BioImage Informactics Finland Network Symposium 2022

3rd BioImage Informatics Finland symposium is organized by Helsinki Bioimaging at Biomedicum, Helsinki, Nov 14th 2022.

General info

The symposium brings together researchers and facility personnel working with analysis of microscopy images of cells and tissues to discuss the latest developments in bioimage informatics. The program includes four sessions focusing on applications, methods, software tools, and analysis services. After symposium dinner will be organized at participants own expense.

The symposium is free but registration is required. The lecture hall holds room for 60 participants so we wish everyone who registers to also be present at the symposium. If you have registered but are unable to attend, please let the organizers know so that we can make room for other participants.

For any inquiries, please contact Lassi Paavolainen (


14. November 2022

12:00-12:25 Welcome and Coffee
12:25-12:30 Opening, Lassi Paavolainen, FIMM, University of Helsinki.

1. Session: Methods (Chair: Lassi Paavolainen)
12:30-12:50 Pekka Ruusuvuori, University of Turku: Deep-learning based decision support in cancer diagnostics and grading.
12:50-13:05 Sylvain Tollis, Institute of Biomedicine, University of Eastern Finland: Noise and auto-fluorescence removal in single photon counting applications.
13:05-13:20 Joona Pohjonen, University of Helsinki: Exposing and addressing the fragility of neural networks in digital pathology.
13:20-13:35 Veera Timonen, FIMM, University of Helsinki: DeepIFC: virtual fluorescent labeling of blood cells in imaging flow cytometry data with deep learning.
13:35-13:50 Gantugs Atarsaikhan, FIMM, University of Helsinki: Combining intra and inter cell feature representation.

13:50-14:00 Break

2. Session: Software and applications (chair: Ilya Belevich)
14:00-14:20 Joanna Pylvänäinen, Åbo Akademi University: Bioimage analysis toolbox for dynamic microscopy - focus on drift correction and cell tracking.
14:20-14:35 Isabel Mogollon, FIMM, University of Helsinki: AI-driven phenotypic image-based profiling of cancer for functional precision medicine.
14:35-14:50 Junel Solis, Åbo Akademi University: Going truly cross-disciplinary in image analysis – effects of excess nutrients in the Baltic sea.
14:50-15:00 Schanne Fridthjof, PerkinElmer: What’s new in Harmony HCS Imaging and analysis software.

15:00-15:25 Coffee break 

3. Session: Software and applications part 2 (chair: Ilya Belevich) 
15:25-15:35 Molly McQuilken, arivis – a Zeiss company: arivis scientific imaging platform.
15:35-15:50 Mika Kaakinen, Biocenter Oulu: Anatomical mapping of physiological pulsations in brain by light microscopy.
15:50-16:10 Guillaume Jacquemet, Åbo Akademi University, Democratising deep learning for microscopy with ZeroCostDL4Mic.
16:10-16:25 Leena Latonen, University of Eastern Finland: Exploring the potential of label-free histology and AI-based virtual staining.

16:25-16:30 Break

4. Session: Bioimage analysis services (chair: Kirstin Vonderstein)
16:30-17:00 Gisele Miranda, KTH Royal Institute of Technology and SciLifeLab: Connecting BioImage Analysis Expertise to the National Research Infrastructure in Sweden.
17:00-17:10 Pasi Kankaanpää, University of Turku and Åbo Akademin University: Image analysis services in Euro-Bioimaging.
17:10-17:20 Lucio Azzari, Tampere University: Tampere imaging platform: processing pipelines for microscopy imaging.

17:20-17:30: Discussion

After symposium dinner will be organized (at participants own expense).

Registration and Abstract Submission

Abstract submission is closed

Registration is closed


Biomedicum,  sh.1-2 (bottom floor)
Haartmaninkatu 8
00290 Helsinki

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