Course - Systembiology, Modelling and Analysis - KP8130
KP8130 - Systembiology, Modelling and Analysis
About
Examination arrangement
Examination arrangement: Oral examination
Grade: Passed / Not Passed
| Evaluation | Weighting | Duration | Grade deviation | Examination aids |
|---|---|---|---|---|
| Oral examination | 100/100 | D |
Course content
The course will be given every second year, next time fall 2023. The course will introduce some topics in molecular and cell biology and how to model them using mathematical methods. The course will introduce some topics in molecular and cell biology and how to model them using mathematical methods. The topics in biology are: enzymes (enzyme activity and cellular mechanisms for enzyme regulation); intracellular signaling (receptors, G proteins, and the MAP kinase cascade); regulation of gene expression (transcription factors and positive, negative, and sigmoid feedback); and genetical and metabolic networks. Topics in modeling are: enzyme kinetics (the concept of steady state in the cell, two-substrate-kinetics, and inhibition and promotion of enzyme activity), reconstruction and structural analysis of biological networks (graph representation, network decomposition, and software tools), and control and analysis of metabolic and genetical pathways and networks (flux control; the connectivity theorem; the construction of complex networks; sensitivity analysis; robustness; and bifurcation analysis).
Learning outcome
The candidate should know the following: - basic principles about modelling of biological systems, using diffrential equations (State space form) - analysis methods of linear and non-linear models in biology - bifurcations, cycles and other phenomenons exist in bacteria and yeast cells - network connections (feedback, feedforward) and genetical circuits - sensitivity and robustness analysis The candidate should know how to: - model biological and physical systems using linear and non-linear equations - run sensitivity analysis (multi-dimentional) - identify and analyse cycles (cell cycles), bi-stability, and other phenomen. - control genetical circuits - design genetical circuits the general knowledge: The candidate will know - modelling physical and biological systems - linear and non-linear analysis - understand biological dynamical systems and translate them to mathematical equations be able to analyse models.
Recommended previous knowledge
TKP4140 Process Control or similar. Molecular Genetics or similar.
Required previous knowledge
Mathematics 1 to 4, (TMA4100, TMA4105, TMA4110 and TMA 4115N) or similar courses, differential equations and/or numerical analysis, and/or modeling dynamical systems.
Course materials
"System Modeling in Cellular Biologi, from concepts to nuts and bolts", Z. Szallasi, J. Stelling and V. Periwal. Hand outs.
No
Version: 1
Credits:
7.5 SP
Study level: Doctoral degree level
Term no.: 1
Teaching semester: AUTUMN 2023
Language of instruction: English
Location: Trondheim
- Process Control
- Technological subjects
Department with academic responsibility
Department of Chemical Engineering
Examination
Examination arrangement: Oral examination
- Term Status code Evaluation Weighting Examination aids Date Time Examination system Room *
- Autumn ORD Oral examination 100/100 D
-
Room Building Number of candidates - Spring ORD Oral examination 100/100 D
-
Room Building Number of candidates
- * The location (room) for a written examination is published 3 days before examination date. If more than one room is listed, you will find your room at Studentweb.
For more information regarding registration for examination and examination procedures, see "Innsida - Exams"