Integrated Bioinformatic Analysis of DNA Methylation and Immune Infiltration in Endometrial Cancer

Biomed Res Int. 2022 Jun 20;2022:5119411. doi: 10.1155/2022/5119411. eCollection 2022.

Abstract

Background: Endometrial cancer greatly threatens the health of female. Emerging evidences have demonstrated that DNA methylation and immune infiltration are involved in the occurrence and development of endometrial cancer. However, the mechanism and prognostic biomarkers of endometrial cancer are still unclear. In this study, we assess DNA methylation and immune infiltration via bioinformatic analysis.

Methods: The latest RNA-Seq, DNA methylation data, and clinical data related to endometrial cancer were downloaded from the UCSC Xena dataset. The methylation-driven genes were selected, and then the risk score was obtained using "MethylMix" and "corrplot" R packages. The connection between methylated genes and the expression of screened driven genes were explored using "survminer" and "beeswarm" packages, respectively. Finally, the role of VTCN1in immune infiltration was analyzed using "CIBERSORT" package.

Results: In this study, 179 upregulated genes, and 311 downregulated genes were identified and found to be related to extracellular matrix organization, cell-cell junctions, and cell adhesion molecular binding. The methylation-driven gene VTCN1 was selected, and patients classified to the hypomethylation and high expression group displayed poor prognosis. The VTCN1 gene exhibited highest correlation coefficient between methylation and expression. More importantly, the hypomethylation of promoter of VTCN1 led to its high expression, thereby induce tumor development by inhibiting CD8+ T cell infiltration.

Conclusions: Overall, our study was the first to reveal the mechanism of endometrial cancer by assessing DNA methylation and immune infiltration via integrated bioinformatic analysis. In addition, we found a pivotal prognostic biomarker for the disease. Our study provides potential targets for the diagnosis and prognosis of endometrial cancer in the future.

MeSH terms

  • Computational Biology
  • DNA Methylation* / genetics
  • Endometrial Neoplasms* / genetics
  • Female
  • Gene Expression Regulation, Neoplastic
  • Humans
  • Prognosis