PSAT: A web tool to compare genomic neighborhoods of multiple prokaryotic genomes

Background: The conservation of gene order among prokaryotic genomes can provide valuable insight into gene function, protein interactions, or events by which genomes have evolved. Although some tools are available for visualizing and comparing the order of genes between genomes of study, few support an efficient and organized analysis between large numbers of genomes. The Prokaryotic Sequence homology Analysis Tool (PSAT) is a web tool for comparing gene neighborhoods among multiple prokaryotic genomes. Results: PSAT utilizes a database that is preloaded with gene annotation, BLAST hit results, and gene-clustering scores designed to help identify regions of conserved gene order. Researchers use the PSAT web interface to find a gene of interest in a reference genome and efficiently retrieve the sequence homologs found in other bacterial genomes. The tool generates a graphic of the genomic neighborhood surrounding the selected gene and the corresponding regions for its homologs in each...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Christine Fong, Laurence Rohmer, Matthew Radey, Michael Wasnick, Mitchell J. Brittnacher
• Keywords: BMCBI 2008, Gene, Genomes, PSAT