Nucleus segmentation: towards automated solutions

R Hollandi, N Moshkov, L Paavolainen, E Tasnadi… - Trends in Cell …, 2022 - cell.com
Single nucleus segmentation is a frequent challenge of microscopy image processing, since
it is the first step of many quantitative data analysis pipelines. The quality of tracking single …

Recent trends and perspectives in cerebral organoids imaging and analysis

C Brémond Martin, C Simon Chane… - Frontiers in …, 2021 - frontiersin.org
Purpose: Since their first generation in 2013, the use of cerebral organoids has spread
exponentially. Today, the amount of generated data is becoming challenging to analyze …

Nisnet3d: Three-dimensional nuclear synthesis and instance segmentation for fluorescence microscopy images

L Wu, A Chen, P Salama, S Winfree, KW Dunn… - Scientific Reports, 2023 - nature.com
The primary step in tissue cytometry is the automated distinction of individual cells
(segmentation). Since cell borders are seldom labeled, cells are generally segmented by …

Advantages and potential benefits of using organoids in nanotoxicology

VG Nikonorova, VV Chrishtop, VA Mironov… - Cells, 2023 - mdpi.com
Organoids are microtissues that recapitulate the complex structural organization and
functions of tissues and organs. Nanoparticles have several specific properties that must be …

Intravital and high-content multiplex imaging of the immune system

JL Hor, RN Germain - Trends in cell biology, 2022 - cell.com
Highly motile and functionally diverse immune cells orchestrate effective immune responses
through complex and dynamic cooperative behavior. Multiphoton intravital microscopy (MP …

Segmentor: a tool for manual refinement of 3D microscopy annotations

D Borland, CM McCormick, NK Patel, O Krupa… - BMC …, 2021 - Springer
Background Recent advances in tissue clearing techniques, combined with high-speed
image acquisition through light sheet microscopy, enable rapid three-dimensional (3D) …

[HTML][HTML] Three-dimensional culture models to study innate anti-tumor immune response: advantages and disadvantages

A Poggi, F Villa, JLC Fernadez, D Costa, MR Zocchi… - Cancers, 2021 - mdpi.com
Simple Summary The classical approach to study the immune response against a tumor was
mixing immune cells with tumor cell suspensions in several experimental settings. These …

In-silico and in-vitro morphometric analysis of intestinal organoids

S Montes-Olivas, D Legge, A Lund… - PLoS Computational …, 2023 - journals.plos.org
Organoids offer a powerful model to study cellular self-organisation, the growth of specific
tissue morphologies in-vitro, and to assess potential medical therapies. However, the …

Deep learning-based tool for morphotypic analysis of 3D multicellular spheroids

F Piccinini, A Peirsman, M Stellato, J Pyun… - Journal of Mechanics …, 2023 - World Scientific
Introduction: Three-dimensional (3D) multicellular spheroids are fundamental in vitro tools
for studying in vivo tissues. Volume is the main feature used for evaluating the …

Marker-controlled watershed with deep edge emphasis and optimized H-minima transform for automatic segmentation of densely cultivated 3D cell nuclei

T Kaseva, B Omidali, E Hippeläinen, T Mäkelä… - BMC …, 2022 - Springer
Background The segmentation of 3D cell nuclei is essential in many tasks, such as targeted
molecular radiotherapies (MRT) for metastatic tumours, toxicity screening, and the …