Screening of Key Prognosis Genes of Lung Adenocarcinoma Based on Expression Analysis on TCGA Database.

OBJECTIVE

The data of lung adenocarcinoma- (LUAD-) related gene expression profiles were mined from the Cancer Genome Atlas (TCGA) database using bioinformatics methods and potential biomarkers related to the occurrence, development, and prognosis of LUAD were screened out to explore the key prognostic genes and clinical significance.

METHODS

Following the LUAD gene expression profile data that were initially exported from the TCGA database, R software DESeq2 was employed to analyze the difference between the expression profiles of LUAD and normal tissues. The R package "clusterProfiler" was subsequently utilized to perform gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses of the differential genes. A protein-protein interaction (PPI) network was constructed via the String database, and cytohubba, a plugin of Cytoscape, was applied to screen hub genes using the MCC algorithm. The Gene Expression Profile Data Interactive Analysis (GEPIA) was used to analyze expressions of 10 candidate genes in LUAD samples and healthy lung samples, and the selected genes were employed for survival analysis.

RESULTS

A total of 1,598 differential genes were identified through differential analyses and data mining, with 1,394 genes upregulated and 204 downregulated. A total of 10 hub genes CCNA2, CDC20, CCNB2, KIF11, TOP2A, BUB1, BUB1B, CENPF, TPX2, and KIF2C were obtained using the cytohubba plugin. The results of the GEPIA analysis indicated that compared with normal lung tissue, the mRNA expression level of the described hub genes in LUAD tissue was significantly increased ( < 0.05). Survival analysis revealed that these genes had a significant impact on the overall survival time of LUAD patients ( < 0.05).

CONCLUSION

The previously described key genes related to LUAD identified in the TCGA database may be used as potential prognostic biomarkers, which will contribute to further comprehension of the occurrence and development of LUAD and provide references for its diagnosis and treatment.