scholarly journals Functional Modules in the Arabidopsis Core Cell Cycle Binary Protein–Protein Interaction Network

2010 ◽  
Vol 22 (4) ◽  
pp. 1264-1280 ◽  
Author(s):  
Joanna Boruc ◽  
Hilde Van den Daele ◽  
Jens Hollunder ◽  
Stephane Rombauts ◽  
Evelien Mylle ◽  
...  
Keyword(s):  
Cell Cycle ◽  
Protein Interaction ◽  
Protein Interaction Network ◽  
Interaction Network ◽  
Functional Modules ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Network

scholarly journals Identification of differentially expressed genes in hepatocellular carcinoma by integrated bioinformatic analysis

2019 ◽  
Author(s):  
Guangxin Yan ◽  
Zhaoyu Liu
Keyword(s):  
Gene Expression ◽  
Hepatocellular Carcinoma ◽  
Cell Cycle ◽  
Dna Replication ◽  
Liver Cancer ◽  
Protein Interaction ◽  
Protein Interaction Network ◽  
Interaction Network ◽  
Protein Protein Interaction ◽  
Protein Protein Interaction Network

AbstractHepatocellular carcinoma is one of the most common tumors in the world and has a high mortality rate. This study elucidates the mechanism of hepatocellular carcinoma- (HCC) related development. The HCC gene expression profile (GSE54238, GSE84004) was downloaded from Gene Expression Omnibus for comprehensive analysis. A total of 359 genes were identified, of which 195 were upregulated and 164 were downregulated. Analysis of the condensed results showed that “extracellular allotrope” is a substantially enriched term. “Cell cycle”, “metabolic pathway” and “DNA replication” are three significantly enriched Kyoto Encyclopedia of Genes and Genomespathways. Subsequently, a protein-protein interaction network was constructed. The most important module in the protein-protein interaction network was selected for path enrichment analysis. The results showed thatCCNA2, PLK1, CDC20, UBE2CandAURKAwere identified as central genes, and the expression of these five hub genes in liver cancer was significantly increased in The Cancer Genome Atlas. Univariate regression analysis was also performed to show that the overall survival and disease-free survival of patients in the high expression group were longer than in the expression group. In addition, genes in important modules are mainly involved in “cell cycle”, “DNA replication” and “oocyte meiosis” signaling pathways. Finally, through upstream miRNA analysis, mir-300 and mir-381-3p were found to coregulateCCNA2,AURKAandUBE2C. These results provide a set of targets that can help researchers to further elucidate the underlying mechanism of liver cancer.

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