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ViRBase: a resource for virus-host ncRNA-associated interactions.

Li Y, Wang C, Miao Z, Bi X, Wu D, Jin N, Wang L, Wu H, Qian K, Li C, Zhang T, Zhang C, Yi Y, Lai H, Hu Y, Cheng L, Leung KS, Li X, Zhang F, Li K, Li X, Wang D - Nucleic Acids Res. (2014)

Bottom Line: Viruses can use diverse ncRNAs to manipulate both cellular and viral gene expression to establish a host environment conducive to the completion of the viral life cycle.Many host cellular ncRNAs can also directly or indirectly influence viral replication and even target virus genomes.Users can query, browse and manipulate these virus-host ncRNA-associated interactions.

View Article: PubMed Central - PubMed

Affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China Institute of Cardiovascular Sciences and Key Laboratory of Molecular Cardiovascular Sciences, Peking University Health Science Center, Beijing, China.

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Related in: MedlinePlus

Representative screenshots of the Visualization and Network pages. (A) The Visualization page: representing the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom, the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis are provided. (B) The Network page: representing the specific virus–host ncRNA-associated interaction sub-network.
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Figure 2: Representative screenshots of the Visualization and Network pages. (A) The Visualization page: representing the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom, the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis are provided. (B) The Network page: representing the specific virus–host ncRNA-associated interaction sub-network.

Mentions: To help users interactively analyze virus–host ncRNA-associated interactions online, ViRBase provides a visualization function by embedding the Cytoscape web tool (http://cytoscapeweb.cytoscape.org/) (15) to highlight/visualize the interaction network or sub-network of a principal interaction. As the compelling visualization architecture is pan-and-zoom, in the ‘Visualization’ page (Figure 2) users can obtain a global view of the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom of the ‘Visualization’ page, ViRBase also provides the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis of these virus–host ncRNA-associated interaction genes for specific virus and host, including HIV, HBV, H1N1, HCV, etc.


ViRBase: a resource for virus-host ncRNA-associated interactions.

Li Y, Wang C, Miao Z, Bi X, Wu D, Jin N, Wang L, Wu H, Qian K, Li C, Zhang T, Zhang C, Yi Y, Lai H, Hu Y, Cheng L, Leung KS, Li X, Zhang F, Li K, Li X, Wang D - Nucleic Acids Res. (2014)

Representative screenshots of the Visualization and Network pages. (A) The Visualization page: representing the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom, the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis are provided. (B) The Network page: representing the specific virus–host ncRNA-associated interaction sub-network.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4384010&req=5

Figure 2: Representative screenshots of the Visualization and Network pages. (A) The Visualization page: representing the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom, the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis are provided. (B) The Network page: representing the specific virus–host ncRNA-associated interaction sub-network.
Mentions: To help users interactively analyze virus–host ncRNA-associated interactions online, ViRBase provides a visualization function by embedding the Cytoscape web tool (http://cytoscapeweb.cytoscape.org/) (15) to highlight/visualize the interaction network or sub-network of a principal interaction. As the compelling visualization architecture is pan-and-zoom, in the ‘Visualization’ page (Figure 2) users can obtain a global view of the virus–host ncRNA-associated interaction network for a specific virus and host. At the bottom of the ‘Visualization’ page, ViRBase also provides the potential Gene Ontology functions and KEGG pathways by performing enrichment analysis of these virus–host ncRNA-associated interaction genes for specific virus and host, including HIV, HBV, H1N1, HCV, etc.

Bottom Line: Viruses can use diverse ncRNAs to manipulate both cellular and viral gene expression to establish a host environment conducive to the completion of the viral life cycle.Many host cellular ncRNAs can also directly or indirectly influence viral replication and even target virus genomes.Users can query, browse and manipulate these virus-host ncRNA-associated interactions.

View Article: PubMed Central - PubMed

Affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China Institute of Cardiovascular Sciences and Key Laboratory of Molecular Cardiovascular Sciences, Peking University Health Science Center, Beijing, China.

Show MeSH
Related in: MedlinePlus