Electron microscopy studies of soft nanomaterials

Z Lyu, L Yao, W Chen, FC Kalutantirige… - Chemical …, 2023‏ - ACS Publications
This review highlights recent efforts on applying electron microscopy (EM) to soft (including
biological) nanomaterials. We will show how developments of both the hardware and …

Isotropic reconstruction for electron tomography with deep learning

YT Liu, H Zhang, H Wang, CL Tao, GQ Bi… - Nature …, 2022‏ - nature.com
Cryogenic electron tomography (cryoET) allows visualization of cellular structures in situ.
However, anisotropic resolution arising from the intrinsic “missing-wedge” problem has …

Electron microscopy holdings of the Protein Data Bank: the impact of the resolution revolution, new validation tools, and implications for the future

SK Burley, HM Berman, W Chiu, W Dai, JW Flatt… - Biophysical …, 2022‏ - Springer
As a discipline, structural biology has been transformed by the three-dimensional electron
microscopy (3DEM)“Resolution Revolution” made possible by convergence of robust cryo …

High-throughput cryo-ET structural pattern mining by unsupervised deep iterative subtomogram clustering

X Zeng, A Kahng, L Xue, J Mahamid… - Proceedings of the …, 2023‏ - pnas.org
Cryoelectron tomography directly visualizes heterogeneous macromolecular structures in
their native and complex cellular environments. However, existing computer-assisted …

Deep learning improves macromolecule identification in 3D cellular cryo-electron tomograms

E Moebel, A Martinez-Sanchez, L Lamm, RD Righetto… - Nature …, 2021‏ - nature.com
Cryogenic electron tomography (cryo-ET) visualizes the 3D spatial distribution of
macromolecules at nanometer resolution inside native cells. However, automated …

Big data in contemporary electron microscopy: challenges and opportunities in data transfer, compute and management

D Poger, L Yen, F Braet - Histochemistry and Cell Biology, 2023‏ - Springer
The second decade of the twenty-first century witnessed a new challenge in the handling of
microscopy data. Big data, data deluge, large data, data compliance, data analytics, data …

[HTML][HTML] Accurate size-based protein localization from cryo-ET tomograms

W **, Y Zhou, A Bartesaghi - Journal of Structural Biology: X, 2024‏ - Elsevier
Cryo-electron tomography (cryo-ET) combined with sub-tomogram averaging (STA) allows
the determination of protein structures imaged within the native context of the cell at near …

ScanEV–A neural network-based tool for the automated detection of extracellular vesicles in TEM images

I Nikishin, R Dulimov, G Skryabin, S Galetsky… - Micron, 2021‏ - Elsevier
Transmission electron microscopy (TEM) is the most widely accepted method for
visualization of extracellular vesicles (EVs), and particularly, exosomes. TEM images …

Computational methods toward unbiased pattern mining and structure determination in cryo-electron tomography data

HHS Kim, MR Uddin, M Xu, YW Chang - Journal of molecular biology, 2023‏ - Elsevier
Cryo-electron tomography can uniquely probe the native cellular environment for
macromolecular structures. Tomograms feature complex data with densities of diverse …

VP-Detector: A 3D multi-scale dense convolutional neural network for macromolecule localization and classification in cryo-electron tomograms

Y Hao, X Wan, R Yan, Z Liu, J Li, S Zhang, X Cui… - Computer Methods and …, 2022‏ - Elsevier
Background and objective: Cryo-electron tomography (cryo-ET) with subtomogram
averaging (STA) is indispensable when studying macromolecule structures and functions in …