AIMC Topic: Cryoelectron Microscopy

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Cryo-EM images of phase-separated lipid bilayer vesicles analyzed with a machine-learning approach.

Biophysical journal Apr 30, 2024
Lateral lipid heterogeneity (i.e., raft formation) in biomembranes plays a functional role in living cells. Three-component mixtures of low- and high-melting lipids plus cholesterol offer a simplified experimental model for raft domains in which a li...
Lipid Bilayers Cryoelectron Microscopy Machine Learning Image Processing, Computer-Assisted
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A suite of designed protein cages using machine learning and protein fragment-based protocols.

Structure (London, England : 1993) Mar 20, 2024
Designed protein cages and related materials provide unique opportunities for applications in biotechnology and medicine, but their creation remains challenging. Here, we apply computational approaches to design a suite of tetrahedrally symmetric, se...
Molecular Docking Simulation Proteins Machine Learning Protein Conformation Cryoelectron Microscopy Models, Molecular Hydrophobic and Hydrophilic Interactions
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An RNA origami robot that traps and releases a fluorescent aptamer.

Science advances Mar 20, 2024
RNA nanotechnology aims to use RNA as a programmable material to create self-assembling nanodevices for application in medicine and synthetic biology. The main challenge is to develop advanced RNA robotic devices that both sense, compute, and actuate...
Coloring Agents RNA Nucleic Acid Conformation Cryoelectron Microscopy Robotics Nanostructures Oligonucleotides Nanotechnology
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DeepETPicker: Fast and accurate 3D particle picking for cryo-electron tomography using weakly supervised deep learning.

Nature communications Mar 7, 2024
To solve three-dimensional structures of biological macromolecules in situ, large numbers of particles often need to be picked from cryo-electron tomograms. However, adoption of automated particle-picking methods remains limited because of their tech...
Cryoelectron Microscopy Electron Microscope Tomography Deep Learning Image Processing, Computer-Assisted
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Miffi: Improving the accuracy of CNN-based cryo-EM micrograph filtering with fine-tuning and Fourier space information.

Journal of structural biology Feb 29, 2024
Efficient and high-accuracy filtering of cryo-electron microscopy (cryo-EM) micrographs is an emerging challenge with the growing speed of data collection and sizes of datasets. Convolutional neural networks (CNNs) are machine learning models that ha...
Neural Networks, Computer Machine Learning Software Algorithms Image Processing, Computer-Assisted Cryoelectron Microscopy
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Automated model building and protein identification in cryo-EM maps.

Nature Feb 26, 2024
Interpreting electron cryo-microscopy (cryo-EM) maps with atomic models requires high levels of expertise and labour-intensive manual intervention in three-dimensional computer graphics programs. Here we present ModelAngelo, a machine-learning approa...
Cryoelectron Microscopy Computer Graphics Protein Conformation Proteins Models, Molecular Neural Networks, Computer Amino Acid Sequence Machine Learning Markov Chains
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Computational drug development for membrane protein targets.

Nature biotechnology Feb 15, 2024
The application of computational biology in drug development for membrane protein targets has experienced a boost from recent developments in deep learning-driven structure prediction, increased speed and resolution of structure elucidation, machine ...
Cryoelectron Microscopy Machine Learning Computational Biology Membrane Proteins Drug Development
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Predictive modeling and cryo-EM: A synergistic approach to modeling macromolecular structure.

Biophysical journal Jan 23, 2024
Over the last 15 years, structural biology has seen unprecedented development and improvement in two areas: electron cryo-microscopy (cryo-EM) and predictive modeling. Once relegated to low resolutions, single-particle cryo-EM is now capable of achie...
Protein Conformation Cryoelectron Microscopy Proteins Macromolecular Substances Models, Molecular Machine Learning
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DeepQs: Local quality assessment of cryo-EM density map by deep learning map-model fit score.

Journal of structural biology Dec 30, 2023
Cryogenic electron microscopy maps are valuable for determining macromolecule structures. A proper quality assessment method is essential for cryo-EM map selection or revision. This article presents DeepQs, a novel approach to estimate local quality ...
Microscopy, Electron Deep Learning Cryoelectron Microscopy Algorithms Protein Conformation Models, Molecular
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A deep learning approach to the automatic detection of alignment errors in cryo-electron tomographic reconstructions.

Journal of structural biology Dec 14, 2023
Electron tomography is an imaging technique that allows for the elucidation of three-dimensional structural information of biological specimens in a very general context, including cellular in situ observations. The approach starts by collecting a se...
Electrons Cryoelectron Microscopy Deep Learning Electron Microscope Tomography Algorithms Image Processing, Computer-Assisted
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