摘要
<strong>Objective:</strong><span style="font-family:""><span style="font-family:Verdana;"> This study aimed to identify hub genes that are associated with hepatocellular carcinoma (HCC) prognosis by bioinformatics analysis. </span><b><span style="font-family:Verdana;">Methods:</span></b><span style="font-family:Verdana;"> Data were collected from the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) liver HCC datasets. </span><a name="_Hlk11768117"></a><span style="font-family:Verdana;">The robust rank ag</span><span style="font-family:Verdana;">gregation algorithm was used in integrating the data on differentially ex</span><span style="font-family:Verdana;">pressed genes (DEGs). Online databases DAVID 6.8 and REACTOME were used for </span><span style="font-family:Verdana;">gene ontology and pathway enrichment analysis. R software version 3.5.1, </span><span style="font-family:Verdana;">Cytoscape, and Kaplan-Meier plotter were used to identify hub genes. </span><b><span style="font-family:Verdana;">Results:</span></b><span style="font-family:Verdana;"> Six GEO datasets and the TCGA liver HCC dataset were included in this analysis. A total of 151 upregulated and 245 downregulated DEGs were iden</span><span style="font-family:Verdana;">tified. The upregulated DEGs most significantly enriched in the functional</span><span style="font-family:Verdana;"> categories of cell division, chromosomes, centromeric regions, and </span><span style="font-family:Verdana;">protein binding, whereas the downregulated DEGs most significantly</span><span style="font-family:Verdana;"> enriched in the </span><a name="_Hlk11059934"></a><span style="font-family:Verdana;">epoxygenase P450 pathway, extracellular region, and heme binding, with respect to biological process, cellular component, and molecular function analysis, respectively. Upregulated DEGS most significantly enriched the cell cycle pathway, whereas downregulated DEGs most significantly enriched </span><span style="font-family:Verdana;">the metabolism pathway. Finally, 88 upregulated and 40 downregulated genes were </span><span><span style="font-family:Verdana;">identified as hub genes. The top 10 upregulated hub DEGs were </span><i><span style="font-family:Verdana;">CDK</span></i><span style="font-family:Verdana;">1,</span></span><i><span style="font-family:Verdana;"> CCNB</span></i><span><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> CCNB</span></i><span style="font-family:Verdana;">2,</span><i><span style="font-family:Verdana;"> CDC</span></i><span style="font-family:Verdana;">20,</span><i><span style="font-family:Verdana;"> CCNA</span></i><span style="font-family:Verdana;">2,</span><i><span style="font-family:Verdana;"> AURKA</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> MAD</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">L</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> TOP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> BUB</span></i><span style="font-family:Verdana;">1</span><i><span style="font-family:Verdana;">B </span></i><span style="font-family:Verdana;">and</span></span><i> <span style="font-family:Verdana;">BUB</span></i><span><span style="font-family:Verdana;">1. The top 10 downregulated hub DEGs were </span><i><span style="font-family:Verdana;">ESR</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> IGF</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> FTCD</span></i><span style="font-family:Verdana;">,</span></span><i><span style="font-family:Verdana;"> CYP</span></i><span style="font-family:Verdana;">3</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">4,</span><i><span style="font-family:Verdana;"> SPP</span></i><span style="font-family:Verdana;">2,</span><i> <span style="font-family:Verdana;">C</span></i><span><span style="font-family:Verdana;">8</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> CYP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">E</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> TAT</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> F</span></i><span style="font-family:Verdana;">9 and </span><i><span style="font-family:Verdana;">CYP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">C</span></i><span style="font-family:Verdana;">9. </span><b><span style="font-family:Verdana;">Conclusions:</span></b><span style="font-family:Verdana;"> This study identified</span></span><span style="font-family:Verdana;"> several upregulated and downregulated hub genes that are associated with the prognosis of HCC patients. Verification of these results using </span><i><span style="font-family:Verdana;">in vitro</span></i><span style="font-family:Verdana;"> and </span><i><span style="font-family:Verdana;">in vivo</span></i><span style="font-family:Verdana;"> studies is warranted.</span></span>
