The Bioimage Light Microscopy Facility is a core service built and supported by the Department of Biology and the Section of Medicine at University of Fribourg.
We provide access to shared instrumentation and software for state-of-the-art light microscopy. We aim to assist you along the path “from sample to knowledge” with our know-how in image acquisition optimization and our expertise in image processing and data mining.

Who can access the facility?

All research groups from the University of Fribourg and associated institutions can get access to the facility after registration. A research group is defined by a group leader who has her/his own research grant. An official list of research groups is produced and updated by each department.
The facility is also accessible to external users. We would ask persons from outside our university to please contact us.


What we do

  • Maintain and upgrade a comprehensive set of high quality optical imaging systems
  • Provide training and guidance in the use of those instruments
  • Maintain and upgrade high-end image analysis software and powerful image analysis workstations
  • Operate servers to save and handle imaging data
  • Provide all relevant information and a reservation calendar on our website
  • Disseminate knowledge on optical imaging through formal teaching, workshops and hands-on training
  • Favor the dissemination of open-source solutions for image acquisition and analysis
  • Ensure technological watch and promote the adoption of techniques that best meet user’s needs


What we don’t do

  • Experiments for you
  • Image analysis for you
  • Repair and maintain your private microscope
  • Install software and debug your own computer


How to use the Bioimage Light Microscopy Facility

  1. Read our policy
  2. Log on our website
    Use your university login. On the AAI login screen check the box “Remember selection for this web browser session” so that you won’t be prompted again once you click on a booking link.
  3. Register as a facility user
  4. Book the training for your preferred instrument write to Felix (Med) or Boris (Bio)
  5. Start familiarizing with the facility and its information hub (this website) by having a look at the available instruments.

Interest Groups

To handle certain instruments as efficiently as possible we maintain a certain number of mailing-lists for particular interest groups.  The lists are installed on the universities own mailing-list administration web-application Sympa.
To write mails to the lists you can use the menu on this website: Contact>Mailing-Lists
On the overview-page you find the details on how to subscribe and manage your mailing lists. The other entries of the sub-menu allow direct access to diffuse mails to these lists (make sure you send the mails from your university account, otherwise they will be rejected).

Data Management

Control Computers of any of our instruments are not intended for data storage. Use file servers or external hard drives to store your data (also see our data management page). A full hard drive compromises the effective operation of the instrument. To keep the systems running data saved on the PC hard drive will be deleted on a regular basis and without prior notice.


Usage fees

To cover the running costs of the light microscopy facility the use of its instruments is subject to the payment of hourly fees.
Fees are charged if the instrument is not attended and the booking has not been cancelled at least the day before the reservation date.

The billing is done for each research group and invoices are sent at the end of each trimester to the PI’s.

We distinguish three user types (UT):

  • UT-I:
    Platform internal -> Department of Biology and Section of Medicine
  • UT-U:
    University internal -> All the staff of University of Fribourg and associated Institutions
  • UT-E:
    External -> All persons not associated with the University of Fribourg

The following fees, comprising direct costs (consumables, salaries, maintenance fees) and indirect costs (rent, admin. etc.) apply:

Instrument Category (IC) Instruments UT-I UT-U UT-E
IC-1 (Confocal) Leica TCS SP5 (Med)
Leica TCS SP5 (Bio)
Leica TCS SPE-II (Bio)
CHF15.00 250 h CHF30.00 CHF60.00
IC-2 (Live-Cell) Visitron CSU-W1 (Spinning Disk Confocal)
GE DeltaVision Elite
Leica DMI600B (Bio)
CHF7.50 250 h CHF25.00 CHF45.00
IC-3.1 (Wide-Field) DM6B Navigator CHF7.50 250 h CHF15.00 CHF25.00
IC-3.2 (Slide-Scanner) Hamatsu NanoZoomer HT+Fluo CHF0.00 - CHF15.00 CHF25.00
Other instruments and image analysis software  (Marcoscopes, Image Processing Workstations) CHF0.00 - CHF0.00 NA**
Server (OMERO/HRM) Share space on the bigdata server. The fees are recharged according to the rates of the DIT: (e.g. 100GB cost 30 CHF/year) CHF170 (per TB and year)  - CHF170 (per TB and year) NA**

* The fees ceiling defines the maximum amount of cumulative fees per year a single research group is charged to use a given  instrument category. For example research group X that uses confocal microscopes 100 hrs/year is charged 1500 CHF. Research group Z that uses confocal microscopes 300 hrs/year is charged 3750 CHF.

** Not available

For detailed explanations about the cost calculations and what budget you can use to pay the fees (SNF, EU, etc) please contact us.