ArticleJournal of structural biology2013
A collaborative framework for 3D alignment and classification of heterogeneous subvolumes in cryo-electron tomography.
Article in Journal of structural biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Strategies for studying discrete heterogeneity in situ using cryo-electron tomography.Current opinion in structural biology · 2025Review
- A novel subject-wise dictionary learning approach using multi-subject fMRI spatial and temporal components.Scientific reports · 2023Article
- High-resolution structure determination using high-throughput electron cryo-tomography.Acta crystallographica. Section D, Structural biology · 2022Review
- Synergies are minimally affected during emulation of cerebral palsy gait patterns.Journal of biomechanics · 2022Article
- Gum-Net: Unsupervised Geometric Matching for Fast and Accurate 3D Subtomogram Image Alignment and Averaging.Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition · 2020Article
- De Novo Structural Pattern Mining in Cellular Electron Cryotomograms.Structure (London, England : 1993) · 2019Article
- Phantoms models to characterize influenza hemagglutinin-based vaccines.Microscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada · 2017Article
- Mapping of Ebolavirus Neutralization by Monoclonal Antibodies in the ZMapp Cocktail Using Cryo-Electron Tomography and Studies of Cellular Entry.Journal of virology · 2016Article
- Article
- Electron Tomography: A Three-Dimensional Analytic Tool for Hard and Soft Materials Research.Advanced materials (Deerfield Beach, Fla.) · 2015Review
- Covariance Matrix Estimation for the Cryo-EM Heterogeneity Problem.SIAM journal on imaging sciences · 2015Article
- High-resolution cryo-electron microscopy on macromolecular complexes and cell organelles.Protoplasma · 2014Review
- Practical workflow for cryo focused-ion-beam milling of tissues and cells for cryo-TEM tomography.Journal of structural biology · 2014Article
- Conformational States of macromolecular assemblies explored by integrative structure calculation.Structure (London, England : 1993) · 2013Article
- Glutamate receptor desensitization is mediated by changes in quaternary structure of the ligand binding domain.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- HIV-1 envelope glycoprotein structure.Current opinion in structural biology · 2013Review
- Structure and accessibility of HA trimers on intact 2009 H1N1 pandemic influenza virus to stem region-specific neutralizing antibodies.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Protein secondary structure determination by constrained single-particle cryo-electron tomography.Structure (London, England : 1993) · 2012Article
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Authors and funding
6 authors.
Funding
Abstract
The limitation of using low electron doses in non-destructive cryo-electron tomography of biological specimens can be partially offset via averaging of aligned and structurally homogeneous subsets present in tomograms. This type of sub-volume averaging is especially challenging when multiple species are present. Here, we tackle the problem of conformational separation and alignment with a "collaborative" approach designed to reduce the effect of the "curse of dimensionality" encountered in standard pair-wise comparisons. Our new approach is based on using the nuclear norm as a collaborative similarity measure for alignment of sub-volumes, and by exploiting the presence of symmetry early in the processing. We provide a strict validation of this method by analyzing mixtures of intact simian immunodeficiency viruses SIV mac239 and SIV CP-MAC. Electron microscopic images of these two virus preparations are indistinguishable except for subtle differences in conformation of the envelope glycoproteins displayed on the surface of each virus particle. By using the nuclear norm-based, collaborative alignment method presented here, we demonstrate that the genetic identity of each virus particle present in the mixture can be assigned based solely on the structural information derived from single envelope glycoproteins displayed on the virus surface.
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