Course detail

System Biology

FEKT-FSYSAcad. year: 2011/2012

The course is oriented to knowledge on methods of systems biology, design of models of cellular organisms and possibilites of their use. It studies computational methods for description of living organisms on molecular level useful in cellular biology and biochemistry.

Language of instruction

Czech

Number of ECTS credits

5

Mode of study

Not applicable.

Guarantor

prof. Ing. Valentine Provazník, Ph.D.

Department

Department of Biomedical Engineering (UBMI)

Learning outcomes of the course unit

Practical knowledge of methods of design and analysis of mathematical models based on information technology tools for cellular biology.

Prerequisites

The subject knowledge on the Bachelor´s degree level is requested.

Co-requisites

Not applicable.

Planned learning activities and teaching methods

Teaching methods depend on the type of course unit as specified in the article 7 of BUT Rules for Studies and Examinations.

Assesment methods and criteria linked to learning outcomes

Requirements for completion of a course are specified by a regulation issued by the lecturer responsible for the course and updated for every year.

Course curriculum

Modeling of biochemical systems, specific biochemical systems, model fitting, analysis of high-throughput data, gene expression models, stochastic systems, network structures, optimality and evolution, experimental techniques in molecular biology, linear control systems, computer modeling tools in practice.

Work placements

Not applicable.

Aims

Knowledge of computational models in cellular biology and way of their use. Knowledge of methods of design and realization of models in systems biology.

Specification of controlled education, way of implementation and compensation for absences

Limitations of controlled teaching and its procedures are specified by a regulation issued by the lecturer responsible for the course and updated for every year.

Recommended optional programme components

Not applicable.

Prerequisites and corequisites

Not applicable.

Basic literature

Not applicable.

Recommended reading

Not applicable.

Classification of course in study plans

  • Programme BTBIO-F Master's

    branch F-BTB , 1 year of study, summer semester, compulsory

  • Programme EEKR-CZV lifelong learning

    branch EE-FLE , 1 year of study, summer semester, compulsory

Type of course unit

 

Lecture

26 hod., optionally

Teacher / Lecturer

doc. Ing. Radovan Jiřík, Ph.D.

Syllabus

1. Introduction to systems biology - from molecular biology of cell to computational models
2. Modeling of biochemical systems - mathematical and computational models to describe processes in living organisms
3. Specific biochemical systems - mathematical modelling of biological and chemical processes in examples
4. Model fitting - design and verification of correct models, comparison to real living systems
5. Analysis of high-throughput data - recent methods used in bioinfnormatics and their implications to systems biology
6. Gene expression models - mathematical modelling of gene expression
7. Stochastic systems and variability - from deterministic to stochastic description of nearly chaotic biochemical processes
8. Network structures, dynamics, and function - networks of models and their use
9. Optimality and evolution - extended dynamic and adaptive models for evolving processes
10. Experimental techniques in molecular biology
11. Linear control systems in modelling
12. Computer modeling tools in practice
13. Systems biology for future

Exercise in computer lab

26 hod., compulsory

Teacher / Lecturer

Ing. Jiří Kratochvíla, Ph.D.

Syllabus

1. Specific biochemical systems - mathematical modelling of biological and chemical processes in examples
2. Gene expression models - mathematical modelling of gene expression
3. Stochastic systems and variability - from deterministic to stochastic description of nearly chaotic biochemical processes
4. Optimality and evolution - extended dynamic and adaptive models for evolving processes
5. Selected computer modeling tools
6. Individual projects