ArticleNature methods2018
emClarity: software for high-resolution cryo-electron tomography and subtomogram averaging.
Article in Nature methods, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 161 papers.
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Who cites it
161 citing papers in PubMed.
- MxB N-Terminus Adopts a Stable α-Helix to Engage the HIV-1 Capsid Trimer Interface.bioRxiv : the preprint server for biology · 2026Article
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- 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
- FlyTomo: a streamlined software for on-the-fly cryo-ET data processing and diagnosis.Nature communications · 2026Article
- Article
- Applications and prospects of cryo-electron tomography in drug discovery and understanding disease.Current opinion in structural biology · 2026Review
- Cryo-FIB-enabled 3D imaging of biological specimens.Applied microscopy · 2026Review
- In situ structure determination of conformationally flexible targets using nextPYP.Nature protocols · 2026Review
- Bridging the Structural Gap: A Methodological Review of Cryo-Electron Microscopy for Underrepresented Viruses.Viruses · 2026Review
- Resolving structural heterogeneity in situ through cryogenic electron tomography.Current opinion in structural biology · 2026Review
- Gradient based refinement of CryoET tilt series alignment improves tomogram contrast and structure resolution.bioRxiv : the preprint server for biology · 2026Article
- Article
- Strategies for studying discrete heterogeneity in situ using cryo-electron tomography.Current opinion in structural biology · 2025Review
- Direct visualization of HIV-1 core nuclear import and its interplay with the nuclear pore.EMBO reports · 2025Article
- Structural basis for HIV-1 capsid adaption to a deficiency in IP6 packaging.Nature communications · 2025Article
- High-throughput cryo-electron tomography enables multiscale visualization of the inner life of microbes.Current opinion in structural biology · 2025Review
- HIV-1 nuclear import is selective and depends on both capsid elasticity and nuclear pore adaptability.Nature microbiology · 2025Article
- A practical look at cryo-electron tomography image processing: Key considerations for new biological discoveries.Current opinion in structural biology · 2025Review
- CryoDRGN-AI: neural ab initio reconstruction of challenging cryo-EM and cryo-ET datasets.Nature methods · 2025Article
- Unveiling the structural spectrum of SARS-CoV-2 fusion by in situ cryo-ET.Nature communications · 2025Article
101 more citing papers are in PubMed but not listed here.
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2 authors.
Funding
Abstract
Macromolecular complexes are intrinsically flexible and often challenging to purify for structure determination by single-particle cryo-electron microscopy (cryo-EM). Such complexes can be studied by cryo-electron tomography (cryo-ET) combined with subtomogram alignment and classification, which in exceptional cases achieves subnanometer resolution, yielding insight into structure-function relationships. However, it remains challenging to apply this approach to specimens that exhibit conformational or compositional heterogeneity or are present in low abundance. To address this, we developed emClarity ( https://github.com/bHimes/emClarity/wiki ), a GPU-accelerated image-processing package featuring an iterative tomographic tilt-series refinement algorithm that uses subtomograms as fiducial markers and a 3D-sampling-function-compensated, multi-scale principal component analysis classification method. We demonstrate that our approach offers substantial improvement in the resolution of maps and in the separation of different functional states of macromolecular complexes compared with current state-of-the-art software.
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