VoxelEmbed: 3D instance segmentation and tracking with voxel embedding based deep learning

M Zhao, Q Liu, A Jha, R Deng, T Yao… - Machine Learning in …, 2021 - Springer
Recent advances in bioimaging have provided scientists a superior high spatial-temporal
resolution to observe dynamics of living cells as 3D volumetric videos. Unfortunately, the 3D …

Dense functional and molecular readout of a circuit hub in sensory cortex

C Condylis, A Ghanbari, N Manjrekar, K Bistrong… - Science, 2022 - science.org
INTRODUCTION The diversity of cell types is a defining feature of the neuronal circuitry that
makes up the areas and layers of the mammalian cortex. At a molecular level, the extent of …

Large-scale multi-hypotheses cell tracking using ultrametric contours maps

J Bragantini, M Lange, L Royer - European Conference on Computer …, 2025 - Springer
In this work, we describe a method for large-scale 3D cell-tracking through a segmentation
selection approach. The proposed method is effective at tracking cells across large …

Dual-task ConvLSTM-UNet for instance segmentation of weakly annotated microscopy videos

A Arbelle, S Cohen, TR Raviv - IEEE Transactions on Medical …, 2022 - ieeexplore.ieee.org
Convolutional Neural Networks (CNNs) are considered state of the art segmentation
methods for biomedical images in general and microscopy sequences of living cells, in …

Tracking cells and their lineages via labeled random finite sets

TTD Nguyen, BN Vo, BT Vo, DY Kim… - IEEE Transactions on …, 2021 - ieeexplore.ieee.org
Determining the trajectories of cells and their lineages or ancestries in live-cell experiments
are fundamental to the understanding of how cells behave and divide. This paper proposes …

MaxSigNet: Light learnable layer for semantic cell segmentation

R Yazdi, H Khotanlou - Biomedical Signal Processing and Control, 2024 - Elsevier
Semantic segmentation of cells is the entry point to other areas of cell analysis such as
instance segmentation, cell detection, Mitosis detection, and cell tracking. This paper …

A survey on automated cell tracking: challenges and solutions

R Yazdi, H Khotanlou - Multimedia Tools and Applications, 2024 - Springer
Cell tracking in microscopy images is fundamental to new biological and medical
discoveries today. It facilitates the study of the properties of living cells over time. Due to the …

A collagen-based microwell migration assay to study NK-target cell interactions

PE Olofsson, L Brandt, KEG Magnusson, T Frisk… - Scientific reports, 2019 - nature.com
Natural killer (NK) cell cytotoxicity in tissue is dependent on the ability of NK cells to migrate
through the extracellular matrix (ECM) microenvironment. Traditional imaging studies of NK …

Inference on an interacting diffusion system with application to in vitro glioblastoma migration

G Lindwall, P Gerlee - … Medicine and Biology: A Journal of the …, 2024 - academic.oup.com
Glioblastoma multiforme is a highly aggressive form of brain cancer, with a median survival
time for diagnosed patients of 15 months. Treatment of this cancer is typically a combination …

Siamese tracking of cell behaviour patterns

A Panteli, DK Gupta, N Bruijn… - Medical Imaging with …, 2020 - proceedings.mlr.press
Tracking and segmentation of biological cells in video sequences is a challenging problem,
especially due to the similarity of the cells and high levels of inherent noise. Most machine …