You are hereBISE
BISE
Course: Biological Experiments In Silico
Department/Abbreviation: KBF/BISE
Year: 2020
Guarantee: 'doc. RNDr. Dušan Lazár, Ph.D.'
Annotation: Obtaining basic general knowledge about in silico biology, i.e., about studying of biological organisms and processes by means of computer modelling and simulations.
Course review:
- Introduction (mathematics in biology, purpose of modelling, motivating example - AIDS/HIV research)
- Basic mathematics (linear, exponential and other functions, differential equations)
- Descriptive models and basic data analysis (linear and exponential regressions, ?2 method)
- Estimation of model parameters (different methods)
- Model validation and verification (Kullback-Liebler divergence, Occam's razor principle, Akike information criterion)
- Chemical reaction kinetics and its modelling (types of reactions, reaction order, law of mass action, master equations, Markov chain)
- Michaelis-Menten and Hill enzymatic kinetics
- Transition state rate theory and rate of electron tunneling
- Modelling of oscillating chemical/biological systems (phase space, criteria for oscillations, Lotka-Voltera model, Brusselator, Belousov-Zhabotinsky reaction, Oregonator, glycolysis in yeast, photosynthetic oscillations)
- Metabolic control analysis (assumptions, control and response coefficients, elasticity, summation and connectivity theorems, biological examples)
- Examples of complex models - modeling of photosynthetic processes (different models)