铜死亡相关基因在肝细胞癌中的表达及其临床意义
作者:
通讯作者:
作者单位:

1.甘肃中医药大学第一临床医学院,甘肃 兰州 730000;2.甘肃省人民医院 普通外科,甘肃 兰州 730000;3.兰州大学第一临床医学院,甘肃 兰州 730000;4.甘肃省外科肿瘤分子诊断与精准治疗重点实验室,甘肃 兰州730000;5.甘肃省消化道恶性肿瘤防控工程研究中心,甘肃 兰州 730000

作者简介:

孟云,甘肃中医药大学第一临床医学院硕士研究生,主要从事肝胆胰良恶性疾病基础与外科手术方面的研究(

基金项目:

甘肃省人民医院国家级科研培育计划重点基金资助项目(19SYPYA-12);甘肃省科技厅创新基地和人才计划基金资助项目(20JR10RA433);甘肃省科技厅科技计划重点研发计划基金资助项目(21YF5WA027);甘肃省卫生健康行业科研计划基金资助项目(GSWSKY2020-45);甘肃省人民医院科技创新青年基金资助项目(21GSSYC-4);甘肃省教育厅优秀研究生“创新之星”基金资助项目(2021CXZX-735)。


Expressions of cuproptosis-related genes in hepatocellular carcinoma and their clinical significance
Author:
Affiliation:

1.The First Clinical Medicine College, Gansu University of Chinese Medicine, Lanzhou 730000, China;2.Department of General Surgery, Gansu Provincial Hospital, Lanzhou 730000, China;3.The First Clinical Medical School of Lanzhou University, Lanzhou 730000, China;4.Gansu Key Laboratory of Molecular Diagnostics and Precision Medicine for Surgical Oncology, Lanzhou 730000, China;5.Gansu Research Center of Prevention and Control Project for Digestive Oncology, Lanzhou 730000, China

Fund Project:

  • 摘要
  • |
  • 图/表
  • |
  • 访问统计
  • |
  • 参考文献
  • |
  • 相似文献
  • |
  • 引证文献
  • |
  • 资源附件
  • |
  • 音频文件
  • |
  • 视频文件
    摘要:

    背景与目的 肝细胞癌(HCC)是一种全球常见的恶性肿瘤,具有高复发率和高病死率。铜死亡是一种新型的程序性细胞死亡,涉及肿瘤细胞的增殖和生长、血管生成和转移。因此,本研究探讨铜死亡相关基因(CRGs)在HCC中的表达与预后的关系,并建立预后相关的列线图模型以及分析CRGs与HCC免疫细胞浸润的关系。方法 使用R语言“limma”包对TCGA数据库下载的HCC组织与正常组织的数据中CRGs进行差异表达分析;“clusterProfiler”包进行GO和KEGG分析;单因素Cox回归分析筛选与预后相关的CRGs,Lasso-Cox回归分析构建HCC中CRGs相关预后评分模型;“ggsurvplot”包以总生存(OS)为结局绘制Kaplan-Meier生存曲线;“survival ROC”包绘制ROC曲线评估预后评分的准确性;“regplot”和“rms”包绘制列线图和校准曲线;利用TIMER数据库分析CRGs的表达与6种免疫细胞丰度之间的关系。结果 与正常组织相比,HCC组织19个CRGs中的16个有差异表达(上调:PDHB、PDHA1、MTF1、LIPT1、LIPT2、LIAS、GLS、DLD、DLST、DLAT、CDKN2A、ATP7A;下调:SLC31A1、GCSH、DBT、NLRP3);NLRP2的突变频率最高(12%)。GO和KEGG分析表明,CRGs富集于三羧酸循环、碳代谢作用、丙酮酸代谢、糖酵解/糖异生和铂类药物耐药性等信号通路。基于单因素Cox回归分析和Lasso-Cox回归分析筛选出影响HCC预后OS的3个CRGs(CDKN2A、GLS、DLAT)作为预后生物标志物构建预后模型,并使用回归系数构建预后评分:风险评分=0.22×DLAT(表达水平)+0.11×CDKN2A(表达水平)+0.03×GLS(表达水平)。Kaplan-Meier曲线显示,高风险评分HCC患者预后较差(P<0.05),用风险模型的时间依赖ROC曲线评价模型预测性能,1、3、5年的AUC分别为0.741,0.657,0.633。将年龄、性别、T分期、N分期、M分期、病理分型、CDKN2A、GLS和DLAT纳入构建列线图,校准图显示列线图预测和实际观察之间有良好的一致性。GLS、DLAT和CDKN2A与HCC免疫细胞浸润呈正相关,并与免疫检查点PDCD1、CD274、HAVCR2明显相关(均P<0.05)。进一步分析表明,HCC组织中CDKN2A、GLS和DLAT表达越高,患者巴塞罗那病理分期越晚,组织学分级越差(均P<0.05)。结论 与铜死亡相关的基因特征可以作为HCC患者潜在的预后预测因子,并可能为HCC治疗提供新的途径。

