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Model-Based Generation of Synthetic 3D Time-Lapse Sequences of Multiple Mutually Interacting Motile Cells with Filopodia

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PETERLÍK Igor SVOBODA David ULMAN Vladimír SOROKIN Dmitry MAŠKA Martin

Druh Článek ve sborníku
Konference Simulation and Synthesis in Medical Imaging
Fakulta / Pracoviště MU

Fakulta informatiky

Citace
WWW https://doi.org/10.1007/978-3-030-00536-8_8
Doi http://dx.doi.org/10.1007/978-3-030-00536-8_8
Klíčová slova Simulation; 3D time-lapse sequence; Cell deformation; Cell interaction; Filopodia
Popis Complementing collections of 3D time-lapse image data with comprehensive manual annotations is an extremely laborious and often impracticable task, which hinders objective benchmarking of bioimage analysis workflows as well as training of widespread deep-learning-based approaches. In this paper, we present a novel simulation system capable of generating synthetic 3D time-lapse sequences of multiple mutually interacting cells with filopodial protrusions, accompanied by inherently generated reference annotations, in order to stimulate the development of fully 3D bioimage analysis workflows for filopodium segmentation and tracking in complex scenarios with multiple mutually interacting cells. The system integrates its predecessor, which was designed for single-cell, collision-unaware scenarios only, with proactive, mechanics-based handling of collisions between multiple filopodia, multiple cell bodies, or their combinations. We demonstrate its potential on two generated 3D time-lapse sequences of multiple lung cancer cells with curvilinear filopodia, which visually resemble confocal fluorescence microscopy image data.
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