ICM/CCBM Announces Availability of Version 2.0 of the Protein-DB2 Database/Web Interface System


Version 2.0 of the Protein-DB2 database/web interface system is now available for immediate download via the CCBM website. An Apache/PHP system was the development platform for version 1.0 of the web interface; version 2.0 centers its functionality on a Java Application/JSP server, namely IBM Websphere v5.1. In addition to the structural changes to the web interface portion, version 2.0 contains several expansions in functionality. They include the following:

  1. Upload and query interfaces for Difference-In Gel Electrophoresis (DIGE) gel image and analysis software files,
  2. The ability to upload and convert raw MS data files produced by Shimadzu Axima, Applied Biosystems Voyager, ThermoFinnigan LCQ and LTQ, and ABI/SCIEX QStar to mzXML files,
  3. Upload and query interfaces for Mascot Mass Spectrometry (MS) Results HTML and XML files,
  4. The ability to associate Two-dimensional Polyacrylamide Gel Electorphoresis (2D-PAGE), DIGE, MS, and MS results data to a specific experiment, and
  5. User creation and querying interfaces for administrators to manage access to the system.

Version 2.0 also includes several database schema changes; a visual display of the database schema is available here. They include the addition of tables for DIGE analysis storage, as well as the addition of an alternative protein hit table, to expand upon the MS Results storage.

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JHU - Institute for Computational Medicine