Research
Constrained optimization of flux-balance models
Kinetic models of cellular processes
Network reconstruction and validation
Relating gene expression to cellular function
Biometry of toxicological alternative methods
Theory-based experimental design
Constrained Optimization of Flux-Balance Models
- Minimal flux modes (MinModes) - fundamental flux modes with a unique functional interpretation
- Computational estimation of Gibbs free energy values of enzymatic reactions
- Flux-balance analysis of metabolic networks
- Influence of enzyme costs on fluxes in metabolic networks
Kinetic Models of Cellular Processes
- Lipid transport in hepatocytes
- Antigen presentation
- Integrative kinetic model of hepatocyte metabolism
- Mathematical modeling of the vesicle transport
- Development of methods for kinetic modeling of complex systems
- Development of an electric-metabolic osmotic (EMO) model for neuronal cells
- Liver function test - methacetin kinetics
- Modeling the foam-cell formation
- Membrane biogenesis modeling of a Toxoplasma gondii-infected human cell and deduction of underlying metabolic principles
Network Reconstruction and Validation
- Metabolic network reconstruction and modeling of human hepatocytes
- Verification of the stoichiometric model of the hepatocyte with flux-balance optimization
- Knowledgebase and bioinformatic tool development for analysis of large metabolic networks
- Reconstruction of myocyte metabolism
Relating Gene Expression to Cellular Function
- Analysis and interpretation of transcription profiles and visualization of gene expression levels in metabolic networks
- Exploitation of high-throughput data to increase the reliability of metabolic flux predictions
Biometry of Toxicological Alternative Methods
Theory-Based Experimental Design
- Analysis of degradation of support fixed peptides by the 20S proteasome
- Computer-based identification of fragments in proteasome digest (mass spectrometry)