Dr. Stefan Hoops' Research Group focuses on computer simulation and the analysis of biochemical networks.
Researchers in Dr. Hoops' laboratory, in collaboration with the Mendes Research Group at the University of Manchester and the Kummer Group at the University of Heidelberg, have developed the COPASI software to model and simulate biochemical networks. COPASI, which supports the Systems Biology Markup Language standard for systems biology software, enables researchers to investigate how a system is working by allowing them to construct biochemical models. One of COPASI's main features is the ability to automatically adjust model parameters to reproduce experimental results, which helps to justify the validity of the chosen model.
Dr. Hoops' Research Group is the development of a Web based application for dynamical discrete network modeling, PlantSimLab, that enables plant biologists to build, validate, and use intuitive computer models, with a user interface that does not require mathematical or modeling expertise. PlantSimLab is intended to play the role of a virtual laboratory, in which plant biologists can interrogate a computational model in ways similar to how it is done in the laboratory. The software is being developed in close collaboration with the plant biology community, through use cases that drive software capabilities and interface features. An extensive dissemination effort will be made to introduce the tool to plant biologists.
Dr. Hoops is using the above-mentioned tools in collaboration with the Nutritional Immunology and Molecular Medicine Laboratory (NIMML) under the guidance of Dr. Bassaganya-Riera and Dr. Hontecillas to develop mathematical and computational models for studying the human immune system.