Viral genome database: Storing and analyzing genes and proteins from complete viral genomes

Abstract

The Viral Genome DataBase (VGDB) contains detailed information of the genes and predicted protein sequences from 15 completely sequenced genomes of large (>100 kb) viruses (2847 genes). The data that is stored includes DNA sequence, protein sequence, Gen-Bank and user-entered notes, molecular weight (MW), isoelectric point (pI), amino acid content, A + T%, nucleotide frequency, dinucleotide frequency and codon use. The VGDB is a mySQL database with a user-friendly JAVA GUI. Results of queries can be easily sorted by any of the individual parameters. Availability: The software and additional figures and information are available at http://athena.bioc.uvic.ca/genomes/index.html.