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VirGen: a comprehensive viral genome resource.

Urmila Kulkarni-Kale1, Shriram Bhosle, G Sunitha Manjari

  • 1Bioinformatics Centre, University of Pune, Pune 411 007, India. urmila@bioinfo.ernet.in

Nucleic Acids Research
|December 19, 2003
PubMed
Summary

VirGen is a new viral genome database offering curated sequences, data mining tools, and phylogenetic trees. This resource aids in understanding viral evolution and developing vaccines and antiviral drugs.

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Area of Science:

  • Bioinformatics
  • Virology
  • Genomics

Background:

  • Viral genome data is vast and complex, requiring structured organization for effective research.
  • Existing resources may lack comprehensive annotation, data mining tools, or comparative analysis capabilities.

Purpose of the Study:

  • To develop VirGen, a comprehensive, annotated, and curated viral genome database.
  • To provide value-added data, data mining tools, and comparative analysis features for viral genomes.
  • To facilitate research in viral evolution, vaccine design, and antiviral drug development.

Main Methods:

  • Utilizing sequence-based bioinformatics approaches for viral genome annotation.
  • Curating genomic data to identify alternate protein names.
  • Archiving comparative analysis results of genomes, proteomes, and proteins.

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  • Computing phylogenetic trees using whole-genome sequence data.
  • Predicting B-cell antigenic determinants.

    • Main Results:

    • VirGen v1.1 contains 559 complete and 287 putative viral genomes from eight families with animal and plant hosts.
    • The database includes curated annotations, comparative analysis data, and phylogenetic trees.
    • It is the first resource to offer whole-genome-based phylogenetic trees for viral species.
    • A module for predicting B-cell antigenic determinants links genomic data to potential vaccinomes.

    Conclusions:

    • VirGen provides a valuable, integrated resource for viral genomics research.
    • Comparative genomic analysis within VirGen supports studies on viral organization and evolution.
    • The database has implications for identifying candidates for vaccine and antiviral drug design.