Schedule
11:00 – 12:50 CEST
Registration & Light Lunch
12:50 – 13:00 CEST
Opening of IbSB 2022
Session I
13:00 – 14:30 CEST
Chair: Carl-Magnus Svensson
13:00 – 13:40 CEST
AI-based Image-to-Image Transformation for Microscopy Image Analysis: Concepts, Tools and Validations
Jianxu Chen, Leibniz Institute for Analytical Sciences ISAS, Dortmund, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
13:40 – 14:10 CEST
Characterization of neutrophil activation phenotypes in ex vivo human Candida blood infections using deep learning modules
Jan-Philipp Praetorius & Arjun Sarkar; Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
14:10 – 14:30 CEST
Deep Learning for Antibiotic Target Identification from High-Throughput Images
Daniel Krentzel, Institut Pasteur, Paris, France
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
14:30 – 14:50 CEST
Coffee Break
Session II
14:50 – 16:20 CEST
Chair: Parastoo Akbarimoghaddam
14:50 – 15:30 CEST
VascuViz: A Multimodality and Multiscale Imaging and Visualization Pipeline for Vascular Systems Biology
Akanksha Bhargava, The Johns Hopkins University School of Medicine, Baltimore, MD, United States
Via Zoom
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
15:30 – 16:00 CEST
Visualization and systemic quantification of fluorescence-tagged nanoparticles through intravital microscopy
Zoltán Cseresnyés & Wanling Foo; Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany & Jena University Hospital, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
16:00 – 16:20 CEST
Quantification of microtubule-guided peroxisome migration using a hidden Markov chain model
Carl-Magnus Svensson, Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
16:20 – 16:40 CEST
Coffee Break
Session III
16:40 – 18:10 CEST
Chair: Sandra Timme
16:40 – 17:20 CEST
Tissue and cell shape quantification integrated with models of morphogenesis in plant shoots and flowers
Henrik Jönsson, University of Cambridge, UK
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
17:20 – 17:50 CEST
Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy
Romain Briandet & Simon Labarthe; Micalis (INRAE, Université Paris-Saclay, AgroParisTech), France & Pléiade/Biogeco (INRAE, Inria, Université de Bordeaux), France
Via Zoom
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
17:50 – 18:10 CEST
Towards data-driven modeling of spatio-temporal immune cell interaction dynamics
Kevin Thurley, University Hospital Bonn, Germany
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18:10 – 18:40 CEST
Dinner
Poster session
18:40 – 21:00 CEST
Simulating and parameterizating computational models of multi-cellular processes
Emad Alamoudi, University of Bonn, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Quantitative assessment of the preventive effect of butyrate in an inflammatory-bowel-disease-on-chip model
Manuel Allwang, Jena University Hospital, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
JIPipe: Building automated image analysis tools without programming
Ruman Gerst, Leibniz-HKI, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Characterisation of MAIT cells in the antifungal immune response in a microfluidic “invasive aspergillosis-on-chip” disease model
Svenja Grau, Leibniz-HKI, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Measuring efficiency and cytotoxicity of the novel antifungal compound Jagaricin using quantitative imaging
Susann Hartung, Leibniz-HKI, Jena, Germany
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Macrophage polarization ascertains the fate of Staphylococcus aureus infection in 3D liver model
Mohamed I. Abdelwahab Hassan, Jena University Hospital, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Reconstruction of the vascular tree of the femoral bone marrow
Katherina Hemmen, University of Würzburg, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Mcat: a multispectral cluster analysis toolkit for deep learning-based segmentation and clinical biomarker quantification of MSOT data
Bianca Hoffmann, Leibniz-HKI, Jena, Germany
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Correlative fluorescence and soft X-ray-microscopy in the water window region in an integrated laboratory-based setup
Sophia Kaleta & Julius Reinhard; Institute of Optics and Quantum Electronics Jena, Germany
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Interactive workflow for model validation
Andreas Kuhn, University of Wuerzburg, Germany
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Translating widefield microscopy images into the 3D models using deep neural networks
Rui Li, Helmholtz Center, Dresden-Rossendorf, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Geometry Effect Positions Renal Vesicles During Kidney Development
Malte Mederacke, ETH Zürich, Switzerland
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
VersaDrop: Nonlinear spectral imaging platform for label-free microbial sample screening
Tobias Meyer-Zedler, Leibniz-IPHT & Friedrich-Schiller University , Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Using ambient mass spectrometry to elucidate the spatial distribution of metabolites during plant – herbivore interactions