<strong>Objective:</strong><span style="font-family:""><span style="font-family:Verdana;"> This study aimed to identify hub genes that are associated with hepatocellular carcinoma (HCC) prognosis by bioinformatics analysis. </span><b><span style="font-family:Verdana;">Methods:</span></b><span style="font-family:Verdana;"> Data were collected from the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) liver HCC datasets. </span><a name="_Hlk11768117"></a><span style="font-family:Verdana;">The robust rank ag</span><span style="font-family:Verdana;">gregation algorithm was used in integrating the data on differentially ex</span><span style="font-family:Verdana;">pressed genes (DEGs). Online databases DAVID 6.8 and REACTOME were used for </span><span style="font-family:Verdana;">gene ontology and pathway enrichment analysis. R software version 3.5.1, </span><span style="font-family:Verdana;">Cytoscape, and Kaplan-Meier plotter were used to identify hub genes. </span><b><span style="font-family:Verdana;">Results:</span></b><span style="font-family:Verdana;"> Six GEO datasets and the TCGA liver HCC dataset were included in this analysis. A total of 151 upregulated and 245 downregulated DEGs were iden</span><span style="font-family:Verdana;">tified. The upregulated DEGs most significantly enriched in the functional</span><span style="font-family:Verdana;"> categories of cell division, chromosomes, centromeric regions, and </span><span style="font-family:Verdana;">protein binding, whereas the downregulated DEGs most significantly</span><span style="font-family:Verdana;"> enriched in the </span><a name="_Hlk11059934"></a><span style="font-family:Verdana;">epoxygenase P450 pathway, extracellular region, and heme binding, with respect to biological process, cellular component, and molecular function analysis, respectively. Upregulated DEGS most significantly enriched the cell cycle pathway, whereas downregulated DEGs most significantly enriched </span><span style="font-family:Verdana;">the metabolism pathway. Finally, 88 upregulated and 40 downregulated genes were </span><span><span style="font-family:Verdana;">identified as hub genes. The top 10 upregulated hub DEGs were </span><i><span style="font-family:Verdana;">CDK</span></i><span style="font-family:Verdana;">1,</span></span><i><span style="font-family:Verdana;"> CCNB</span></i><span><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> CCNB</span></i><span style="font-family:Verdana;">2,</span><i><span style="font-family:Verdana;"> CDC</span></i><span style="font-family:Verdana;">20,</span><i><span style="font-family:Verdana;"> CCNA</span></i><span style="font-family:Verdana;">2,</span><i><span style="font-family:Verdana;"> AURKA</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> MAD</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">L</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> TOP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> BUB</span></i><span style="font-family:Verdana;">1</span><i><span style="font-family:Verdana;">B </span></i><span style="font-family:Verdana;">and</span></span><i> <span style="font-family:Verdana;">BUB</span></i><span><span style="font-family:Verdana;">1. The top 10 downregulated hub DEGs were </span><i><span style="font-family:Verdana;">ESR</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> IGF</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> FTCD</span></i><span style="font-family:Verdana;">,</span></span><i><span style="font-family:Verdana;"> CYP</span></i><span style="font-family:Verdana;">3</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">4,</span><i><span style="font-family:Verdana;"> SPP</span></i><span style="font-family:Verdana;">2,</span><i> <span style="font-family:Verdana;">C</span></i><span><span style="font-family:Verdana;">8</span><i><span style="font-family:Verdana;">A</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> CYP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">E</span></i><span style="font-family:Verdana;">1,</span><i><span style="font-family:Verdana;"> TAT</span></i><span style="font-family:Verdana;">,</span><i><span style="font-family:Verdana;"> F</span></i><span style="font-family:Verdana;">9 and </span><i><span style="font-family:Verdana;">CYP</span></i><span style="font-family:Verdana;">2</span><i><span style="font-family:Verdana;">C</span></i><span style="font-family:Verdana;">9. </span><b><span style="font-family:Verdana;">Conclusions:</span></b><span style="font-family:Verdana;"> This study identified</span></span><span style="font-family:Verdana;"> several upregulated and downregulated hub genes that are associated with the prognosis of HCC patients. Verification of these results using </span><i><span style="font-family:Verdana;">in vitro</span></i><span style="font-family:Verdana;"> and </span><i><span style="font-family:Verdana;">in vivo</span></i><span style="font-family:Verdana;"> studies is warranted.</span></span>
作者
Xi Zhang
Xiaojun Luo
Wenbin Liu
Ai Shen
Xi Zhang;Xiaojun Luo;Wenbin Liu;Ai Shen(Department of Hepatobiliary and Pancreatic Tumor Center, Chongqing University Cancer Hospital, Chongqing, China)