Evidence map›Paper›PMID 34366575›Full record

ArticleExpert systems with applications2021

Detecting anomalies in X-ray diffraction images using convolutional neural networks.

Adam Czyzewski, Faustyna Krawiec, Dariusz Brzezinski, Przemyslaw Jerzy Porebski, Wladek Minor

Abstract read
In one paragraph

Article in Expert systems with applications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
–field-weighted citation impact
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

10 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Ligand Identification in CryoEM and X-ray Maps Using Deep Learning.bioRxiv : the preprint server for biology · 2024
    Article
  5. Article
  6. Article
  7. Detecting ice artefacts in processed macromolecular diffraction data with machine learning.Acta crystallographica. Section D, Structural biology · 2022
    Article
  8. Article
  9. Article
  10. 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

5 authors.

Adam CzyzewskiInstitute of Computing Science, Poznan University of Technology, ul. Piotrowo 2, 60-965 Poznan, Poland.
Faustyna KrawiecInstitute of Computing Science, Poznan University of Technology, ul. Piotrowo 2, 60-965 Poznan, Poland.
Dariusz BrzezinskiInstitute of Computing Science, Poznan University of Technology, ul. Piotrowo 2, 60-965 Poznan, Poland.
Przemyslaw Jerzy PorebskiDepartment of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22901, USA.
Wladek MinorDepartment of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22901, USA.

Funding

Reproducible, Unbiased Ligand Identification Assisted by Artificial Intelligence and Development of Ligand Reference LibrariesR01GM132595 · NIGMS · UNIVERSITY OF VIRGINIA · PI MINOR, WLADEK · 2019 to 2022
$2.3M
Integrated resource for reproducibility in macromolecular crystallographyU01HG008424 · NHGRI · UNIVERSITY OF VIRGINIA · PI MINOR, WLADEK · 2015 to 2017
$1.5M
NHGRI NIH HHS U01 HG008424NIGMS NIH HHS R01 GM132595
6 · The paper itself

Abstract

Our understanding of life is based upon the interpretation of macromolecular structures and their dynamics. Almost 90% of currently known macromolecular models originated from electron density maps constructed using X-ray diffraction images. Even though diffraction images are critical for structure determination, due to their vast amounts and noisy, non-intuitive nature, their quality is rarely inspected. In this paper, we use recent advances in machine learning to automatically detect seven types of anomalies in X-ray diffraction images. For this purpose, we utilize a novel X-ray beam center detection algorithm, propose three different image representations, and compare the predictive performance of general-purpose classifiers and deep convolutional neural networks (CNNs). In benchmark tests on a set of 6,311 X-ray diffraction images, the proposed CNN achieved between 87% and 99% accuracy depending on the type of anomaly. Experimental results show that the proposed anomaly detection system can be considered suitable for early detection of sub-optimal data collection conditions and malfunctions at X-ray experimental stations.

Indexed as

Convolutional neural networkCrystallographyImage recognitionMulti-label classificationX-ray diffraction image

Identifiers

PMID34366575
PMCPMC8341115

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Registered trials

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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.