Hence, the VirHostNet resource was cited more than 70 times since its publication in the 2009 NAR database issue (source Google Scholar, September 2014). Altogether, this resource has participated to improve the reproducibility of research in the field of VH interactomics, allowing scientists to compare their own experimental dataset and the properties observed from the underlying reconstructed protein interaction networks to those published previously.
#Cytoscape viral manual
The VirHostNet manual annotations were used during these last years as a gold standard in many VH interactome experiments, but also as a staring point for systems biology studies ( 2–3, 8–13). The VirHostNet knowledgebase release 1.0 ( 7) was launched in this context in 2007. This trend has been emphasized in the last 10 years by the deluge of yeast two-hybrid (Y2H) and tandem affinity purification (TAP) data produced to characterize VH ppi in a systems biology perspective ( 1–6). Since the beginning of the molecular biology revolution, numerous small-scale experiments were designed to better characterize the function mediated at the virus/host (VH) protein–protein interaction (ppi) interface. However, their molecular and biological functions remain largely unknown or underdetermined. Nowadays, thousand viral genomes are fully sequenced and more than 2.5 million proteins are annotated in databases. It includes viral proteins that do not act alone during the infection but dynamically interact with different cellular protein partners to express their functions. Virus-encoded molecules tightly control the life cycle of viruses. Viruses are obligate intracellular pathogens that rely on the host cell machinery to achieve their own multiplication. The prediction, the prevention, the treatment and the understanding of such infectious diseases are today a priority for researchers. This is the case of two emerging disease outbreaks caused by the pandemic Avian Influenza virus (H5N1) and more recently by the Ebola virus in 2014. Infectious diseases caused by viruses are responsible for millions of death every year as surveyed by the World Health Organization ( ). This resource will also continue to help worldwide scientists to improve our knowledge on molecular mechanisms involved in the antiviral response mediated by the cell and in the viral strategies selected by viruses to hijack the host immune system. We hope that the VirHostNet 2.0 system will facilitate systems biology and gene-centered analysis of infectious diseases and will help to identify new molecular targets for antiviral drugs design. The new interface of VirHostNet 2.0 is based on Cytoscape web library and provides a user-friendly access to the most complete and accurate resource of virus–virus and virus–host protein–protein interactions as well as their projection onto their corresponding host cell protein interaction networks. This resource is shared publicly, in PSI-MI TAB 2.5 format, using a PSICQUIC web service.
#Cytoscape viral torrent
Since the previous VirhostNet release (2009), a second run of manual curation was performed to annotate the new torrent of high-throughput protein–protein interactions data from the literature. VirHostNet release 2.0 ( ) is a knowledgebase dedicated to the network-based exploration of virus–host protein–protein interactions.
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