FI:PA052 Systems Biology - Course Information
PA052 Introduction to Systems BiologyFaculty of Informatics
- Extent and Intensity
- 2/0. 2 credit(s) (plus extra credits for completion). Type of Completion: zk (examination).
- prof. RNDr. Luboš Brim, CSc. (lecturer)
doc. RNDr. David Šafránek, Ph.D. (lecturer)
- Guaranteed by
- prof. Ing. Václav Přenosil, CSc.
Department of Machine Learning and Data Processing - Faculty of Informatics
- Thu 16:00–17:50 B411
- Course Enrolment Limitations
- The course is also offered to the students of the fields other than those the course is directly associated with.
- fields of study / plans the course is directly associated with
- there are 22 fields of study the course is directly associated with, display
- Course objectives
- At the end of the course, students will be capable of employing abstract computer-scientific thinking in the field of biological systems modeling.
- 1.History and scope of Systems Biology 2.Basic notions - Living organism as a system with precisely given structure and functionality - In silico modeling - Abstraction - Model as a formal system - Simulation and prediction 3.Sources of biological data - Databases of biological knowledge 4.A typical research scenario in Systems Biology - Use of informatics and mathematical methods 5.Specification of a biological system - Biological networks and pathways - SBML language 6.Static analysis of biological systems - Analysis of biological networks and pathways 7.Modeling and simulation of dynamic mechanisms of living organisms 8.Modeling of Escherichia coli bacteria - Genetic regulatory network of E. coli - Models of loccomotion organ synthesis and chemotaxis - Nutritional stress response models – Models of starvation 9.Case studies of other in silico models 10.Model validation - In silico analysis vs. experimental analysis 11.Design and reconstruction of biological networks - Syntetic Biology - Example of reconstruction of E. coli
- recommended literature
- ALON, Uri. An Introduction to Systems Biology: Design Principles of Biological Circuits. : Chapman & Hall/Crc, 2006. info
- Teaching methods
- lectures, readings
- Assessment methods
- Final exam is written. In the case homeworks are assigned, these are counted by maximum of 30% to the final mark. No study materials are allowed during the final examination.
- Language of instruction
- Further Comments
- Study Materials
The course is taught annually.
- Teacher's information