AIMC Topic: Microscopy, Electron

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Antiproliferative and anti-apoptotic effect of astaxanthin in an oxygen-induced retinopathy mouse model.

Canadian journal of ophthalmology. Journal canadien d'ophtalmologie
OBJECTIVE: To evaluate the impact of intravitreal (IV) and intraperitoneal (IP) astaxanthin (AST) injections on neovascular development (ND), retinal morphology, and apoptotic activity in a C57BL/6J mouse model with hyperoxia-induced retinopathy (HIR...

TED: A Tolerant Edit Distance for segmentation evaluation.

Methods (San Diego, Calif.)
In this paper, we present a novel error measure to compare a computer-generated segmentation of images or volumes against ground truth. This measure, which we call Tolerant Edit Distance (TED), is motivated by two observations that we usually encount...

Deep models for brain EM image segmentation: novel insights and improved performance.

Bioinformatics (Oxford, England)
MOTIVATION: Accurate segmentation of brain electron microscopy (EM) images is a critical step in dense circuit reconstruction. Although deep neural networks (DNNs) have been widely used in a number of applications in computer vision, most of these mo...

Automated tracing of myelinated axons and detection of the nodes of Ranvier in serial images of peripheral nerves.

Journal of microscopy
The development of realistic neuroanatomical models of peripheral nerves for simulation purposes requires the reconstruction of the morphology of the myelinated fibres in the nerve, including their nodes of Ranvier. Currently, this information has to...

Learning structured models for segmentation of 2-D and 3-D imagery.

IEEE transactions on medical imaging
Efficient and accurate segmentation of cellular structures in microscopic data is an essential task in medical imaging. Many state-of-the-art approaches to image segmentation use structured models whose parameters must be carefully chosen for optimal...

AI-directed voxel extraction and volume EM identify intrusions as sites of mitochondrial contact.

The Journal of cell biology
Membrane contact sites (MCSs) establish organelle interactomes in cells to enable communication and exchange of materials. Volume EM (vEM) is ideally suited for MCS analyses, but semantic segmentation of large vEM datasets remains challenging. Recent...

DeepSCEM: A User-Friendly Solution for Deep Learning-Based Image Segmentation in Cellular Electron Microscopy.

Biology of the cell
Deep learning methods using convolutional neural networks are very effective for automatic image segmentation tasks with no exception for cellular electron micrographs. However, the lack of dedicated easy-to-use tools largely reduces the widespread u...

AI-driven glomerular morphology quantification: a novel pipeline for assessing basement membrane thickness and podocyte foot process effacement in kidney diseases.

Computer methods and programs in biomedicine
BACKGROUND AND OBJECTIVE: Measuring the thickness of the glomerular basement membrane (GBM) and assessing the percentage of podocyte foot process effacement (%PFPE) are important for diagnosing non-neoplastic kidney diseases. However, when performed ...

A guide to CNN-based dense segmentation of neuronal EM images.

Microscopy (Oxford, England)
Large-scale reconstitution of neuronal circuits from volumetric electron microscopy images is a remarkable research goal in neuroanatomy. However, the large-scale reconstruction is a result of automatic segmentation using convolutional neural network...

Recent advancement and human tissue applications of volume electron microscopy.

Microscopy (Oxford, England)
Structural observations are essential for the advancement of life science. Volume electron microscopy has recently realized remarkable progress in the three-dimensional analyses of biological specimens for elucidating complex ultrastructures in sever...