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Klinik für Innere Medizin IHämatologie, Onkologie und Stammzelltransplantation

Lighthouse Core Facility



The Lighthouse Core Facility was founded to give investigators access to a broad spectrum of fluorescence-based technologies useful in answering research questions in the areas of cell and molecular biology. For more information about what instruments and services are available at the facility and how you can take advantage of what we have to offer, click on the appropriate sections below.



Our new booking system for our equipment was launched on August 1st.  All booking calendars are accessible via the internet from outside the Uniklinik intranet. This was a big step forward and a significant relief for our users. 

Apply in time and register now at http://booking.core-facility.de. So that you can continue to use our devices and our service.


Sorter Booking Online

For the cell sorters, you can use the new calendar to look online at current bookings to find an available sorting slot, and you can even request a specific sort time by provisionally reserving a sort appointment in advance. If the requested appointment is accepted, you will receive a written confirmation of the desired appointment. Only then is your sort appointment considered "officially" to be scheduled.

Our new calendar system can be easily accessed, even from outside the Uniklinik network via the Internet. However, to access the system you first have to register as a user in it. For users with an Uniklinik LDAP login the registration process is very straightforward. Using your LDAP login and the corresponding password you can log in. This will automatically send us a request to activate your account. Once your user account has been activated, you will receive a one-time confirmation email from us. After that, you can then use the system.

External users (Vorklinik, University) can also access the system. To do so, please visit http://booking.core-facility.de and click "First Time User? Register".

The address of the new Lighthouse booking system can be found at the following link: https://ztz-buchung.uniklinik-freiburg.de/Web/index.php (or just http://booking.core-facility.de)


COVID-19 / SARS-CoV2 / Corona Information

Lighthouse Core Facility Rules & Measures

Due to the spread of the SARS-CoV2/coronavirus, access to the Lighthouse Core Facility is currently limited.

Training sessions for new users are limited due to the current situation.

You can email us (facslab(ät)uniklinik-freiburg.de) about signing up for the next available training session.

Experienced users are allowed to continue to use our equipment but only when following these rules and restrictions (see PDF for download):


Fortessa Trainings

Content of the Basic Fortessa Introduction Course

  • Principle & construction of a flow cytometer
  • Startup operations, operation and shutdown procedures
  • Replacement of sheath and waste canisters
  • Sample preparation
  • Sample measurement
  • Spectral overlap compensation
  • Operating FACSDiva software
  • Troubleshooting
  • Operating booking system and input screen (for billing)
  • Optional: More detailed informations about FACSDiva & flow cytometry

Since June 2020 we offer the newly designed training courses for the FACS Fortessas. 
The regulations for keeping the minimum distance make it impossible to keep the previous training form. Therefore, we are switching to largely contact-free online training. 
If you would like to use our Fortessa flow cytometers (or the Canto II) and have not yet received instruction on these instruments from us, please send us an email to fortessa(ät)core-facility.de. You will then receive an email from us with all details and information.

Among them are: 

  • several links to instructional videos
  • an on-site appointment for questions and the short written test

You will then have about 1 week time to watch the videos and fill out forms if necessary.

At the individual on-site appointment (duration about 30 mins), the formalities will then be completed and, if possible, the authorization to use the equipment will be granted.

The next dates for the on-site appointments and final exams are planned for:

  • 20.10.2020
  • 04.11.2020
  • 19.11.2020
  • 02.12.2020
  • 17.12.2020
  • 12.01.2021
  • 27.01.2021
  • 11.02.2021
  • 26.02.2021
  • 09.03.2021
  • 23.03.2021
  • 07.04.2021
  • to be continued

SONY Training

We offer basic user introductions for the Sony FACS Analyzer in the Lighthouse Core Facility.

The event is limited to a max. no. of 2 participants. The introduction can be in German or English. If you are interested please email us (sony(ät)core-facility.de and date of the training you would like to book) for a binding reservation.

Where: Lighthouse Core Facility, ZTZ, ground floor, room 009, bay 3 at the Sony Analyzer

When: All possible dates and times are here...

