ArticleIUCrJ2024
Community recommendations on cryoEM data archiving and validation.
Abstract read
In one paragraph
Article in IUCrJ, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed
–field-weighted citation impact
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
22 citing papers in PubMed.
- IHMValidation: Assessment of Integrative Structure Models Deposited to the Protein Data Bank.Journal of molecular biology · 2026Article
- CryoROLE: describing large inter-domain rotation in single particle cryo-EM.bioRxiv : the preprint server for biology · 2026Article
- The evolving role of structural biology in pharma: integration of X-ray crystallography, cryo-electron microscopy and beyond.Acta crystallographica. Section D, Structural biology · 2026Review
- A Novel Machine-Learning Based Method for Resolving Secondary Structure Topology in Medium-Resolution Cryo-EM Density Maps.International journal of molecular sciences · 2026Article
- MolViewStories: Interactive molecular storytelling.Protein science : a publication of the Protein Society · 2026Article
- Scaffolds with optimized quaternary symmetry for de novo cryoEM structure determination of small RNAs.Nature methods · 2026Article
- New targets and procedures for validating the valence geometry of nucleic acid structures.Nucleic acids research · 2026Article
- Preserving Information and Integrity in Cryo-EM: A Fourier-Space Deposition Approach.bioRxiv : the preprint server for biology · 2025Article
- Q-score as a reliability measure for protein, nucleic acid and small-molecule atomic coordinate models derived from 3DEM maps.Acta crystallographica. Section D, Structural biology · 2025Article
- AI-based quality assessment methods for protein structure models from cryo-EM.Current research in structural biology · 2025Review
- Human polymerase θ helicase positions DNA microhomologies for double-strand break repair.Nature structural & molecular biology · 2025Article
- Half a Century of Progress: The Evolution of Wheat Germ-Based In Vitro Translation into a Versatile Protein Production Method.International journal of molecular sciences · 2025Review
- Structural switching dynamically controls the doubly pseudoknotted Rous sarcoma virus-programmed ribosomal frameshifting element.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- InstaMap: instant-NGP for cryo-EM density maps.Acta crystallographica. Section D, Structural biology · 2025Article
- Advances in cryo-electron microscopy (cryoEM) for structure-based drug discovery.Expert opinion on drug discovery · 2025Review
- High-resolution protein modeling through Cryo-EM and AI: current trends and future perspectives - a review.Frontiers in molecular biosciences · 2025Review
- Atlas of Interactions Between Decoration Proteins and Major Capsid Proteins of Coliphage N4.Viruses · 2024Article
- Using deep-learning predictions reveals a large number of register errors in PDB depositions.IUCrJ · 2024Article
- Comparative Analysis of Volatile Components in Chi-Nan and Ordinary Agarwood Aromatherapies: Implications for Sleep Improvement.Pharmaceuticals (Basel, Switzerland) · 2024Article
- Article
Corrections and comments
- Update of
Authors and funding
47 authors.
Gerard J KleywegtEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0002-4670-0331
Paul D AdamsLawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0001-9333-8219
Sarah J ButcherUniversity of Helsinki, Helsinki, Finland.ORCID 0000-0001-7060-5871
Catherine L LawsonRCSB Protein Data Bank, The State University of New Jersey, NJ, USA.
Alexis RohouGenentech, South San Francisco, CA, USA.ORCID 0000-0002-3343-9621
Peter B RosenthalThe Francis Crick Institute, London, United Kingdom.ORCID 0000-0002-0387-2862
Sriram SubramaniamUniversity of British Columbia, Vancouver, BC, Canada.ORCID 0000-0003-4231-4115
Maya TopfBirkbeck, University of London, London, United Kingdom.ORCID 0000-0002-8185-1215
Sanja AbbottEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0002-4781-9705
Philip R BaldwinSalk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-4202-4129
John M BerrisfordEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-4442-5871
Gérard BricogneGlobal Phasing Limited, Cambridge, United Kingdom.ORCID 0000-0002-0298-5507
Preeti ChoudharyEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-2340-3278
Tristan I CrollUniversity of Cambridge, Cambridge, United Kingdom.ORCID 0000-0002-3514-8377
Radostin DanevUniversity of Tokyo, Tokyo, Japan.ORCID 0000-0001-6406-8993
