Biological Visualization - Microscopy, Flow Cytometery, Electron Microscopy and Image Analysis


BioVis - Biological Visualisation

The BioVis platform of Uppsala University provides you with a unique combination of technology and know-how for visualization of biological samples at the tissue, cell and subcellular level. We specialize in microscopy, electron microscopy, flow cytometry and image analysis. We can offer state of the art electron- confocal and light microscopy, as well as analytical and imaging flow cytometry and cell sorting.

The Medical & Pharmaceutical faculty at Uppsala University supports BioVis financially, thus the user fees can be kept low. The platform is available for all universities, governmental agencies & private companies. Information about users fees can be found here.

With proper training, provided by us, you can get almost complete access to our equipment.

Help us to spread the information that BioVis is available with its service for Uppsala University and beyond. You can download our Brochure here: BioVis Brochure.

Entrance Card System

To get access to BioVis premises you need to have a door-card. Our old Card system (Landstinget i Uppsala Län) is no longer valid. A new card system is established. The new card system does NOT apply for research groups based in Rudbeck Lab, as they have already access. Please contact for more details.

NEWSLETTER November 2019.

BioVis Closure December 2019

 BE AWARE that BioVis will CLOSE over the vacations 2019-12-23 to 2020-01-01 and will be open January 02, 2020.

New 2Photon Microscope at BioVis

We are proud to announce that our new 2Photon Microscope Leica SP8 DIVE will be installed during November and up and running for customer in January 2020. It will be placed at Rudbeck Lab.

Discontinuation of Instruments at BioVis

In conjunction with the installation of the new 2Photon Microscope we will (start to) discontinue to use our old and trusted ZEISS LSM710 NLO. The instrument will be dismantled latest summer 2020. All customers of the LSM710 will be transferred to the Leica system (training included). The 710 NLO will be still available until then, but no introductions are given.

Due to lack of projects we also will discontinue the use of our ZEISS Lightsheet Z.1. We are potentially interested to invest in another Lighsheet microscope in the near future. Here we seek for an instrument, which allows customers to visualize large (and optically cleared) samples.

Workshop FlowSight

To boost the use of our FlowSight Image Flow Cytometer we have organized a workshop with lecture and hands-on-session for November 20, 09oo – 16oo. We will start the day with a lecture to introduce you to the potential of this instrument.

Lecture: November 20, 09-10:30, Gösta Hultquist, Rudbeck Lab,C11, ground floor

Contact in case of interest.

BioVis is recruiting service staff

BioVis Platform is a service facility for researchers from academic and non-academic research areas and consists of 4 nodes with Light Microscopy, Flow Cytometry, Electron Microscopy and Analysis. The BioVis Flow Cytometry node currently consists of five instruments, a BD LSRII and BC Cytoflex Flow Cytometer, a BD ARIAIII and a BD FACS MELODY Cell Sorter and an Amnis Image FlowSight Flow Cytometer. The position comprise overall responsibility for the Flow Cytometry node at the BioVis platform.

To link the research questions of our customers with the potential of our instruments is the key for an adequate Flow Cytometry service here at BioVis, so a scientific and technical mindset is needed. Your work will also call for flexibility and multitasking – so excellent organizational skills are as important as developing and following routines.

As You will be the link between customer(-project) and instrument and we need you to combine the above characteristics with service oriented actions.

As many of our customers work on Flow Cytometry (and Microscopy) on different knowledge levels, we expect you to be enthusiastic in acquiring new knowledge, developing new skills and finding ways to transfer this knowledge to our customers.

  • Responsibility for instruments and user support for the above mentioned instruments
  • Troubleshooting, cleaning, calibration, and maintenance and minor repairs of all instruments.
  • Cell sorting for customers
  • Expertise in the software BD DiVA, BC Cytexpert, (Merck IDEAS, FlowJo) etc.
  • help users with technical and software problems
  • Introduction to instruments - theoretical and practical all-day courses
  • Consultation with customers regarding sample processing, multicolor panel and compensation, and more
  • Maintain contact with service engineers at PM and downtime

The recruitment will be published officially 2019-11-15. We will post the link here.

DEMO: Cytena Cell Dispenser

Interested in getting single cells, avoiding cell sorting and having no stain or just GFP stain?

Cytena’s single-cell deposition technology isolates single, living cells automatically in a documented, viable and pure workflow. The single-cell printerTM and the x.sightTM instruments providing assurance of clonality by an image-series for each single cell, high cell viability like hand-pipetting, no cross-contamination by the use of sterilized disposable cartridges and are easy to use. 96 and 384 well plates can be used to deposit single-cells and single-bacteria with brightfield and fluorescence detection and assured clonality.

So far, most of the worlds top10 pharma companies using cytena instruments for cell-line development and single-cell genomics.

The instrument will be on display at BioVis November 26-27.

Interested? Contact

Image analysis needed? Then CALL4HELP

Every 1st week of the month (mainly on Tuesdays, but there might be exceptions) the BioImage Informatics Facility together with microscopy expert Sylvie Le Guyader (LCI, Karolinska Institutet) organizes a Call4Help session. The aim is to offer combined expertise towards microscopy and bioimage analysis. All researchers from Swedish institutes can participate.

The ideal timepoint to join the Call4Help session is when a researcher has performed pilot experiments and has tried out first analysis approaches – but before having recorded hundreds of images. Combining BIIF’s expertise in BioImage Analysis with microscopy expertise we can discuss ways to record the images that allow analysis afterwards. We will discuss different analysis approaches using mainly open-source software (Fiji, CellProfiler, KNIME, QuPath, Ilastik), but also commercial systems, if needed (Imaris).

More information under :

Image/ Data Analysis software at BioVis

We would like to point out that BioVis can help in analyzing your image data using various softwares. We have IMARIS (full package), Huygens on our workstations, a well as Image J, QuPath, and Cell Profiler. We can also refer you to the BioImage Informatics Facility (BIIF) of SciLifeLab, which offers free support in setting up bioimage analysis solutions using ImageJ, CellProfiler, QuPath, KNIME, Ilastik, Python and MATLAB to all researchers in Sweden (20h of free support per Principal Investigator). CellProfiler and KNIME are – next to other applications - especially well-suited for High-Content-Screening data. QuPath is a powerful tool for the analysis of histopathological slides of bigger file sizes (e.g. from slide-scanners, TMAs). Dr. Anna Klemm from BIIF will be one of the teachers at IAS.

For all the Flow Cytometry users we have BD Diva, BC CytExpert (which is a free to use software) and Modfit for Cell Cycle Analysis available.


We are planning to purchase new instruments end 2019, beginning 2020:

  • MultiPhoton Microscope: installation around November 20
  • Slide Scanner : in tender stage, installation begin 2020
  • Super resolution (STED) Microscope: in planning stage

You can find us

Uppsala , Science Park Rudbeck Laboratory, 2nd floor

Dag Hammarskjölds v 20