associations between hiv and human pathways revealed by protein-protein interactions and correlated gene expression profiles艾滋病毒和人类之间的联系途径揭示了蛋白质-蛋白质之间的关系与相关基因表达谱.pdf

Associations between HIV and Human Pathways Revealed by Protein-Protein Interactions and Correlated Gene Expression Profiles 1 2 1 Kuang-Chi Chen , Tse-Yi Wang , Chen-hsiung Chan * 1 Department of Medical Informatics, Tzu Chi University, Hualien, Taiwan, 2 Institute for Information Science, Academia Sinica, Taipei, Taiwan Abstract Background: AIDS is one of the most devastating diseases in human history. Decades of studies have revealed host factors required for HIV infection, indicating that HIV exploits host processes for its own purposes. HIV infection leads to AIDS as well as various comorbidities. The associations between HIV and human pathways and diseases may reveal non-obvious relationships between HIV and non-HIV-defining diseases. Principal Findings: Human biological pathways were evaluated and statistically compared against the presence of HIV host factor related genes. All of the obtained scores comparing HIV targeted genes and biological pathways were ranked. Different rank results based on overlapping genes, recovered virus-host interactions, co-expressed genes, and common interactions in human protein-protein interaction networks were obtained. Correlations between rankings suggested that these measures yielded diverse rankings. Rank combination of these ranks led to a final ranking of HIV-associated pathways, which revealed that HIV is associated with immune cell-related pathways and several cancer-related pathways. The proposed method is also applicable to the evaluation of associations between other pathogens and human pathways and diseases. Conclusions: Our results suggest that HIV infection shares common molecular mechanisms with certain signaling pathways and cancers. Interference in apoptosis pathways a