Software

VariVis: a visualisation toolkit for variation databases

Timothy D Smith^1,2 and Richard GH Cotton^1,2

¹Genomic Disorders Research Centre, Carlton South, VIC 3053, Australia

²The University of Melbourne, Department of Medicine, Melbourne, VIC 3010, Australia

author email corresponding author email

BMC Bioinformatics 2008, 9:206doi:10.1186/1471-2105-9-206

Published:	23 April 2008

Abstract

Background

With the completion of the Human Genome Project and recent advancements in mutation detection technologies, the volume of data available on genetic variations has risen considerably. These data are stored in online variation databases and provide important clues to the cause of diseases and potential side effects or resistance to drugs. However, the data presentation techniques employed by most of these databases make them difficult to use and understand.

Results

Here we present a visualisation toolkit that can be employed by online variation databases to generate graphical models of gene sequence with corresponding variations and their consequences. The VariVis software package can run on any web server capable of executing Perl CGI scripts and can interface with numerous Database Management Systems and "flat-file" data files. VariVis produces two easily understandable graphical depictions of any gene sequence and matches these with variant data. While developed with the goal of improving the utility of human variation databases, the VariVis package can be used in any variation database to enhance utilisation of, and access to, critical information.