# A Deep Learning Method for Simultaneous Denoising and Missing Wedge Reconstruction in Cryogenic Electron Tomography

arXiv: https://arxiv.org/abs/2311.05539 · HTML: https://mlsanity.com/paper/2311.05539/

## Key facts

- Cited by 7 papers in the map (data through 14 Oct 2026).
- Builds on 13 of its 49 references that are in the map.
- First posted on arXiv 9 Nov 2023.

## Builds on (most cited first, 13 of 13)

- [Adam: A Method for Stochastic Optimization](https://mlsanity.com/paper/1412.6980/) (2014)
- [PyTorch: An Imperative Style, High-Performance Deep Learning Library](https://mlsanity.com/paper/1912.01703/) (2019)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [Deep Image Prior](https://mlsanity.com/paper/1711.10925/) (2017)
- [Noise2Noise: Learning Image Restoration without Clean Data](https://mlsanity.com/paper/1803.04189/) (2018)
- [Noisier2Noise: Learning to Denoise from Unpaired Noisy Data](https://mlsanity.com/paper/1910.11908/) (2019)
- [Deep Decoder: Concise Image Representations from Untrained Non-convolutional Networks](https://mlsanity.com/paper/1810.03982/) (2018)
- [Denoising and Regularization via Exploiting the Structural Bias of Convolutional Generators](https://mlsanity.com/paper/1910.14634/) (2019)
- [Compressive sensing with un-trained neural networks: Gradient descent finds the smoothest approximation](https://mlsanity.com/paper/2005.03991/) (2020)
- [IDR: Self-Supervised Image Denoising via Iterative Data Refinement](https://mlsanity.com/paper/2111.14358/) (2021)
- [A theoretical framework for self-supervised MR image reconstruction using sub-sampling via variable density Noisier2Noise](https://mlsanity.com/paper/2205.10278/) (2022)
- [Cryo-CARE: Content-Aware Image Restoration for Cryo-Transmission Electron Microscopy Data](https://mlsanity.com/paper/1810.05420/) (2018)
- [Analyzing the Sample Complexity of Self-Supervised Image Reconstruction Methods](https://mlsanity.com/paper/2305.19079/) (2023)

## Built on by (most cited first, 7 of 7)

- [Noisier2Inverse: Self-Supervised Learning for Image Reconstruction with Correlated Noise](https://mlsanity.com/paper/2503.19468/) (2025)
- [Limited-Angle Tomography Reconstruction via Projector Guided 3D Diffusion](https://mlsanity.com/paper/2510.06516/) (2025)
- [CryoLVM: Self-supervised Learning from Cryo-EM Density Maps with Large Vision Models](https://mlsanity.com/paper/2602.02620/) (2026)
- [Cryo-SWAN: the Multi-Scale Wavelet-decomposition-inspired Autoencoder Network for molecular density representation of molecular volumes](https://mlsanity.com/paper/2603.03342/) (2026)
- [Physen-Noise2Noise: Physics-Guided Self-Supervised Defocus Deblurring with Bias Correction under Low-Light Conditions](https://mlsanity.com/paper/2605.24590/) (2026)
- [Unsupervised Deep Image Prior for Sparse-View and Limited-Angle Electron Tomography](https://mlsanity.com/paper/2605.27139/) (2026)
- [Advanced Brain Tissue Imaging with Data-Consistent Diffusion Priors in Laminographic X-Ray Nanoimaging](https://mlsanity.com/paper/2609.10456/) (2026)

## Abstract (arXiv)

Cryogenic electron tomography is a technique for imaging biological samples in 3D. A microscope collects a series of 2D projections of the sample, and the goal is to reconstruct the 3D density of the sample called the tomogram. Reconstruction is difficult as the 2D projections are noisy and can not be recorded from all directions, resulting in a missing wedge of information. Tomograms conventionally reconstructed with filtered back-projection suffer from noise and strong artifacts due to the missing wedge. Here, we propose a deep-learning approach for simultaneous denoising and missing wedge reconstruction called DeepDeWedge. The algorithm requires no ground truth data and is based on fitting a neural network to the 2D projections using a self-supervised loss. DeepDeWedge is simpler than current state-of-the-art approaches for denoising and missing wedge reconstruction, performs competitively and produces more denoised tomograms with higher overall contrast.