Bi5000c Bioinformatics - practice

Faculty of Science
Autumn 2020
Extent and Intensity
0/2/0. 2 credit(s) (plus extra credits for completion). Type of Completion: z (credit).
Teacher(s)
prof. RNDr. Roman Pantůček, Ph.D. (seminar tutor)
prof. Mgr. Jiří Damborský, Dr. (seminar tutor)
Mgr. Ivana Mašlaňová, Ph.D. (seminar tutor)
doc. Mgr. David Bednář, Ph.D. (seminar tutor)
Mgr. Jan Dvorský, Ph.D. (seminar tutor)
Mgr. Adéla Finstrlová, Ph.D. (seminar tutor)
Mgr. Antonín Kunka, Ph.D. (seminar tutor)
Ing. Miloš Musil (seminar tutor)
RNDr. Martin Toul, Ph.D. (seminar tutor)
Mgr. Pavel Vaňáček, Ph.D. (seminar tutor)
Mgr. Michal Vašina, Ph.D. (seminar tutor)
Mgr. Ondřej Vávra, Ph.D. (seminar tutor)
Mgr. Martina Damborská (assistant)
MUDr. Jan Mičan (assistant)
Guaranteed by
prof. Mgr. Jiří Damborský, Dr.
Department of Experimental Biology – Biology Section – Faculty of Science
Contact Person: prof. Mgr. Jiří Damborský, Dr.
Supplier department: Department of Experimental Biology – Biology Section – Faculty of Science
Timetable of Seminar Groups
Bi5000c/01: Wed 11:00–12:50 prace doma, D. Bednář, J. Damborský, J. Dvorský, A. Finstrlová, A. Kunka, I. Mašlaňová, J. Mičan, M. Musil, R. Pantůček, M. Toul, P. Vaňáček, M. Vašina
Bi5000c/02: No timetable has been entered into IS.
Bi5000c/03: No timetable has been entered into IS.
Bi5000c/04: No timetable has been entered into IS.
Bi5000c/05: No timetable has been entered into IS.
Bi5000c/06: No timetable has been entered into IS.
Bi5000c/07: No timetable has been entered into IS.
Prerequisites (in Czech)
Bi5000 Bioinformatics || NOW( Bi5000 Bioinformatics ) && ! Bi9061 Bioinformatics - practice
Course Enrolment Limitations
The course is also offered to the students of the fields other than those the course is directly associated with.
The capacity limit for the course is 75 student(s).
Current registration and enrolment status: enrolled: 2/75, only registered: 0/75, only registered with preference (fields directly associated with the programme): 0/75
fields of study / plans the course is directly associated with
there are 11 fields of study the course is directly associated with, display
Course objectives
Students will gain practical understanding of several bioinformatic databases and tools commonly used in biological and biochemical research. The main objective of this course is to providee students with hands-on experience with various bioinformatic databases and software tools. The practicals follow the theory presented during the lectures of Bioinformatics I - nucleic acids and Bioinformatics II- proteins. We will cover various topics from sequence to structural bioinformatics. The students are expected to learn, how to set up bioinformatic analysis and how to properly interpret the results of their analysis.
Learning outcomes
The outcomes of the Bioinformatics practise is new knowledge and experience of the students with bioinformatic databases and tools. The students with have necessary know how and skill to carry out sequence and structural bioinformatic analyses independently. They will be able to select proper data sources and the tools for various tasks related to biological and biochemical experiments.
Syllabus
  • 1. Bioinformatic databases
  • 2. Manipulation with sequence data
  • 3. Primer design and restriction analysis
  • 4. Pairwise sequence alignment
  • 5. Multiple sequence alignment
  • 6. Gene prediction
  • 7. Protein sequence analysis
  • 8. Preparation of nucleotide sequence for database submission
  • 9. Structure databases
  • 10. Prediction of protein structure
Literature
    recommended literature
  • CLAVERIE, Jean-Michel and Cedric NOTREDAME. Bioinformatics for dummies. 2nd ed. Hoboken, N.J.: Wiley, 2007, xviii, 436. ISBN 9780470089859. info
    not specified
  • XIONG, Jin. Essential bioinformatics. 1st pub. Cambridge: Cambridge University Press, 2006, xi, 339. ISBN 0521600820. info
  • ATTWOOD, Teresa K. and David J. PARRY-SMITH. Introduction to bioinformatics. 1st pub. Essex: Longman, 1999, xx, 218. ISBN 0582327881. info
Teaching methods
practice in computer lab
Assessment methods
Written test - practical tasks
Language of instruction
Czech
Further Comments
Study Materials
The course can also be completed outside the examination period.
The course is taught annually.
Teacher's information
http://loschmidt.chemi.muni.cz/bioinf
The course is also listed under the following terms Autumn 2019, autumn 2021, Autumn 2022, Autumn 2023, Autumn 2024.
  • Enrolment Statistics (Autumn 2020, recent)
  • Permalink: https://is.muni.cz/course/sci/autumn2020/Bi5000c