Best practices for managing large CryoEM facilities.
Bart Alewijnse,Alun W. Ashton,Melissa G. Chambers,Songye Chen,Anchi Cheng,Mark Ebrahim,Edward T. Eng,Wim J. H. Hagen,Abraham J. Koster,Claudia S. López,Natalya Lukoyanova,Joaquin Ortega,Ludovic Renault,Steve Reyntjens,William J. Rice,Giovanna Scapin,Raymond Schrijver,Alistair Siebert,Scott M. Stagg,Valerie Grum-Tokars,Elizabeth R. Wright,Shenping Wu,Zhiheng Yu,Z. Hong Zhou,Bridget Carragher,Clinton S. Potter +25 more
TLDR
The discussions were largely focused on supporting single-particle methods for cryoEM and topics included: user access, assessing projects, workflow, sample handling, microscopy, data management and processing, and user training.About:
This article is published in Journal of Structural Biology.The article was published on 2017-09-01 and is currently open access. It has received 35 citations till now. The article focuses on the topics: Data management & Workflow.read more
Citations
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CM01: a facility for cryo-electron microscopy at the European Synchrotron
Eaazhisai Kandiah,Thierry Giraud,Alejandro De Maria Antolinos,Fabien Dobias,Grégory Effantin,David Flot,Michael Hons,Guy Schoehn,Jean Susini,Olof Svensson,Gordon A. Leonard,Christoph Mueller-Dieckmann +11 more
TL;DR: Cryo-electron microscopy facility at the European Synchrotron is used by the ESRF’s international community for structural biology and aims to provide real-time information about the physical properties of Cryo-Electron MLCs.
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Big data in cryoEM: automated collection, processing and accessibility of EM data.
Philip R. Baldwin,Yong Zi Tan,Edward T. Eng,William J. Rice,Alex J. Noble,Carl J. Negro,Michael A. Cianfrocco,Clinton S. Potter,Bridget Carragher +8 more
TL;DR: A brief survey of the developments leading to the current status is provided, and existing cryoEM pipelines are described, with an emphasis on the scope of data acquisition, methods for automation, and use of cloud storage and computing.
Journal ArticleDOI
Sub-2 Angstrom resolution structure determination using single-particle cryo-EM at 200 keV.
TL;DR: In this article, the Talos Arctica was used for high-resolution single-particle cryogenic electron microscopy (cryo-EM) to determine structures of macromolecules to as high as 1.7
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Better, Faster, Cheaper: Recent Advances in Cryo-Electron Microscopy.
E. Chua,Joshua H. Mendez,Micah Rapp,Serban L. Ilca,Yong Zi Tan,Kashyap Maruthi,Huihui Kuang,Christina M. Zimanyi,Anchi Cheng,Edward T. Eng,Alex J. Noble,Clinton S. Potter,Bridget Carragher +12 more
TL;DR: In this article , a review highlights recent advances at each stage of the Cryo-EM pipeline and provides examples of how these techniques have been used to investigate real-world problems, including antibody development against the SARS-CoV-2 spike during the recent COVID-19 pandemic.
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Industrial cryo-EM facility setup and management
TL;DR: The setup and operation of an industrial cryo-EM laboratory is described and the results are compared to previous studies on the basis of liquid chromatography, Na6(SO4)2, Na2SO4, and Na2CO3.
References
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Automated electron microscope tomography using robust prediction of specimen movements.
TL;DR: A new method was developed to acquire images automatically at a series of specimen tilts, as required for tomographic reconstruction, using changes in specimen position at previous tilt angles to predict the position at the current tilt angle.
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CTFFIND4: Fast and accurate defocus estimation from electron micrographs.
Alexis Rohou,Nikolaus Grigorieff +1 more
TL;DR: Modifications to the CTFFIND algorithm are described which make it significantly faster and more suitable for use with images collected using modern technologies such as dose fractionation and phase plates.
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Gctf: Real-time CTF determination and correction
TL;DR: The main target of Gctf is to maximize the cross-correlation of a simulated CTF with the logarithmic amplitude spectra of observed micrographs after background subtraction to improve CTF parameters of all particles for subsequent image processing.
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Automated molecular microscopy: the new Leginon system.
Christian Suloway,James Pulokas,Denis Fellmann,Anchi Cheng,Francisco Guerra,Joel Quispe,Scott M. Stagg,Clinton S. Potter,Bridget Carragher +8 more
TL;DR: The primary automated data acquisition software system, Leginon, has been completely redesigned over the past two years and the system has demonstrated the capacity for high throughput data acquisition by acquiring images of more than 100,000 particles in a single session at the microscope.
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Appion: an integrated, database-driven pipeline to facilitate EM image processing.
Gabriel C. Lander,Scott M. Stagg,Neil R. Voss,Anchi Cheng,Denis Fellmann,James Pulokas,Craig Yoshioka,Christopher Irving,Anke M. Mulder,Pick-Wei Lau,Dmitry Lyumkis,Clinton S. Potter,Bridget Carragher +12 more
TL;DR: The vision for this technique is to provide a straightforward manner in which users can proceed from raw data to a reliable 3D reconstruction through a pipeline that both facilitates management of the processing steps and makes the results at each step more transparent.