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VirHostNet 2.0: surfing on the web of virus/host molecular interactions data.

Guirimand T, Delmotte S, Navratil V - Nucleic Acids Res. (2014)

Bottom Line: This resource is shared publicly, in PSI-MI TAB 2.5 format, using a PSICQUIC web service.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 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.

View Article: PubMed Central - PubMed

Affiliation: PRABI, Rhône Alpes Bioinformatics Center, UCBL, Lyon1, Université de Lyon, Lyon, France.

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VirHostNet 2.0 annotations statistics. (a) Growth statistics. The number of non-redundant (i.e. unique) VH ppi annotated between 2009 and 2014 is given for VirHostNet and VirusMint. This figure highlights a 5-fold enrichment of the VirHostNet 2.0 annotation between 2009 and 2014. (b) Experiments summary. The pie chart represents the proportion of annotated experimental methods used to characterize VH and VV ppi (other—other methods). (c) Independent experiments support. This pie chart represents the proportion of VH and VV non-redundant ppi supported by one or more than two independent experiments.
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Figure 1: VirHostNet 2.0 annotations statistics. (a) Growth statistics. The number of non-redundant (i.e. unique) VH ppi annotated between 2009 and 2014 is given for VirHostNet and VirusMint. This figure highlights a 5-fold enrichment of the VirHostNet 2.0 annotation between 2009 and 2014. (b) Experiments summary. The pie chart represents the proportion of annotated experimental methods used to characterize VH and VV ppi (other—other methods). (c) Independent experiments support. This pie chart represents the proportion of VH and VV non-redundant ppi supported by one or more than two independent experiments.

Mentions: Our new round of biocuration results in a 5-fold enrichment according to the previous release 1.0 of VirHostNet. Over 30 000 ppi are now annotated, with a total of 16 000 VH, 2 500 VV and 12 000 host/host (HH) ppi (Figure 1a, Supplementary Table S1). A comparison to the data stored in known available databases reveals that more than 80% of annotated interactions are unique to the VirHostNet 2.0 resource, confirming the relatively high sensitivity of our fast annotation approach. It is interesting to note that 50 and 42% of VH ppi data were obtained by TAP and Y2H experiment, respectively (Figure 1b). Moreover, more than 33% of the VirHostNet 2.0 ppi are supported by at least two independent experiments, suggesting the high quality of those interactions (Figure 1c).


VirHostNet 2.0: surfing on the web of virus/host molecular interactions data.

Guirimand T, Delmotte S, Navratil V - Nucleic Acids Res. (2014)

VirHostNet 2.0 annotations statistics. (a) Growth statistics. The number of non-redundant (i.e. unique) VH ppi annotated between 2009 and 2014 is given for VirHostNet and VirusMint. This figure highlights a 5-fold enrichment of the VirHostNet 2.0 annotation between 2009 and 2014. (b) Experiments summary. The pie chart represents the proportion of annotated experimental methods used to characterize VH and VV ppi (other—other methods). (c) Independent experiments support. This pie chart represents the proportion of VH and VV non-redundant ppi supported by one or more than two independent experiments.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4383936&req=5

Figure 1: VirHostNet 2.0 annotations statistics. (a) Growth statistics. The number of non-redundant (i.e. unique) VH ppi annotated between 2009 and 2014 is given for VirHostNet and VirusMint. This figure highlights a 5-fold enrichment of the VirHostNet 2.0 annotation between 2009 and 2014. (b) Experiments summary. The pie chart represents the proportion of annotated experimental methods used to characterize VH and VV ppi (other—other methods). (c) Independent experiments support. This pie chart represents the proportion of VH and VV non-redundant ppi supported by one or more than two independent experiments.
Mentions: Our new round of biocuration results in a 5-fold enrichment according to the previous release 1.0 of VirHostNet. Over 30 000 ppi are now annotated, with a total of 16 000 VH, 2 500 VV and 12 000 host/host (HH) ppi (Figure 1a, Supplementary Table S1). A comparison to the data stored in known available databases reveals that more than 80% of annotated interactions are unique to the VirHostNet 2.0 resource, confirming the relatively high sensitivity of our fast annotation approach. It is interesting to note that 50 and 42% of VH ppi data were obtained by TAP and Y2H experiment, respectively (Figure 1b). Moreover, more than 33% of the VirHostNet 2.0 ppi are supported by at least two independent experiments, suggesting the high quality of those interactions (Figure 1c).

Bottom Line: This resource is shared publicly, in PSI-MI TAB 2.5 format, using a PSICQUIC web service.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 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.

View Article: PubMed Central - PubMed

Affiliation: PRABI, Rhône Alpes Bioinformatics Center, UCBL, Lyon1, Université de Lyon, Lyon, France.

Show MeSH
Related in: MedlinePlus