Protein-based bioinformatics analysis of cervical cancer-related genes

Corresponding author: yu qi, yuqi@sxmu.edu.cn

DOI: 10.12201/bmr.202303.00017

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  Abstract: The aim of this study was to explore the expression characteristics and clinical significance of differentially expressed genes (DEGs) closely related to HPVE6E7 through bioinformatics mining of genes associated with cervical cancer (CESC). Method The cervical tissue and clinical information of CESC in TCGA and GTEx were obtained from UCSC as the training set. The expression profile chip GSE63514 associated with CESC from GEO was obtained as the validation set. The DEGs of tumor and normal samples were screened using the R software limma package to produce Venn diagrams of genes associated with the E6E7 protein in the MigDB database. Bulk survival analysis was performed by survival package and validated by ROC and protein expression levels. Next, key genes were obtained by copy number variation and methylation correlation. Finally, specific co-expression networks were constructed and subjected to enrichment analysis and immuno-infiltration analysis. ResultsThere were 101 DEGs associated with HPVE6E7, and 8 DEGs were screened after survival and ROC analysis. After verification at the protein level, four genes were found to be consistent with expression at the mRNA level, namely CHAF1B, E2F1, MCM4, and PCNA. Through copy number and methylation correlation analysis, three genes were selected as significant, respectively, E2F1, MCM4, and PCNA. Meanwhile, the genes in the specific co-expression network were strongly enriched in DNA replication, chromosome organization, nuclear chromosomes, etc. Eventually, immune correlation analysis revealed significant correlations with CD4 T cells, B cells, and neutrophils.E2F1, MCM4, PCNA, DNA replication, chromosome organization, etc., were the molecular mechanisms and key pivot genes for the occurrence and development of CESC and the protein encoded by HPVE6E7.

  Key words: Cervical cancer; cervical tissue; Differentially Expressed Genes; HPVE6E7 encoded protein

  Submit time: 22 March 2023

  Copyright: The copyright holder for this preprint is the author/funder, who has granted biomedRxiv a license to display the preprint in perpetuity.
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