SubjectsSubjects(version: 855)
Course, academic year 2019/2020
  
Seminar I - N320040
Title: Seminář oboru I
Guaranteed by: Department of Biochemistry and Microbiology (320)
Actual: from 2015
Semester: summer
Points: summer s.:2
E-Credits: summer s.:2
Examination process: summer s.:
Hours per week, examination: summer s.:0/2 MC [hours/week]
Capacity: unknown / unlimited (unknown)
Min. number of students: unlimited
Language: Czech
Teaching methods: full-time
Level:  
For type:  
Guarantor: Kotrba Pavel prof. Ing. Ph.D.
Šantrůček Jiří Ing. Ph.D.
Leonhardt Tereza Ing. Ph.D.
Is interchangeable with: M320015
Examination dates   Schedule   
Annotation -
Last update: TAJ320 (19.09.2013)
The course objectives include: introduction to fundamental bioinformatic approaches and tools allowing analyzing nucleotide and protein sequences, including critical interpretation of analysis outputs; survey of potential uses of bioinformatic analyses to address experimental tasks; and detailed insight into practical aspects of related molecular biology and proteomic methods and approaches.
Aim of the course -
Last update: TAJ320 (19.09.2013)

Students will be able to:

Use publicly accessible bioinformatics tools and nucleotide and protein databases.

Independently design a strategy to analyze the sequence data, critically interpret the outcome of analyses and propose an experimental approach to prove the in silico predictions correct.

Taking advantage from bioinformatic analyses of nucleotide and protein sequences, propose complex, feasible solution for a successful molecular biology experiment.

Literature -
Last update: TAJ320 (19.09.2013)

R: Cvrčková F., Úvod do praktické bioinformatiky, Academia, 2006, 8020013601

A: Campbel A.M., Heyer L.J., Discovering genomics, proteomics and bioinformatics, CSHL Press, 0805347224

A: Wilkins M., et al., ed., Proteome Research: New Frontiers in Functional Genomics , Springer-Verlag, 1997, 3540627537

Learning resources -
Last update: TAJ320 (19.09.2013)

http://www.ncbi.nlm.nig.gov

http://www.ebi.ac.uk/Databases

http://www.expasy.org

http://www.uniprot.org; http://prosite.expasy.org

Syllabus -
Last update: TAJ320 (19.09.2013)

1. Bioinformatics, cross-database search platforms for data mining.

2. Databases and software for nucleotide sequence analyses.

3. Gene function predictions, prediction of promoters and regulatory elements.

4. Design and practical aspects of PCR experiment.

5. Central dogma upturned: a strategy to isolate coding sequence.

6. Practical aspects and method selection in DNA and DNA-binding protein analyses.

7. Practical aspects and method selection in RNA and transcript level analyses.

8. Proteomic servers and databases. Tools for protein sequence alignments.

9. Protein modifications. In silico prediction and experimental proof.

10. Protein secondary structure and hydropathy profile. In silico prediction and experimental proof.

11. Protein quaternary structure and oligomerization state. In silico prediction and experimental proof.

12. Membrane proteins. Determination of protein localization in biological membrane, the surface properties of proteins and detergents.

13. Native state of protein. Intracellular localization and interactions of protein.

14. Laboratory work with proteins. Protein storage and sample preparation for analyses.

Registration requirements -
Last update: TAJ320 (19.09.2013)

Molecular Biology

Genetic Engineering

Teaching methods
Activity Credits Hours
Konzultace s vyučujícími 0,2 6
Obhajoba individuálního projektu 0,1 2
Práce na individuálním projektu 0,7 20
Účast na seminářích 1 28
2 / 2 56 / 56
Coursework assessment
Form Significance
Defense of an individual project 100

 
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