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Automatic updating of the EMBL database via EMBNet
1Computing Services Section, MRC Clinical Research Centre, Harrow, Middlesex, UK.
Computer Applications in the Biosciences : CABIOS
|April 1, 1990
Summary
This study details a method for updating the European Molecular Biology Laboratory (EMBL) nucleic acid sequence database. The procedure ensures the database and its indexes are current for the Genetics Computer Group (GCG) software package.
Area of Science:
- Bioinformatics
- Molecular Biology Databases
- Computational Biology
Background:
- The European Molecular Biology Laboratory (EMBL) database is a critical resource for nucleic acid sequences.
- Maintaining up-to-date indexes for bioinformatics software packages like the University of Wisconsin Genetics Computer Group (GCG) is essential for accurate data retrieval and analysis.
- Efficiently updating large sequence databases requires robust and automated procedures.
Purpose of the Study:
- To describe a procedure for updating the EMBL nucleic acid sequence database.
- To ensure the GCG software package utilizes current EMBL database indexes.
- To facilitate the integration of new sequence entries distributed via EMBNet.
Main Methods:
- Utilizing updated entries for the EMBL database distributed via EMBNet.
- Implementing a procedure to update the database and its associated indexes.
- Running the update procedure on a SUN 4/280 server with SUNOS 4.0.1.
Main Results:
- A functional procedure for updating the EMBL database and GCG indexes was established.
- The procedure successfully incorporates new sequence data distributed through EMBNet.
- The system is operational on specified hardware and software.
Conclusions:
- The described procedure provides an effective means to maintain an up-to-date EMBL database for GCG users.
- This method enhances the reliability of sequence analysis by ensuring data currency.
- The process is implementable on standard Unix-based systems.