Database screening of herbal monomers regulating autophagy by constructing a

BMC Complementary and Alternative Medicine

Weihui Zhang¹  Dongbo Xue¹  Xin Qiao²  Xianzhi Meng¹  Ming Lu²  Bo Gao¹  Zhengpeng Yang¹  Chenjun Hao¹ 

[1] Department of General Surgery, the First Affiliated Hospital of Harbin Medical University, Harbin, China;Department of Surgery, David Geffen School of Medicine, University of California at Los Angeles, Los Angeles, CA, USA

关键词: Bioinformatics;    Genomics;    Autophagy;    Herbal monomer;   

Others  :  1088421
DOI  :  10.1186/1472-6882-14-466

 received in 2014-07-06, accepted in 2014-11-27,  发布年份 2014

【 摘 要 】

Background

Studies suggest an important role of autophagy as a target for cancer therapy. We constructed a "disease-gene-drug" network using the modular approach of bioinformatics and screened herbal monomers demonstrating functions related to autophagy regulation.

Methods

Based on the microarray results of the gene expression omnibus (GEO) database (GSE2435 and GSE31040, starvation-induced autophagy model), we used the human protein reference database (HPRD) to obtain the protein-protein interaction (PPI) network. In addition, we used the CFinder software to identify several functional modules, performed gene ontology-biological process (GO-BP) functional enrichment analysis using the DAVID software, constructed a herbal monomer-module gene regulatory network using literature search and the Cytoscape software, and then analyzed the relationships between autophagy, genes, and herbal monomers.

Results

We screened 544 differentially expressed genes related to autophagy, 375 pairs of differentially expressed genes, and 7 gene modules, wherein the functions of module 3 (composed of 7 genes) were enriched in "cell death". Using the constructed herbal monomer-module gene regulatory network, we found that 30 herbal monomers can simultaneously regulate these 7 genes, indicating a potential regulatory role in autophagy.

Conclusions

Database screening using the disease-gene-drug network can provide new strategies and ideas for the application of herbal medicines in cancer therapy.

【 授权许可】

   
2014 Hao et al.; licensee BioMed Central.

【 图 表 】

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