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基于TCGA数据库的HCC甲基化驱动基因筛选及预后风险分析

HCC Methylation Driver Gene Screening and Prognostic Risk Analysis Based on TCGA Database

  • 摘要: 肝细胞癌(hepatocellular carcinoma, HCC)是世界范围内最常见的恶性肿瘤之一,具有发病率高、预后差、死亡率高等特点。其中,DNA甲基化在HCC的发生发展中起重要作用。本研究从肿瘤基因组图谱(the cancer genome atlas, TCGA)数据库中获取HCC甲基化数据、RNA-seq数据和临床预后信息。用MethylMix R包分析肿瘤组织和正常组织的差异甲基化状态,获得338个与疾病相关的甲基化驱动基因。利用DAVID和ConsensusPathDB工具对上述基因进行功能和通路富集分析。通过单因素和多因素Cox回归分析构建了基于5个甲基化驱动基因表达谱的预后风险模型。同时,通过甲基化和基因表达联合生存分析进一步探讨这5个基因及其甲基化位点的预后价值。本研究将对HCC的早期诊断和预后评估提供新的标志物和新思路。

     

    Abstract: Hepatocellular carcinoma(HCC) is one of the most common malignant tumors worldwide with high morbidity, poor prognosis and mortality. DNA methylation plays an important role in HCC tumorigenesis and progression. In this study, HCC methylation data, RNA-seq data and clinical prognosis information were obtained from The Cancer Genome Atlas(TCGA) database. MethylMix R package was used to screen out the differential methylation status in cancer tissues and normal tissues, and 338 disease-related methylation-driven genes were obtained. DAVID and ConsensusPathDB were respectively used to analyze the functional and pathways enrichment of these genes. Then, a prognostic risk model based on 5 methylation-driven gene expression profiles was constructed by univariate and multivariate Cox regression analysis. At the same time, a methylation and gene expression combined survival analysis was performed to further explore the prognostic value of these 5 genes and their methylation sites. This study will provide new markers and new ideas for the early diagnosis and prognosis assessment of HCC.

     

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