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Geneious plugins for the access of PlasmoDB and PiroplasmaDB databases
Charles Ma1, Svenja Gunther, Brian Cooke
1Department of Microbiology, Monash University, Clayton Vic 3800, Australia. charles.ma@monash.edu
Parasitology International
|November 28, 2012
Summary
New Geneious plugins enhance access to EuPathDB (Eukaryotic Pathogen Database Resources) for eukaryotic pathogen genomic analysis. These tools streamline data retrieval from specialized databases, improving research capabilities.
Area of Science:
- Bioinformatics
- Genomics
- Computational Biology
Background:
- Geneious is a popular bioinformatics platform for genomic analysis.
- Current Geneious access is primarily limited to National Center for Biotechnology Information (NCBI) databases.
- Specialized eukaryotic pathogen data resides in EuPathDB (Eukaryotic Pathogen Database Resources) databases like PlasmoDB and PiroplasmaDB.
Purpose of the Study:
- To develop Geneious plugins for accessing EuPathDB databases.
- To enable researchers to import and analyze specific eukaryotic pathogen genomic and functional genomics data.
- To enhance the utility of Geneious for studying eukaryotic pathogens.
Main Methods:
- Development of two Geneious plugins: one for PlasmoDB and one for PiroplasmaDB.
- Integration of search functionalities within Geneious to query EuPathDB.
- Facilitation of direct import of gene and protein sequences into Geneious.
Main Results:
- Successful creation and availability of PlasmoDB and PiroplasmaDB plugins for Geneious.
- Users can now retrieve and analyze specific eukaryotic pathogen data directly within Geneious.
- Linked information unique to EuPathDB is accessible via the default web browser.
Conclusions:
- The developed plugins significantly expand Geneious's capability for eukaryotic pathogen research.
- These plugins provide a valuable resource for accessing specialized data from EuPathDB.
- The plugin architecture is adaptable for integration with other EuPathDB databases.
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