Location: University of Helsinki main building (Unioninkatu 34)
12:30 - 18:00 Registration
13:00 - 15:00 Workshops 1 & 2
Recursion: Biological Cartography: Building and Benchmarking Representations of Life
ThinkCyte: TBA
15:00 - 15:30 Coffee Break
15:30 - 17:30 Workshops 3 & 4
Calico: TBA
TissueGnostics: TBA
17:30 - 18:00 Opening of the Symposium
18:00 - 19:00 Opening Keynote: Berend Snijder, ETH Zurich: Image-based drug screening in human tissues for precision oncology
Location: University of Helsinki main building (Unioninkatu 34)
09:00 - 10:30 Session 1: Spatial profiling
09:00 - 09:45 Invited: Leeat Keren, Weizmann Institute of Science: Unraveling the tumor microenvironment by multiplexed imaging
09:45 - 10:00 Loan Vulliard, German Cancer Research Center: Integrating multiplexed imaging data with explainable panel-independent cellular profiling
10:00 - 10:15 Jovan Tanevski, Heidelberg University and Heidelberg University Hospital: Explainable models for global and local representation of spatial data
10:15 - 10:30 Yael Amitay, Weizmann Institute of Science: CellSighter: a neural network to classify cells in highly multiplexed images
10:30 - 11:00 Coffee Break
11:00 - 12:30 Session 2: Methods
11:00 - 11:45 Invited: Wei Ouyang, KTH Royal Institute of Technology: Web and cloud infrastructure for AI-powered bioimage analysis
11:45 - 12:00 Vivian Lu, Deepcell, Inc.: Self-supervised Foundation Model Captures High-dimensional Morphology Data from Single Cell Brightfield Images
12:00 - 12:15 Mohammad Vali Sanian, Institute for Molecular Medicine Finland (FIMM): Decoupled Self-Supervised Training of Encoder-Decoder Transformers
12:15 - 12:30 Benjamin Morris, Allen Institute for Cell Science: CytoDL: a comprehensive deep-learning tool for streamlining microscopy image transformations
12:30 - 13:30 Lunch Break
13:30 - 15:00 Session 3: Cell Painting and Datasets
13:30 - 14:15 Invited: Anne Carpenter, Broad Institute: Cell Painting: a decade of image-based profiling
14:15 - 14:30 Jesko Wagner, University of Edinburgh: Unlocking Single-Cell Morphological Profiling
14:30 - 14:45 Christopher Schmied, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP) Campus Berlin: Morphological profiling dataset based on the EU-OPENSCREEN bioactive library over two cell lines
14:45 - 15:00 Adam Taylor, Sage Bionetworks: Advancing FAIR data sharing for multiplexed tissue imaging data from the Human Tumor Atlas Network
15:00 - 15:30 Coffee Break
15:30 - 16:45 Session 4: Single-cell profiling
15:30 - 16:15 Invited: Loïc A. Royer, Chan Zuckerberg Biohub: Self-supervised deep learning encodes high-resolution features of protein subcellular localization
16:15 - 16:30 Javed Iqbal, German Cancer Research Center: A global genetic interaction network by single-cell image analysis and machine learning
16:30 - 16:45 Nikita Moshkov, Biological Research Centre (BRC): Unbiased single-cell morphology with self-supervised vision transformers
16:45 - 18:00 Poster Session
19:00 - 20:00 Reception hosted by the City of Helsinki (address: Pohjoisesplanadi 11-13)
Poster presentations:
Emilia Piki, University of Oulu: ROR1-STAT3 signaling contributes to ovarian cancer intra-tumor heterogeneity
Dominik Hirling, Biological Research Centre (BRC): Segmentation Metric Misinterpretations in Bioimage Analysis
Veera Timonen, Institute for Molecular Medicine Finland (FIMM), University of Helsinki: Learning single-cell high-content phenotypes and their genetic determinants in healthy blood donors
Irina Belaia, Turku BioImaging, Åbo Akademi University and University of Turku: Turku BioImaging image data services
Joanna Pylvänäinen, Åbo Akademi University: Empowering insights into cancer metastasis: Advanced image analysis approaches for live cell imaging
Dimitri Meistermann, University of Helsinki: Cell painting at single-cell level for characterization of Cortical Neuron Development in vitro
Myriam Sevigny, University of Helsinki: Genome Biology Unit (GBU) - digital scanning at your service!
Junel Solis, Turku BioImaging, Åbo Akademi University and University of Turku: Mouse Brain Alignment Tool: Software for autoradiography images
Zsanett Zsófia Iván, Biological Research Centre: The proteomic map of mitosis
Chun Hao Wong, Wellcome Sanger Institute: Optimising direct RNA in situ sequencing for optical pooled CRISPR screens
Lakshmi Balasubramanian, Centre for Cellular and Molecular Platforms: A Constructive Approach of image-based profiling of single cells based on Image Flow Cytometry Data
Fred Mast, Seattle Children's Research Institute: A graph convolutional neural network to decipher signal cascades controlling peroxisome biogenesis
Martina K. Zowada, German Cancer Research Center (DKFZ): High-throughput AI-based phenotypic screening for drug discovery
Zitong Chen, Broad Institute of MIT and Harvard: CHAMMI: A benchmark for channel-adaptive models in microscopy imaging
Sonja Koivukoski, University of Eastern Finland: AI-driven Virtual Histological Staining
Dado Tokic, Turku BioImaging, University of Turku & Åbo Akademi University: Collaboration between academia and industry in image analysis offers novel opportunities for both
Christa Ringers, Uppsala University: Morphological profiling by Cell Painting to capture colorectal cancer disease heterogeneity
Minttu Polso, Institute for Molecular Medicine Finland (FIMM), University of Helsinki: Image-based and machine learning-guided multiplexed serology test for SARS-CoV-2
Erik Serrano, University of Colorado Anschutz Medical Campus: CytoSnake: Orchestrating reproducible workflows with PyCytominer
Isabel Cristina, FIMM, University of Helsinki: AI-driven phenotypic image based interaction profiling for functional cancer precision medicine
Antti Kiviaho, Tampere University and Tays Cancer Center: Image-based classification of uterine leiomyoma driver mutations using deep learning
Taras Redchuk, University of Helsinki: Chromatin dynamics in serum starvation: machine learning-assisted analysis of tracking data
Szymon Adamski, Ardigen: AI-driven identification of hits from Cell Painting based screening
Location: Biomedicum (Haartmaninkatu 8)
09:00 - 10:30 Introduction to the Hackathon
10:30 - 13:00 Hackathon
13:00 - 14:00 Lunch Break
14:00 - 18:00 Hackathon
18:00 - Social Event
Location: Biomedicum (Haartmaninkatu 8)
09:00 - 13:00 Hackathon
13:00 - 14:00 Lunch Break
14:00 - 15:00 Wrapping up the Hackathon