Analysis and Redesign of Biological Networks

Major research interests

Research in my group lies at the intersection of biology, mathematics, informatics, and the engineering sciences. We develop and apply novel computational methods to better understand structure and function of biological networks eventually enabling us to modify cellular behavior in a rational manner. As one particular focus, we are interested in modeling and computational design of metabolic networks for (systems) metabolic engineering of microbial cell factories. To test model-based predictions, our group performs wet-lab experiments (genetic modifications, bioreactors fermentations etc.) with Escherichia coli, one of the most impor­tant model organisms serving as host in many bio­technological production processes. Our group developed the comprehensive MATLAB package CellNetAnalyzer which provides a graphical user interface and numerous algorithms for analyzing and designing biological networks. Overall, a long-term vision of the ARB group is to help pave the way for routine use of mathematical modeling and network analysis in biology, biotechnology, and biomedicine.

We are currently looking for talented students interested in methods for the model-driven analysis and optimization of metabolic networks, especially in the context of cell-free production systems.
He or she should have an excellent degree in Computational/Systems Biology, Biosystems Engineering, (Bio)Mathematics, Bioinformatics or related fields and ideally have some experience with kinetic modeling as well as wet lab experiments.

IMPRS-Alumni

Bjoern-Johannes Harder

PhD thesis: Modellbasiertes Metabolic Engineering zur Optimierung der Itaconatproduktion in Escherichia coli
(Nov. 7, 2018)

Sabine Koch

PhD thesis: Stoichiometric modeling of microbi al consortia in biogas plants
(Apr. 23, 2020)
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