    Abstract:

    Background and Aims Hepatocellular carcinoma (HCC) is a common malignancy with a high recurrence and mortality rate. Cuproptosis is a new type of programmed cell death involved in tumor cells' proliferation, growth, angiogenesis, and metastasis. Therefore, this study aims to investigate the relationship between the expression of cuproptosis-related genes (CRGs) and the prognosis in HCC, establish a prognosis-related nomogram model, and analyze the association of CRGs with the immune cell infiltration in HCC.Methods Differential expression analysis of CRGs in the TCGA database was performed using the R language "limma" package; the "clusterProfiler" package was used for GO and KEGG analysis; the prognostic CRGs were screened by univariate Cox regression analysis; the prognostic scoring model based on CRGs for HCC was constructed by Lasso-Cox regression analysis; the "ggsurvplot" package drew the Kaplan-Meier survival curve draws using overall survival (OS) as the outcome variable; the "survival ROC" package created the ROC curve for assessing the accuracy of the prognostic score; the nomogram and the calibration curves were drawn by the 'regplot' and 'rms' packages; the associations between the expression of CRGs and the abundance of six immune cells were analyzed using the TIMER database.Results Among the 19 CRGs, there were 16 differentially expressed ones in HCC tissue compared with normal tissue (up-regulation: PDHB, PDHA1, MTF1, LIPT1, LIPT2, LIAS, GLS, DLD, DLST, DLAT, CDKN2A, and ATP7A; down-regulation: SLC31A1, GCSH, DBT, and NLRP3), and NLRP 2 had the highest mutation frequency of 12%. GO, and KEGG analyses showed that CRGs were enriched in signaling pathways such as the tricarboxylic acid cycle, carbon metabolism, pyruvate metabolism, glycolysis/gluconeogenesis, and platinum drug resistance. Three CRGs (CDKN2A, GLS, and DLAT) that affected the OS were screened by univariate Cox regression analysis and LASSO Cox regression analysis for the construction of the prognostic model, and the prognostic score was constructed using regression coefficient: risk score=0.22×DLAT (expression level) + 0.11×CDKN2A (expression level) + 0.03×GLS (expression level). The Kaplan-Meier curve analysis showed that the HCC patients with high-risk scores had a poor prognosis (P<0.05), and the model prediction performance was evaluated by the time-dependent ROC curve of the risk model, and the AUC at 1, 3, and 5 years was 0.741,0.657 and 0.633, respectively. The nomogram was constructed by incorporating age, sex, T stage, N stage, M stage, pathological classification, CDKN2A, GLS, and DLAT. The calibration map showed good consistency between the nomogram prediction and the actual observation. There were positive correlations of GLS, DLAT, and CDKN2A with HCC immune cell infiltration and a significant correlation with immune checkpoints PDCD 1, CD274, and HAVCR2 (all P<0.05). Further analysis indicated that the higher CDKN2A, GLS, and DLAT expression in HCC tissue, the later the Barcelona pathological stage, the worse the histological grade in patients (all P<0.05).Conclusion Gene signatures associated with cuproptosis can be used as potential prognostic predictors for HCC patients and may provide new insights into the treatment of HCC.

