| Wednesday 15th February | |||
| 15h | Registration | Coffee, Set up Posters | |
| 16h | Welcome | Welcome | |
| 16h10 | Keynote | Anne Carpenter - Broad Institute, Boston | [Invited] "Information in images: Targeting diseases & characterizing compounds via CellProfiler and Cell Painting" |
| 17h | Flash Talks (of posters) | Perrine Paul-Gilloteaux | eC-CLEM: Flexible multidimensional registration software for correlative microscopies with refined accuracy mapping |
| Jose Miguel Serra Lleti | Developing a software tool for multiple targeting and automated acquisition in correlative light-electron microscopy. | ||
| Christian Tischer | ImageJ Plugins for Efficient Streaming, Tracking and Adaptive Cropping of TeraByte-sized Data Sets | ||
| Marlies Verschuuren | Deep coverage image analysis of morphofunctional connectivity in neuronal networks | ||
| Marta Alabrudzinska | Intravital imaging and 4D quantification of tumor growth and the tumor vasculature | ||
| Lassi Paavolainen | Image-based phenotypic profiling of patient-derived cancer cells | ||
| Winnok De Vos | Cellular Redox Profiling Using Deep Coverage Microscopy | ||
| Hugo Botelho | Modular high content image analysis workflows leveraging biology and biomedicine | ||
| Emilio Gualda | Beyond 3D imaging: virtual reality & colour 3D printing of microscopy 3D | ||
| Chong Zhang/Carlos Yagüe | The Rocket App: a " exible, modular, Cloud-based platform for the management of heterogeneous data/information from multiple acquisition/tools for biomedical and clinical research | ||
| 17h30 - 19h30 - Open ended | Hands On Demos / Workshops | Companies to explain and demo their latest developments in Analysis and IT solutions, Talks and/or Booth format. Confirmed exhibitors: GE Healthcare, Arivis | Confirmed exhibitors: GE Healthcare, Arivis, Carl Zeiss |
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| 19h15 -21h | OSS Lounge: Open Source Software & -Tools Forum | Experts and/or developers available to demo the latest updates and functionalities of a broad selection of Open Software tools. Booth/digital poster format | Confirmed OSS/tools represented: IJ/IJ2/Fiji, CellProfiler, Icy, ilastik, KNIME, MorphoDynaMX, SR-Tesseler, CATMAID-ONTO, Cytomine, OpenImadis, Bioemergences web platform, SuRVos, and more... |
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| 21h | Free Evening | Free Evening | |
| Thursday 16th February | |||
| 9h00 | Keynote | Fred Hamprecht - University of Heidelberg | [Invited] "Shallow and Deep Learning for Bioimage Analysis" |
| 9h50 | NEUBIAS | State of Affairs of the Community | Reports on the progress and Deliverables of NEUBIAS, e.g. Events, Webtools development, Career Path, Open Publications, Outreach, Strategy and Future |
| 10h40 | Coffee | Coffee | |
| 11h10 | Session 1 | ||
| Session 1 | Anne-Lise Routier-Kierzkowska | [Invited] "MorphoDynamX: from 4D image analysis to computational modeling" | |
| Daniel Sage | [Invited] "Computational methods for high resolution 3D fluorescence microscopy" | ||
| Nadine Peyriéras | [Invited] "From 3D+time imaging data to digital and virtual specimens" | ||
| Jean-Baptiste Sibarita | [Invited] "Toward quantitative multicolor single-molecule localization microscopy" | ||
| 12h30 | Lunch | ... and Posters | Posters - Part I |
| or | MC meeting | On invitation (with lunch...) | |
| 14h15 | NEUBIAS | "Call For Help" / "Shout Your Problem" / "Analysis Clinics" | Interactive Session: Life Scientists and Bioimage Analysts facing Image Analysis Roadblocks in their research projects can submit their problem and developers / Analysts will address them, build and benchmark Solutions |
