Epitome
From Informatics
- What labs or how many are using Epitome?
- Rost lab
- Who is the main “database authority” for Epitome?
- Avner Schlessinger, Guy Yachdav
- What kind of database is it? (flat-file, relational, XML, etc)
- relational
- Size of database?
- 60 MB
- Anticipated yearly growth? (Megabytes/Gigabytes)
- Backup procedures? How often?
- Database backups (Hot, Cold, Both) [and/or]
- Operating system backup
- OS backup
- What servers/operating systems are hosting them (IP addresses)
- might double at most
- IP => 156.145.30.230 (Bonsai)
- Red Hat Enterprise Linux WS Release 3 (Taroon Update 1)
- Approximately how many *active* users?
- How often is the database used? (Daily, Weekly, Monthly)
- just a few
- What platforms are being used? (Oracle, MySQL, PostgreSQL, etc)
- MySQL 4.1.1
- What applications are using these databases?
- Web interface?
- Application (GUI)?
- Command line interface (CUI)?
- CGI scripts/web interface
- rarely
- Is it accessible from outside the firewall to public users?
- YES (Epitome)
- What is the primary purpose of the database & types of data stored?
- Epitome is a database of all known antigenic residues and the antibodies that interact with them
- It includes a detailed description of residues involved in the interaction and their sequence/structure environments
- Interactions can be visualized using an interface into Jmol
- Each entry in the database describes one interaction between residues on an antigenic protein and residues on an antibody chain
- Are there any issues or problems with the database?
- Specific error messages popping up?
- Problems connecting from the application or web interface?
- Performance issues (queries are slow, freezes at times, etc)
- NO
- Would you like help in administering the database?
- Yes. It needs to be updated once a year and it is not fully automated yet.
- What additional features or changes would users like to see?
- new tables or queries
- additional screens on application or web interface
- migrate to different database platform (i.e. MySQL to Oracle)
- no feedback has been provided by users
