基于ceRNA调节网络结直肠癌预后关键基因的筛选与分析  

Screening and analysis of prognostic key genes in colorectal cancer based on ceRNA regulatory network

作　　者：黄奔 柳家翠 王萍[3] 段怡平 陈梁玥 马甜甜 喻明霞[2] HUANG Ben;LIU Jiacui;WANG Ping;DUAN Yiping;CHEN Liangyue;MA Tiantian;YU Mingxia(Department of Laboratory Medicine,Jiangsu Provincial People's Hospital/The First Affiliated Hospital of Nanjing Medical University,Nanjing,Jiangsu,China,210009;Department of Laboratory Medicine,Zhong-nan Hospital,Wuhan University,Wuhan,Hubei,China,430071;Department of Laboratory Pathology,Zhongnan Hospital,Wuhan University,Wuhan,Hubei,China,430071)

机构地区：[1]江苏省人民医院/南京医科大学第一附属医院检验学部,江苏南京210009 [2]武汉大学中南医院检验科,湖北武汉430071 [3]武汉大学中南医院病理科,湖北武汉430071

出　　处：《分子诊断与治疗杂志》2023年第3期378-382,共5页Journal of Molecular Diagnostics and Therapy

基　　金：国家自然科学基金(81472033);湖北省医学青年后备人才(青年拔尖人才)(HB20200409);湖北省卫生和计划生育委员会联合基金项目(WJ2018H0028);湖北省卫生健康科研基金资助(WJ2019M203);武汉市应用基础研究(2017060201010171);武汉大学医学部教学研究项目(2020048);武汉大学大学生创新项目(MS2017045、S2018301747);武汉大学中南医院科技创新培育基金(cxpy2019051、cxpy2018031)。

摘　　要：目的本研究利用癌症基因组图谱(TCGA)数据库分别构建结肠癌和直肠癌的lncRNA-miRNA-mRNA的ceRNA调控网络,寻找网络中与患者总体生存率相关的基因,为结直肠癌提供新型预后分子标志物。方法在TCGA数据库分别下载结肠癌和直肠癌的原始转录组测序数据和临床数据,利用R 4.0.4软件的edgeR程序包进行差异基因的分析。根据差异基因靶向调控关系,构建lncRNA-miRNA-mRNA调节网络。利用Cytoscape 3.7.1软件绘制网络调节图。结合患者的临床资料,利用Survival程序包寻找调控网络中与患者总体生存率相关的基因。结果在结肠癌的ceRNA网络中,共涉及29个miRNA、128个lncRNA和53个mRNA,有9个lncRNA(AC002511.1、AL590483.1、AP004609.1、GAS6-AS1、HOTAIR、ITCH-IT1、KCNQ1OT1、LINC00491、PVT1),4个mRNA(FJX1、SERPINE1、TPM2、ULBP2),4个miRNA(miR-145、miR-193b、miR-216a、miR-375)与患者预后相关(P<0.05)。而在直肠癌的ceRNA网络中,共包括19个miRNA、23个lncRNA以及66个m RNA。只有1个mRNA(SALL4)和1个miRNA(miR-107)与患者预后相关(P<0.05)。结论成功构建了结肠癌和直肠癌的ceRNA调控网络,并分别寻找到了潜在的预后关键基因。Objective To construct the ceRNA regulatory network of lncRNA⁃miRNA⁃mRNA for colon cancer and rectal cancer using the Cancer Genome Atlas(TCGA)database,to find the genes in the network related to the overall survival rate of patients,and to provide prognostic molecular markers for colorectal cancer.Methods The transcriptome sequencing data and clinical data of colon cancer and rectal cancer were downloaded from the TCGA database,and the edgeR package of R 4.0.4 software was used to analyze the differential genes.According to the targeting regulation relationship,the lncRNA⁃miRNA⁃mRNA regulatory network was constructed.The Cytoscape 3.7.1 software was used to draw the network.Combined with the clinical data of the patients,the survival package was used to find the genes related to the overall survival rate of the patients in the network.Results In the ceRNA network of colon cancer,29 miRNAs,128 lncRNAs and 53 mRNAs were involved,and 9 lncRNAs(AC002511.1,AL590483.1,AP004609.1,GAS6⁃AS1,HOTAIR,ITCH⁃IT1,KCNQ1OT1,LINC00491,PVT1),4 mRNAs(FJX1,SERPINE1,TPM2,ULBP2),4 miRNAs(miR⁃145,miR⁃193b,miR⁃216a,miR⁃375)were related to patients'prognosis(P<0.05).In the ceRNA network of rectal cancer,a total of 19 miRNAs,23 lncRNAs and 66 mRNAs were included.Only 1 mRNA(SALL4)and 1 miRNA(miR⁃107)were associated with patient prognosis(P<0.05).Conclusion The ceRNA regulatory network of colon cancer and rectal cancer were constructed,and potential key genes for prognosis were found.

关 键 词：TCGA 结直肠癌 ceRNA 预后标志物 

分 类 号：R735.34[医药卫生—肿瘤] Q811.4[医药卫生—临床医学]