Advanced Electron Microscopy Techniques and Applications

Strategies for Mitigating Radiation Damage and Improving Data Completeness in 3D Electron Diffraction of Protein Crystals

This paper introduces a method to reduce radiation damage and improve data completeness in 3D electron diffraction by using multi-position acquisition from multiple crystals.

CryoDDM: CryoEM denoising diffusion model for heterogeneous conformational reconstruction

CryoDDM improves cryo-EM reconstruction by denoising images to capture conformational heterogeneity, validated on proteasome, membrane protein, and spike protein datasets.

EMCF ecosystem: Towards pretrained foundation model for electron microscopy image analysis

The paper introduces EMCFsys, an ecosystem for electron microscopy image analysis, improving image restoration and analysis efficiency with a benchmark dataset, foundation model, and restoration model.

An integrated workflow for structural virology with a 100 keV electron microscope

This paper describes a user-managed 100 keV electron microscope setup for structural virology, enabling high-quality cryo-EM data collection and analysis within a laboratory setting.

Leveraging CryoEM and AI-Driven Morphological Feature Analysis for Insights on Bacterial Structures

This paper develops an AI-driven workflow for automated analysis of bacterial ultrastructure in cryoEM data, enabling rapid and accurate quantification of membrane thickness, flagella length, and bacterial arrangement.

Accurate protein structure determination from cryo-EM maps using deep learning and structure prediction

EMProt improves protein structure determination from cryo-EM maps using a three-track attention network, outperforming existing methods in accuracy and completeness.

Live-HPF CLEM using the HPM Live μ: Finding back all needles in every haystack. The last frontier in CLEM

The paper introduces a redesigned workflow for live high-pressure freezing correlative light and electron microscopy (CLEM) that enables routine tracking and retrieval of rapidly moving endosomes with high confidence.

Nanoscale imaging of native symbiotic animal tissue using amultimodal large volume imaging pipeline for cryo-electrontomography

The paper develops a multimodal imaging pipeline to enable cryo-ET of symbiotic tissues, revealing nanoscale structural details of host-microbe interactions in Hawaiian bobtail squid.

ExoSloNano: Multi-Modal Nanogold Tags for identi-fication of Macromolecules in Live Cells & Cryo-Electron Tomograms

This paper introduces nanogold probes for identifying proteins in live cells and cryo-ET tomograms, enhancing proteome accessibility for electron microscopy.

A comprehensive foundation model for cryo-EM image processing

The paper introduces a foundation model and automated pipeline for cryo-EM image processing, improving efficiency and quality assessment in structural biology.

Azimuthal Segment Imaging in cryo-STEM Tomography

This paper introduces parallax-filtered cryo-STET imaging to enhance contrast in thick biological specimens, demonstrating improvements over traditional STEM methods.

Shadow Montage and Cone-Beam Reconstruction in 4D-STEM Tomography

The paper introduces a method for 4D-STEM tomography using shadow montage and cone-beam reconstruction to create 3D shadow volumes from single datasets.

DIRECT CALCULATION OF VARIABLE-RESOLUTION MAPS BY FULLY ANALYTIC APPROXIMATIONS TO ATOMIC IMAGES

The paper introduces a method to calculate variable-resolution maps using analytic shell-function approximations to atomic images, enabling comparison with experimental cryo-EM maps.

ETSAM: Effectively Segmenting Cell Membranes in cryo-Electron Tomograms

ETSAM is a fine-tuned AI method for segmenting cell membranes in cryo-ET tomograms, achieving state-of-the-art performance on an independent test set.

OPUS-ET: Resolving Compositional and Conformational Heterogeneities of Biomolecules in Cryo-Electron Tomography

OPUS-ET improves cryo-ET resolution by resolving compositional and conformational heterogeneities using a deep learning framework, achieving sub-nanometer reconstructions and revealing structural dynamics in biomolecules.

Microsecond Time-Resolved Cryo-EM Based on Jet Vitrification

This paper introduces a method to achieve microsecond time resolution in cryo-EM using jet vitrification, enabling observation of protein dynamics with near-atomic resolution.

Structures of human organellar SPFH protein complexes

The paper reports cryo-EM structures of two human SPFH protein complexes, revealing their stoichiometry and architectural features.

MISO: Microfluidic protein isolation enables single particle cryo-EM structure determination from a single cell colony

The paper introduces MISO, a method combining microfluidics and cryo-EM to determine protein structures from single cell colonies with high sensitivity.

Automated filtering of particle images in single particle cryoEM

This paper introduces a deep learning method to improve single particle cryoEM data quality by automatically filtering noisy images using denoising and domain adaptation neural networks.

CryoLike: A python package for cryo-electron microscopy image-to-structure likelihood calculations

CryoLike evaluates image-to-structure likelihoods for cryo-EM data using Fourier-Bessel representations to improve computational efficiency.

CryoSiam: self-supervised representation learning for automated analysis of cryo-electron tomograms

CryoSiam is a self-supervised framework for cryo-ET data analysis that learns hierarchical representations and transfers to experimental data for denoising, segmentation, and macromolecular detection.

CryoSift - An accessible and automated CNN-driven tool for cryo-EM 2D class selection

CryoSift automates 2D class selection in cryo-EM by using a CNN to assess particle quality, enabling high-throughput processing for high-resolution reconstructions.

Topological defects drive influenza glycoprotein lattice assembly on spherical membranes

The paper studies the structural arrangement of the influenza C virus surface, finding hexagonal HEF lattice defects that align with theoretical predictions for curved lattices.

Electron Cryo-Tomography Reveals the Caulobacter vibrioidesTight Adherence Pilus Architecture

The paper uses electron cryo-tomography to determine the architecture of the Tad pilus in Caulobacter vibrioides and proposes an assembly model.

In situ structural analysis of mammalian cells using a 200 kV electron cryomicroscope: implications for research infrastructure.

This study shows that 200 kV electron cryomicroscopes can perform electron cryotomography on mammalian cells, producing high-quality data for structural analysis.

Localization of Macromolecules in Crowded Cellular Cryo-electron Tomograms from Extremely Sparse Labels

TomoPicker is a macromolecule localization method for cryo-ET tomograms that achieves comparable performance to supervised methods with significantly fewer annotations.

Multimodal deep learning integration of cryo-EM and AlphaFold3 for high-accuracy protein structure determination

The paper introduces MICA, a deep learning method that combines cryo-EM density maps and AlphaFold3 predictions to improve protein structure modeling accuracy and completeness.

Spatial organization of assemblies of protein complexes by colocalization analysis

The paper introduces a parameter-free method for analyzing colocalization in cryo-electron tomograms to study spatial organization of protein complexes.

Helicon: Helical indexing and 3D reconstruction from one image

Helicon enables helical indexing and 3D reconstruction from a single 2D image using linear regression and regularization techniques.

Mix-it-up: Accessible time-resolved cryo-EM on the millisecond timescale

The paper introduces Mix-it-up, a method for rapid on-grid mixing and vitrification in cryo-EM to capture fast biochemical processes, demonstrating its effectiveness with high-resolution structural analysis.