AIMC Topic: Microscopy, Electron

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Flexible Fitting of Small Molecules into Electron Microscopy Maps Using Molecular Dynamics Simulations with Neural Network Potentials.

Journal of chemical information and modeling Mar 30, 2020
Despite significant advances in resolution, the potential for cryo-electron microscopy (EM) to be used in determining the structures of protein-drug complexes remains unrealized. Determination of accurate structures and coordination of bound ligands ...
Molecular Conformation Neural Networks, Computer Protein Conformation Microscopy, Electron Molecular Dynamics Simulation Cryoelectron Microscopy
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Mitochondria Segmentation From EM Images via Hierarchical Structured Contextual Forest.

IEEE journal of biomedical and health informatics Dec 23, 2019
Delineation of mitochondria from electron microscopy (EM) images is crucial to investigate its morphology and distribution, which are directly linked to neural dysfunction. However, it is a challenging task due to the varied appearances, sizes and sh...
Machine Learning Hippocampus Microscopy, Electron Image Processing, Computer-Assisted Algorithms Mice Animals Mitochondria Imaging, Three-Dimensional
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Application of automated electron microscopy imaging and machine learning to characterise and quantify nanoparticle dispersion in aqueous media.

Journal of microscopy Dec 18, 2019
For many nanoparticle applications it is important to understand dispersion in liquids. For nanomedicinal and nanotoxicological research this is complicated by the often complex nature of the biological dispersant and ultimately this leads to severe ...
Automation Microscopy, Electron Biophysical Phenomena Machine Learning Culture Media Image Processing, Computer-Assisted Workflow Dynamic Light Scattering Nanoparticles Ferric Compounds Software Water
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Visual Correspondences for Unsupervised Domain Adaptation on Electron Microscopy Images.

IEEE transactions on medical imaging Oct 9, 2019
We present an Unsupervised Domain Adaptation strategy to compensate for domain shifts on Electron Microscopy volumes. Our method aggregates visual correspondences-motifs that are visually similar across different acquisitions-to infer changes on the ...
Algorithms Brain Unsupervised Machine Learning Mitochondria Microscopy, Electron Animals Image Processing, Computer-Assisted Mice
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Measurement-oriented deep-learning workflow for improved segmentation of myelin and axons in high-resolution images of human cerebral white matter.

Journal of neuroscience methods Aug 1, 2019
BACKGROUND: Standard segmentation of high-contrast electron micrographs (EM) identifies myelin accurately but does not translate easily into measurements of individual axons and their myelin, even in cross-sections of parallel fibers. We describe aut...
Cerebrum Image Interpretation, Computer-Assisted Microscopy, Electron White Matter Humans Deep Learning Myelin Sheath Axons Workflow Autopsy
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Learning cellular morphology with neural networks.

Nature communications Jun 21, 2019
Reconstruction and annotation of volume electron microscopy data sets of brain tissue is challenging but can reveal invaluable information about neuronal circuits. Significant progress has recently been made in automated neuron reconstruction as well...
Passeriformes Synapses Datasets as Topic Microscopy, Electron Image Processing, Computer-Assisted Feasibility Studies Neurons Neural Networks, Computer Animals Male Algorithms Brain
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Large Scale Image Segmentation with Structured Loss Based Deep Learning for Connectome Reconstruction.

IEEE transactions on pattern analysis and machine intelligence May 24, 2018
We present a method combining affinity prediction with region agglomeration, which improves significantly upon the state of the art of neuron segmentation from electron microscopy (EM) in accuracy and scalability. Our method consists of a 3D U-Net, t...
Deep Learning Imaging, Three-Dimensional Algorithms Animals Nerve Net Drosophila Cerebral Cortex Image Processing, Computer-Assisted Microscopy, Electron Mice Connectome Neurons
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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 Apr 11, 2018
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...
In Situ Nick-End Labeling Dose-Response Relationship, Drug Intravitreal Injections Animals Fibrinolytic Agents Retina Disease Models, Animal Mice Microscopy, Electron Xanthophylls Mice, Inbred BALB C Cell Proliferation Oxygen Retinal Diseases Random Allocation Apoptosis Animals, Newborn Hyperoxia
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TED: A Tolerant Edit Distance for segmentation evaluation.

Methods (San Diego, Calif.) Jan 17, 2017
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...
Microscopy, Electron Analysis of Variance Drosophila melanogaster Neurons Pattern Recognition, Automated Cerebral Cortex Animals Image Processing, Computer-Assisted Mice Humans Machine Learning
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Deep models for brain EM image segmentation: novel insights and improved performance.

Bioinformatics (Oxford, England) Mar 25, 2016
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...
Models, Theoretical Neural Networks, Computer Microscopy, Electron Algorithms Brain
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