Management, presentation and interpretation of genome scans using GSCANDB.
BACKGROUND
Advances in high-throughput genotyping have made it possible to carry out genome-wide association studies using very high densities of genetic markers. This has led to the problem of the storage, management, quality control, presentation and interpretation of results. In order to achieve a successful outcome, it may be necessary to analyse the data in different ways and compare the results with genome annotations and other genome scans.


RESULTS
We created GSCANDB, a database for genome scan data, using a MySQL backend and Perl-CGI web interface. It displays genome scans of multiple phenotypes analysed in different ways and projected onto genome annotations derived from EnsMart. The current version is optimized for analysis of mouse data, but is customizable to other species.


BACKGROUND
Source code and example data are available under the GPL, in versions tailored to either human or mouse association studies, from http://gscan.well.ox.ac.uk/software.
Taylor
Martin
M
Wellcome Trust Centre for Human Genetics, Oxford, UK.
Valdar
William
W
Kumar
Ashish
A
Flint
Jonathan
J
Mott
Richard
R
D000818:Animals; D003196:Computer Graphics; D003628:Database Management Systems; D030541:Databases, Genetic; D008040:Genetic Linkage; D016678:Genome; D015894:Genome, Human; D006801:Humans; D016247:Information Storage and Retrieval; D051379:Mice; D008957:Models, Genetic; D010641:Phenotype; D012984:Software