Integrated functional visualization of eukaryotic genomes.
BACKGROUND
Increasing amounts of data from large scale whole genome analysis efforts demands convenient tools for manipulation, visualization and investigation. Whole genome plots offer an intuitive window to the analysis. We describe two applications that enable users to easily plot and explore whole genome data from their own or other researchers' experiments.


RESULTS
STRIPE and GFFtool (General Feature Format Tool) are softwares designed to support integration, visualization and exploration of whole genome data from eukaryotic genomes. STRIPE, in addition to providing a highly customizable and interactive data plot, provides access to numerous well-selected databases with updated information on all genes of a genome. GFFtool provides a user-friendly solution to integrating experimental data with the genomic information available in public databases. They also obviate the need for users to maintain large annotation resources, as they link to well-known resources using standard gene and protein identifiers.


CONCLUSIONS
The programs provide the user with broad genomic overviews of data distribution, fast access to data of interest, and the ability to navigate speedily from one resource to another, and gain a better understanding of result of whole genome analysis experiments.
Ghai
Rohit
R
Institute of Medical Microbiology, Faculty of Medicine, Justus-Liebig University, Frankfurter Strasse 107, 35392 - Giessen, Germany. Rohit.Ghai@mikrobio.med.uni-giessen.de
Lindemann
Hannes
H
Chakraborty
Trinad
T
D000465:Algorithms; D000818:Animals; D002874:Chromosome Mapping / Q000379:methods*; D003628:Database Management Systems; D030541:Databases, Genetic; D016678:Genome / Q000235:genetics*; D006801:Humans; D016247:Information Storage and Retrieval; D009323:Natural Language Processing; D012984:Software; D013329:Structure-Activity Relationship; D018511:Systems Integration; D014584:User-Computer Interface