Software ProtozoaDB (EPIKH) | EGI Applications Database

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Name:ProtozoaDB (EPIKH)

Description:A systems biology and grid-enabled approach for the mining of protozoan genomes

Abstract: ProtozoaDB is being developed to initially host both genomics and post-genomics data from Plasmodium falciparum, Entamoeba histolytica, Trypanosoma brucei, T. cruzi and Leishmania major, but will hopefully host other protozoa species as more genomes are sequenced. A system biology and grid-enabled approaches will be used in ProtozoaDB for the mining of protozoan genomes. It is based on the Genomics Unified Schema (http://www.gusdb.org) and offers a modern web-based interface for both programmatic access and user-friendly data visualization and exploration. This database is not intended to duplicate other similar efforts such as GeneDB (http://www.genedb.org), PlasmoDB (http://www.plasmodb.org), TcruziDB (http://www.tcruzidb.org) or even TDRtargets (http://www.tdrtargets.org), but to be complementary by providing more analyses with emphasis on distant similarities (HMM-based) and phylogeny-based annotations including orthology analysis. ProtozoaDB will be progressively linked to the above mentioned databases in order to allow a dynamic combination of multi-source information through the Web2.0 mashups. A programmatic web interface will be available allowing third-party software to retrieve data from ProtozoaDB via web services and its use in automated processes (workflows) or in rich third-party Web2.0 interfaces. We also expect ProtozoaDB to catalyze the development of local and regional bioinformatics capabilities (research and training), and therefore support scientific advancement in developing countries.