| Overview | MSc info | MSc program | MSc topics | ET | TN | WBMT |
| LM3512TU: | Systems Biology |
| ECTS: | 3 |
| Responsible Instructor: | S.A. Wahl |
| Contact Hours / Week x/x/x/x: | 0/0/32/0 |
| Education Period: | 3 |
| Start Education: | 3 |
| Exam Period: | none |
| Course Language: | English |
| Course Contents: | Systems biology is an integrated approach of experimental and mathematical methods that aims a comprehensive understanding of how biological functions arise and how they are regulated. Transcription, signaling and metabolism in living cells influence each other by various regulatory mechanisms. For the unraveling of the regulation of cellular metabolism different platforms have been developed, named omics technologies e.g. metabolomics, transcriptomics, genomics and proteomics. To aid the interpretation of the obtained omics data, numerous mathematical modelling approaches have been developed. The course introduces the measurement technologies and mathematical approaches for the purpose of: - Quantification of metabolic fluxes, - Identification of enzyme kinetic properties under in-vivo conditions, - Design of organisms with enhanced properties. The course presents: - Techniques to quantify intracellular fluxes, e.g: - Metabolic flux analysis (MFA) and 13C labelling techniques, - Flux balance analysis for genome scale models - Calculation of elementary flux modes - An overview of experimental perturbation techniques and their information content - Techniques for global and targeted metabolome measurements - Heatmaps for the interpretation of omics-data. - Measurement techniques and data interpretation for protein and transcript levels - Thermodynamic aspects of metabolism and gene regulation - Principles/ Modelling of signal transduction - System wide modelling techniques (Elementary mode analysis, linear programming, MCA) - Parameter identification with their problems and solutions |
| Study Goals: | After this course the students should be able to: - Translate the relevant properties of a biological system into a proper mathematical model and set up a simulation - Parameterize this model by choosing proper experimental design, measurement techniques and mathematical procedures - Apply the obtained model for (re)design of biological systems with the aim to alter and/or improve their properties (e.g. product formation) - Use mathematical models to create hypotheses on unknown molecular interactions (gene annotation, metabolite protein/ enzyme interactions, protein/ protein and protein DNA interactions - Reconstruct models published in system biology journals and apply these to modified conditions. |
| Education Method: | Lectures and computer exercises |
| Assessment: | Case study on modeling (published model will be reconstructed and evaluated) |
