ArticleNature methods2024
CryoDRGN-ET: deep reconstructing generative networks for visualizing dynamic biomolecules inside cells.
Article in Nature methods, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- MemBrain v2: an end-to-end tool for the analysis of membranes in cryo-electron tomography.Nature methods · 2026Article
- Convergence of cryo-electron microscopy and artificial intelligence in integrative structural biology: A critical review of advances, synergies, and implications for molecular biophysics and drug discovery.Journal of microscopy · 2026Review
- Lessons learned from a Kaggle challenge for particle picking in cryo-electron tomography.Nature methods · 2026Article
- CoCryoViS: Collaborative online cryo-electron tomography visualization system.Protein science : a publication of the Protein Society · 2026Article
- FlyTomo: a streamlined software for on-the-fly cryo-ET data processing and diagnosis.Nature communications · 2026Article
- Particles of echovirus 18 open to release their genomes in vivo.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- SNOR promotes translation restart after dormancy.Nature · 2026Article
- The evolving landscape of molecular visualization.Protein science : a publication of the Protein Society · 2026Review
- A Novel Eukaryotic Ribosome Factor Enables Translation Restart Following Cellular Dormancy.bioRxiv : the preprint server for biology · 2026Article
- Integrated experimental and AI innovations for RNA structure determination.Nature biotechnology · 2026Review
- Resolving structural heterogeneity in situ through cryogenic electron tomography.Current opinion in structural biology · 2026Review
- Decoding intrinsically disordered regions in biomolecular condensates.Fundamental research · 2026Review
- Comparing cryo-EM methods and molecular dynamics simulation to investigate heterogeneity in ligand-bound TRPV1.Nature communications · 2025Article
- There and back again: a cell biologist's journey from organelles to molecules.Biological chemistry · 2025Review
- Strategies for studying discrete heterogeneity in situ using cryo-electron tomography.Current opinion in structural biology · 2025Review
- MIFA: Metadata, Incentives, Formats and Accessibility guidelines to improve the reuse of AI datasets for bioimage analysis.Nature methods · 2025Review
- A realistic phantom dataset for benchmarking cryo-ET data annotation.Nature methods · 2025Article
- An approach for coherent periodogram averaging of tilt-series data for improved contrast transfer function estimation.FEBS open bio · 2025Article
- A generalizable and targeted molecular biopsy approach for in situ cryogenic electron tomography of vitreous brain tissue.Cell reports methods · 2025Article
- CryoDRGN-AI: neural ab initio reconstruction of challenging cryo-EM and cryo-ET datasets.Nature methods · 2025Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Advances in cryo-electron tomography (cryo-ET) have produced new opportunities to visualize the structures of dynamic macromolecules in native cellular environments. While cryo-ET can reveal structures at molecular resolution, image processing algorithms remain a bottleneck in resolving the heterogeneity of biomolecular structures in situ. Here, we introduce cryoDRGN-ET for heterogeneous reconstruction of cryo-ET subtomograms. CryoDRGN-ET learns a deep generative model of three-dimensional density maps directly from subtomogram tilt-series images and can capture states diverse in both composition and conformation. We validate this approach by recovering the known translational states in Mycoplasma pneumoniae ribosomes in situ. We then perform cryo-ET on cryogenic focused ion beam-milled Saccharomyces cerevisiae cells. CryoDRGN-ET reveals the structural landscape of S. cerevisiae ribosomes during translation and captures continuous motions of fatty acid synthase complexes inside cells. This method is openly available in the cryoDRGN software.
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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.