食管癌淋巴结转移相关基因的转录水平筛选及网络分析

Screening and network analysis of the genes correlated with lymph node metastasis in esophageal cancer at transcriptional level

目的从转录组水平筛选食管癌淋巴结转移相关基因,为深入研究食管癌淋巴结转移提供线索。方法利用癌症和肿瘤基因图谱(TCGA)数据资源,采用随机森林分类方法从转录水平分析、筛选食管癌淋巴结转移相关基因,并对其进行功能聚类。结果获得了与食管癌淋巴结转移相关基因的相关显著性排序,分析获得的重要相关基因集的功能主要集中在细胞代谢及DNA修复、转录等的调控上,并在其中获得了与食管癌淋巴结转移密切相关的代谢及DNA调控领域中的重要节点基因。结论 Heatmap图显示获得一簇明显的淋巴结转移相关基因,聚类分析显示这些基因主要集中在代谢和DNA调控等功能上,网络分析获得了KRAS、PPM1B、PPP3CA、ATR、WRN、TOP2B等与食管癌淋巴结转移相关的重要节点基因。

Objective The purpose of the study is to screen the genes correlated with lymph node metastasis in esoph- ageal cancer at the transcriptome level, and to provide information on lymph node metastasis in esophageal cancer for fur- ther studies. Method The cancer genome atlas （TCGA） data and random forest classification model were used to screen and analyze the genes correlated with lymph node metastasis in esophageal cancer at transcriptional level, the functional annotation clustering was conducted. Result The significance ranking of genes correlated with lymph node metastasis in esophageal cancer was obtained. The functions of the important gene sets obtained from the analysis are mainly involved in cell metabolism and regulation of DNA repair/transcription. Important node genes of metabolism and DNA regulation closely correlated with lymph node metastasis in esophageal cancer were obtained as well. Conclusion Heatmap results showed that a cluster of genes obviously correlated with lymph node metastasis were obtained, the functional annotation clustering results indicated that the functions of these genes are mainly involved in metabolism and DNA regulation, and important node genes correlated with lymph node metastasis in esophageal cancer such as KRAS, PPMIB, PPP3CA, ATR, WRN and TOP2B were obtained from network analysis.