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Updated: Aug 10, 2025

Deep Learning-Based Segmentation of Cryo-Electron Tomograms
Published on: November 11, 2022
A small-dataset-trained deep learning framework for identifying atoms on transmission electron microscopy images
Yuan Chen1, Shangpeng Liu1, Peiran Tong2
1College of Electronic Engineering, South China Agricultural University, Guangzhou, 510642, Guangdong, China.
Deep learning (DL) accurately identifies atoms in noisy transmission electron microscope images using a small dataset. This method enhances atom identification for challenging materials and dynamic processes.
Area of Science:
- Materials Science
- Microscopy
- Artificial Intelligence
Background:
- Transmission electron microscopy (TEM) is crucial for atomic-scale imaging.
- Analyzing noisy or low-dose TEM images for precise atom identification remains challenging.
- Current methods struggle with limited datasets and beam-sensitive materials.
Purpose of the Study:
- To develop a deep learning (DL) approach for accurate atom identification in noisy TEM images.
- To enable element discernment at the atomic level.
- To train DL models effectively with small experimental datasets.
Main Methods:
- A deep learning network was designed with a specialized loss function for feature extraction.
- The network was trained on a small dataset of approximately 30 experimental TEM images (256x256 pixels).
- Model performance was validated using graphene and PbTiO3/SrTiO3 multilayer structures, including simulated noisy images.
Main Results:
- The DL network achieved accurate atom identification and element discernment on noisy TEM images.
- The model demonstrated robustness by correctly analyzing images with randomly lost pixel intensities.
- Successful application to resolve structural defects in graphene and polar structures in multilayers was confirmed.
Conclusions:
- A DL framework trained on small datasets can effectively identify atoms in noisy TEM images.
- This approach offers potential for analyzing beam-sensitive materials and dynamic atomic processes.
- The DL methodology provides a valuable framework for diverse scientific applications requiring small-dataset training.
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