AIMC Topic: Cryoelectron Microscopy

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Computational modeling of membrane trafficking processes: From large molecular assemblies to chemical specificity.

Current opinion in cell biology Jul 12, 2023
In the last decade, molecular dynamics (MD) simulations have become an essential tool to investigate the molecular properties of membrane trafficking processes, often in conjunction with experimental approaches. The combination of MD simulations with...
Molecular Dynamics Simulation Cryoelectron Microscopy Artificial Intelligence
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De novo design of protein structure and function with RFdiffusion.

Nature Jul 11, 2023
There has been considerable recent progress in designing new proteins using deep-learning methods. Despite this progress, a general deep-learning framework for protein design that enables solution of a wide range of design challenges, including de no...
Catalytic Domain Cryoelectron Microscopy Hemagglutinin Glycoproteins, Influenza Virus Protein Binding Proteins Deep Learning
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AlphaFold and the future of structural biology.

Acta crystallographica. Section D, Structural biology Jul 1, 2023
This editorial acknowledges the transformative impact of new machine-learning methods, such as the use of AlphaFold, but also makes the case for the continuing need for experimental structural biology.
Protein Conformation Cryoelectron Microscopy Biology Crystallography, X-Ray Machine Learning
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AlphaFold and the future of structural biology.

IUCrJ Jul 1, 2023
This editorial acknowledges the transformative impact of new machine-learning methods, such as the use of AlphaFold, but also makes the case for the continuing need for experimental structural biology.
Crystallography, X-Ray Cryoelectron Microscopy Machine Learning Biology
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PickYOLO: Fast deep learning particle detector for annotation of cryo electron tomograms.

Journal of structural biology Jun 25, 2023
Particle localization (picking) in digital tomograms is a laborious and time-intensive step in cryogenic electron tomography (cryoET) analysis often requiring considerable user involvement, thus becoming a bottleneck for automated cryoET subtomogram ...
Image Processing, Computer-Assisted Electron Microscope Tomography Cryoelectron Microscopy Electrons Reproducibility of Results Deep Learning
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A large expert-curated cryo-EM image dataset for machine learning protein particle picking.

Scientific data Jun 22, 2023
Cryo-electron microscopy (cryo-EM) is a powerful technique for determining the structures of biological macromolecular complexes. Picking single-protein particles from cryo-EM micrographs is a crucial step in reconstructing protein structures. Howeve...
Artificial Intelligence Machine Learning Animals Proteins Humans Cryoelectron Microscopy
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Structures of sperm flagellar doublet microtubules expand the genetic spectrum of male infertility.

Cell Jun 8, 2023
Sperm motility is crucial for successful fertilization. Highly decorated doublet microtubules (DMTs) form the sperm tail skeleton, which propels the movement of spermatozoa. Using cryo-electron microscopy (cryo-EM) and artificial intelligence (AI)-ba...
Microtubule Proteins Sperm Tail Cryoelectron Microscopy Microtubules Semen Spermatozoa Artificial Intelligence Infertility, Male Male Sperm Motility Humans
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3D surface reconstruction of cellular cryo-soft X-ray microscopy tomograms using semisupervised deep learning.

Proceedings of the National Academy of Sciences of the United States of America Jun 5, 2023
Cryo-soft X-ray tomography (cryo-SXT) is a powerful method to investigate the ultrastructure of cells, offering resolution in the tens of nanometer range and strong contrast for membranous structures without requiring labeling or chemical fixation. T...
Cryoelectron Microscopy X-Rays Microscopy, Fluorescence Mammals Tomography, X-Ray Animals Deep Learning Image Processing, Computer-Assisted
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Residue-level error detection in cryoelectron microscopy models.

Structure (London, England : 1993) May 29, 2023
Building accurate protein models into moderate resolution (3-5 Å) cryoelectron microscopy (cryo-EM) maps is challenging and error prone. We have developed MEDIC (Model Error Detection in Cryo-EM), a robust statistical model that identifies local back...
Protein Conformation Cryoelectron Microscopy Proteins Models, Molecular Machine Learning
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In the Age of Machine Learning Cryo-EM Research is Still Necessary: A Path toward Precision Medicine.

Advanced biology May 28, 2023
Machine learning has proven useful in analyzing complex biological data and has greatly influenced the course of research in structural biology and precision medicine. Deep neural network models oftentimes fail to predict the structure of complex pro...
Precision Medicine Cryoelectron Microscopy Neural Networks, Computer Machine Learning Artificial Intelligence
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