Wspólnotowy Serwis Informacyjny Badan i Rozwoju - CORDIS

New user-friendly software for 2d-gel analysis

We have developed a database for the project. Our aims were to provide storage space for large amount of information coming from experimental data, to improve the information flow between participants, thus helping the coordination process of the whole project, and finally to help in the analysis of the data and in drawing conclusions based on several different types of information (mass-spectrometry data, Multi Photon Detection, 2D electrophoresis) obtained during the project (data mining).

The major steps in database development were as follows:
- Building the hardware setup and operating system,
- Building the database structure, and linking to other existing biological resources,
- Creating user interfaces to the database.
- Creating helper applications for data analysis.

The user friendly software for 2d-gel analysis. A software for the analysis of images obtained from classical 2D electrophoresis and Multi Photon Detection has been created. It was written in Borland Delphi and can be run on Microsoft Windows operating system, however using Borland Kylix as a compiler enables our application to run on under linux as well. It allows for selecting, enlarging and analyzing parts of the image processed and allows comparison of 2D gels. One of its most valuable features is the creation of image of theoretical gel based on sequences of proteins. The software contains a database of post-translational modifications and is linked to the PROSITE database.

The post-translational modification status of the protein we want to see on the image can be changed on demand. In this way one can observe influence of attaching many different chemical groups to protein on its physical-chemical properties. Images created by the software can be merged with experimentally obtained ones. It permits easy identification of proteins (and possible posttranslational modifications) in the sample analyzed. Analysis of the existing, publicly available, well resolved 2D gels allowed us to revise the pK values used by software packages for similar tasks. We have also undertaken molecular modeling studies on NBDs of the CFTR protein.

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