SKM 2023 – wissenschaftliches Programm
Bereiche | Tage | Auswahl | Suche | Aktualisierungen | Downloads | Hilfe
BP: Fachverband Biologische Physik
BP 11: Poster Session I
BP 11.26: Poster
Dienstag, 28. März 2023, 12:30–15:30, P1
From in vitro to in silico: a pipeline for the generation of 3D-cell culture simulations from real image data — Elina Nürnberg1,2,3, Felix Romer1, •Mario Vitacolonna2,3, Rüdiger Rudolf2,3, and Simeon Sauer1 — 1Institut für mathematisch-naturwissenschaftliche Grundlagen, Mannheim University of Applied Sciences, Mannheim, Germany — 2Institute of Molecular and Cell Biology, Mannheim University of Applied Sciences, Mannheim, Germany — 3Center for Mass Spectrometry and Optical Spectroscopy, Mannheim University of Applied Sciences, Mannheim, Germany
Immunofluorescence labelling, optical tissue clearing and confocal laser scanning microscopy enable the visualization of whole, intact 3D-cell culture models on a single cell level, without loss of 3D spatial information. However, a manual extraction of quantitative information from the entire sample is cumbersome and often only performed on a subset of the data. Moreover, due to lack of computational resources, appropriate statistical methods or theoretical models, this data is often analyzed only qualitatively. In order to overcome these obstacles and improve exploitation of available data beyond quantitative image analysis, we propose a 3D-image analysis pipeline, consisting of image segmentation and 3D-feature extraction to gain quantitative information on cell morphology and protein distribution. Subsequently, this information is used to statistically define prototypical cell types, which are implemented into a basic 3D simulation based on the cellular potts model, which aims to recreate in-silico the in-vitro 3D cell culture, and which can be further adapted to specific research questions.