Course: Bioinformatics

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Course title Bioinformatics
Course code KGZB/BINF
Organizational form of instruction Lecture + Lesson
Level of course Master
Year of study 2
Semester Winter
Number of ECTS credits 4
Language of instruction Czech
Status of course Compulsory-optional
Form of instruction unspecified
Work placements unspecified
Recommended optional programme components None
Lecturer(s)
  • Beran Pavel, Ing. Ph.D.
  • Hejna Ondřej, Ing. Mgr. Ph.D.
Course content
Contents of blocks of lectures and exercises: 1. Operating systems based on GNU / Linux and basic orientations. 2. Programming in biology and programming paradigms. 3. Overview of programming languages common in biology. 4. Basic program flow. 5. Variables and arrays of variables. 6. Program flow control. 7. Iteration. 8. Functions and recursion. 9. Additions to programming languages and interoperability. 10. Statistics in programming. 11. Databases in programming. 12. Simple programming for biological practice. 13.-14. Creating more complex sets of programs usable in biology.

Learning activities and teaching methods
Monologic (reading, lecture, briefing)
  • Preparation for credit - 10 hours per semester
  • Preparation for exam - 30 hours per semester
  • Class attendance - 56 hours per semester
  • Semestral paper - 25 hours per semester
Learning outcomes
The course offers contemporary methods of the biological and molecular data analysis. Students will learn about several types of computer tools for various kind of data analysis and will adopt basic concepts of the script creation in Python programming language.
Students are able to independently operate the common computer software on advanced level.
Prerequisites
Very good knowledge of informatics and standard knowledge of genetics and statistics

Assessment methods and criteria
Combined exam

Excellent informatics and computer technologies skills, appropriate knowledge of biology and genetics.
Recommended literature
  • Andreas D. et al. Bioinformatics: Practical Guide to the Analysis of Genes and Proteins. Wiley-Interscience, 2005. ISBN 0-471-47878-4.
  • Cvrčková F. Úvod do praktické bioinformatiky. Academia, 2006. ISBN 50-200-1360-1.
  • Higgins D., Taylor, W. Bioinformatics - sesyuence, structure and databanks. Oxford Univ. Press., 249 s., 2000.
  • Misener, S.M., Krawetz, S.A. Bioinformatics. Methods and protocols.. Towwa, Humana Press, 500 s., 2000.
  • Pačes J. Bioinformatika, XXIII. Genetické dny. SciPP Č. Budějovice, 2008.
  • Yi-Ping Phoeb Chen. Bioinformatic Technologies. Springer, 2005. ISBN 3540208739.


Study plans that include the course
Faculty Study plan (Version) Category of Branch/Specialization Recommended year of study Recommended semester
Faculty: Faculty of Agriculture Study plan (Version): Agricultural Biotechnology (2017) Category: Agriculture and forestry 2 Recommended year of study:2, Recommended semester: Winter