Combined Screening Analysis of Differentially Methylated and Differentially Expressed Genes in Gastrointestinal Cancer Based on Bioinformatics
10.3969/j.issn.1008-7125.2020.05.005
- VernacularTitle: 基于生物信息学的胃肠道癌症差异甲基化-差异表达基因联合筛选分析
- Author:
Xiantong DAI
1
Author Information
1. Etiology and Screening Department of Cancer Institute, The First Hospital of China Medical University, Key Laboratory of Cancer Etiology and Prevention
- Publication Type:Journal Article
- Keywords:
Bioinformatics;
Colorectal Neoplasms;
DNA Methylation;
Gene Expression;
Stomach Neoplasms
- From:
Chinese Journal of Gastroenterology
2020;25(5):276-282
- CountryChina
- Language:Chinese
-
Abstract:
Background: The occurrence and development of gastrointestinal cancer are the result of multi-genes and multi-factors. DNA methylation is one of the important ways of epigenetic regulation, which plays an important role in the diagnosis and treatment of gastrointestinal cancer. Aims: To screen and verify the differentially methylated and differentially expressed genes in gastrointestinal cancer by bioinformatics analysis, and to provide a theoretical basis for the analysis of molecular mechanism of DNA methylation in the occurrence and development of gastrointestinal cancer. Methods: Data from the expression profile chip and methylation chip in the GEO database were selected. Differentially methylated and differentially expressed genes in gastrointestinal cancer were screened by using GEO2R. STRING database was used to construct protein-protein interaction (PPI) network, and the core genes were screened and analyzed by GO analysis and KEGG analysis, and were verified by TCGA database. Results: Sixty high methylation-low expression genes (Hyper-LGs) and 407 low methylation-high expression genes (Hypo-HGs) were obtained. GO analysis showed that Hyper-LGs involved 46 functions and Hypo-HGs involved 164 functions. KEGG analysis showed that Hyper-LGs were mainly enriched in Rap1 signaling pathway, and morphine addiction pathway, while Hypo-HGs were mainly enriched in ECM-receptor interaction, cell cycle, PI3K-Akt signaling pathway. TCGA database results showed that CDH2 was the common Hyper-LGs in gastrointestinal cancer, and EXO1 was the common Hypo-HGs. Conclusions: Bioinformatics-based combined screening analysis of differentially methylated and differentially expressed genes in gastrointestinal cancer provides new clues for elucidating the epigenetic role of DNA methylation in the development of gastrointestinal cancer, which is helpful for comprehensively exploring the role and mechanism of DNA methylation regulation in gastrointestinal cancer, and can provide a theoretical basis for the screening of diagnostic markers of gastrointestinal cancer and the selection of precise targets for drug therapy.
