General Technique
GDxBase builds on the work that has been done for T1DBase and HDBase and provides a database framework that will support any disease. Our technique is to provide as much data as possible in the light of disease-focused research. We also aim to provide tools to integrate and explore this data. GDxBase comes with two databases — one with pre-loaded generic information, and another that is meant to be filled out by the researchers themselves. Web pages help to access the information in a variety of ways and integrate the information. We also have a growing number of tools, including Cytoscape, Connect the Dots, and Tissue Expression visualization that are available.
GDxBase is a collaboration between the Juvenile Diabetes Research Foundation (JDRF) Center for Bioinformatics at the Institute for Systems Biology (ISB) and Luc Smink at the Diabetes and Inflammation Laboratory (DIL) at the University of Cambridge in the United Kingdom.
All data is open access with the exception of unpublished data provided by data submitters that is being held until publication. All software developed by the ISB is open source and licensed under the GNU General Public License or Perl Artistic License. Most of the software is written in Perl and runs on the usual open source infrastructure stack: Linux, Apache, and MySQL.
Funded by: Juvenile Diabetes Research Foundation (ISB and DIL), Wellcome Trust (DIL)
Purpose/use/application of the technique:
GDxBase is a generic disease database that allows researchers of a specific disease to collect their data and integrate it using a systems biology approach.
Example(s) of projects at ISB that use this technique:
T1DBase, HDBase
Ongoing area of technology development:
As tools are developed on T1DBase, HDBase, or any other disease-specific database, they will be added to GDxBase when they become stable.
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