It’s noisy out there! A review of denoising techniques in cryo-electron tomography

Multi-particle cryo-EM refinement with M visualizes ribosome-antibiotic complex at 3.5 Å in cells

(2021) Dimitry Tegunov et al.   NATURE METHODS

A survey on applications of deep learning in microscopy image analysis

(2021) Zhichao Liu et al.   COMPUTERS IN BIOLOGY AND MEDICINE

An interactive ImageJ plugin for semi-automated image denoising in electron microscopy

(2020) Joris Roels et al.   Nature Communications

Desmosome architecture derived from molecular dynamics simulations and cryo-electron tomography

(2020) Mateusz Sikora et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

In situ structural analysis of SARS-CoV-2 spike reveals flexibility mediated by three hinges

(2020) Beata Turoňová et al.   SCIENCE

Topaz-Denoise: general deep denoising models for cryoEM and cryoET

(2020) Tristan Bepler et al.   Nature Communications

DeepRes: a new deep-learning- and aspect-based local resolution method for electron-microscopy maps

(2019) Erney Ramírez-Aportela et al.   IUCrJ

Analysis of Global and Site-Specific Radiation Damage in Cryo-EM

(2018) Johan Hattne et al.   STRUCTURE

On cross-correlations, averages and noise in electron microscopy

(2018) Michael Radermacher et al.   Acta Crystallographica Section F-Structural Biology Communications

Three-dimensional CTF correction improves the resolution of electron tomograms

(2017) Michael Kunz et al.   JOURNAL OF STRUCTURAL BIOLOGY

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

(2017) Muyuan Chen et al.   NATURE METHODS

Denoising and covariance estimation of single particle cryo-EM images

(2016) Tejal Bhamre et al.   JOURNAL OF STRUCTURAL BIOLOGY

Measuring the optimal exposure for single particle cryo-EM using a 2.6 Å reconstruction of rotavirus VP6

(2015) Timothy Grant et al.   eLife

Principles of cryo-EM single-particle image processing

(2015) Fred J. Sigworth   Microscopy

Super-sampling SART with ordered subsets

(2014) Michael Kunz et al.   JOURNAL OF STRUCTURAL BIOLOGY

Maximizing the potential of electron cryomicroscopy data collected using direct detectors

(2013) David Veesler et al.   JOURNAL OF STRUCTURAL BIOLOGY

Improving the quality of electron tomography image volumes using pre-reconstruction filtering

(2012) Mauro Maiorca et al.   JOURNAL OF STRUCTURAL BIOLOGY

An effective and objective criterion for evaluating the performance of denoising filters

(2012) Yingtao Zhang et al.   PATTERN RECOGNITION

Clustering and variance maps for cryo-electron tomography using wedge-masked differences

(2011) John M. Heumann et al.   JOURNAL OF STRUCTURAL BIOLOGY

PyTom: A python-based toolbox for localization of macromolecules in cryo-electron tomograms and subtomogram analysis

(2011) Thomas Hrabe et al.   JOURNAL OF STRUCTURAL BIOLOGY

An optimized locally adaptive non-local means denoising filter for cryo-electron microscopy data

(2010) Dai-Yu Wei et al.   JOURNAL OF STRUCTURAL BIOLOGY

Contrast transfer function correction applied to cryo-electron tomography and sub-tomogram averaging

(2009) Giulia Zanetti et al.   JOURNAL OF STRUCTURAL BIOLOGY

Stripe and ring artifact removal with combined wavelet—Fourier filtering

(2009) Beat Münch et al.   OPTICS EXPRESS

Evaluation of denoising algorithms for biological electron tomography

(2008) Rajesh Narasimha et al.   JOURNAL OF STRUCTURAL BIOLOGY

A visualization and segmentation toolbox for electron microscopy

(2008) Sabine Pruggnaller et al.   JOURNAL OF STRUCTURAL BIOLOGY

Computational resources for cryo-electron tomography in Bsoft

(2007) J. Bernard Heymann et al.   JOURNAL OF STRUCTURAL BIOLOGY