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Xanthusbase after five years expands to become Openmods
Philip C Pratt-Szeliga1, Aaron D Skewes, Jinyuan Yan
1Department of Electrical Engineering and Computer Science, Syracuse University, Syracuse, NY, USA.
Nucleic Acids Research
|November 26, 2011
Summary
Xanthusbase, a collaborative database for Myxococcus xanthus, has been enhanced for stability and usability. Its open-source platform, Openmods, now enables other microbial communities to create their own model organism databases.
Area of Science:
- Microbiology
- Bioinformatics
- Computational Biology
Background:
- Myxococcus xanthus research requires a centralized, collaborative information repository.
- Existing model organism databases (MODs) can be costly and difficult to adapt for new organisms.
- Genome annotation and data sharing are crucial for advancing microbial research.
Purpose of the Study:
- To describe the development and enhancements of Xanthusbase, a MOD for Myxococcus xanthus.
- To present Openmods, a customizable platform for creating new MODs.
- To facilitate collaborative annotation and data sharing within microbial research communities.
Main Methods:
- Xanthusbase developed using Wikipedia principles for collaborative content creation.
- Implemented improvements in stability, security, and usability.
- Designed and released an installer for creating new MODs (Openmods).
Main Results:
- Xanthusbase serves as a cost-effective reference and educational tool for M. xanthus researchers.
- The Openmods platform has been successfully adapted to create Xenorhabdusbase and Caulobacterbase.
- The collaborative model enhances the accuracy and completeness of organismal annotation.
Conclusions:
- Xanthusbase and its Openmods platform provide a scalable solution for microbial MOD development.
- The collaborative approach fosters community engagement and improves data accessibility.
- Openmods empowers diverse microbial research communities to build and maintain their own databases.
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