    表 1 CRGs的GO和KEGG的功能富集分析Table 1 Functional enrichment analysis of GO and KEGG for CRGs
    表 2 CRGs单因素Cox回归分析Table 2 Univariate Cox regression analysis of the CRGs
    图1 HCC中CRGs的表达和基因改变 A-B:在HCC和正常组织中19个CRGs的表达;C-D:CRGs表达之间的相关性;E:HCC中19个CRGs的突变频率Fig.1 Expression and genetic alteration of CRGs in HCC A-B: Expressions of 19 CRGs in HCC and normal tissues; C-D: Correlations between the expression of CRGs; E: Mutation frequencies of 19 CRGs in HCC
    图2 TCGA-HCC患者CRGs的GO/KEGG富集和PPI分析 A:CRGs参与的BP;B:CRGs参与的CC;C:CRGs发挥的MF;D:KEGG通路;E:HCC中CRGs的相互作用蛋白Fig.2 GO/KEGG enrichment and PPI analysis of CRGs in TCGA-HCC patients A: BP associated with CRGs; B: CC associated with CRGs; C: MF played by CRGs; D: KEGG pathway; E: Interacting proteins of CRGs in HCC
    图3 TCGA-HCC队列CRGs预后模型构建Fig.3 Prognostic model construction of CRGs in the TCGA-HCC cohort
    图4 TCGA HCC患者CRGs的临床相关性 A:CRGs风险评分、生存状态和预后的分布;B:Kaplan-Meier曲线;C:ROC的1、3、5年生存期预测Fig.4 Clinical relevance of CRGs in TCGA HCC patients A: Distribution of risk score, survival status and prognosis of CRGs; B: Kaplan Meier diagram; C: The 1-, 3- and 5-year survival prediction of ROC
    图5 铜死亡相关预后生物标志物的单因素和多因素Cox回归分析 A:单因素Cox回归分析;B:多因素Cox回归分析Fig.5 Univariate and multivariate Cox regression of Cuproptosis-Related prognostic biomarkers A: Univariate Cox regression; B: Multivariate Cox regression
    图6 预测HCC患者1、3、5年OS的列线图和校准曲线 A:列线图;B:列线图预测的校准曲线Fig.6 Nomograms and calibration curves predicting 1-, 3- and 5-year OS of HCC patients A: Nomograms; B: Calibration curves predicted by the nomograms
    图7 TIMER数据库中的CRGs表达与免疫浸润的相关性 A:GLS;B:DLAT;C:CDKN2AFig.7 Correlation between the expressions of CRGs and immune infiltration in the TIMER database A: GLS; B: DLAT; C: CDKN2A
    图8 HCC患者CRGs表达与免疫检查点(PDCD1、CD274、HAVCR2)表达的相关性 A:GLS;B:DLAT;C:CDKN2AFig.8 Correlations between the expressions of CRGs and the expressions of immune checkpoints (PDCD1, CD274 and HAVCR2) A: GLS; B: DLAT; C: CDKN2A in HCC patients
    图9 GLS、DLAT和CDKN2A在不同病理特征HCC患者中的表达 A-C:不同病理分期;D-F:不同组织学分级Fig.9 Expressions of GLS, DLAT and CDKN2A in HCC patients with different pathological characteristics A-C: Different Pathological stages; D-F: Different histological grades
    参考文献
    相似文献
    引证文献
引用本文

孟云,董保龙,董晓骅,彭江山,郭辉军,张旭升,杜雪芹,杨晓军.铜死亡相关基因在肝细胞癌中的表达及其临床意义[J].中国普通外科杂志,2023,32(1):74-86.
DOI:10.7659/j. issn.1005-6947.2023.01.006

复制
分享
文章指标
  • 点击次数:
  • 下载次数:
历史
  • 收稿日期:2022-08-31
  • 最后修改日期:2023-01-10
  • 录用日期:
  • 在线发布日期: 2023-02-03