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    HCVpro: Hepatitis C virus protein interaction database

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    Type
    Article
    Authors
    Kwofie, Samuel K.
    Schaefer, Ulf
    Sundararajan, Vijayaraghava Seshadri
    Bajic, Vladimir B. cc
    Christoffels, Alan G.
    KAUST Department
    Computational Bioscience Research Center (CBRC)
    Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
    Applied Mathematics and Computational Science Program
    Date
    2011-12
    Permanent link to this record
    http://hdl.handle.net/10754/561948
    
    Metadata
    Show full item record
    Abstract
    It is essential to catalog characterized hepatitis C virus (HCV) protein-protein interaction (PPI) data and the associated plethora of vital functional information to augment the search for therapies, vaccines and diagnostic biomarkers. In furtherance of these goals, we have developed the hepatitis C virus protein interaction database (HCVpro) by integrating manually verified hepatitis C virus-virus and virus-human protein interactions curated from literature and databases. HCVpro is a comprehensive and integrated HCV-specific knowledgebase housing consolidated information on PPIs, functional genomics and molecular data obtained from a variety of virus databases (VirHostNet, VirusMint, HCVdb and euHCVdb), and from BIND and other relevant biology repositories. HCVpro is further populated with information on hepatocellular carcinoma (HCC) related genes that are mapped onto their encoded cellular proteins. Incorporated proteins have been mapped onto Gene Ontologies, canonical pathways, Online Mendelian Inheritance in Man (OMIM) and extensively cross-referenced to other essential annotations. The database is enriched with exhaustive reviews on structure and functions of HCV proteins, current state of drug and vaccine development and links to recommended journal articles. Users can query the database using specific protein identifiers (IDs), chromosomal locations of a gene, interaction detection methods, indexed PubMed sources as well as HCVpro, BIND and VirusMint IDs. The use of HCVpro is free and the resource can be accessed via http://apps.sanbi.ac.za/hcvpro/ or http://cbrc.kaust.edu.sa/hcvpro/. © 2011 Elsevier B.V.
    Citation
    Kwofie, S. K., Schaefer, U., Sundararajan, V. S., Bajic, V. B., & Christoffels, A. (2011). HCVpro: Hepatitis C virus protein interaction database. Infection, Genetics and Evolution, 11(8), 1971–1977. doi:10.1016/j.meegid.2011.09.001
    Sponsors
    This work was partly supported by grants from the National Research Foundation (South Africa), National Bioinformatics Network (to S.K.K.) and DST/NRF Research Chair (to A.C. and V.B.B.).
    Publisher
    Elsevier BV
    Journal
    Infection, Genetics and Evolution
    DOI
    10.1016/j.meegid.2011.09.001
    PubMed ID
    21930248
    ae974a485f413a2113503eed53cd6c53
    10.1016/j.meegid.2011.09.001
    Scopus Count
    Collections
    Articles; Applied Mathematics and Computational Science Program; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division

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