结肠癌淋巴结转移基因谱表达差异分析

Differential analysis of gene expression profiles for lymphonode metastasis of colon cancer

目的探讨人结肠癌细胞系SW480、SW620基因谱的表达差异。方法针对NCBI的GEO数据库中编号为GDS756的基因芯片表达数据,用GSEA软件进行基因集富集分析及领头亚群分析,利用FunRich分析软件针对SW480、SW620细胞领头亚群基因进行验证性功能注释,STRING在线分析系统对显著性富集基因集领头亚群基因进行生物网络分析,获得SW480、SW620细胞中心节点基因,并将中心节点基因与高重叠领头亚群基因进行联合分析,以获得参与多功能的中心节点基因。结果GSEA软件分析筛选出SW480细胞显著性富集基因集12个,领头亚群基因491个,高重叠基因7个;SW620细胞显著性富集基因集80个,领头亚群基因870个,高重叠基因6个。对显著性富集基因集领头亚群基因进行生物网络分析筛选出SW480、SW620细胞相关中心基因数目分别为5个及8个;结合GSEA及生物网络分析结果,获得SW620细胞2个参与多功能调控的核心基因TOP2A、CDK1。结论遗传背景相同的结肠癌SW620细胞与SW480细胞具有不同的基因功能分布特点,SW620细胞多功能中心节点基因TOP2A、CDK1与结肠癌发展相关信号通路高度相关。

Objective To investigate the differences in the gene expression profiles between SW480 and SW620 cell lines. Methods A dataset of GDS756 containing the gene expression profiles of SW480 and SW620 was downloaded from the GEO database in NCBI. The differential expression genes between SW480 and SW620 were analyzed with gene set enrichment analysis （GSEA） and leading edge subset analysis. The genes in leading edge subset were re-annotated by FunRich software. The core genes of leading edge subset closely relating to SW480 or SW620 were analyzed with the STRING on-line analytical system. The functional core genes closely rela- ting to SW480 or SW620 were obtained by the combined analysis of the core genes and high frequency genes from leading edge subset. Results GSEA identified 12 significantly enriched gene sets, 491 leading edge genes and 7 highly overlapping genes from SW480 and 80 significantly enriched gene sets, 870 leading edge genes and 6 highly overlapping genes from SW620. The STRING system identified 5 core genes from SW480 and 8 from SW620. The combined analysis of GSEA and bionetwork obtained 2 functional core genes, TOP2A and CDKI, from SW620. Conclusion The SW480 and SW620 cells with identical genetic background have different function- al gene expression profiles, and the functional core genes TOP2A and CDK1 in SW620 cells may be related to the signal pathways of colon cancer metastasis.