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论文题目: Investigation of the roles of trace elements during hepatitis C virus infection using protein-protein interactions and a shortest path algorithm
英文论文题目: Investigation of the roles of trace elements during hepatitis C virus infection using protein-protein interactions and a shortest path algorithm
第一作者: Zhu, LC; Chen, XJ; Kong, XY; Cai, YD
英文第一作者: Zhu, LC; Chen, XJ; Kong, XY; Cai, YD
联系作者: Cai, YD (reprint author), Shanghai Univ, Sch Life Sci, Shanghai 200444, Peoples R China.
英文联系作者: Cai, YD (reprint author), Shanghai Univ, Sch Life Sci, Shanghai 200444, Peoples R China.
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发表年度: 2016
卷: 1860
期: 11
页码: 2756-2768
摘要: Background: Hepatitis is a type of infectious disease that induces inflammation of the liver without pinpointing a particular pathogen or pathogenesis. Type C hepatitis, as a type of hepatitis, has been reported to induce cirrhosis and hepatocellular carcinoma within a very short amount of time. It is a great threat to human health. Some studies have revealed that trace elements are associated with infection with and immune rejection against hepatitis C virus (HCV). However, the mechanism underlying this phenomenon is still unclear. Methods: In this study, we aimed to expand our knowledge of this phenomenon by designing a computational method to identify genes that may be related to both HCV and trace element metabolic processes. The searching procedure included three stages. First, a shortest path algorithm was applied to a large network, constructed by protein-protein interactions, to identify potential genes of interest. Second, a permutation test was executed to exclude false discoveries. Finally, some rules based on the betweenness and associations between candidate genes and HCV and trace elements were built to select core genes among the remaining genes. Results: 12 lists of genes, corresponding to 12 types of trace elements, were obtained. These genes are deemed to be associated with HCV infection and trace elements metabolism. Conclusions: The analyses indicate that some genes may be related to both HCV and trace element metabolic processes, further confirming the associations between HCV and trace elements. The method was further tested on another set of HCV genes, the results indicate that this method is quite robustness. General significance: The newly found genes may partially reveal unknown mechanisms between HCV infection and trace element metabolism.
英文摘要: Background: Hepatitis is a type of infectious disease that induces inflammation of the liver without pinpointing a particular pathogen or pathogenesis. Type C hepatitis, as a type of hepatitis, has been reported to induce cirrhosis and hepatocellular carcinoma within a very short amount of time. It is a great threat to human health. Some studies have revealed that trace elements are associated with infection with and immune rejection against hepatitis C virus (HCV). However, the mechanism underlying this phenomenon is still unclear. Methods: In this study, we aimed to expand our knowledge of this phenomenon by designing a computational method to identify genes that may be related to both HCV and trace element metabolic processes. The searching procedure included three stages. First, a shortest path algorithm was applied to a large network, constructed by protein-protein interactions, to identify potential genes of interest. Second, a permutation test was executed to exclude false discoveries. Finally, some rules based on the betweenness and associations between candidate genes and HCV and trace elements were built to select core genes among the remaining genes. Results: 12 lists of genes, corresponding to 12 types of trace elements, were obtained. These genes are deemed to be associated with HCV infection and trace elements metabolism. Conclusions: The analyses indicate that some genes may be related to both HCV and trace element metabolic processes, further confirming the associations between HCV and trace elements. The method was further tested on another set of HCV genes, the results indicate that this method is quite robustness. General significance: The newly found genes may partially reveal unknown mechanisms between HCV infection and trace element metabolism.
刊物名称: BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
英文刊物名称: BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
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学科: Biochemistry & Molecular Biology; Biophysics
英文学科: Biochemistry & Molecular Biology; Biophysics
影响因子: 4.702
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论文类别: Article
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