Abigail Moreno-Pedraza, German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Germany & Friedrich Schiller University Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Lipid rafts in Schizophyllum commune – insights in localization and composition
Berit Frizzy Porsche, Friedrich Schiller University Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
A spatio-temporal model for simulating hyphal growth of filamentous fungal species
Christoph Saffer, Leibniz-HKI, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
A Deep Learning approach for detecting single division events of bacteria in microfluidic droplets imaged by angle-resolved scattered light imaging
Arjun Sarkar, Leibniz-HKI, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Deep learning-based identification of cell and tissue niche-specific proteomic signatures through registration of multiplex microscopy and high-dimensional mass spectrometry imaging
Philippa Spangenberg, University Hospital Essen, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Image segmentation of irradiated tumour spheroids by Fully Convolutional Networks
Matthias Streller, University of Applied Sciences Dresden, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Virtual Phagocytosis Assays –
From Observations via Quantifications to Mechanisms
Sandra Timme, Leibniz-HKI, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Structural Changes in Pericardium upon Genipin Cross-Linking Investigated Using Nondestructive and Label-Free Imaging Techniques
Xinyue Wang, Friedrich-Schiller-University, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Biological insights into 3D organoids using a modular, scalable and data efficient image analysis pipeline
Joseph Bleddyn Williams, Cardiff University, UK
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
Session IV
09:00 – 10:50 CEST
Chair: Jan-Philipp Praetorius
09:00 – 09:40 CEST
Bioimage analysis software platforms to perform tracking of cells and organelles in large samples
Jean-Yves Tinevez, Institut Pasteur, Paris, France
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
09:40 – 10:10 CEST
Detection of serosa contraction waves with PIV from 3D recordings of the embryonic development of Tribolium Castaneum
Mariia Golden & Marc Pereyra; Buchmann Institute for Molecular Life Sciences (BMLS), Frankfurt am Main, Germany & Frankfurt Institute for Advanced Studies (FIAS), Frankfurt am Main, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
10:10 – 10:30 CEST
A tracking graph structure function for live cell microscopy
Layton Aho, Drexel University, Philadelphia, PA, United States
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
10:30 – 10:50 CEST
Insights into the 3D subcellular impact of viral infection in an abundant marine diatom
Marie Walde, Sorbonne Université, Roscoff, France
Via Zoom
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
10:50 – 11:10 CEST
Coffee Break
Session V
11:10 – 12:40 CEST
Chair: Arjun Sarkar
11:10 – 11:50 CEST
Quantitative approaches for decoding molecular and microenvironmental factors underlying tissue architecture
Heba Sailem, University of Oxford, UK
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
11:50 – 12:20 CEST
Image-based analysis of Candida albicans infection in a gut-on-chip model
Parastoo Akbarimoghaddam & Raquel Alonso-Roman; Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
12:20 – 12:40 CEST
TissUUmaps 3: Interactive visualization and exploration of spatial omics data
Axel Andersson, Uppsala University, Sweden
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
12:40 – 13:30 CEST
Lunch Break
Session VI
13:30 – 16:20 CEST
Chair: Carl-Magnus Svensson
13:30 – 13:40 CEST
An Introduction to InfectoOptics
13:40 – 14:10 CEST
Generation of an alveolus-on-chip model for personalized drug screening against viral-bacterial co-infections in viral pneumonia
Lena Gauthier & Hristina Koceva; Leibniz Institute of Photonic Technologies (IPHT), Jena, Germany & Jena University Hospital, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
14:10 – 14:40 CEST
VersaDrop: Versatile Droplet Handling and Deeper Analysis for Microbiological Applications
Anne-Sophie Munser & Ashkan Samimi; Fraunhofer Institute for Applied Optics and Precision Engineering, Jena, Germany & Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
14:40 – 15:10 CEST
IntraPerSpective: The Raman perspective on intracellular infections in comparison to established transmission electron microscopy
Elisabeth Liebler-Tenorio & Ute Neugebauer; Friedrich-Loeffler-Institute (FLI), Jena Germany & Leibniz Institute of Photonic Technologies (IPHT), Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
15:10 – 15:30 CEST
Coffee Break
15:30 – 16:00 CEST
Nanoscale Investigations of Candidalysin using Atomic Force Microscopy and Enhanced Raman Spectroscopy
Johannes Sonnberger & Xiaobin Yao; Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute, Jena, Germany & Leibniz Institute of Photonic Technologies (IPHT), Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
16:00 – 16:20 CEST
Spectroscopic and synthetic tools for detection of small molecular markers of infection processes
Constanze Schultz, Leibniz Institute of Photonic Technologies (IPHT), Jena, Germany
In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.
16:20 – 16:30 CEST
Closing Remarks