ArticleNature methods2021
Towards community-driven metadata standards for light microscopy: tiered specifications extending the OME model.
Erratum issuedAbstract read
In one paragraph
Article in Nature methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 37 papers, 1 of them a synthesis that pooled it.
0numbers the graph read from it
0cells of the map it votes in
37citing papers in PubMed, 1 pooled it
–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
37 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Prevalence and practices of immunofluorescent cell image processing: a systematic review.Frontiers in cellular neuroscience · 2023Pooled it
- Data Management Workflow for FAIR Sharing of Bioimaging Datasets in Plasma Medicine.Scientific data · 2026Article
- Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence · 2026Article
- Artificial Neural Networks for Bioimage Analysis.Methods in molecular biology (Clifton, N.J.) · 2026Article
- From cells to pixels: A decision tree for designing bioimage analysis pipelines.Journal of microscopy · 2025Article
- Implicit neural image field for biological microscopy image compression.Nature computational science · 2025Article
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- FAIR sharing of Chromatin Tracing datasets using the newly developed 4DN FISH Omics Format.ArXiv · 2025Article
- Bridging imaging-based in vitro methods from biomedical research to regulatory toxicology.Archives of toxicology · 2025Review
- Practical considerations for data exploration in quantitative cell biology.Journal of cell science · 2025Article
- MetaMax: an objective-sized instrument for advanced light microscope characterization and performance metadata collection.Optics express · 2025Article
- The Spheroid Light Microscopy Image Atlas for morphometrical analysis of three-dimensional cell cultures.Scientific data · 2025Article
- Evaluation of image analysis tools for the measurement of cellular morphology.Frontiers in cell and developmental biology · 2025Review
- Article
- High-throughput image processing software for the study of nuclear architecture and gene expression.Scientific reports · 2024Article
- Morphomics via next-generation electron microscopy.Journal of molecular cell biology · 2024Review
- Community-developed checklists for publishing images and image analyses.Nature methods · 2024Review
- Fully automated point spread function analysis using PyCalibrate.Biology open · 2023Article
- Article
- Partnering with health sciences libraries to address challenges in bioimaging data management and sharing.Histochemistry and cell biology · 2023Article
Corrections and comments
- Erratum issued
Authors and funding
21 authors.
Mathias Hammer *RNA Therapeutics Institute, UMass Chan Medical School, Worcester, MA, USA.
Maximiliaan Huisman *RNA Therapeutics Institute, UMass Chan Medical School, Worcester, MA, USA.
Alessandro Rigano *Program in Molecular Medicine, UMass Chan Medical School, Worcester, MA, USA.
Ulrike BoehmJanelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA.ORCID http://orcid.org/0000-0001-7471-2244
James J ChambersInstitute for Applied Life Sciences, University of Massachusetts, Amherst, MA, USA.
Nathalie GaudreaultAllen Institute for Cell Science, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-9220-5366
Alison J NorthThe Rockefeller University, New York, NY, USA.
Jaime A PimentelLaboratorio Nacional de Microscopía Avanzada, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, México.ORCID http://orcid.org/0000-0001-8569-0466
Damir SudarQuantitative Imaging Systems LLC, Portland, OR, USA.ORCID http://orcid.org/0000-0002-2510-7272
Peter BajcsyNational Institute of Standards and Technology, Gaithersburg, MD, USA.
Claire M BrownAdvanced BioImaging Facility (ABIF), McGill University, Montreal, Quebec, Canada.ORCID http://orcid.org/0000-0003-1622-663X
Alexander D CorbettDepartment of Physics and Astronomy, University of Exeter, Exeter, UK.ORCID http://orcid.org/0000-0003-1645-5475
Orestis FaklarisMRI, BCM, University of Montpellier, CNRS, INSERM, Montpellier, France.ORCID http://orcid.org/0000-0001-5965-5405
Judith LacosteMIA Cellavie Inc., Montreal, Quebec, Canada.ORCID http://orcid.org/0000-0002-8783-8599
Alex LaudeBioimaging Unit, Newcastle University, Newcastle upon Tyne, UK.
Glyn NelsonBioimaging Unit, Newcastle University, Newcastle upon Tyne, UK.ORCID http://orcid.org/0000-0002-1895-4772
Roland NitschkeLife Imaging Center and Signalling Research Centres CIBSS and BIOSS, University of Freiburg, Freiburg, Germany.ORCID http://orcid.org/0000-0002-9397-8475
Farzin FarzamRNA Therapeutics Institute, UMass Chan Medical School, Worcester, MA, USA.
Carlas S SmithDelft Center for Systems and Control and Department of Imaging Physics, Delft University of Technology, Delft, the Netherlands.ORCID http://orcid.org/0000-0003-0591-5093
David GrunwaldRNA Therapeutics Institute, UMass Chan Medical School, Worcester, MA, USA.ORCID http://orcid.org/0000-0001-9067-804X
Caterina Strambio-De-CastilliaProgram in Molecular Medicine, UMass Chan Medical School, Worcester, MA, USA. caterina.strambio@umassmed.edu.ORCID http://orcid.org/0000-0002-1069-1816
Funding
4D Nucleome Network Data Coordination and Integration CenterU01CA200059 · NCI · HARVARD MEDICAL SCHOOL · PI PARK, PETER J · 2015 to 2024
$24.4MUnderstanding the Impact of Microscale and Nanoscale Heterogeneity and ResistanceU54CA209988 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI DEMIR, EMEK, HEISER, LAURA MADELINE · 2017 to 2021
$10.3MOmic and Multidimensional Spatial Atlas of Metastatic Breast CancerU2CCA233280 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI GOECKS, JEREMY · 2018 to 2023
$9.7MVisualizing local and global chromatin architecture, and gene expression in the individual cell by structural (SUSHI) and temporal (3D-SMRT) single molecule imagingU01DA047733 · NIDA · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GRUNWALD, DAVID · 2018 to 2019
$1.0MVisualizing local and global chromatin architecture, and gene expression in the individual cell by structural (SUSHI) and temporal (3D-SMRT) single molecule imagingU01EB021238 · NIBIB · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GRUNWALD, DAVID · 2015 to 2017
$990kNCI NIH HHS U01 CA200059NCI NIH HHS U2C CA233280NCI NIH HHS U54 CA209988NIBIB NIH HHS U01 EB021238NIDA NIH HHS U01 DA047733
Abstract
PubMed holds no abstract for this paper.
Indexed as
MetadataAnimalsBiomedical ResearchCalibrationData CollectionData MiningHumansMicroscopyQuality ControlReproducibility of ResultsSocieties, ScientificSoftwareSystems IntegrationUser-Computer Interface
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What OpenQuestion holds
Textmetadata
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Read underepoch 390
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.