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Electron Microscope Tomography

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Deep learning-based subdivision approach for large scale macromolecules structure recovery from electron cryo tomograms.

Bioinformatics (Oxford, England)
MOTIVATION: Cellular Electron CryoTomography (CECT) enables 3D visualization of cellular organization at near-native state and in sub-molecular resolution, making it a powerful tool for analyzing structures of macromolecular complexes and their spati...

Convolutional neural networks for automated annotation of cellular cryo-electron tomograms.

Nature methods
Cellular electron cryotomography offers researchers the ability to observe macromolecules frozen in action in situ, but a primary challenge with this technique is identifying molecular components within the crowded cellular environment. We introduce ...

Automatic localization and identification of mitochondria in cellular electron cryo-tomography using faster-RCNN.

BMC bioinformatics
BACKGROUND: Cryo-electron tomography (cryo-ET) enables the 3D visualization of cellular organization in near-native state which plays important roles in the field of structural cell biology. However, due to the low signal-to-noise ratio (SNR), large ...

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

Nature methods
Cryogenic electron tomography (cryo-ET) visualizes the 3D spatial distribution of macromolecules at nanometer resolution inside native cells. However, automated identification of macromolecules inside cellular tomograms is challenged by noise and rec...

Label-free multiplexed microtomography of endogenous subcellular dynamics using generalizable deep learning.

Nature cell biology
Simultaneous imaging of various facets of intact biological systems across multiple spatiotemporal scales is a long-standing goal in biology and medicine, for which progress is hindered by limits of conventional imaging modalities. Here we propose us...

Macromolecules Structural Classification With a 3D Dilated Dense Network in Cryo-Electron Tomography.

IEEE/ACM transactions on computational biology and bioinformatics
Cryo-electron tomography, combined with subtomogram averaging (STA), can reveal three-dimensional (3D) macromolecule structures in the near-native state from cells and other biological samples. In STA, to get a high-resolution 3D view of macromolecul...

Low-Dose Sparse-View HAADF-STEM-EDX Tomography of Nanocrystals Using Unsupervised Deep Learning.

ACS nano
High-angle annular dark-field (HAADF) scanning transmission electron microscopy (STEM) can be acquired together with energy dispersive X-ray (EDX) spectroscopy to give complementary information on the nanoparticles being imaged. Recent deep learning ...

MemBrain: A deep learning-aided pipeline for detection of membrane proteins in Cryo-electron tomograms.

Computer methods and programs in biomedicine
BACKGROUND AND OBJECTIVE: Cryo-electron tomography (cryo-ET) is an imaging technique that enables 3D visualization of the native cellular environment at sub-nanometer resolution, providing unpreceded insights into the molecular organization of cells....

Volumetric macromolecule identification in cryo-electron tomograms using capsule networks.

BMC bioinformatics
BACKGROUND: Despite recent advances in cellular cryo-electron tomography (CET), developing automated tools for macromolecule identification in submolecular resolution remains challenging due to the lack of annotated data and high structural complexit...