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Introduction to Cellular System Modeling (ZMB)

Credits: 5 ( Lectures: 2, Practical lessons: 2)
Semester: ZS/LS
Ending: zp
Guarantor: Georgiev Daniel
Lecturer: Georgiev Daniel
Practical lesson lecturer: Georgiev Daniel


Course objectives:
There are three major goals: 1. Familiarize students with the fundamental cellular components and their functions, e.g., the structure of DNA, RNA, and proteins, and interplay in the central dogma of molecular biology. 2. Introduce some standard quantitative models of biological systems and their relation to first principles. 3. Introduce relevant analysis and identification techniques and familiarize students with their value. 

Requirements on student
The course is evaluated on a pass/fail bases. To pass, students must attend and participate in the lectures. At the end of the semester, students are also required to present a cellular subsystem model that they developed during the course. 

Biology (4 lectures): Introduction, central dogma of molecular biology, regulation mechanisms and signal transduction, and other mechanisms. 

Modeling (5 lectures): The fundamental stochastic model, deterministic models of chemical reaction networks, other deterministic approximations, analysis, and common motifs. 

Identification (3 lectures): Identification strategy, structural identification, identification of kinetics, and parameter estimation. 


Biologie (4 přednášky): Úvod, centrální dogma molekulární biologie, regulační mechanismy a transdukce signálů, a další mechanismy 

Modeling (5 přednášek): Fundamentální stochastický model, deterministický model chemických reakčních sítí, další deterministické modely, analýza modelů, běžné motivy. 

Identifikace (3 přednášky): Identifikační přístup, identifikace struktůry, identifikace kinetiky. 


Studenti jsou ohodnoceni zápočtem. K jeho získání, se studenti musí aktivně zúčastnit přednášek a prezentovat vybraný buněčný subsystem a jeho model. 


  • Doporučená: Gerald Karp. Cell and Molecular Biology: Concepts and Experiments. Wiley, 2007. ISBN 978-0-470-04217-5. 
  • Doporučená: Zoltan Szallasi, Jorg Stelling, and Vipul Periwal. System Modeling in Cellular BIology: From concepts to nuts and bolts. The MIT Press, 2006. ISBN 0-262-19548-8.