基于TCGA数据库分析肝细胞癌组织UCK2、PRIM1和DNTM1基因水平对患者预后的影响*

doi:10.3969/j.issn.1672-5069.2021.05.031

摘要/Abstract

摘要： 目的通过分析TCGA数据库肝细胞癌(HCC)组织基因组数据,分析差异基因,寻找影响肝癌患者预后的分子标志物。方法搜索癌症基因图谱(TCGA)数据库,查找HCC组织差异基因及临床和病理学资料,进行基因筛选和生存分析。根据差异基因水平,以fdr=0.05和lgFC=1为筛选依据,绘制生存曲线,选择基因集“c2.cp.kegg.v6.2.symbols.gmt”行KEGG富集分析。结果在TCGA-LIHC数据库,收集374例HCC组织和50例癌旁组织所对应的临床和病理学参数;高风险组HCC患者总体生存率显著低于低风险组患者;研究筛选出具有显著水平性基因DNTM1、PRIM1和UCK2,进行GSEA富集分析,GSEA显示了许多显著丰富的信号通路,进一步证明了上述基因与HCC发生及与患者预后的显著性关系,从而揭示了HCC组织DNTM1、PRIM1和UCK2基因水平对生存有显著性影响。结论通过TCGA数据库筛选和验证,发现HCC患者癌组织UCK2、PRIM1和DNTM1 基因水平显著上调,而CYP2C9基因显著下调,它们可以作为肝癌的分子标志物而指导临床,判断预后。

关键词: 肝细胞癌, TCGA 数据库, 差异基因, COX回归模型, UCK2, PRIM1, DNTM1

Abstract: Objective To search for differential genes in cancerous tissues of patients with hepatocellular carcinoma (HCC) based on TCGA database. Methods We search the differential genes in patients with HCC from TCGA database, and draw the survival curve according to the levels of differential genes by using fdr=0.05 and lgFC=1 as the screening basis. Results We successfully got the clinical and pathological materials of 374 cancerous tissues and 50 adjacent non-cancerous tissues from the TCGA-LIHC database; the total survival in patients with high risk was significantly lower than that in patients with low risk; we found the significant higher levels DNTM1, PRIM1 and UCK2 genes to screen and verify in TCGA database, and the results showed that many abundant signaling pathway, suggesting that DNTM1, PRIM1 and UCK2 were related to the survival of patients with HCC. Conclusion The UCK2, PRIM1 and DNTM1 genes are up-regulated and CYP2C9 gene is down-regulated in liver cancerous tissues by through TCGA database screening and verification, which might help the clinicians to deal with them in clinical practice.

Key words: Hepatocellular carcinoma, TCGA database, Differential genes, Cox regression model, UCK2, PRIM1, DNTM1

赵艺, 卢秉久. 基于TCGA数据库分析肝细胞癌组织UCK2、PRIM1和DNTM1基因水平对患者预后的影响^*[J]. 实用肝脏病杂志, 2021, 24(5): 729-732.

Zhao Yi, Lu Bingjiu. UCK2, PRIM1 and DNTM1 levels in cancerous tissues of patients with hepatocellular carcinoma based on TCGA database[J]. Journal of Practical Hepatology, 2021, 24(5): 729-732.

参考文献

[1]Van Kuilenburg André B P, Rutger M. The pivotal role of uridine-cytidine kinases in pyrimidine metabolism and activation of cytotoxic nucleoside analogues inneuroblastoma. Biochimica Biophysica Acta,2016,1862(9): 1504–1512.
[2]Ma TL, Sun LP, Dong NN, et al. Protein expression trends of DNMT1 in gastrointestinal diseases: From benign to precancerous lesions to cancer.World J Gastrointest Oncol,2019,11(12):1141-1150.
[3]Seal DB, Das V. Estimating gene expression from DNA methylation and copy number variation: A deep learning regression model for multi-omics integration. Genomics,2020,112(4):23-29.
[4]王纯,叶明亮,陈志航.假基因DUXAP8在肝癌中的水平及其临床意义.临床肝胆病杂志,2020,36(03):580-586.
[5]朱玉,刘浩瀚,丁蕾.linc00346和E2F2在肝癌中的水平及其与预后的关系.中华疾病控制杂志,2020,24(2):228-232.
[6]郑文杰,姚敏,巫梦娜.高迁移率族蛋白B3异常与肝细胞肝癌患者预后分析.中华肿瘤防治杂志,2020,27(1):19-26.
[7]杨颖,杨志芳.miR-27a-3p对肝癌细胞化疗敏感性的影响及机制探讨.中国癌症杂志,2019,29(10):788-794.
[8]张健,赵素平,吕飒美. 肝癌中ZBTB7A的水平及其与肿瘤耐药性产生的相关性.临床与实验病理学杂志,2019,35(10):1156-1161.
[9]黄高,畅庚云,吴定国.微小RNA-3677靶向调控SOX6水平及对肝癌细胞增殖和凋亡的影响.临床肿瘤学杂志,2019,24(10):880-885.
[10] 张淑群,张莹,杨鑫.EZH2、MMP-2及MMP-9在肝癌侵袭转移中的作用及关系.西安交通大学学报(医学版),2019,40(6):947-953.
[11] Li CF, Feng Q, Hao H. Identification of flap endonuclease 1 as a potential core gene in hepatocellular carcinoma by integrated bioinformatics analysis. Peer J,2019,39(7): 19-28.
[12] 王光兴,石毅,王小晟.基于合成致死策略寻找ARID1A突变肝细胞癌的治疗靶点.基因组学与应用生物学,2019,38(7):3297-3304.
[13] Wu P, Xiao YY, Guo T. Identifying miRNA-mRNA pairs and novel miRNAs from hepatocelluar carcinoma miRNomes and TCGA database. J Cancer, 2019,10(11): 86-93.
[14] 程熠,吴莹莹,刘东伯. 肝癌免疫细胞浸润模式及与预后的相关性分析.华中科技大学学报(医学版), 2019,48(3):276-280.
[15] Liu GM,Zeng HD,Zhang CY, et al. Identification of a six-gene signature predicting overall survival for hepatocellular carcinoma. Cancer Cell Int, 2019, 19(3):103-108.
[16] Kessler Sonja M, Kevan H. Hepatocellular carcinoma and nuclear paraspeckles: Induction in chemoresistance and prediction for poor survival. Cell Physiol Biochem,2019,52(4):78-86.
[17] Wang Y, Huang Q, Deng T. Clinical significance of TRMT6 in hepatocellular carcinoma: A bioinformatics-based study. Med Sci Monitor,2019,25(6):29-38.
[18] 张婧,陈洁,关贵文,等.肝细胞癌中趋化因子CXCL10及其受体CXCR3的水平及临床意义分析.北京大学学报(医学版),2019,51(3):402-408.
[19] 陈建安,陈思玉,刘丽文.高迁移率族蛋白2在肝癌组织中的水平及对肝癌细胞生物学活性的影响.郑州大学学报(医学版),2019,54(1):9-15.
[20] Ma YL, Li KZ, Li SJ. Prognostic value of ubiquitin-conjugating enzyme E2 S overexpression in hepatocellular carcinoma.Int J Biol Macromol,2018,119(3):59-63.

