ArticleNature communications2024
High-confidence 3D template matching for cryo-electron tomography.
Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- High-resolution nuclear cell biology by cryo-electron tomography.Nucleus (Austin, Tex.) · 2026Review
- Visualization of membrane-stabilized SorCS2Journal of structural biology: X · 2026Article
- A bifunctional RNase H protein supports DNA replication and transcription in nucleus-formingbioRxiv : the preprint server for biology · 2026Article
- Lessons learned from a Kaggle challenge for particle picking in cryo-electron tomography.Nature methods · 2026Article
- Article
- Semi-supervised clustering with knowledge-guided representation learning in cryo-electron tomography.PLOS digital health · 2026Article
- CoCryoViS: Collaborative online cryo-electron tomography visualization system.Protein science : a publication of the Protein Society · 2026Article
- Labeling and Localization Strategies for In Situ Cryo-Electron Tomography Across the Viral Life Cycle.Viruses · 2026Review
- Molecular architecture of heterochromatin at the nuclear periphery of primary human cells.Nature communications · 2026Article
- Applications and prospects of cryo-electron tomography in drug discovery and understanding disease.Current opinion in structural biology · 2026Review
- Structural flexibility of the human vault particle revealed by high-resolution cryo-EM and molecular dynamics simulations.Nature communications · 2026Article
- copick: An open dataset interface and toolkit for collaborative annotation and analysis of cryo-electron tomography data.Protein science : a publication of the Protein Society · 2026Article
- The vault associates with membranes in situ.Nature communications · 2026Article
- Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.Acta crystallographica. Section D, Structural biology · 2026Article
- TANGO: Analysis and curation of particles in cryo-electron tomography.Nature communications · 2026Article
- Cathepsin-dependent amyloid formation drives mechanical rupture of lysosomal membranes.bioRxiv : the preprint server for biology · 2026Article
- ExoSloNano: multimodal nanogold labels for identification of macromolecules in live cells and cryo-electron tomograms.Nature methods · 2026Article
- Automated removal of corrupted tilts in cryo-electron tomography.Journal of structural biology: X · 2025Article
- Structures of human organellar SPFH protein complexes.Nature communications · 2025Article
- PickET: An unsupervised method for localizing macromolecules in cryo-electron tomograms.Research square · 2025Article
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Visual proteomics attempts to build atlases of the molecular content of cells but the automated annotation of cryo electron tomograms remains challenging. Template matching (TM) and methods based on machine learning detect structural signatures of macromolecules. However, their applicability remains limited in terms of both the abundance and size of the molecular targets. Here we show that the performance of TM is greatly improved by using template-specific search parameter optimization and by including higher-resolution information. We establish a TM pipeline with systematically tuned parameters for the automated, objective and comprehensive identification of structures with confidence 10 to 100-fold above the noise level. We demonstrate high-fidelity and high-confidence localizations of nuclear pore complexes, vaults, ribosomes, proteasomes, fatty acid synthases, lipid membranes and microtubules, and individual subunits inside crowded eukaryotic cells. We provide software tools for the generic implementation of our method that is broadly applicable towards realizing visual proteomics.
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