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  1. No Access

    Article

    Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge

    The EMDataResource Ligand Model Challenge aimed to assess the reliability and reproducibility of modeling ligands bound to protein and protein–nucleic acid complexes in cryogenic electron microscopy (cryo-EM) ...

    Catherine L. Lawson, Andriy Kryshtafovych, Grigore D. Pintilie… in Nature Methods (2024)

  2. No Access

    Article

    Improving resolution and resolvability of single-particle cryoEM structures using Gaussian mixture models

    Cryogenic electron microscopy is widely used in structural biology, but its resolution is often limited by the dynamics of the macromolecule. Here we developed a refinement protocol based on Gaussian mixture m...

    Muyuan Chen, Michael F. Schmid, Wah Chiu in Nature Methods (2024)

  3. Article

    Open Access

    Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge

    This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to (1) assess the quality of models that can be produced from cryogenic electron microscopy (cryo-EM) maps using current modeli...

    Catherine L. Lawson, Andriy Kryshtafovych, Paul D. Adams… in Nature Methods (2021)

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  4. No Access

    Article

    Measurement of atom resolvability in cryo-EM maps with Q-scores

    Cryogenic electron microscopy (cryo-EM) maps are now at the point where resolvability of individual atoms can be achieved. However, resolvability is not necessarily uniform throughout the map. We introduce a q...

    Grigore Pintilie, Kaiming Zhang, Zhaoming Su, Shanshan Li… in Nature Methods (2020)

  5. No Access

    Article

    Convolutional neural networks for automated annotation of cellular cryo-electron tomograms

    An algorithm and software tool automating the annotation of subcellular features in cryo-electron tomography data is presented.

    Muyuan Chen, Wei Dai, Stella Y Sun, Darius Jonasch, Cynthia Y He… in Nature Methods (2017)

  6. No Access

    Article

    Zernike phase-contrast electron cryotomography applied to marine cyanobacteria infected with cyanophages

    Equip** an electron microscope with Zernike phase-contrast optics dramatically increases the contrast of the images. Dai et al. describe how to successfully apply this technology for the acquisition and analysi...

    Wei Dai, Caroline Fu, Htet A Khant, Steven J Ludtke, Michael F Schmid… in Nature Protocols (2014)