Course: Microscopy and Image Analysis for Biochemists

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Course title Microscopy and Image Analysis for Biochemists
Course code BOT/MOA
Organizational form of instruction Lecture
Level of course Bachelor
Year of study not specified
Semester Winter
Number of ECTS credits 3
Language of instruction Czech
Status of course Optional
Form of instruction Face-to-face
Work placements This is not an internship
Recommended optional programme components None
  • Sedlářová Michaela, doc. RNDr. Ph.D.
Course content
Principles, history and modern applications of light, fluorescence and confocal microscopy. Other imaging techniques (SEM, TEM, atomic force microscopy, tomography). Basic principles of preparation of microscopic specimens for various microscopic methods, correlative microscopy. Editing of microphotographs for publication purposes. Mathematical methods for digital data processing, image analysis (histograms editing, dimension measurement, counting objects, 3D models). 1. Introduction, history, view, overview and comparison of direct and indirect methods of microscopy 2. Light microscopy and its modifications (phase contrast , polarized light, darkfield , Nomarski DIC) lenses 3. Fluorescence microscopy - principle of fluorescence, fluorochromes , transmission and epifluorescence microscopes, deconvolution 4. The preparation of biological samples for fluorescence microscopy - histochemical and immunohistochemical localization, fusion proteins 5. Confocal microscopy ? spinning disc CM, laser scanning CM, multiphoton CM 6. Electron microscopy - history, principles, vacuum 7. SEM - scanning electron microscopy 8. TEM - transmission electron microscopy 9. Scanning tunneling microscopy, atomic force microscopy 10. Other imaging methods and their combination (correlation microscopy, near-field optical microscopy, magnetic resonance)

Learning activities and teaching methods
Demonstration, Projection (static, dynamic)
Learning outcomes
Students will get familiar with microscopic techniques and software for image processing.
After completing the course the student should: - apply microscopic techniques - process image data
Simultaneous completion of the course BOT/MOAC

Assessment methods and criteria
Oral exam, Written exam

Participation + essay
Recommended literature
  • Claxton N.S., Fellers TJ., Davidson M.W. (2004). Laser Scanning Confocal Microscopy.
  • Pawley, J.B. (2005). Handbook of Biological Confocal Microscopy, 3rd Edition. New York.
  • Price R., Jerome J. (2010). Basic Confocal Microscopy.
  • Sedlářová a kol. (2013). Mikroskopie a obrazová analýza.

Study plans that include the course
Faculty Study plan (Version) Branch of study Category Recommended year of study Recommended semester
Faculty of Science Biochemistry (1) Chemistry courses 1 Winter
Faculty of Science Biochemistry (1) Chemistry courses - Winter
Faculty of Science Biotechnology and Gene Engineering (1) Chemistry courses 1 Winter