Sai J GanesanUniversity of California at San Francisco, San Francisco, CA, USA.ORCID 0000-0002-8335-2866
Timothy GrantMorgridge Institute for Research, Madison, WI, USA.ORCID 0000-0002-4855-8703
Aleksandras GutmanasEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0001-6311-0176
Richard HendersonMRC Laboratory of Molecular Biology, Cambridge, United Kingdom.ORCID 0000-0003-1444-0528
J Bernard HeymannNational Institutes of Health, Bethesda, MD, USA.ORCID 0000-0002-8872-5326
Juha T HuiskonenUniversity of Helsinki, Helsinki, Finland.ORCID 0000-0002-0348-7323
Andrei IstrateEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-3385-497X
Takayuki KatoOsaka University, Suita, Osaka, Japan.ORCID 0000-0002-8879-6685
Gabriel C LanderScripps Research Institute, La Jolla, CA, USA.ORCID 0000-0003-4921-1135
Shee Mei LokDuke-NUS Medical School, Singapore.ORCID 0000-0003-4631-8041
Steven J LudtkeBaylor College of Medicine, Houston, TX, USA.ORCID 0000-0002-1903-1574
Garib N MurshudovMRC Laboratory of Molecular Biology, Cambridge, United Kingdom.ORCID 0000-0001-6483-3587
Ryan PyeEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-3685-0368
Grigore D PintilieStanford University, Stanford, CA, USA.ORCID 0000-0002-0848-5335
Jane S RichardsonDuke University, Durham, NC, USA.ORCID 0000-0002-3311-2944
Carsten SachseForschungszentrum Jülich, Germany.ORCID 0000-0002-1168-5143
Osman SalihEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-1654-0231
Sjors H W ScheresMRC Laboratory of Molecular Biology, Cambridge, United Kingdom.ORCID 0000-0002-0462-6540
Gunnar F SchroederForschungszentrum Jülich, Germany.ORCID 0000-0003-1803-5431
Carlos Oscar S SorzanoNational Center for Biotechnology, Madrid, Spain.ORCID 0000-0002-9473-283X
Scott M StaggFlorida State University, Tallahassee, FL, USA.ORCID 0000-0001-8855-4152
Zhe WangEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0003-1119-1765
Rangana WarshamanageMRC Laboratory of Molecular Biology, Cambridge, United Kingdom.ORCID 0000-0001-9756-0001
John D WestbrookRCSB Protein Data Bank, The State University of New Jersey, NJ, USA.ORCID 0000-0002-6686-5475
Martyn D WinnScience and Technology Facilities Council, Research Complex at Harwell, Oxon, United Kingdom.ORCID 0000-0003-0496-6796
Jasmine Y YoungRCSB Protein Data Bank, The State University of New Jersey, NJ, USA.ORCID 0000-0001-8896-6878
Stephen K BurleyRCSB Protein Data Bank, The State University of New Jersey, NJ, USA.ORCID 0000-0002-2487-9713
Jeffrey C HochUConn Health Center, CT, USA.ORCID 0000-0002-9230-2019
Genji KurisuOsaka University, Suita, Osaka, Japan.ORCID 0000-0002-5354-0807
Kyle MorrisEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0002-1717-8134
Ardan PatwardhanEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0001-7663-9028
Sameer VelankarEMBL-EBI, Cambridge, United Kingdom.ORCID 0000-0002-8439-5964
Funding
PDB MANAGEMENT BY THE RESEARCH COLLABORATORY FOR STRUCTURAL BIOINFORMATICSR01GM133198 · NIGMS · RUTGERS, THE STATE UNIV OF N.J. · PI BURLEY, STEPHEN K · 2019 to 2023
$19.3MUnified Data Resource for Large Complexes Determined by Cryo-Electron MicroscopyR01GM079429 · NIGMS · STANFORD UNIVERSITY · PI CHIU, WAH · 2007 to 2021
$11.6MBiological Magnetic Resonance Data BankR24GM150793 · NIGMS · UNIVERSITY OF CONNECTICUT SCH OF MED/DNT · PI JEFFREY C HOCH · 2023 to 2026
$3.0MMedical Research Council MC_UP_A025_1012Medical Research Council MR/V000403/1NIGMS NIH HHS R01 GM079429NIGMS NIH HHS R01 GM133198NIGMS NIH HHS R24 GM150793Wellcome TrustWellcome Trust 104948/Z/14/Z
Abstract
In January 2020, a workshop was held at EMBL-EBI (Hinxton, UK) to discuss data requirements for the deposition and validation of cryoEM structures, with a focus on single-particle analysis. The meeting was attended by 47 experts in data processing, model building and refinement, validation, and archiving of such structures. This report describes the workshop's motivation and history, the topics discussed, and the resulting consensus recommendations. Some challenges for future methods-development efforts in this area are also highlighted, as is the implementation to date of some of the recommendations.
Indexed as
Data CurationCryoelectron Microscopybioinformaticscryogenic-specimen electron microscopydata archivingdatabasesElectron Microscopy Data BankProtein Data Bankquality controlsingle-particle cryoEMstructure determinationvalidation
Identifiers
What OpenQuestion holds
Textmetadata
LicenceCC BY
Read underepoch 390
Registered trials
None linked
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.