基于癌症基因图谱数据库的口底鳞状细胞癌长链非编码RNA风险预测模型的构建  

Establishment of Long Non-coding RNA Risk Prediction Mode for Squamous Cell Carcinoma of the Floor of the Mouth Based on the Cancer Genome Atlas Database

作　　者：余长云[1] 张倩倩[1] 薛彬彬 张彩[1] 张晨[1] 李金映 曹华[1] 吉倩婧 YU Changyun;ZHANG Qianqian;XUE Binbin;ZHANG Cai;ZHANG Chen;LI Jinying;CAO Hua;JI Qianjing(Department of Otolaryngology Head and Neck Surgery,the First Affiliated Hospital of Zhengzhou University,Zhengzhou 450052,China)

机构地区：[1]郑州大学第一附属医院耳鼻咽喉头颈外科,河南郑州450052

出　　处：《河南医学研究》2023年第4期577-582,共6页Henan Medical Research

基　　金：国家自然科学基金青年基金项目(81402232);河南省重点研发与推广专项(科技攻关)(202102310116);河南省高等学校重点科研项目(20A320022);河南省医学科技攻关省部共建青年项目(SBGJ202103067)。

摘　　要：目的 利用癌症基因图谱(TCGA)数据库建立口底鳞状细胞癌(简称口底鳞癌)患者预后的长链非编码RNA(lncRNA)风险预测模型。方法 下载TCGA数据库中口底鳞癌及对应癌旁组织的基因表达谱数据及临床相关数据,在R软件中通过edgeR包对口底鳞癌组织与癌旁组织中的基因表达数据进行分析,筛选差异表达lncRNA;采用单变量和多变量Cox风险回归模型筛选和建立lncRNA风险预测模型;绘制风险评分曲线、患者生存状态散点图、lncRNA表达热图、Kaplan-Meier生存曲线及受试者工作特征(ROC)曲线以评估风险模型与口底鳞癌患者预后的相关性。结果 从TCGA数据库中得到54例口底鳞癌组织和3例对应癌旁组织的基因表达数据,使用R软件edgeR包进行差异基因分析(筛选标准:P≤0.001,倍数变化≥2)得到差异lncRNA 138个。单变量Cox回归分析及多变量Cox回归分析得到基于3个lncRNA(MIR1-1HG、HOXC13-AS、RAMP2-AS1)的多变量风险预测模型,一致性系数为0.77。患者风险评分、生存状态散点图显示,风险评分越高口底鳞癌患者的死亡率越高。Kaplan-Meier生存曲线显示,高风险口底鳞癌患者的总生存率低于低风险口底鳞癌患者(P<0.001)。模型的ROC曲线下面积为0.895。结论 本研究筛选出3个具有临床意义的lncRNA,为口底鳞癌基础研究提供有价值的生物标志物;基于MIR1-1HG、HOXC13-AS、RAMP2-AS1的风险预测模型可有效预测口底鳞癌患者的预后,有望用于指导临床治疗。Objective To establish a risk prediction model of long non-coding RNA(lncRNA) for the prognosis of squamous cell carcinoma of the floor of the mouth patients using the cancer genome atlas(TCGA) database.Methods The gene expression profiles and clinical data of squamous cell carcinoma of the floor of the mouth and adjacent non-cancerous epithelial tissue in TCGA database were downloaded, and differentially-expressed lncRNAs were screened in R software using edgeR package. The risk prediction model of lncRNA was screened and established by univariate and multivariate Cox regression models. The risk curve, survival status scatter plot, heatmap of the lncRNA signature, Kaplan-Meier survival plot, and the receiver operating characteristic(ROC) curve were used to illustrate relationship between the risk score and corresponding survival status of squamous cell carcinoma of the floor of the mouth patients.Results The expression profiles of squamous cell carcinoma of the floor of the mouth genes were obtained from TCGA database, including 54 squamous cell carcinoma of the floor of the mouth tissues and 3 adjacent non-cancerous epithelial tissues. A total of 138 differential expressed lncRNAs were obtained by using R software edgeR package(screening criteria: P≤0.001, fold change≥2). By univariate and multivariate Cox regression analyses, a 3-lncRNA(MIR1-1HG, HOXC13-AS, RAMP2-AS1) prognostic risk model was obtained, and concordance index was 0.77. Risk curve and survival status scatter plot showed that the higher the risk score, the higher the mortality rate was observed in squamous cell carcinoma of the floor of the mouth patients. Kaplan-Meier survival analysis showed that the overall survival of the high-risk group was inferior than those of the low-risk group(P<0.001). The area under ROC curve of the model was 0.895.Conclusion Three significant lncRNA were acquired in the study, which proposed valuable biological makers for the basic study of squamous cell carcinoma of the floor of the mouth. The risk prediction mo

关 键 词：口底鳞状细胞癌 长链非编码RNA 癌症基因图谱数据库 COX回归模型 

分 类 号：R739.8[医药卫生—肿瘤]