Course code InfT1035

Credit points 2

Control of Biosystems

Total Hours in Course80

Number of hours for lectures16

Number of hours for seminars and practical classes16

Independent study hours48

Date of course confirmation10.03.2015

Responsible UnitDepartment of Computer Systems

Course developer

author Vadības sistēmu katedra

Ivars Mozga

Dr. sc. ing.

Course abstract

Biosystems management has become one of the areas of application of computer science and computer-based applications with great potential for development in biotechnology, medicine, ecology and energy. The course intends to provide informational technology specialists with information on the basics of biological systems and the connection between computer technologies and various technological fields of science and technology. The concepts of cybernetics and systems theory, which bind biological systems with technical unified formal analysis, are examined.

Learning outcomes and their assessment

As a result of the study course students acquire:
• knowledge of the main features of the biological and technical processes, the basic principles of the biological system up to the cellular level;
• skills to analyse genetic information, compare gene sequences of different organisms, track the potential consequences of genetic changes in the biological management system, interpret the results of dynamic simulation simulations;
• Competence to use the tools of free-access biological information analysis in the modelling and forecasting of biological management processes, to be able to analyse and plan the processes of bioprocess modelling and optimization.

Course Content(Calendar)

1. Basis on genetics. Analysis of gene homology with free-access tools. 2. Navigation in genetic information databases. Different gene regions. 3. Search of homologous sequences. Interpretation of BLAST analysis results. 4. Analysis of the degree of homology of related organisms. 5. Copasi tool for modelling and optimizing bioprocesses. 6. Definition of the precise agricultural sector and overview of the main sub-sectors. 7. Computer technology assignments and modelling in Precision beekeeping as one of Precision agricultural sub-sector. Investment repayment rate calculations for the implementation Precision Beekeeping IS. 8. Computer technology assignments and modelling in Precision livestock as one of Precision agricultural sub-sector. 9. Tools, methods and projections of modelling and forecasting climate change in Latvia and in the world. 10. Work with GHG emission data bases and calculations in the agricultural sector for climate change modelling tasks. 11. Global Climate Forecasting Tools on the World Wide Web. 12. Use of Satellite Data in GIS Systems. 13. Graph theory. The basic concepts of graph theory and application of graph theory for computer simulation og biosystems tasks. 14. Fundamentals of genetics. The types of mutations. The analysis of biochemical network structure and modelling of the structure evolution. 15. Presentation of individual work.

Description of the organization and tasks of students’ independent work

Theoretical exam (test) about knowledge acquired in the study course.
Every week’s practical work.
The test, individual work and practical works must be credited.

Criteria for Evaluating Learning Outcomes

Homework. Gene homology analysis using a free tool, homologous sequencing, interpretation of BLAST analysis results and analysis of the degree of homology of related organisms (at least 3 pages, submitted electronically). The assessment of the study course is calculated from the assessment of the test and assessment of developed and defended home work.

Compulsory reading

1. Ratledge C., Kristiansen B. Basic Biotechnology. 3rd edition. Cambridge: Cambridge University Press, 2006.
2. Dochain D. Bioprocess control, Wiley and Sons, 2001.
3. Klipp E., Herwig R., Kowald A., Wierling C., Lehrach H. Systems Biology in Practice. Concepts, Inplementation and Application. WILEY-VCH Verlag GmbH&Co KgaA., 2006.
4. Jones D.S. Sleeman B.D. Differential Equations and Mathematical Biology. Chapman &Hall/CRC, 2003.

Further reading

1. Szallasi Z., Stelling J., Periwal V. System Modelling in Cell Biology from concepts to nuts and bolts, MIT Press, 2006.
2. Davidson E.H. The regulatory Genome. Gene regulatory networks in development and evolution. Academic Press, Elsevier, 2006. Pieejama tiešsaistē:
http://ezproxy.llu.lv:2108/ehost/ebookviewer/ebook?sid=10915a09-2d02-4e95-8231-33df5cb67bab%40pdc-v-sessmgr02&ppid=pp_C1&vid=0&format=EB
3. Palsson B.O. Systems Biology: Properties of Reconstructed networks. Cambridge University Press, 2006.

Notes

Compulsory study course for students of the ITF academic study program "Computer Control and Computer Science".