Screening of key genes in gastric cancer with DNA microarray analysis

European Journal of Medical Research

Wei Da¹  Yong Jin¹ 

[1] Department of gastroenterology, The 6th People’s Hospital affiliated to Shanghai Jiaotong University, No. 600 Yishan Road, Shanghai 200233, China

关键词: Pathway analysis;    Interaction network;    Gastric cancer;    Functional enrichment analysis;    Differentially expressed gene;   

Others  :  817839
DOI  :  10.1186/2047-783X-18-37

 received in 2013-07-16, accepted in 2013-09-05,  发布年份 2013

【 摘 要 】

Background

The aim of this study was to identify key genes and novel potential therapeutic targets related to gastric cancer (GC) by comparing cancer tissue samples and healthy control samples using DNA microarray analysis.

Methods

Microarray data set GSE19804 was downloaded from Gene Expression Omnibus. Preprocessing and differential analysis were conducted with of R statistical software packages, and a number of differentially expressed genes (DEGs) were obtained. Cluster analysis was also done with gene expression values. Functional enrichment analysis was performed for all the DEGs with DAVID tools. The significantly up- and downregulated genes were selected out and their interactors were retrieved with STRING and HitPredict, followed by construction of networks. For all the genes in the two networks, GeneCodis was chosen for gene function annotation.

Results

A total of 638 DEGs were identified, and we found that SPP1 and FABP4 were the markedly up- and downregulated genes, respectively. Cell cycle and regulation of proliferation were the most significantly overrepresented functional terms in up- and downregulated genes. In addition, extracellular matrix–receptor interaction was found to be significant in the SPP1-included interaction network.

Conclusions

A range of DEGs were obtained for GC. These genes not only provided insights into the pathogenesis of GC but also could develop into biomarkers for diagnosis or treatment.

【 授权许可】

   
2013 Jin and Da; licensee BioMed Central Ltd.

【 图 表 】

Figure 1.

Figure 2.

Figure 3.

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