Light Microscopy

Ondrej Horváth

Facility leader

Ondrej Horváth
LocationIMG – building F, ground floor, 1st floor,
rooms: 0.158, 0.160, 0.162, 0.163, 0.164, 0.169, 0.170, 0.171, 0.172, 0.173, 0.174, 0.175
ContactPhone: +420 29644 3168, Mobile: +420 773 979 818


Light Microscopy Core Facility of the Institute of Molecular Genetics of the Czech Academy of Sciences (LMCF IMG) is a state-of-the-art research facility equipped with a wide range of high-end microscopy technologies and image processing tools. LMCF IMG is located in the IMG main building in the biomedical campus Krc of the Czech Academy of Sciences. Most of the instrumentation in the facility is available on the self-service basis, for trained users. User access to the facility is supported via “Czech-Bioimaging open access” program both for in-house and external scientists.

The available technologies range from simple widefield and confocal fluorescence microscopes to more advanced systems such as light-sheet, confocal spinning disc and superresolution techniques SMLM, SIM and STED. We put the emphasis on training of the users, starting with introductory courses for the beginners and continuing to specialized trainings for more experienced microscopists. We also offer personalized help with project planning, sample preparation, instrument usage and optimization of the imaging. Moreover, we provide expertise on final image processing and analysis, including image registration, routine deconvolution, tracking, image segmentation, analysis of photo-kinetic experiments, mathematical modeling and simulations of biological processes etc. Finally, our team organize intensive advanced courses in light microscopy and image processing and analysis techniques.

LMCF IMG is involved in the national infrastructure for biological and medical imaging – Czech-Bioimaging. Along with the imaging facilities of the Institute of Physiology of the Czech Academy of Sciences, the Charles University in Prague (BIOCEV) and the Institute of Experimental Botany of the Czech Academy of Sciences, we constitute the Prague node of the Czech-Bioimaging. The node has been promoted as one of the two Czech nodes of the constructed pan-European imaging infrastructure, EuroBioimaging. In 2020, the node became a member of the pan-European imaging infrastructure, Euro-Bioimaging. To search appropriate imaging technology and gain access to any of the EuroBioimaging facilities, please use our technology finder.

If you have any question related to the LMCF services, please feel free to contact us.

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Available technologies

  • Transmitted light microscopy
  • Quantitative phase imaging (QPI)
  • Fluorescence widefield microscopy
  • Laser scanning confocal microscopy (LSCM)
  • Spinning disc confocal microscopy
  • Total internal reflection fluorescence microscopy (TIRF)
  • Stimulated emission depletion microscopy (STED)
  • Structured illumination microscopy (SIM)
  • Stochastic optical reconstruction microscopy (STORM)
  • Photo activated localization microscopy (PALM)
  • Fluorescence recovery after photobleaching (FRAP)
  • Förster resonance energy transfer (FRET)
  • Selective plane illumination microscopy (SPIM)
  • Fluorescence lifetime imaging (FLIM)

Available data analysis tools

  • Huygens Pro
  • HRM – Huygens Core
  • MetaMorph
  • Fiji – ImageJ
  • Helicon
  • MatLab
  • SoftWorx
  • Imaris
  • Arivis
  • ZEN
  • NIS Elements