Evidence map›Paper›PMID 38351940›Full record

ArticleArXiv2025

Harmonizing the Generation and Pre-publication Stewardship of FAIR bioimage data.

Nikki Bialy, Frank Alber, Brenda Andrews, Michael Angelo, Brian Beliveau, Lacramioara Bintu, Alistair Boettiger, Ulrike Boehm, Claire M Brown, Mahmoud Bukar Maina and 36 more

Abstract readPreprint
In one paragraph

Article in ArXiv, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

46 authors.

Nikki BialyMorgridge Institute for Research, Madison, USA.ORCID 0000-0001-9681-9632
Frank AlberUniversity of California Los Angeles, USA.ORCID 0000-0003-1981-8390
Brenda AndrewsUniversity of Toronto, Toronto, Canada.ORCID 0000-0001-6427-6493
Michael AngeloStanford University, Palo Alto, USA.
Brian BeliveauUniversity of Washington, Seattle, USA.ORCID 0000-0003-1314-3118
Lacramioara BintuStanford University, Palo Alto, USA.ORCID 0000-0001-5443-6633
Alistair BoettigerStanford University, Palo Alto, USA.ORCID 0000-0002-3554-5196
Ulrike BoehmCarl Zeiss AG, Oberkochen, Germany.ORCID 0000-0001-7471-2244
Claire M BrownMcGill University, Montreal, Canada.ORCID 0000-0003-1622-663X
Mahmoud Bukar MainaUniversity of Sussex, Sussex, UK and Yobe State University, Nigeria.ORCID 0000-0002-7421-3813
James J ChambersUniversity of Massachusetts, Amherst, USA.ORCID 0000-0003-3883-8215
Beth A CiminiBroad Institute of MIT and Harvard, Imaging Platform, Cambridge, USA.ORCID 0000-0001-9640-9318
Kevin EliceiriMorgridge Institute for Research, Madison, USA.ORCID 0000-0001-8678-670X
Rachel ErringtonCardiff University, Cardiff, UK.
Orestis FaklarisUniv. Montpellier, CNRS, INSERM, Montpellier, France.ORCID 0000-0001-5965-5405
Nathalie GaudreaultAllen Institute for Cell Science, Seattle, USA.ORCID 0000-0002-9220-5366
Ronald N GermainNational Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, USA.ORCID 0000-0003-1495-9143
Wojtek GoscinskiNational Imaging Facility, Brisbane, Australia.ORCID 0000-0001-6587-1016
David GrunwaldUMass Chan Medical School, Worcester, USA.ORCID 0000-0001-9067-804X
Michael HalterNational Institute of Standards and Technology, Gaithersburg, USA.ORCID 0000-0002-1628-324X
Dorit HaneinUniversity of California, Santa Barbara, USA.ORCID 0000-0002-6072-4946
John W HickeyDuke University, Durham, USA.ORCID 0000-0001-9961-7673
Judith LacosteMIA Cellavie Inc., Montreal, Canada.ORCID 0000-0002-8783-8599
Alex LaudeNewcastle University, Newcastle upon Tyne, UK.ORCID 0000-0002-3853-1187
Emma LundbergStanford University, Palo Alto, USA.
Jian MaCarnegie Mellon University, Pittsburgh, USA.ORCID 0000-0002-4202-5834
Leonel MalacridaInstitut Pasteur de Montevideo, & Universidad de la República, Montevideo, Uruguay.ORCID 0000-0001-6253-9229
Josh MooreGerman BioImaging - Gesellschaft für Mikroskopie und Bildanalyse e.V., Constance, Germany.ORCID 0000-0003-4028-811X
Glyn NelsonNewcastle University, Newcastle upon Tyne, UK.ORCID 0000-0002-1895-4772
Elizabeth Kathleen NeumannUniversity of California, Davis, Davis, USA.ORCID 0000-0002-6078-3321
Roland NitschkeUniversity of Freiburg, Freiburg, Germany.ORCID 0000-0002-9397-8475
Shuichi OnamiRIKEN Center for Biosystems Dynamics Research, Kobe, Japan.ORCID 0000-0002-8255-1724
Jaime A PimentelUniversidad Nacional Autónoma de México, Cuernavaca, México.ORCID 0000-0001-8569-0466
Anne L PlantNational Institute of Standards and Technology, Gaithersburg, USA.ORCID 0000-0002-8538-401X
Andrea J RadtkeNational Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, USA.ORCID 0000-0003-4379-8967
Bikash SabataAltos Labs, Redwood City, USA.
Denis SchapiroHeidelberg University Hospital, Heidelberg, Germany.ORCID 0000-0002-9391-5722
Johannes SchönebergUniversity of California San Diego, San Diego, USA.ORCID 0000-0001-7083-1828
Jeffrey M SpragginsVanderbilt University School of Medicine, Nashville, USA.ORCID 0000-0001-9198-5498
Damir SudarQuantitative Imaging Systems LLC, Portland, USA.ORCID 0000-0002-2510-7272
Wouter-Michiel Adrien Maria VierdagEuropean Molecular Biology Laboratorium, Heidelberg, Baden-Württemberg, Germany.ORCID 0000-0003-1666-5421
Niels VolkmannUniversity of California, Santa Barbara, USA.ORCID 0000-0003-1328-6426
Carolina WählbyUppsala University, Uppsala, Sweden.ORCID 0000-0002-4139-7003
Siyuan Steven WangYale University, New Haven, USA.ORCID 0000-0001-6550-4064
Ziv YanivNational Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, USA.ORCID 0000-0003-0315-7727
Caterina Strambio-De-CastilliaUMass Chan Medical School, Worcester, USA.ORCID 0000-0002-1069-1816

Funding

Center for Open Bioimage AnalysisP41GM135019 · NIGMS · BROAD INSTITUTE, INC. · PI CARPENTER, ANNE E., CIMINI, BETH · 2020 to 2024
$6.9M
Cryo Transmission Electron Microscope for SPA, Cryo-ET and MicroED studies at UCSBS10OD028727 · OD · UNIVERSITY OF CALIFORNIA SANTA BARBARA · PI HANEIN, DORIT · 2021 to 2021
$2.0M
NIGMS NIH HHS P41 GM135019NIH HHS S10 OD028727
6 · The paper itself

Abstract

Biological imaging, combined with molecular insights into genes and proteins, holds immense promise for deepening our understanding of complex cellular systems and accelerating the development of predictive, personalized therapies for human health. To fully realize this potential at scale-and harness the power of AI/ML to extract novel biological insights and therapeutic interventions-it is necessary to transition from siloed datasets to globally shared, rigorously annotated, and computationally ready image data. This demands systematic harmonization of multidimensional bioimaging data, where interoperable formats, and standardized context-rich annotation, quality controls, and analytical pipelines transform scattered observations into a coherent knowledge base ripe for computational mining. Only this machine-actionable aggregation can provide the substrate for AI/ML to extract mechanistic insights into fundamental biological mechanisms, novel diagnostic biomarkers and intervention targets. Enabling seamless image data sharing in the life sciences requires addressing two key areas. The first is outlined in an accompanying publication,

Identifiers

PMID38351940
PMCPMC10862930

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
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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.