基于生物信息学分析宫颈鳞癌的关键基因与免疫细胞浸润

doi:10.3969/j.issn.1004-616x.2024.02.003

Abstract

Abstract: OBJECTIVE： To use chip data of datasets to identify key pathogenic genes for cervical squamous cell carcinoma， and to investigate mechanisms of action regarding the level of immune cell infiltration. METHODS： The GSE63514 dataset was downloaded from the GEO database. Using the dataset and the limma package in R language，d differentially expressed genes of cervical squamous cell carcinoma. The clusterProfiler package in R language was used to conduct functional enrichment analysis (GO term and KEGG pathway). Then， Protein interaction network maps were constructed， and key genes were screened by using the String and Cytoscape software. The Cancer Genome Atlas (TCGA) database was used to obtain the gene expression profile of cervical squamous cell carcinoma for identification of hub genes. Disease-critical genes were screened using the random forest analysis， followed by the analysis of immune cell infiltration patterns based on the CIBERSORT deconvolution algorithm. RESULTS：569 differentially expressed genes were identified，of which 262 were up-regulated and 307 were down-regulated. The GO analysis showed that the carcinomas were mainly involved with cell cycle process and mitosis. The KEGG analysis showed that the carcinomas were mainly highly correlated with cell cycle and motor proteins. The random forest analysis based on hub genes screened：5 key genes：TTK，CDK1，KIF23，KIF2C，NUSAP1. The results of immune infiltration showed that in naïve CD4⁺ T cell expression was significantly upregulated in the carcinomas. CONCLUSION： The genes TTK， CDK1， KIF23， KIF2C and NUSAP1 were closely related to the development of cervical squamous cell carcinoma， and immune cells such as naive CD4⁺ T cells had an important role in the development of the carcinomas.

Key words: cervical squamous cell carcinoma, bioinformatics, key genes, immune infiltration

CLC Number:

R737

GAO Han, ZHANG Yi, ZHENG Zhanyue, TAN Qitao, YANG Minli, SUN Yan. Bioinformatics analysis of key genes and immune cell infiltration in cervical squamous cell carcinoma[J]. Carcinogenesis, Teratogenesis & Mutagenesis, 2024, 36(2): 100-106.

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Bioinformatics analysis of key genes and immune cell infiltration in cervical squamous cell carcinoma

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