PřF:C2135 Bioinformatics for practice - Course Information
C2135 Bioinformatics for practiceFaculty of Science
- Extent and Intensity
- 0/2/0. 2 credit(s) (plus extra credits for completion). Type of Completion: k (colloquium).
- prof. RNDr. Michaela Wimmerová, Ph.D. (lecturer)
Mgr. Lenka Malinovská, Ph.D. (seminar tutor)
Mgr. Josef Houser, Ph.D. (seminar tutor)
- Guaranteed by
- prof. RNDr. Michaela Wimmerová, Ph.D.
Department of Biochemistry - Chemistry Section - Faculty of Science
Supplier department: Department of Biochemistry - Chemistry Section - Faculty of Science
- Mon 18. 2. to Fri 17. 5. Thu 10:00–11:50 A4-118
- Course Enrolment Limitations
- The course is only offered to the students of the study fields the course is directly associated with.
- fields of study / plans the course is directly associated with
- Course objectives
- At the end of the course students should be able to: search for information and work with biological databases; perform independent bioinformatic analyses of data; prepare experimental project focused on protein cloning
- Learning outcomes
- At the end of the course students should: 1) Obtain basic knowledge of bioinformatics. Students should be able to: 1) Process bioinformational data. 2) Predict basic properties of biomacromolecules. 3) Utilize bioinformational tools for solving of biological problems.
- Information search. General search, biological databases, resources for molecular biology information
- Sequence alignment. Parameters (gaps, matrix). Nucleotide vs. amino acid alignments. Repetitions. Alignment as a tool for sequencing data analyses.
- Gene prediction, prediction of proteins and their functions.
- Primer design. Their importance, basic characteristics, secondary structure prediction, false priming, design of specific primers.
- Cloning and restriction endonucleases digestion.
- Protein properties prediction. Possibilities, comparison of demands and reliability of calculation and experiment.
- Individual project: identification of putative genes in the genome of an unknown organism, which are important for pro virulence. Function prediction of encoded proteins.
- Practical exercise 1. Polymerase chain reaction and agarose electrophoresis
- Practical exercise 2. PCR product isolation, digestion using restriction endonucleases.
- recommended literature
- ŠMARDA, Jan, Jiří DOŠKAŘ, Roman PANTŮČEK, Vladislava RŮŽIČKOVÁ and Jana KOPTÍKOVÁ. Metody molekulární biologie (Methods of molecular biology). 2. dotisk 1. vydání. Brno: Masarykova univerzita, 2010. 194 pp. ISBN 978-80-210-3841-7. info
- XIONG, Jin. Essential bioinformatics. 1st pub. Cambridge: Cambridge University Press, 2006. xi, 339. ISBN 0521600820. info
- Teaching methods
- homework, practical exercises in silico, individual project
- Assessment methods
- own project finished, oral discussion
- Language of instruction
- Further Comments
- Study Materials
The course is taught annually.
- Listed among pre-requisites of other courses