Emerging themes in CryoEM─ Single particle analysis image processing

JL Vilas, JM Carazo, COS Sorzano - Chemical Reviews, 2022 - ACS Publications
Cryo-electron microscopy (CryoEM) has become a vital technique in structural biology. It is
an interdisciplinary field that takes advantage of advances in biochemistry, physics, and …

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

A Punjani, JL Rubinstein, DJ Fleet, MA Brubaker - Nature methods, 2017 - nature.com
Single-particle electron cryomicroscopy (cryo-EM) is a powerful method for determining the
structures of biological macromolecules. With automated microscopes, cryo-EM data can …

Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy

JM De la Rosa-Trevin, A Quintana, L Del Cano… - Journal of structural …, 2016 - Elsevier
In the past few years, 3D electron microscopy (3DEM) has undergone a revolution in
instrumentation and methodology. One of the central players in this wide-reaching change is …

Novel artificial intelligence-based approaches for ab initio structure determination and atomic model building for cryo-electron microscopy

MC DiIorio, AW Kulczyk - Micromachines, 2023 - mdpi.com
Single particle cryo-electron microscopy (cryo-EM) has emerged as the prevailing method
for near-atomic structure determination, shedding light on the important molecular …

[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 …

A guided tour of selected image processing and analysis methods for fluorescence and electron microscopy

C Kervrann, CÓS Sorzano, ST Acton… - IEEE Journal of …, 2015 - ieeexplore.ieee.org
Microscopy imaging, including fluorescence micro scopy and electron microscopy, has
taken a prominent role in life science research and medicine due to its ability to investigate …

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] Algorithmic robustness to preferred orientations in single particle analysis by CryoEM

COS Sorzano, D Semchonok, SC Lin, YC Lo… - Journal of Structural …, 2021 - Elsevier
The presence of preferred orientations in single particle analysis (SPA) by cryo-Electron
Microscopy (cryoEM) is currently one of the hurdles preventing many structural analyses …

[HTML][HTML] DeepAlign, a 3D alignment method based on regionalized deep learning for Cryo-EM

A Jiménez-Moreno, D Střelák, J Filipovič… - Journal of Structural …, 2021 - Elsevier
Abstract Cryo Electron Microscopy (Cryo-EM) is currently one of the main tools to reveal the
structural information of biological specimens at high resolution. Despite the great …

A new algorithm for high-resolution reconstruction of single particles by electron microscopy

COS Sorzano, J Vargas, JM de la Rosa-Trevín… - Journal of structural …, 2018 - Elsevier
Abstract The Map Challenge organized by the Electron Microscopy Data Bank has prompted
the development of an Xmipp high resolution reconstruction protocol (which we will refer to …