Bioinformatics analysis of long no⁃codding RNA MIR4713HG regulating colorectal cancer progression and prognosis
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摘要:
目的：通过生物信息学方法，分析长链非编码RNA（long no-codding RNA，lncRNA）MIR4713HG对结直肠癌（colorectal cancer，CRC）进展及预后的作用，并进一步预测可能的分子机制。方法：从肿瘤基因组图谱（The Cancer Genome Atlas，TCGA）数据库下载CRC基因表达数据及临床数据，应用Perl及R软件对数据进行整理后筛选出差异表达的基因；进一步对差异基因行生存、独立预后及临床病理相关性分析，选取相关性最强的差异基因作为目的基因；分析目的基因的表达与CRC不同临床病理特征的相关性及对患者预后的影响；利用R软件对不同的临床病理特征行独立预后分析；最后，对目的基因行基因集富集分析（gene set enrichment analysis，GSEA），并利用R软件分析目的基因与潜在靶基因的相关性，预测目的基因调控CRC进展及预后可能的机制。结果：通过对基因表达数据进行分析获得7 866个差异表达基因；对差异基因行生存、独立预后及临床病理特征相关性分析发现，MIR4713HG与CRC的生存预后及临床病理特征均显著相关。选取MIR4713HG作为目的基因，通过TCGA数据库发现MIR4713HG在CRC组织中显著高表达（P < 0.001）；MIR4713HG与CRC的分级、TNM分期具有相关性（P < 0.05），而与患者的年龄无相关性（P=0.999）；独立预后分析提示患者预后与MIR4713HG、年龄、肿瘤分级、TNM分期相关（P < 0.05），MIR4713HG及年龄可作为评价患者预后的独立风险因子。GSEA显示，MIR4713HG在P53信号通路中被富集；MIR4713HG与潜在靶基因的相关性分析显示，MIR4713HG与BAK1、FAS具有相关性（|r|>0.25，P < 0.001）。结论：lncRNA MIR4713HG可作为评价CRC进展及预后的靶标，其可能通过P53/BAK1/FAS信号通路发挥作用。
Abstract:
Objective：To analyze the role of long no-codding RNA（lncRNA）MIR4713HG in the progression and prognosis of colorectal cancer（CRC）by bioinformatics methods，and further predict the possible molecular mechanisms. Methods：The gene expression data and clinical data of CRC were downloaded from The Cancer Genome Atlas（TCGA）database. The data were analyzed by Perl and R software，and the differentially expressed genes were screened. Further，the differential gene survival，independent prognosis and clinicopathological correlation analysis were performed. The most relevant differential gene was selected as the target gene. The correlation between the expression of the target gene and the different clinicopathological features of CRC and its influence on the prognosis of CRC patients were analyzed. The independent prognosis analysis was performed on different clinicopathological features by R software. Gene set enrichment analysis（GSEA）enrichment analysis of the target gene was used to predict the possible mechanism by which the target gene regulated the progression and prognosis of CRC. Results：By analyzing the gene expression data，we obtained 7 866 differentially expressed genes. The correlation analysis of differential gene survival，independent prognosis and clinicopathological features found that MIR4713HG was significantly associated with survival prognosis and clinicopathological features of CRC. MIR4713HG was used as the target gene. MIR4713HG was found to be highly expressed in CRC tissues by TCGA database（P < 0.001）. MIR4713HG was associated with CRC grade and TNM stage（P < 0.05），but no age correlation with patients（P=0.999）. Independent prognostic analysis suggested that the prognosis was associated with MIR4713HG，age，tumor grade，TNM stage（P < 0.05），MIR4713HG and age as independent risk factors for evaluating patient prognosis. GSEA enrichment analysis showed that MIR4713HG was enriched in the P53 signaling pathway. Conclusion：The gene of lncRNA MIR4713HG can be used as a target for evaluating the progression and prognosis of CRC，which may play a role through the P53 signaling pathway.
