Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.

A very small proportion of people remain negative for HIV infection after repeated HIV-1 viral exposure, which is called HIV-1 resistance. Understanding the mechanism of HIV-1 resistance is important for the development of HIV-1 vaccines and Acquired Immune Deficiency Syndrome (AIDS) therapies. In t...

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Autores principales:	Tao Huang, Zhongping Xu, Lei Chen, Yu-Dong Cai, Xiangyin Kong
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/09c90018c3134e3c8bd5aee22a030f66
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spelling	oai:doaj.org-article:09c90018c3134e3c8bd5aee22a030f662021-11-18T06:57:47ZComputational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.1932-620310.1371/journal.pone.0017291https://doaj.org/article/09c90018c3134e3c8bd5aee22a030f662011-03-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21394196/?tool=EBIhttps://doaj.org/toc/1932-6203A very small proportion of people remain negative for HIV infection after repeated HIV-1 viral exposure, which is called HIV-1 resistance. Understanding the mechanism of HIV-1 resistance is important for the development of HIV-1 vaccines and Acquired Immune Deficiency Syndrome (AIDS) therapies. In this study, we analyzed the gene expression profiles of CD4+ T cells from HIV-1-resistant individuals and HIV-susceptible individuals. One hundred eighty-five discriminative HIV-1 resistance genes were identified using the Minimum Redundancy-Maximum Relevance (mRMR) and Incremental Feature Selection (IFS) methods. The virus protein target enrichment analysis of the 185 HIV-1 resistance genes suggested that the HIV-1 protein nef might play an important role in HIV-1 infection. Moreover, we identified 29 infection information exchanger genes from the 185 HIV-1 resistance genes based on a virus-host interaction network analysis. The infection information exchanger genes are located on the shortest paths between virus-targeted proteins and are important for the coordination of virus infection. These proteins may be useful targets for AIDS prevention or therapy, as intervention in these pathways could disrupt communication with virus-targeted proteins and HIV-1 infection.Tao HuangZhongping XuLei ChenYu-Dong CaiXiangyin KongPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 3, p e17291 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Tao Huang Zhongping Xu Lei Chen Yu-Dong Cai Xiangyin Kong Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
description	A very small proportion of people remain negative for HIV infection after repeated HIV-1 viral exposure, which is called HIV-1 resistance. Understanding the mechanism of HIV-1 resistance is important for the development of HIV-1 vaccines and Acquired Immune Deficiency Syndrome (AIDS) therapies. In this study, we analyzed the gene expression profiles of CD4+ T cells from HIV-1-resistant individuals and HIV-susceptible individuals. One hundred eighty-five discriminative HIV-1 resistance genes were identified using the Minimum Redundancy-Maximum Relevance (mRMR) and Incremental Feature Selection (IFS) methods. The virus protein target enrichment analysis of the 185 HIV-1 resistance genes suggested that the HIV-1 protein nef might play an important role in HIV-1 infection. Moreover, we identified 29 infection information exchanger genes from the 185 HIV-1 resistance genes based on a virus-host interaction network analysis. The infection information exchanger genes are located on the shortest paths between virus-targeted proteins and are important for the coordination of virus infection. These proteins may be useful targets for AIDS prevention or therapy, as intervention in these pathways could disrupt communication with virus-targeted proteins and HIV-1 infection.
format	article
author	Tao Huang Zhongping Xu Lei Chen Yu-Dong Cai Xiangyin Kong
author_facet	Tao Huang Zhongping Xu Lei Chen Yu-Dong Cai Xiangyin Kong
author_sort	Tao Huang
title	Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
title_short	Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
title_full	Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
title_fullStr	Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
title_full_unstemmed	Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
title_sort	computational analysis of hiv-1 resistance based on gene expression profiles and the virus-host interaction network.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/09c90018c3134e3c8bd5aee22a030f66
work_keys_str_mv	AT taohuang computationalanalysisofhiv1resistancebasedongeneexpressionprofilesandthevirushostinteractionnetwork AT zhongpingxu computationalanalysisofhiv1resistancebasedongeneexpressionprofilesandthevirushostinteractionnetwork AT leichen computationalanalysisofhiv1resistancebasedongeneexpressionprofilesandthevirushostinteractionnetwork AT yudongcai computationalanalysisofhiv1resistancebasedongeneexpressionprofilesandthevirushostinteractionnetwork AT xiangyinkong computationalanalysisofhiv1resistancebasedongeneexpressionprofilesandthevirushostinteractionnetwork
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Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.

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