Visiting any introduction is free of charge and required before using the Sony Analyzer at the Lighthouse Core Facility.

Please bring pen and paper for your notes in any case and your own lab coat if you are based at ZTZ.

Note: The number of participants is limited and the registration is binding after confirmation by us. If you are unable to attend, please let us know as soon as possible. So there is still a chance for substitutes.

More information about the course.

Flow Cytometry

Cell Sorting

Available on Becton Dickinson's FACSAria III and FACSAria Fusion and Beckman Coulter's MoFlo Astrios EQ.

Laser beams in a Fortessa

FACS Analysis

Available on Becton Dickinson's LSR Fortessas, Canto II, Beckman Coulter's Gallios & Navios, and Sony's Spectral Analyzer SP6800.

Green, red and blue fluorescence in a cell

Confocal Microscopy

For confocal microscopy we have microscopes from Zeiss (LSM 880 with AiryScan) and LSM 710 and Leica's TCS SP2 AOBS available.

Long-Term Live Cell Imaging

The Incucyte S3 is an automated microscope located within a standard cell culture incubator and is of particular interest for low resolution, long-term, live cell imaging. It allows the independent measurement and analysis of up to 6 plates or experiments at the same time. It is the method of choice for long-term observation of spheroid and organoid development.

More information about Incucyte long-term live cell imaging...

High Content Screening / Image Cytometry

Lighthouse has an Olympus Scan^R High Content Screening Station which allows automated image acquisition and data analysis of biological samples. Other terms for this field include image cytometry or automated microscopy.

Nucleic Acid Analysis

Quantitative PCR

Lighthouse has two Roche LightCycler 480 (LC 480) machines for quantitative PCR analysis. Each LC 480 is a plate-based machine with both 384-well and 96-well blocks. The thermal blocks are fast-cycling, with typical run times slightly under one hour. The range of reaction volumes is 20 - 100 microliters for the 96-well and 5 - 20 microliters for the 384-well block.

Droplet Digital PCR

In addition ti its Bio-Rad QX100 Droplet Digital PCR (ddPCR) system Lighthouse has just added a Stilla Naica Crystal Digital PCR system.

Our Network


Lighthouse is a member unit of the Microscopy and Image Analysis Platform (MIAP), an international network of microscopy and image analysis facilities from throughout the region, including Freiburg, Basel and Strasbourg.

Overview of MIAP Partner Units


Lighthouse is a part of cytometry.de, a national network of cytometrists and cytometry core facilities of the DGfZ / Deutsche Gesellschaft für Zytometrie.


Lighthouse is listed within the RIsources Database of the DFG. The RIsources listing simplifies applying for funding for the use of Lighthouse services within DFG grant applications.

Lighthouse RIsources Page

Please note:

Our user fees cover only a small fraction of our total running costs, most of which in fact are covered by our home institutes (Klinik für Innere Medizin I, Centrum für Chronische Immundefizienz (CCI), Tumorzentrum Freiburg/DKTK (CCCF). The majority of our machines were financed with the help of outside sources such as the DFG, Land Baden-Württemberg, or BMBF. We therefore depend on proper acknowledgement in publications, grants and grant applications. Publications, posters or presentations that make use of services or data collected at the facility or by its staff should list these contributions accordingly. Thank you.

If you still have questions about the facility after reading through these pages, feel free to contact us at one of the numbers listed on the right side.


Universitätsklinikum Freiburg
Zentrum für Translationale Zellforschung (ZTZ)
Department of Medicine I
Tumorzentrum Freiburg - CCCF/DKTK
Center for Chronic Immune Deficiency - CCI

Contact | Information


FACS-Sorting Booking:


Online Booking Calendar (registration required)


Head of Facility:

Marie Follo, Ph.D.
Telephone: 0761 270-77697
Telefax: 0761 270-63780
Email: Marie Follo



Universitätsklinikum Freiburg
Lighthouse Core Facility

Zentrum für Translationale Zellforschung (ZTZ)
Breisacher Straße 115
D-79106 Freiburg