Establishment of a Prognostic Risk Model of lncRNA in Esophageal Squamous Cell Carcinoma by Bioinformatics
10.13471/j.cnki.j.sun.yat-sen.univ(med.sci).2021.0511
- VernacularTitle:基于生物信息学途径食管鳞癌lncRNA预后风险模型的构建
- Author:
He-yuan CAI
1
;
Chun-ying XIE
1
;
Jian-yong ZOU
1
;
Hong-he LUO
1
Author Information
1. Department of Thoracic Surgery，The First Affiliated Hospital of Sun Yat-sen University，Guangzhou 510080，China
- Publication Type:Journal Article
- Keywords:
esophageal squamous cell carcinomas;
lncRNA;
riskscore;
prognosis
- From:
Journal of Sun Yat-sen University(Medical Sciences)
2021;42(5):729-737
- CountryChina
- Language:Chinese
-
Abstract:
ObjectiveTo establish a prognostic risk-model of lncRNA in esophageal squamous cell carcinoma based on cancer genome atlas （TCGA） database. MethodsThe gene expression data and clinical information of esophageal squamous cell carcinoma were downloaded from the TCGA database. The R 4.0.3 software was used to identify the differential expression of lncRNA， Cox regression analysis was used to screen the lncRNA of model， and a prognostic risk model -Riskscore was established. According to the median of Riskscore， the patients were divided into high and low risk group， and the survival prognosis between the two groups were further compared. The diagnostic performance of Riskscore and other clinical features of survival prognosis were further analyzed. In addition， the correlation between Riskscore and other clinical features was analyzed. Finally， principal component analysis （PCA） and gene enrichment analysis （GSEA） were used to explore the differences in gene distribution between the two groups. ResultsUsing R 4.0.3 software， 174 lncRNA were differentially expressed， in which 126 were up-regulated and 48 were down-regulated. Univariate and multivariate COX regression analysis showed AL033384.1 and AC108449.2 could be independent prognostic factors of esophageal squamous cell carcinoma. The risk-model formula is Riskscore = 1.303×AL033384.1 - 1.525×AC108449.2， and the overall survival in the low risk group was longer than that of the high risk group（P < 0.001）. Principal component analysis showed the model-lncRNA could better distinguish the high and low risk groups，and it was the main influencing factor for the distribution in the two groups. Further GSEA enrichment analysis revealed gene functional annotation differences between the two groups， and the high risk group was mainly enriched in the process of keratinization and intracellular hypermetabolism. Besides， the 1-year， 2-year and 3-year prediction performance of this risk-model was 0.750， 0.768 and 0.796， respectively， which was better than those of other clinical characteristics such as TNM staging. ConclusionBased on TCGA database， the prognostic risk-model， established by AL033384.1 and AC108449.2， has important clinical value in predicting the prognosis of patients with esophageal squamous cell carcinoma， and the model proves the low risk group has longer overall survival and better prognosis.
