Evidence map›Paper›PMID 32939270›Full record

ArticleIUCrJ2020

Gold Standard for macromolecular crystallography diffraction data.

Herbert J Bernstein, Andreas Förster, Asmit Bhowmick, Aaron S Brewster, Sandor Brockhauser, Luca Gelisio, David R Hall, Filip Leonarski, Valerio Mariani, Gianluca Santoni and 2 more

Open access · goldAbstract read
In one paragraph

Article in IUCrJ, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
1.0field-weighted citation impact, top 28% of its field
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

14 citing papers in PubMed, 21 citations in OpenAlex.

  1. Article
  2. Jungfraujoch: 38 GB sJournal of applied crystallography · 2026
    Article
  3. Article
  4. Powder diffraction data beyond the pattern: a practical review.Journal of applied crystallography · 2025
    Review
  5. bioRxiv : the preprint server for biology · 2025
    Article
  6. Article
  7. Article
  8. Article
  9. Making your raw data available to the macromolecular crystallography community.Acta crystallographica. Section F, Structural biology communications · 2023
    Article
  10. Article
  11. Article
  12. Article
  13. IUCrData · 2022
    Article
  14. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors at 8 institutions in 6 countries.

Herbert J BernsteinRonin Institute for Independent Scholarship, c/o NSLS II, Brookhaven National Laboratory, Upton, New York, USA.ORCID https://orcid.org/0000-0002-0517-8532
Andreas FörsterDECTRIS Ltd, Täfernweg 1, 5405 Baden-Dättwil, Switzerland.
Asmit BhowmickLawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA.
Aaron S BrewsterLawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA.
Sandor BrockhauserEuropean XFEL GmbH, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID https://orcid.org/0000-0002-9700-4803
Luca GelisioCenter for Free-Electron Laser Science, Notkestrasse 85, 22607 Hamburg, Germany.ORCID https://orcid.org/0000-0001-7832-6201
David R HallDiamond Light Source Ltd, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom.ORCID https://orcid.org/0000-0002-5333-6136
Filip LeonarskiSwiss Light Source, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen PSI, Switzerland.ORCID https://orcid.org/0000-0002-2563-7169
Valerio MarianiCenter for Free-Electron Laser Science, Notkestrasse 85, 22607 Hamburg, Germany.
Gianluca SantoniStructural Biology Group, European Synchrotron Radiation Facility, 71 Avenue des Martyrs, 38000 Grenoble, France.
Clemens VonrheinGlobal Phasing Ltd, Sheraton House, Castle Park, Cambridge CB3 0AX, United Kingdom.
Graeme WinterDiamond Light Source Ltd, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom.
Diamond Light Source · GBLawrence Berkeley National Laboratory · USUniversität Hamburg · DEBrookhaven National Laboratory · USEuropean Synchrotron Radiation Facility · FRGlobal Phasing (United Kingdom) · GBPaul Scherrer Institute · CHUniversity of Szeged · HU

Funding

X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Sean McSweeney · 2019 to 2026
$38.6M
X-RAY STRUCTURE OF RIFM PROTEIN FROM THE BIOSYNTHESIS PATHWAY OF THE ANSAMYCIN AP41RR012408 · NCRR · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI ORVILLE, ALLEN M · 1998 to 2011
$32.2M
DIALS: New Computational Methods to Enable Challenging Crystallographic ExperimentsR01GM117126 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI SAUTER, NICHOLAS K · 2016 to 2023
$6.1M
Macromolecular Crystallography at the National Synchrotron Light SourceP41GM103473 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI SWEET, ROBERT M · 2012 to 2013
$4.9M
Detecting elusive biologically significant structural differences with serial crystallographyR21GM129570 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI SOARES, ALEXEI SUAREZ · 2018 to 2019
$410k
NCRR NIH HHS P41 RR012408NIGMS NIH HHS P30 GM133893NIGMS NIH HHS P41 GM103473NIGMS NIH HHS R01 GM117126NIGMS NIH HHS R21 GM129570
6 · The paper itself

Abstract

Macromolecular crystallography (MX) is the dominant means of determining the three-dimensional structures of biological macromolecules. Over the last few decades, most MX data have been collected at synchrotron beamlines using a large number of different detectors produced by various manufacturers and taking advantage of various protocols and goniometries. These data came in their own formats: sometimes proprietary, sometimes open. The associated metadata rarely reached the degree of completeness required for data management according to Findability, Accessibility, Interoperability and Reusability (FAIR) principles. Efforts to reuse old data by other investigators or even by the original investigators some time later were often frustrated. In the culmination of an effort dating back more than two decades, a large portion of the research community concerned with high data-rate macromolecular crystallography (HDRMX) has now agreed to an updated specification of data and metadata for diffraction images produced at synchrotron light sources and X-ray free-electron lasers (XFELs). This 'Gold Standard' will facilitate the processing of data sets independent of the facility at which they were collected and enable data archiving according to FAIR principles, with a particular focus on interoperability and reusability. This agreed standard builds on the NeXus/HDF5 NXmx application definition and the International Union of Crystallo-graphy (IUCr) imgCIF/CBF dictionary, and it is compatible with major data-processing programs and pipelines. Just as with the IUCr CBF/imgCIF standard from which it arose and to which it is tied, the NeXus/HDF5 NXmx Gold Standard application definition is intended to be applicable to all detectors used for crystallography, and all hardware and software developers in the field are encouraged to adopt and contribute to the standard.

Indexed as

CBFHDF5imgCIFmacromolecular diffraction data formatNeXusNXmxserial crystallographystructural biologysynchrotronsXFELs

Identifiers

PMID32939270
PMCPMC7467160
OpenAlexW3041686269

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.