| 15h50 | Session 2 | Session 2 | |
| Michal Kozubek | [Invited] "Virtual Cell Imaging: Synthetic Image Datasets for Benchmarking Bioimage Analysis Methods" | ||
| Pavel Tomancak | [Invited] "CATMAID-ONTO: Ontology-based online analysis of large image datasets" | ||
| Manuel Schölling | "How to make Image Segmentation with Deep Learning available for Everyone" | ||
| Nicolas Chiaruttini | "Lipid membranes and surface reconstruction - a biologically inspired method for 3D segmentation" | ||
| 17h | Coffee | ||
| 17h30 | Session 3 | ||
| Session 3 | Florian Jug | [invited] "Big Data and 3D Visualization" | |
| John Bogovic | "Much Better Stitching" | ||
| Hugo Pereira | "OPenT - simplified acquisition and processing of optical tomography datasets" | ||
| 18h20 | Session 4 | Open Software Showcase | |
| Session 4 | Curtis Rueden | [Invited] "What's New in ImageJ2 ? " | |
| Martin Horn | [Invited] "Image Analysis with KNIME" | ||
| Alexandre Dufour | [Invited] "Icy: the next-generation open bio-imaging platform" | ||
| Raphaël Marée | "Collaborative analysis of multi-gigapixel imaging data using Cytomine" | ||
| 19h40 | Drinks | ... and Posters | Posters - Part II |
| 20h45 | Departure for Dinner | included for all | Outside Venue (TBA) |
| Friday 17th February | |||
| 9h00 | Keynote | Christophe Zimmer - Institut Pasteur | [Invited] "Expanding single molecule localization microscopy in 3D and time" |
| 9h50 | NEUBIAS | STSM Reports | 3x10' talks, experience and report of Short Term Scientific Missions funded by NEUBIAS. Confirmed speakers: Laure Plantard, STSM grantee (CFIM, Univ. Copenhagen); Martin Jones, Host Lab (Francis Crick Inst.) |
| 10h20 | Coffee | ||
| 10h50 | Session 5 | ||
| Session 5 | Lucy Collinson | [Invited] "Challenges in Image Analysis for 3D Electron Microscopy and Correlative Imaging" | |
| Stephan Preibisch | [Invited] "Reconstruction of large tiled image acquisitions using ImgLib2 and BigDataViewer" | ||
| Michele C Darrow | "Super-Region Volume Segmentation (SuRVoS) Workbench for Segmentation of Three-Dimensional Cellular Data" | ||
| Natasa Sladoje | "Detection and enhancement of objects in low resolution transmission electron microscopy images for multi-scale imaging and structural analysis" | ||
| 12h00 | NEUBIAS | Developers, Analysts, Life Scientists | Panel discussion: How to improve Bioimage Analysis knowledge exchange within the Bioimaging Ecosystem |
| 13h00 | Lunch | ||
| 13h45 | Gold Sponsor | Florian Bossard (GE Healthcare) | Multiparameter phenotypic pro! ling for predictive toxicity using High Content Analysis |
| 14h05 | Session 6 | ||
| Session 6 | Anatole Chessel | [Invited] "High content microscopy pipelines and algorithms for a systemic study of polarity" | |
| Anne Beghin | When High Content Screening meets super-resolution microscopy | ||
| Josh Moore | The Image Data Resource: a platform for publishing, integrating and mining imaging-derived biological data at scale | ||
| Tania Perestrelo | Quantification of Embryonic Stem cell Pluripotency through Image-based Analysis Software | ||
| Aliaksandr Halavatyi | AutoMicTools package to manage Automated Feedback Microscopy data acquisition and analysis | ||
| Ricardo Henriques | Democratising live-cell high-speed low-illumination super-resolution microscopy through Super-Resolution Radial Fluctuations | ||
| 15h40 | NEUBIAS | Life of a BioImage Analyst: Handling multiple data sources & workflows | Success Stories, guided panel discussions on the role and Career Path of Bioimage Analysts in Life Science |
| 16h30 | Closing Remarks - End of the Symposium |
