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MyBASE: a database for genome polymorphism and gene function studies of Mycobacterium
Xinxing Zhu1, Suhua Chang, Kechi Fang
1Behavioral Genetics Center, Institute of Psychology, Chinese Academy of Sciences, Beijing, PR China. zhuxx@psych.ac.cn
BMC Microbiology
|February 21, 2009
Summary
A new database, MyBASE, integrates mycobacterial genome polymorphisms and gene functions. This resource aids research into mycobacterial pathogenesis and evolution by providing a platform for analyzing genetic variations and virulence factors.
Area of Science:
- Genomics
- Bioinformatics
- Microbiology
Background:
- Mycobacterial pathogens pose significant threats to human health.
- Functional genomic data is crucial for advancing research on mycobacterial pathogenesis and control.
- Genome polymorphisms, particularly large sequence polymorphisms (LSPs), are implicated in varying pathogenicity among mycobacterial strains.
Purpose of the Study:
- To develop a dedicated database (MyBASE) for mycobacterial genome polymorphisms with functional interpretations.
- To provide a centralized information resource and analysis platform for the mycobacterial research community.
Main Methods:
- Developed MyBASE, a database integrating whole genome comparison data and identified novel genome polymorphisms.
- Incorporated extensive literature review data on LSPs, operon predictions, and curated annotations of virulence and essentiality.
- Integrated large-scale genomic data from public resources, cross-linking all data for graphical viewing via a toolbox.
Main Results:
- MyBASE houses comprehensive mycobacterial genome polymorphism data linked with gene functions.
- The database includes unique features such as LSP data, operon predictions, and virulence/essentiality annotations.
- Data is integrated from internal lab findings and public resources, creating a rich data warehouse.
Conclusions:
- MyBASE serves as an integrated platform for analyzing genome structure and polymorphisms, offering insights into genome evolution.
- The database facilitates comparative analysis of virulence factors across different mycobacterial strains.
- MyBASE is freely accessible online, supporting mycobacterial research globally.
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