SABIO-RK (System for the Analysis of Biochemical Pathways - Reaction Kinetics) - A web-based application based on the SABIO relational database that contains information about biochemical reactions, their kinetic equations with their parameters, and the experimental conditions under which these parameters were measured. It aims to support modellers in the setting-up of models of biochemical networks, but it is also useful for experimentalists or researchers with interest in biochemical reactions and their kinetics.

Ontology-Based biochemical databases -  Development of database systems using and ontology-based database model, that permits the introduction of logic statements for restrictions and deductive rules.

Integration of Biochemical Data Sources -  Definition and implementation of methods for the integration of data from multiple sources using tools such as Object Request Brokers (ORB), XML, script languages, Java,  amongst others.

GenIE -  development of a system that automatically extracts information from scientific text sources, i.e. research papers and comment lines in existing databases.

Finished Projects

The Mycoplasma pneumoniae database - Designed to access information about Mycoplasma pneumonia: its genes, proteins, enzymes, reactions and pathways. The first web based version of this database is available here.

Ambos - Development of a database application to support the computational analysis of biochemical pathways. This project is closely related to the ELSA project.

WBE (Web Based Exchange of Biochemical Information) Development of a web based system for the semantic integration of biological data based on a database model and an XML based exchange format. The prototype implemented for this project integrates the information related to enzymes.

ELSA (ELEKTRONISCHER STOFFWECHSEL-ATLAS ): the objective of the ELSA project was the development of methods to support the modeling and simulation of biochemical pathways, using as case study Mycoplasma pneumoniae, which has been experimentally analyzed in great detail by one of the project partners.

Visualisation of Transcription-Regulation Networks: development of a web-based application for the visualisation of transcription networks, using E.coli as case study. You can access the application here.