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Biology Articles » Bioinformatics » Poxvirus Bioinformatics Resource Center: a comprehensive Poxviridae informational and analytical resource » Analytical tools

Analytical tools
- Poxvirus Bioinformatics Resource Center: a comprehensive Poxviridae informational and analytical resource

BLAST similarity searches (17) are available that provide standardweb-based BLAST output as well as a web-based version of ourBLAST parsing and visualization application, XS-BLAST (XML-SQLBLAST). XS-BLAST utilizes the XML-output option of the NCBIBLAST executable, and parses the results storing them in ourSQL Server database. The result set is then provided to theuser as an HTML table, as well as from a Java-based graphicalvisualization tool (Figure 3). Both BLAST searches are run locallyon a Sun Solaris server and provide several customized databasesfor searching. These include all complete genomic Poxviridaenucleic acid sequences, all predicted Poxviridae protein sequencesand all available Poxviridae nucleotide sequences extractedfrom GenBank. Comparative analysis of the coding potential of all Poxviridaegenomes is available as both pairwise and multi-genome comparisons.Both tabular listings of orthologous protein sets are providedas well as a graphical gene synteny plot of shared orthologsbetween any two genomes (Figure 3). Ortholog determination isbased on an all versus all BLAST search of all poxvirus proteinsin the PBRC database.

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