Subcellular dynamics in unicellular parasites

T Müller, T Krüger, M Engstler - Trends in Parasitology, 2025 - cell.com
Bioimaging has made tremendous advances in this century. Innovations in high-and super-
resolution microscopy are well established, and live-cell imaging is extensively used to gain …

cellPLATO–an unsupervised method for identifying cell behaviour in heterogeneous cell trajectory data

MJ Shannon, SE Eisman, AR Lowe… - Journal of Cell …, 2024 - journals.biologists.com
Advances in imaging, segmentation and tracking have led to the routine generation of large
and complex microscopy datasets. New tools are required to process this 'phenomics' type …

[HTML][HTML] Microscopy methods for the in vivo study of nanoscale nuclear organization

NR Lokesh, ME Pownall - Biochemical Society Transactions, 2025 - portlandpress.com
Eukaryotic genomes are highly compacted within the nucleus and organized into complex
3D structures across various genomic and physical scales. Organization within the nucleus …

The rise of data‐driven microscopy powered by machine learning

L Morgado, E Gómez‐de‐Mariscal, HS Heil… - Journal of …, 2024 - Wiley Online Library
Optical microscopy is an indispensable tool in life sciences research, but conventional
techniques require compromises between imaging parameters like speed, resolution, field …

CLEM-Reg: An automated point cloud based registration algorithm for correlative light and volume electron microscopy

D Krentzel, M Elphick, MC Domart, CJ Peddie… - BioRxiv, 2023 - biorxiv.org
Correlative light and volume electron microscopy (vCLEM) is a powerful imaging technique
that enables the visualisation of fluorescently labelled proteins within their ultrastructural …

Biom3d, a modular framework to host and develop 3D segmentation methods

G Mougeot, S Safarbati, H Alégot, P Pouchin, N Field… - bioRxiv, 2024 - biorxiv.org
U-Net is a convolutional neural network model developed in 2015 and has proven to be one
of the most inspiring deep-learning models for image segmentation. Numerous U-Net-based …

BEHAV3D Tumor Profiler to map heterogeneous cancer cell behavior in the tumor microenvironment

E Rios-Jimenez, A Zomer, R Collot, MB Román… - bioRxiv, 2024 - biorxiv.org
Intravital microscopy (IVM) enables live imaging of animals at single-cell level, offering
essential insights into cancer progression. This technique allows for the observation of …

PhotoFiTT: A Quantitative Framework for Assessing Phototoxicity in Live-Cell Microscopy Experiments

M Del Rosario, E Gómez-de-Mariscal, L Morgado… - bioRxiv, 2024 - biorxiv.org
Phototoxicity in live-cell fluorescence microscopy can compromise experimental outcomes,
yet quantitative methods to assess its impact remain limited. Here we present PhotoFiTT …

BiaPy: Accessible deep learning on bioimages

D Franco-Barranco, JA Andrés-San Román… - bioRxiv, 2024 - biorxiv.org
BiaPy is an open-source library and application that streamlines the use of common deep
learning approaches for bioimage analysis. Designed to simplify technical complexities, it …

PhotoFiTT: A Quantitative Framework for Assessing Phototoxicity in Live-Cell Microscopy Experiments

R Henriques, M del Rosario, E Gómez-de-Mariscal… - 2024 - researchsquare.com
Phototoxicity in live-cell fluorescence microscopy can compromise experimental outcomes,
yet quantitative methods to assess its impact remain limited. Here we present PhotoFiTT …