EMPIAR: the electron microscopy public image archive

A Iudin, PK Korir, S Somasundharam… - Nucleic Acids …, 2023 - academic.oup.com
Public archiving in structural biology is well established with the Protein Data Bank (PDB;
wwPDB. org) catering for atomic models and the Electron Microscopy Data Bank (EMDB; …

Electron microscopy holdings of the Protein Data Bank: the impact of the resolution revolution, new validation tools, and implications for the future

SK Burley, HM Berman, W Chiu, W Dai, JW Flatt… - Biophysical …, 2022 - Springer
As a discipline, structural biology has been transformed by the three-dimensional electron
microscopy (3DEM)“Resolution Revolution” made possible by convergence of robust cryo …

[HTML][HTML] Advances in methods for atomic resolution macromolecular structure determination

MC Thompson, TO Yeates, JA Rodriguez - F1000Research, 2020 - ncbi.nlm.nih.gov
Recent technical advances have dramatically increased the power and scope of structural
biology. New developments in high-resolution cryo-electron microscopy, serial X-ray …

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

CL Lawson, A Kryshtafovych, PD Adams, PV Afonine… - Nature …, 2021 - nature.com
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 …

Automatic local resolution-based sharpening of cryo-EM maps

E Ramírez-Aportela, JL Vilas, A Glukhova… - …, 2020 - academic.oup.com
Motivation Recent technological advances and computational developments have allowed
the reconstruction of Cryo-Electron Microscopy (cryo-EM) maps at near-atomic resolution …

[PDF][PDF] On bias, variance, overfitting, gold standard and consensus in single-particle analysis by cryo-electron microscopy

COS Sorzano, A Jiménez-Moreno… - … Section D: Structural …, 2022 - journals.iucr.org
Cryo-electron microscopy (cryoEM) has become a well established technique to elucidate
the 3D structures of biological macromolecules. Projection images from thousands of …

Sparse Fourier backpropagation in cryo-EM reconstruction

D Kimanius, K Jamali… - Advances in Neural …, 2022 - proceedings.neurips.cc
Electron cryo-microscopy (cryo-EM) is a powerful method for investigating the structures of
protein molecules, with important implications for understanding the molecular processes of …

Advances in xmipp for cryo–electron microscopy: From xmipp to scipion

D Strelak, A Jiménez-Moreno, JL Vilas… - Molecules, 2021 - mdpi.com
Xmipp is an open-source software package consisting of multiple programs for processing
data originating from electron microscopy and electron tomography, designed and managed …

[HTML][HTML] Evolving data standards for cryo-EM structures

CL Lawson, HM Berman, W Chiu - Structural Dynamics, 2020 - pubs.aip.org
Electron cryo-microscopy (cryo-EM) is increasingly being used to determine 3D structures of
a broad spectrum of biological specimens from molecules to cells. Anticipating this progress …

[HTML][HTML] Comparing cryo-EM structures

CL Lawson, W Chiu - Journal of structural biology, 2018 - ncbi.nlm.nih.gov
Electron cryo-microscopy (cryo-EM), is a rapidly emerging method for the determination of
macromolecular complexes with an expanding presence in both the scientific literature and …