Course for international guest/part time students

Faculty

Faculty of Science

Organization

TTK Department of Physiology and Neurobiology

Code

rendbub22em

Title

Systems and omics biology L

Usual semester

Spring

Published semester

2025/26/2

ECTS

3

Language

en

Learning outcomes

The aim of the course is to discuss the knowledge gained in practice and to learn the most important systems biological principles and omics methods.

Course content

The concept and development of systems biology. Genomics, proteomics, metabolism, ionomics, and other “-omics” disciplines. Hypothesis-based vs. high-throughput molecular biology. In vivo proteomic data collection in E. coli and analysis. Exploration and characterization of flux distribution in the E. coli metabolic network. Route necessity (network robustness) in yeast metabolic network., Exploration and characterization of modularity in metabolic networks. Network of networks: the living being as a set of networks. Network Science Introduction. Factors influencing the formation of real, scale-free networks - models and interpretations. Conditions for checking networks. The fractal nature of networks. System fluctuations: characteristics, sources, role and regulation of accidental noise in biological systems. Basics of modeling. What can we model in biology? The main types of models. The process of modeling on the example of population dynamics. The process of modeling on reaction kinetics, virus dynamics and epidemic propagation examples. Modeling of stochastic processes with epidemiological examples. Chip technology in functional genomics. Hybridization techniques. Production of DNA chips, their applications and limitations. Transcriptome studies, RNA sequencing, comparison of chip and RNAseq results. Validation of results. Protein and chemical chips. Proteomics as a way of thinking and an experimental strategy. Principles for the performance of proteomic experiments. Sampling, sample preparation, mass spectrometric analysis. What to expect from proteomics: basic research, pharmaceutical industry, pathomechanism research, diagnostics. Principles of evaluation of omics experiments. Systems biology approach to diseases. Identification and use of biomarkers. Personalized medicine. Systems biology approach in pharmacological research. Identify new drug targets. Application of high-throughput techniques in drug discovery.

Assessment method

k5 = exam mark (5) (1 failed, 5 excellent) The colloquium for the examination period must be prepared from the material of the lectures and the relevant literature. The exam includes an electronic written test and a selection of 2 articles to be spoken orally in groups of three.

Bibliography

Lecture handouts

Programmes of the course