AIMC Topic: Microscopy, Video

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Towards a practical tool to identify genotype using high-speed videomicroscopy.

Thorax
The diagnosis of primary ciliary dyskinesia (PCD) can be challenging in patients with mutations in the gene, despite using electron microscopy tomography and ciliary motion analysis. Also, mutational analysis is hindered by a paralogous copy of the ...

3D+t Multifocal Imaging Dataset of Human Sperm.

Scientific data
Understanding human fertility requires dynamic and three-dimensional (3D) analysis of sperm movement, which extends beyond the capabilities of traditional datasets focused primarily on two-dimensional sperm motility or static morphological characteri...

CellPhePy: A python implementation of the CellPhe toolkit for automated cell phenotyping from microscopy time-lapse videos.

Journal of microscopy
We previously developed the CellPhe toolkit, an open-source R package for automated cell phenotyping from ptychography time-lapse videos. To align with the growing adoption of python-based image analysis tools and to enhance interoperability with wid...

Enhancing yeast cell tracking with a time-symmetric deep learning approach.

NPJ systems biology and applications
Accurate tracking of live cells using video microscopy recordings remains a challenging task for popular state-of-the-art image processing-based object tracking methods. In recent years, many applications have attempted to integrate deep-learning fra...

Detecting cells in intravital video microscopy using a deep convolutional neural network.

Computers in biology and medicine
The analysis of leukocyte recruitment in intravital video microscopy (IVM) is essential to the understanding of inflammatory processes. However, because IVM images often present a large variety of visual characteristics, it is hard for an expert huma...

CytoCensus, mapping cell identity and division in tissues and organs using machine learning.

eLife
A major challenge in cell and developmental biology is the automated identification and quantitation of cells in complex multilayered tissues. We developed CytoCensus: an easily deployed implementation of supervised machine learning that extends conv...

Phenotypic Antimicrobial Susceptibility Testing with Deep Learning Video Microscopy.

Analytical chemistry
Timely determination of antimicrobial susceptibility for a bacterial infection enables precision prescription, shortens treatment time, and helps minimize the spread of antibiotic resistant infections. Current antimicrobial susceptibility testing (AS...

Automated detection of apoptotic bodies and cells in label-free time-lapse high-throughput video microscopy using deep convolutional neural networks.

Bioinformatics (Oxford, England)
MOTIVATION: Reliable label-free methods are needed for detecting and profiling apoptotic events in time-lapse cell-cell interaction assays. Prior studies relied on fluorescent markers of apoptosis, e.g. Annexin-V, that provide an inconsistent and lat...