Evidence map›Paper›PMID 41201048›Full record

ArticleActa crystallographica. Section F, Structural biology communications2025

CryoSift: an accessible and automated CNN-driven tool for cryo-EM 2D class selection.

Jan Hannes Schäfer, Austin Calza, Keegan Hom, Puneeth Damodar, Ruizhi Peng, Nebojša Bogdanović, Gabriel C Lander, Scott M Stagg, Michael A Cianfrocco

Abstract read
In one paragraph

Article in Acta crystallographica. Section F, Structural biology communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Helical reconstruction of amyloids in cryoSPARC.Acta crystallographica. Section F, Structural biology communications · 2026
    Article
  3. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors.

Jan Hannes SchäferDepartment of Integrative Structural and Computational Biology, Scripps Research, La Jolla, California, USA.ORCID 0000-0001-8163-1629
Austin CalzaDepartment of Integrative Structural and Computational Biology, Scripps Research, La Jolla, California, USA.ORCID 0009-0007-6348-3985
Keegan HomDepartment of Integrative Structural and Computational Biology, Scripps Research, La Jolla, California, USA.ORCID 0009-0003-2839-0602
Puneeth DamodarInstitute of Molecular Biophysics, Florida State University, Tallahassee, Florida, USA.ORCID 0009-0000-3250-2337
Ruizhi PengInstitute of Molecular Biophysics, Florida State University, Tallahassee, Florida, USA.ORCID 0000-0001-6057-8961
Nebojša BogdanovićInstitute of Molecular Biophysics, Florida State University, Tallahassee, Florida, USA.ORCID 0000-0002-6811-2848
Gabriel C LanderDepartment of Integrative Structural and Computational Biology, Scripps Research, La Jolla, California, USA.ORCID 0000-0003-4921-1135
Scott M StaggInstitute of Molecular Biophysics, Florida State University, Tallahassee, Florida, USA.ORCID 0000-0001-8855-4152
Michael A CianfroccoDepartment of Biological Chemistry, Life Sciences Institute, University of Michigan-Ann Arbor, Ann Arbor, Michigan, USA.ORCID 0000-0002-2067-4999

Funding

Automated, optimized, intelligent data collection for cryo-EMR01GM143805 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI LANDER, GABRIEL C · 2021 to 2025
$4.7M
Deutsche Forschungsgemeinschaft 556478029National Institutes of Health, National Institute of General Medical Sciences R01GM143805NIGMS NIH HHS R01 GM143805
6 · The paper itself

Abstract

Single-particle cryo-electron microscopy (cryo-EM) has become an essential tool in structural biology. However, automating repetitive tasks remains an ongoing challenge in cryo-EM data-set processing. Here, we present a platform-independent convolutional neural network (CNN) tool for assessing the quality of 2D averages to enable the automatic selection of suitable particles for high-resolution reconstructions, termed CryoSift. We integrate CryoSift into a fully automated processing pipeline using the existing cryosparc-tools library. Our integrated and customizable 2D assessment workflow enables high-throughput processing that accommodates experienced to novice cryo-EM users.

Indexed as

Cryoelectron MicroscopyImage Processing, Computer-AssistedNeural Networks, ComputerSoftwareautomationcryo-EMdata processingdeep learningsingle-particle cryo-EM

Identifiers

PMID41201048
PMCPMC12810319

What OpenQuestion holds

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LicenceCC BY
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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.