MARG

The MARG project for Modelling and Animation of Regulatory Gene Networks includes four modules: First a BioDataServer, which is an integration service based on the mediator approach. It accesses distributed datasources using specifically implemented types of wrappers. Secondly SEMEDA, a Semantic Meta Database, which is directly connected to the BioDataServer. It enables the user to query datasources using onthologies as well as controlled vocabularies. The third module is an interactive modelling environment PROTON. It has been developed to reconstruct models from databases. Graphical methods provide the user with support in modelling the structure of regulatory networks. Finally, a simulation core provides the animation of the dynamic behavior of the structures as systems. PathAligner builds the last module. It is designed to reconstruct/retrieve metabolic pathways and process alignments of them. It provides a simple interface to reconstruct metabolic pathways from rudimentary components such as metabolites, enzymes, genes or sequences.

Citation: Ralf Hofestädt. MARG - Modelling and Animation of Regulatory Gene Networks. DFG grant: HO 1178/10-1