Genomics prediction analysis of radiotherapy sensitivity and prognosis of esophageal squamous cell carcinoma: Evidence based on bioinformatics analysis
- Author:
Xiaobo SHI
1
Author Information
- Publication Type:Journal Article
- Keywords: Bioinformatics analysis; Esophageal squamous cell carcinoma; Prognosis; Radiosensitivity
- From: Journal of Xi'an Jiaotong University(Medical Sciences) 2020;41(5):651-658
- CountryChina
- Language:Chinese
- Abstract: Objective: To explore the key genes affecting the radiosensitivity and prognosis of esophageal squamous cell carcinoma and reveal the related factors of radiotherapy differences in esophageal squamous cell carcinoma at the genomic level. Methods: We downloaded the related chip data of esophageal squamous cell carcinoma receiving radiation therapy from the gene chip public database Gene Expression Omnibus(GEO) (GSE45670). The limma package was used to identify the differential folds of the genes in the pCR and npCR groups, and the genes related to radiosensitivity were screened and enriched using GSEA analysis. The gene expression profile data and clinical data of esophageal squamous cell carcinoma were downloaded from The Cancer Genome Atlas(TCGA) database, and the difference genes between tumor tissue and normal tissue were identified using the edgeR package. We made a comprehensive analysis of the two databases using the STRING database to construct a protein interaction network, and analyzed patient prognosis data based on the level of core gene expression. Results: GSEA showed that the genes of pCR and npCR in GSE45670 were significantly different in cell cycle, DNA replication and other biological characteristics (nominal P<0.05 and FDR<0.25), and 70 radiosensitivity-related genes were identified. According to edgeR analysis, 4855 differential genes were screened between esophageal squamous cell carcinoma and normal tissues in TCGA. Combining the two databases and the STRING database, a total of 46 genes were associated with esophageal squamous cell carcinoma and radiosensitivity, and could be used as candidate genes. Survival analysis showed that PRIM1 and PRKDC were highly expressed in both tumor tissues and pCR groups, and the prognosis was better(P<0.05). Results: Based on GEO and TCGA databases, 46 genes were associated with the occurrence and radiosensitivity of esophageal squamous cell carcinoma, and 26 genes could be the core genes. PRKDC and PRIM1 were highly expressed in the pCR group and correlated well with the prognosis of the carcinoma.
