Title: [A bioinformatics analysis of differentially expressed genes associated with liver cancer].
Abstract: Objective: To investigate differentially expressed genes associated with liver cancer using bioinformatics methods, and to screen out molecular markers for early diagnosis of liver cancer and potential molecular targets for immunotherapy. Methods: The microarray data associated with liver cancer were downloaded from Gene Expression Omnibus. JMP software was used for correlation analysis of GSE datasets, Limma program in R language was used to screen out differentially expressed genes, and the Gene Ontology (GO) enrichment analysis and Kyoto Encyclopedia of Genes and Genome (KEGG) pathway analysis were performed for differentially expressed genes. A protein-protein interaction (PPI) network was also established for analysis. An analysis of specific expression associated with liver cancer was performed with reference to RNA-seq transcriptome data for other tumors obtained from TCGA to further identify specific differentially expressed genes in liver cancer, and a survival curve analysis was performed for patients with liver cancer. Results: A total of 92 differentially expressed genes were identified, with 21 upregulated genes and 71 downregulated genes. Through the GO, KEGG, and PPI analyses, RNA-seq data verified that only glypican 3 (GPC3) was upregulated in liver cancer, and MBL2, SDS, SLCO1B3, TDO2, SAA4, and SPP2 were downregulated. Conclusions: GPC3 might act as a target for immunotherapy, and other molecular markers may become molecular markers for early detection of liver cancer and potential targets for immunotherapy.目的: 通过生物信息学方法分析肝癌发生相关差异表达基因,筛选肝癌早期诊断的分子标志物和免疫治疗的潜在分子靶点。 方法: 从公共基因表达数据库(GEO)下载肝癌相关芯片数据,应用JMP软件进行GSE数据集相关性分析,使用R语言中的Limma程序筛选差异表达基因,并对差异表达基因进行Gene Ontology(GO)功能富集分析、KEGG通路分析及蛋白相互作用调控网络构建。同时联合TCGA数据库中其他肿瘤RNA-seq转录组数据进行肝癌特异性表达分析,进一步筛选肝癌特异差异表达基因,并进行肝癌患者生存曲线分析。 结果: 筛选出共有差异基因92个,其中上调基因21个,下调基因71个。通过GO、KEGG及蛋白相互作用网络分析,RNA-seq数据验证发现,仅有磷脂酰肌醇蛋白聚糖3(GPC3)在肝癌中表达上调,MBL2、SDS、SLCO1B3、TDO2、SAA4、SPP2在肝癌中特异性表达下调。 结论: GPC3可作为肝癌特异性的免疫治疗靶点,其他分子标志物有望成为肝癌早期检测的分子标志物和免疫治疗的潜在治疗靶标。.
Publication Year: 2017
Publication Date: 2017-06-20
Language: en
Type: article
Indexed In: ['pubmed']
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Cited By Count: 5
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