Differential analysis of gene expression profiles for lymphonode metastasis of colon cancer
10.13602/j.cnki.jcls.2017.05.17
- VernacularTitle:结肠癌淋巴结转移基因谱表达差异分析
- Author:
Zhidan ZHAO
;
Jianhua LIU
;
Baiyun ZHONG
;
Jiaxin WANG
;
Tingyan XIE
;
Qiuhuan ZHANG
;
Sisi FENG
;
Hui DENG
- Keywords:
SW480;
SW620;
gene expression profile;
gene set enrichment analysis;
bionetwork
- From:
Chinese Journal of Clinical Laboratory Science
2017;35(5):381-385
- CountryChina
- Language:Chinese
-
Abstract:
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 relating 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 CDK1,from SW620.Conclusion The SW480 and SW620 cells with identical genetic background have different functional 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.
