Key genes involved with prognosis were identified in lung adenocarcinoma by integrated bioinformatics analysis

Hao Song; Junfeng Wu; Wang Liu; Kaier Cai; Zhilong Xie; Yingao Liu; Jiandi Huang; Siyuan Gan; Yinghuan Xiong; Yanqin Sun

doi:10.1016/j.heliyon.2023.e16789

Key genes involved with prognosis were identified in lung adenocarcinoma by integrated bioinformatics analysis

Heliyon. 2023 May 29;9(6):e16789. doi: 10.1016/j.heliyon.2023.e16789. eCollection 2023 Jun.

Authors

Hao Song¹, Junfeng Wu¹, Wang Liu², Kaier Cai¹, Zhilong Xie¹, Yingao Liu¹, Jiandi Huang³, Siyuan Gan³, Yinghuan Xiong⁴, Yanqin Sun³

Affiliations

¹ The Affiliated Hospital of Guangdong Medical University, Zhanjiang 524001, China.
² Department of Respiratory, The Second Affilated Hospital of Guangdong Medical University, Zhanjiang 524001, China.
³ Department of Pathology, Guangdong Medical University, Dongguan 523808/Zhanjiang 524001, China.
⁴ Biological Sample Bank, The Affilated Hospital of Guangdong Medical University, Zhanjiang 524001, China.

Abstract

Objective: By screening the core genes in lung adenocarcinoma (LUAD) with bioinformatics, our study evaluated its prognosis value and role in infiltration process of immune cells.

Methods: Using GEO database, we screened 5 gene chips, including GSE11072, GSE32863, GSE43458, GSE115002, and GSE116959. Then, we obtained the corresponding differentially expressed genes by analyzed 5 gene chips online by GEO2R (P < 0.05, |logFC| > 1). Then, through DAVID online platform, Cytoscape 3.6.1 software and PPI network analysis, the network was visualized and obtain the final core genes. Next, we plan to use the GEPIA, UALCAN, Kaplan-Meier plotter and Time 2.0 database for corresponding analysis. The GEPIA database was used to verify the expression of core genes in LUAD and normal lung tissues, and survival analysis was used to evaluate the value of core genes in the prognosis of LUAD patients. UALCAN was used to verify the expression of the LUAD core gene and promoter methylation status, and the predictive value of core genes was evaluated in LUAD patients by the Kaplan-Meier plotter online tool. Then, we used the Time 2.0 database to identify the relationship to immune infiltration in LUAD. Finally, we used the human protein atlas (HPA) database for online immunohistochemical analysis of the expressed proteins.

Results: The expression of CCNB2 and CDC20 in LUAD were higher than those in normal lung tissues, their increased expression was negatively correlated with the overall survival rate of LUAD, and they were involved in cell cycle signal transduction, oocyte meiosis signal transduction as well as the infiltration process of immune cells in LUAD. The expression proteins of CCNB2 and CDC20 were also different in lung cancer tissue and normal lung tissue. Therefore, CCNB2 and CDC20 were identified as the vital core genes.

Conclusion: CCNB2 and CDC20 are essential genes that may constitute prognostic biomarkers in LUAD, they also participate the immune infiltration process and protein expression process of LUAD, and might provides basis for clinical anti-tumor drug research.

Keywords: Bioinformatics; Core gene; LUAD.