PřF:Bi7201 Genomics - Course Information
Bi7201 Genomics - a basic courseFaculty of Science
- Extent and Intensity
- 1/0/0. 1 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).
- doc. RNDr. Jan Hejátko, Ph.D. (lecturer)
RNDr. Hana Konečná (lecturer)
Mgr. Eva Paděrová (lecturer)
- Guaranteed by
- prof. RNDr. Jiří Fajkus, CSc.
Department of Experimental Biology - Biology Section - Faculty of Science
Contact Person: doc. RNDr. Jan Hejátko, Ph.D.
- Fri 8:00–9:50 BR3
- Completion of basic courses of biochemistry and/or molecular biology and genetics is a prerequisite for subscription to the course.
- Course Enrolment Limitations
- The course is also offered to the students of the fields other than those the course is directly associated with.
- fields of study / plans the course is directly associated with
- Biophysics (programme PřF, M-FY)
- Biophysics (programme PřF, N-FY)
- Biochemistry (programme PřF, M-CH)
- Biochemistry (programme PřF, N-BCH)
- Environmental Chemistry (programme PřF, M-CH)
- Environmental Chemistry (programme PřF, N-CH)
- Molecular Biology and Genetics (programme PřF, M-BI)
- Molecular Biology and Genetics (programme PřF, N-BI)
- General Biology (programme PřF, M-BI)
- General Biology (programme PřF, N-BI)
- Course objectives
- Student will acquire theory of basic approaches current functional genomics: Theory of basic bioinformatics tools, basics of the work with genomic databases, identification of gene function using in silico approach, targeted gene silencing and gain of function approaches, phenotype profiling (DNA, RNA and protein chips), identification and analysis of sequence specific mutants, fragmental analysis and positional cloning, etc.. Lectures are conceived as an extended introduction into practical courses (Bi7201c), in frame of which students will be able to practice most of the theory.
- Introduction to genomics. Methods of functional genomics. Genome databases and basic tools of bioinformatics (types of databases, databases search, finding of similar sequences [BLAST and FASTA], multiple sequence alignment [CLUSTALW], searche in genomic databases of Arabidopsis thaliana, localization of genes on chromozomes, identification and analyzis of promoter regions of individual genes [ALIBABA], virtual PCR). In silico prediction of gene functions. Forward and reverse genetics approaches (methods of the identification of sequence specific mutants, mutant collections and their analyzis, physical and chemical mutagenesis, targeted gene silencing using RNA interference). Fragmental DNA analyzis and positional cloning as tools in forward genetics. Gain of function approaches in identification of the gene function (activation T-DNA mutagenesis, ectopic overexpression, regulated gene expresion). Phenotypic profiling (cDNA, RNA and protein chips, metabolic profiling, microdissection, proteomic approaches). Southern blot and DNA molecular hybridization. Identification and characterization of an insertion mutation in a selected member of a complex gene family in Arabidopsis thaliana via a PCR based screen.
- Hunt, S.P., Livesey, F.J. (Editors). Functional Genomics : A Practical Approach. Practical Approach Series
- Starkey, M.P., and Elaswarapu R. (Editors). Genomics Protocols. Methods in Molecular Biology, Vol 175
- Assessment methods (in Czech)
- přednáška, ukončena (klasifikovaným) zápočtem
- Language of instruction
- Follow-Up Courses
- Further comments (probably available only in Czech)
- Study Materials
The course is taught annually.