Schedule

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

In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.

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

In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.

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

In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.

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

In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.

Interactive workflow for model validation

Andreas Kuhn, University of Wuerzburg, Germany

In order to see the abstract, you need to be a registered participant of the IbSB 2022 and log in here.

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