  •   Objective  In recent years, due to the development of high-throughput sequencing, there are more and more studies on circular RNA (circRNA), but there are still a large number of circular RNA to be explored. In this paper, through the study of competitive endogenous RNA (ceRNA) in papillary thyroid carcinoma (PTC), we construct the ceRNA network of circRNA-miRNA-mRNA, explore the potential regulatory mechanism of circular RNA in PTC, and provide new ideas and insights for the clinical search of new markers or therapeutic targets.  Methods  Integrating the two major databases of GEO and TCGA, downloading the microarrays and clinical data related to PTC, and using bioinformatics methods to construct ceRNA network mechanisms related to survival analysis.  Results  A total of 16 differentially expressed genes of circular RNA, 199 miRNA and 4 308 mRNA were identified in the two databases. The possible binding miRNA of circular RNA was predicted by Cancer-Specific CircRNA Database and Wayne diagram was drawn. Eleven differentially expressed miRNA were predicted and integrated into mRNA target genes by TargetScan and miRDB databases. A total of 751 differentially expressed mRNA were obtained, which were integrated into ceRNA network and visualized by the interaction between the three. The protein interaction network was constructed by using the STRING website tool, and the top 10 hub genes with the highest density and closest to centrality were calculated and screened. GO and KEGG pathway enrichment analysis showed that hub genes were closely related to some cancer-related biological functions and pathways. Using the survival package in the R language to analyze the prognostic significance of hub genes, it was found that KCNA1 and NLGN1 were significantly associated with survival in patients with PTC.  Conclusion  In this study, we explored the potential involvement of circRNA in the development and progression of PTC through the ceRNA network. Our findings deepen our understanding of the pathogenesis and treatment of PTC from the perspective of circRNA.

     

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