Announcement: BioImage Analysis Course in Helsinki

BioImage analysis course covering a wide spectrum of image analysis methods including co-localization, cell counting, and deconvolution and hands-on workshops in software such as Fiji, Cell Profiler, SVI Huygens, Imaris and Zen will take place on 11-19 May 2020 in Helsinki.

Dates: 11-19 May 2020

Where: Biomedicum, Helsinki, Finland

For more information and to apply here:

Application deadline: 6 April 2020

Hands-on Work­shops

12th – 19th May 2020 

Mix and Match! Apply for the workshops you like and we will send you your individual shedule.
If you are a beginner to image analysis we would highly recommend that you attend the lectures as well.

Get your hands on different tools for image analysis. All software introduced during the workshops is either open-source software or commercial software that is available to you at the BIU image analysis workstations.

SVI Huygens (half-day):
Deconvolution with Huygens. Learn how to apply the correct restoration and analysis tools for obtaining reliable and quantifiable results from your images.

Imaris basic (half-day):
General purpose 3D microscopy visualization and data analysis with Imaris for beginners.
Learn how to import and handle your files, how to visualize your data and  generate videos and how to detect surface spots.

Imaris advanced (whole day):
3D microscopy data analysis with Imaris for advanced Imaris users. Stitching of tiles, 3D time series, neurons, batch processing, statistic visualization and more. Exact topics will be adapted depending on the participants needs.

Fiji (half-day):
Get started with Fiji and learn how to handle and process your files, how to count and characterize cells and how to make your analysis faster and more reproducible with macro recording.

CellProfiler (half-day):
Automate your image analysis with CellProfiler. Learn how to build and run image analysis pipelines for quantitative analysis of biological images. If you are doing high-throughput experiments, Cellprofiler is a particular useful tool for you.

ZEN/APEER (half-day):
Are you taking your images with ZEISS microscopes? Here you learn how to process and analyze them directly in ZEN. If you want to get help with analyzing your own data, you can send them before the workshop. In addition, there will be a short introduction to APEER.

Announcement: Introduction to Machine Learning for Microscopy workshop in Turku

A one and a half day workshop covering introduction to machine learning will take place on 4-5 May in Turku, Finland.

Date: 4-5 May 2020

Where: Turku, Finland

Please apply here:

Application deadline: 1 April 2020

Participats are selected based on their imaging and image analysis background with 20 places available in the workshop.

This workshop is primarily aimed at researchers wishing to utilize machine learning image analysis approaches in their work. Other individuals who have background in imaging and microscopy or image analysis and wish to gain insight into using machine learning image analysis are welcome to apply.

One and a half day workshop aims to cover the following:

  • Hands-on introduction to Cell Profiler
  • Introduction to supervised learning (Random Forest Classification)
  • Hands-on Random Forest Classification with Cell Profiler Analyst and Ilastik
  • Introduction to deep learning with hands-on session using StarDist and DeepImageJ

The participants will also be able to work on their own image data during the second day of the workshop.

Announcement: Special Symposium on Advanced Imaging Technologies in Helsinki

A 3-day symposium covering advanced imaging technologies and methods in life sciences will take place in Helsinki, Finland during 4-6 March 2020.

Dates: 04.03.2020 (pre-symposium workshop for Ph.D. students), 05.03.2020 – 06.03.2020 (symposium)

Venue: Biocenter 2, Viikki Campus, University of Helsinki

More information about the symposium can be found here:

Confirmed speakers:

  •  Atomic force microscopy: Pasi Kankaanpää, Turku BioImaging
  • Label free imaging: Clare Strachan, University of Helsinki
  • Image analysis: Peter Horvath, University of Helsinki and University of Szeged, Hungary
  • Single particle Cryo-EM: Juha Huiskonen, HiLIFE, Helsinki
  • Cryo-ET and CLEM: Patrick Hoffmann (Kukulski-lab), MRC-LMB, Cambridge
  • Volume EM: Christel Genoud, FMI, Basel
  • Light-sheet microscopy: Johannes Girstmair (Tomancak-lab), MPI-CPG, Dresden
  • Expansion microscopy: Teemu Ihalainen, BioMediTech, Tampere
  • Euro-BioImaging services in Finland: Gleb Grebnev, Turku BioImaging
  • Super-resolution microscopy, Susan Cox, Kings College London, UK
  • High-throughput microscopy, Vilja Pietiäinen, FIMM, Helsinki
  • Measuring cell-generated forces, Sari Tojkander, Veterinary Sciences, University of Helsinki

Announcement: Finnish Euro-BioImaging Node welcomes Global BioImaging job shadowing applications to Finland.

The Finnish Euro-BioImaging Node consisting of light and electron microscopy core facilities in Helsinki, Turku, and Oulu welcomes Global BioImaging international job shadowing applications.

Job shadowing program offers a unique opportunity to learn behind the scenes operations of the core facilities, user access, quality assurance and management, state-of-the-art technologies, data management policies, and so forth. Job shadowing program at the Finnish Euro-BioImaging Node can take place at one or more locations (Helsinki, Turku, and Oulu) and can last up to two weeks.

The Finnish Euro-BioImaging Node has extensive experience hosting job shadowing program participants. Video interviews of job shadowing applicants are available: Dr Santosh, Dr Wah Ing, and Dr Andrew Mehnert.

For more information about Global BioImaging international job shadowing program, please visit:

Andrew Mehnert from the University of Australia visited the Finnish Euro-BioImaging Node in Turku as part of Global BioImaging international job shadowing program.

Announcement: Imaging Africa Workshop in Cape Town, South Africa.

Microscopy and image analysis workshop is taking place in Cape Town, South Africa 13-17 January 2020.

Imaging Africa consists of a four-day workshop followed by a one-day symposium hosted at the Institute of Infectious Disease and Molecular Medicine in Cape Town, South Africa. The objective of this workshop is to enhance the microscopy knowledge and applications of researchers throughout the African continent.

Workshop registration: