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Nikon SMZ 25 Stereomicroscope at the Bugnon and Dorigny campus PDF
Written by Yannick KREMPP   
Monday, 06 July 2015

The CIF recently acquired some new stereomicroscopes for the Bugnon and Dorigny campus to replace the old Leica stereomicroscopes.

Before going into the details of what these new setups are capable of, it can be useful to know that the old stereomicroscopes will remain available but only as a mean to quickly check some samples as they are now stripped off of their computers. Without any acquisition device attached, these old Leica setups are also put outside of the booking system.

Now with this topic behind us, here's a short list of the features available on the new systems:


Both setups come with the following features:


  • A 25:1 zoom range with a 3.15x up to 315x magnification through the eyepieces, depending on the objective used.
  • 1x and 2x Plan Apo Objectives
  • Stereo and Macro modes
  • Illumination for both Brightfield and Fluorescence
  • Motorized zoom, focus shutters and filters 
  • NIS Basic Research acquisition software that allows Single, Multichannel, Z-Stacks, Video, Time-Lapse and Extended Depth of Focus acquisitions (or any combination of that)
  • Nikon's brand new DsRi2 color camera with a 16.25 Megapixels Full Frame CMOS sensor for ultra high image quality.



The Bugnon setup has some nice additions:


  • A fully motorized stage
  • An optional Polarizing attachment
  • The ability to acquire both multi-position and tiled (mosaics) images. 




 Image done with SMZ 25 using the Extended Depth of Focus (Yannick Krempp)

If you plan to use on of this setup, please request a training to either Arnaud Paradis or Yannick Krempp.

The CIF Staff

Last Updated ( Monday, 06 July 2015 )
Ultramicroscopy at CIF Epalinges: The CIF offers now the possibility to do light-sheet microscopy PDF
Written by Yannick KREMPP   
Tuesday, 23 June 2015

The CIF offers now the possibility to do light-sheet microscopy with the Light Sheet UltraMicroscope II from LaVisionBioTec which has recently been installed at CIF Epalinges.

Imaging large samples into the depth of the tissue needs certain procedures to reduce the opacity. The tissue has to be virtually transparent. Some samples like Zebra Fish are mostly transparent by nature but the majority of samples are opaque. This counteracts all attempts to image the sample in total. Nowadays, two main principles of creating translucent samples called clearing procedures have been established (either using organic solvent or aqueous buffer). Thank to its transparent properties, the sample can then be imaged very deeply with a light sheet microscope.

Light sheet fluorescence microscopy is a fluorescence microscopy technique with good optical sectioning capabilities and reasonably high speed. In contrast to epifluorescence microscopy only a thin slice of the sample is illuminated (by the light sheet) perpendicularly to the direction of observation.



A few technical facts about the system currently installed: 

  • The UltraMicroscope II has a bidirectional triple light sheet technology.
  • This technology allows to generate 6 focused light sheets to excite samples from the side while the fluorescence light is detected by a sCMOS camera perpendicular to the illumination plane.
  • The dynamic horizontal light sheet focus guarantees excellent Z-resolution covering the entire field of view.
  • Moving the sample through the light sheet generates a 3D image stack. Selective excitation of the focal plane reduces bleaching and photo toxicity significantly.
  • The open setup allows the analysis of cleared samples in any clearing solution (organic solvent or aqueous buffer) or in vivo data acquisition in aqueous media.
  • The sample size can vary from mm3 up to 1 cm3. Different working distances also contribute to better image large samples into the depth of the tissue.
  • Four lasers light sources (405 nm, 488 nm, 561 nm and/or a 640 nm laser) are available to adapt to your own applications.
  • The combination of a 2x objective together with a zoom allows variable magnification from to 1.26 to 12.6x.
  • Higher magnification objectives will be added soon.


If you plan to use this system, or just have some questions relative to the science behind it, please ask Florence Morgenthaler at the CIF Epalinges.

You can also find more information about that technology right here:


Last Updated ( Tuesday, 23 June 2015 )
LSM 780 Bugnon - Ready to be used. PDF
Written by Yannick KREMPP   
Wednesday, 27 May 2015

The Zeiss LSM 780 confcoal microscope is out of order (again) at the Bugnon Campus.

The technical support has been contacted, and we will keep you informed on the progress on this website.

We apologize for the inconvenience.

The CIF Staff

  *** Update 1 - 28/05/2015 ***

Some parts have to be replaced - The system will be out of order for at least a week (best case scenario has the system repaired on next wednesday)

  *** Update 2 - 03/06/2015 ***

The parts have not arrived yet, the repair has been postponed.

  *** Update 3 - 05/06/2015 ***

 The microscope has been repaired. It should be working fine again.

Last Updated ( Friday, 05 June 2015 )
Zeiss LSM 780 BUGNON repaired PDF
Written by Yannick KREMPP   
Tuesday, 12 May 2015

The Zeiss LSM 780 at the Bugnon campus has been repaired. For your information, the scanner and drivers which were faulty have been replaced.

You can now book it as usual.

The CIF Staff 

Last Updated ( Tuesday, 12 May 2015 )
How-to: Fast sequential acquisition for the Zeiss LSM 710 (Bugnon) - Zen 2009 PDF
Written by Yannick KREMPP   
Thursday, 26 March 2015

Upon request, here is a tutorial on how to set up the channels manually on the Zeiss LSM 710, to be able to do fast sequential acquisitions.

In a nutshell, you have to set up the channel configuration so that you have the same mirrors in every configuration, and switch between lines instead of between frames. 

One major advantage for you is a dramatic improvement of the acquisition time (and you could even go further by enabling bi-directional scanning...).

One major advantage for the setup is premature wear prevention for the filter wheel


The PDF version of the How-To is just here:

LSM 710 faster sequential acquisition How-To (PDF)


The CIF Staff 

Last Updated ( Thursday, 26 March 2015 )
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