ArticleNature methods2020
DeepSTORM3D: dense 3D localization microscopy and PSF design by deep learning.
Article in Nature methods, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 123 papers.
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Who cites it
123 citing papers in PubMed, 306 citations in OpenAlex.
- AI-empowered super-resolution microscopy: a revolution in nanoscale cellular imaging.Nature methods · 2026Review
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- Deep Learning for Localization Microscopy in 2D and 3D.Accounts of chemical research · 2026Article
- Symmetric cancer spheroid-fibroblast organization revealed in 3D by high-throughput microscopy.Communications biology · 2026Article
- Chromatix: a differentiable, GPU-accelerated wave-optics library.Nature methods · 2026Article
- Efficient double helix detection with steerable filters.Biomedical optics express · 2026Article
- High-speed volumetric single-molecule imaging using dual-wavelength light sheets and PSF-engineered enhanced biplane detection.bioRxiv : the preprint server for biology · 2026Article
- O-SNAP uncovers nanoscale chromatin remodeling in dedifferentiation and stress responses.Nature communications · 2026Article
- Review of Machine Learning for Single-Particle Tracking: Methods, Challenges, and Biophysical Insights.Chemical & biomedical imaging · 2026Review
- Deep-learning endomicroscope with large field-of-view and depth-of-field for real-time in vivo imaging of epithelial cancer hallmarks.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Aberration-aware 3D localization microscopy via self-supervised neural-physics learning.Nature communications · 2026Article
- Machine Learning in Single-Molecule Tracking Analysis of Superresolution Optical Microscopy Data.Cells · 2026Review
- Chromatix: a differentiable, GPU-accelerated wave-optics library.bioRxiv : the preprint server for biology · 2026Article
- Revisiting PSF models: Unifying framework and high-performance implementation.Journal of microscopy · 2026Article
- Lightweight CycleGAN models for cross-modality image transformation and experimental quality assessment in fluorescence microscopy.Biomedical optics express · 2026Article
- Fabrication of Customized Diffractive Optics in under 10 Minutes via Single-Shot Grayscale Projection on a Consumer-Grade DLP System.ACS photonics · 2026Article
- Lysine demethylase 4A is a centrosome-associated protein required for centrosome integrity and genomic stability.The FEBS journal · 2026Article
- Deep Learning Super-Resolution Spectrometer Based on Fiber Random Laser With Ultrahigh Spectral Purity.Nanophotonics (Berlin, Germany) · 2026Article
- D‑Blur: A Deep Learning Approach for Mapping Subdiffraction Diffusion with Motion-Blurred Images.Chemical & biomedical imaging · 2025Article
63 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
10 authors at 2 institutions in 1 country.
Funding
Abstract
An outstanding challenge in single-molecule localization microscopy is the accurate and precise localization of individual point emitters in three dimensions in densely labeled samples. One established approach for three-dimensional single-molecule localization is point-spread-function (PSF) engineering, in which the PSF is engineered to vary distinctively with emitter depth using additional optical elements. However, images of dense emitters, which are desirable for improving temporal resolution, pose a challenge for algorithmic localization of engineered PSFs, due to lateral overlap of the emitter PSFs. Here we train a neural network to localize multiple emitters with densely overlapping Tetrapod PSFs over a large axial range. We then use the network to design the optimal PSF for the multi-emitter case. We demonstrate our approach experimentally with super-resolution reconstructions of mitochondria and volumetric imaging of fluorescently labeled telomeres in cells. Our approach, DeepSTORM3D, enables the study of biological processes in whole cells at timescales that are rarely explored in localization microscopy.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.