Evidence map›Paper›PMID 42312419›Full record

ArticleJournal of microscopy2026

Modular training resources for bioimage analysis.

Christian Tischer, Antonio Zaccaria Politi, Tim-Oliver Buchholz, Elnaz Fazeli, Nicola Gritti, Aliaksandr Halavatyi, Sebastián González-Tirado, Julian Hennies, Toby Hodges, Arif Khan and 8 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of microscopy, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
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

18 authors.

Christian TischerData Science Centre, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0000-0003-4105-1990
Antonio Zaccaria PolitiFacility for Light Microscopy, Max Planck Institute of Multidisciplinary Sciences, Göttingen, Germany.ORCID https://orcid.org/0000-0003-4788-0933
Tim-Oliver BuchholzFacility for Advanced Imaging and Microscopy, Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland.
Elnaz FazeliBiomedicum Imaging Unit, Faculty of Medicine and HiLIFE, University of Helsinki, Helsinki, Finland.ORCID https://orcid.org/0000-0002-0770-0777
Nicola GrittiMesoscopic Imaging Facility, European Molecular Biology Laboratory, Barcelona, Spain.
Aliaksandr HalavatyiAdvanced Light Microscopy Facility, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0000-0002-9002-457X
Sebastián González-TiradoInstitute for Computational Biomedicine, Heidelberg University, Heidelberg, Germany.ORCID https://orcid.org/0000-0002-3093-2402
Julian HenniesEMBL Imaging Centre, European Molecular Biology Laboratory, Heidelberg, Germany.
Toby HodgesThe Carpentries, c/o Community Initiatives, Oakland, California, USA.
Arif KhanData Science Centre, European Molecular Biology Laboratory, Heidelberg, Germany.
Dominik KutraCell Biology and Biophysics, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0000-0003-4202-3908
Stefania MarcottiRandall Centre for Cell and Molecular Biophysics, King's College London, London, UK.ORCID https://orcid.org/0000-0002-2877-0133
Bugra OezdemirEuro-BioImaging Bio-Hub, EMBL, Heidelberg, Germany.
Felix SchneiderGenome Biology, European Molecular Biology Laboratory, Heidelberg, Germany.
Martin SchorbElectron Microscopy Core Facility, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0000-0003-4910-1868
Anniek StokkermansHubrecht Institute, Utrecht, the Netherlands.ORCID https://orcid.org/0000-0002-9013-9983
Yi SunData Science Centre, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0000-0002-7636-0200
Nima VakiliData Science Centre, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID https://orcid.org/0009-0000-7619-7100

Funding

Chan Zuckerberg InitiativeGerman Research Foundation
6 · The paper itself

Abstract

Modern microscopy enables us to measure structural and dynamical properties of many biological processes and is therefore an indispensable research tool. However, the amount and complexity of the produced imaging data is steadily increasing. Thus, handling the data as well as reproducibly and automatically extracting accurate scientific information require dedicated 'bioimage analysis' expertise. To facilitate the dissemination of this ubiquitously required expertise we developed an open-access bioimage analysis training resource. The resource is designed to help trainers to design and run courses on bioimage analysis for life scientists. The material is modular where each module covers one concise topic and provides corresponding activities using microscopy images from biological samples. The activities can be executed using various popular software packages (e.g. ImageJ, Python). The material is hosted on a public software repository allowing the bioimaging community to readily contribute new training modules or improve existing modules. Within the last 3 years, the material has been used by several trainers in numerous courses and continuously improved.

Indexed as

Image Processing, Computer-AssistedMicroscopySoftwareimage analysismicroscopyopen‐accessteaching

Identifiers

PMID42312419
PMCPMC13644699

What OpenQuestion holds

Textmetadata
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.