基于TCGA数据库分析肝细胞癌组织UCK2、PRIM1和DNTM1基因水平对患者预后的影响^*

UCK2, PRIM1 and DNTM1 levels in cancerous tissues of patients with hepatocellular carcinoma based on TCGA database

PDF (PC)

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 15

编辑推荐

Metrics

本文评价

[1]	中国肝炎防治基金会肝细胞癌筛查和监测项目专家组. 慢性乙型肝炎病毒感染者肝细胞癌筛查和监测[J]. 实用肝脏病杂志, 2021, 24(6): 776-785.
[2]	贾坤, 苏建荣, 孙伟. 慢性丙型肝炎患者血清和外泌体LncRNA HEIH水平及其临床意义探讨^*[J]. 实用肝脏病杂志, 2021, 24(6): 823-826.
[3]	吴慧娟, 何年安, 谢蠡, 叶显俊, 章生龙, 刘力. 超声造影联合血清CA19-9鉴别诊断胆管细胞癌与肝细胞癌应用研究[J]. 实用肝脏病杂志, 2021, 24(6): 903-906.
[4]	周正, 刘玮. 肝血管瘤、肝细胞癌和肝血管平滑肌脂肪瘤超声造影特点观察^*[J]. 实用肝脏病杂志, 2021, 24(6): 911-914.
[5]	赵鹏飞, 祖红梅, 辛晓恩, 彭军宁, 严兆兰, 马存凯, 李雅静, 杨硕. 肝细胞癌发病危险因素Logistic回归分析^*[J]. 实用肝脏病杂志, 2021, 24(6): 927-929.
[6]	梁旭, 刘圆圆, 杨学刚, 任静. 基于2018年版肝脏影像报告数据系统对比分析CT和MRI诊断肝细胞癌的效能^*[J]. 实用肝脏病杂志, 2021, 24(5): 725-728.
[7]	张英, 张雷, 丁海涛. TACE术后阿帕替尼维持治疗进展期肝细胞癌患者疗效分析^*[J]. 实用肝脏病杂志, 2021, 24(5): 733-736.
[8]	于雷, 孙超, 张曼旭. 灵芝多糖对HepG2细胞诱导的肝癌小鼠肠道菌群及其菌群代谢功能的调节作用^*[J]. 实用肝脏病杂志, 2021, 24(4): 476-479.
[9]	张兵, 陈瑞红, 杨威, 徐刚. 肝细胞癌患者血清HSP90α和PIVKA-Ⅱ水平变化及其临床意义探讨^*[J]. 实用肝脏病杂志, 2021, 24(4): 548-551.
[10]	王婷婷, 辛洋, 王娜娜. 肝细胞癌癌组织CBX7和PERK表达及其对手术治疗后患者预后的影响^*[J]. 实用肝脏病杂志, 2021, 24(4): 552-555.
[11]	于哲, 罗婧, 杨永平. 外周血单个核细胞GPSM2水平可能是肝细胞癌预后判断的新型标志物^*[J]. 实用肝脏病杂志, 2021, 24(4): 556-560.
[12]	高金龙, 王海峰, 李娜, 梁朝晖, 张文正. 自MR-T2图像勾画肝细胞癌患者放疗靶区精度研究[J]. 实用肝脏病杂志, 2021, 24(4): 565-568.
[13]	陈少华, 吴哲, 魏志鸿, 陈鹏. 肝细胞癌患者血清癌基因和抑癌基因蛋白水平变化[J]. 实用肝脏病杂志, 2021, 24(2): 244-247.
[14]	许超, 王森钰, 罗援烨, 陈王丽, 周芸, 盛以泉, 郭满盈. 肝细胞癌患者PBMCs TLR 2/4表达和小肠细菌过度生长对TACE术后生存期的影响[J]. 实用肝脏病杂志, 2021, 24(2): 248-251.
[15]	李曼, 李静, 陈文玲, 陈永利, 王力军. 体外局部高频热疗联合放疗治疗进展期肝细胞癌患者临床疗效研究[J]. 实用肝脏病杂志, 2021, 24(2): 256-259.