Advanced Electron Microscopy Techniques and Applications

The paper extends the Fourier shell correlation (FSC) to estimate resolution and denoise data from a single measurement in cryo-ET.

This study uses cryo-EM to analyze nanoscale structures of protein and polymer condensates, revealing core-shell morphologies and internal inhomogeneities.

This study uses electron tomography to analyze the internal structure of Mycoplasma mobile gliding machinery, revealing motor complexes and structural components involved in gliding.

TomoNet is a cryoET software pipeline with automatic particle picking and subtomogram averaging, achieving high-resolution 3D structures from flexible lattices.

This study uses cryoET to observe the 3D organization of dsDNA in viral particles, revealing a conserved 'rod-and-coil' structure and proposing a packaging mechanism.

The paper demonstrates rendering protein structures at the atomic level inside cells using a video game engine and provides tools for interactive visualization.

SegmA is a deep learning model that segments cryo-EM density maps into residue types, achieving 80% accuracy for nucleotides and improved amino acid detection after removing low-confidence regions.

blik is an open-source napari plugin for visualizing, annotating, and analyzing cryo-ET data with extensibility and modularity.

The paper introduces IsoVEM, a transformer-based algorithm for isotropic reconstruction in volume electron microscopy, improving axial resolution and repairing damaged sections.

This paper outlines a workflow for SRcryoCLEM, demonstrating its application using Vimentin and showing how it enables targeted imaging of intracellular components in situ.

This paper describes a chemical method to modify graphene oxide surfaces with amine-reactive groups for biochemical interactions in aqueous buffer.

The paper compares Janelia Fluor dyes and TMR for fluorescence preservation in EM-compatible in-resin CLEM, identifying JFX549 and JFX554 as optimal for signal intensity and background ratio.

The paper investigates whether super-resolution fluorescence imaging before cryoEM affects resolution, finding no detrimental effect.

This study uses cryo-ET to analyze the structure of thin filaments in human iPSC-derived cardiomyocytes and how they change with disease-related perturbations.

The paper provides an overview of the EMDB archive, its current holdings, recent updates, and future plans.

The paper introduces a method combining deep learning for density tracing with AlphaFold2 to improve protein structure modeling from cryo-EM maps and accurately assign chain identities in homo-multimers.

The paper introduces ATUM-Tomo, a hybrid method combining SEM and electron tomography for multi-scale ultrastructural analysis of cellular structures.

This paper introduces CrAI, a fully automatic method for detecting antibodies in cryo-EM densities, achieving faster and more accurate results than existing methods.

The paper introduces a 12-step protocol called ODeCO to infiltrate osmium in whole mouse brains, preserving ultrastructure for connectome mapping.

This work integrates AlphaFold with a deep learning tool, CryoFEM, to improve the accuracy of 3-D atomic models built from cryo-EM maps.

This paper introduces a normalized local filter to estimate compositional heterogeneity in cryo-EM maps and demonstrates its utility for interpretation and signal subtraction.

This paper introduces photoemission electron microscopy (PEEM) as a new method for connectomics, offering synaptic resolution and faster imaging compared to traditional TEM and SEM.

This study introduces an energy-aware pathfinding algorithm to identify preferred conformational transition paths in high-dimensional cryo-EM data.

This paper introduces Smart Leginon Autoscreen, an automated cryoEM grid screening system that reduces operator time from 6 hours to 10 minutes for 12 grids using machine learning and computer vision.

This paper introduces a method for rehydrating freeze-substituted brain tissue to enable immunolabeling while preserving ultrastructure for electron microscopy.

doubleHelix identifies and validates nucleic acid sequences in cryo-EM and crystal structures, improving accuracy at lower resolutions and detecting errors missed by existing methods.

This paper proposes a method to reconstruct 3D structures from cryo-EM micrographs without detecting individual particles, aiming to improve detection of small molecules.

The paper investigates how support grid design in cryo-TEM affects fluorescence microscopy illumination and demonstrates improvements in super-resolution image quality through optimal grid selection.

The paper introduces a vCLEM method using fluorescent scFvs to combine molecular labeling with ssEM, revealing new cell types and subcellular features in mouse cerebellar cortex.