Evidence map›Paper›PMID 41491438›Full record

ArticleEMBO reports2026

Microscopy Nodes: versatile 3D microscopy visualization with Blender.

Aafke Gros, Chandni Bhickta, Granita Lokaj, Brady Johnston, Yannick Schwab, Simone Köhler, Niccolò Banterle

Abstract read
In one paragraph

Article in EMBO reports, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
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  5. Multi-step implementation of meiotic crossover patterning.bioRxiv : the preprint server for biology · 2025
    Article
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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

7 authors.

Aafke GrosEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany. aafke.gros@embl.de.ORCID 0000-0003-2459-9858
Chandni BhicktaEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany.
Granita LokajEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany.
Brady JohnstonSchool of Molecular Sciences, The University of Western Australia, Perth, WA, Australia.ORCID 0000-0001-6301-2269
Yannick SchwabEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany.ORCID 0000-0001-8027-1836
Simone KöhlerEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany.
Niccolò BanterleEuropean Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany. niccolo.banterle@embl.de.ORCID 0000-0002-1607-0324

Funding

Deutsche Forschungsgemeinschaft (DFG) 452616889
6 · The paper itself

Abstract

Effective visualization of 3D microscopy data is essential for communicating biological results. While scientific 3D rendering software is specifically designed for this purpose, it often lacks the flexibility found in non-scientific software like Blender, which is a free and open-source 3D graphics platform. However, loading microscopy data in Blender is not trivial. To bridge this gap, we introduce Microscopy Nodes, an extension for Blender that enables the seamless integration of large microscopy data. Microscopy Nodes provides efficient loading and visualization of up to 5D microscopy data from Tif and OME-Zarr files. Microscopy Nodes supports various visualization modes including volumetric, isosurface, and label-mask representations, and offers additional tools for slicing, annotation, and dynamic adjustments. By leveraging Blender's advanced rendering capabilities, users can create high-quality visualizations that accommodate both light and electron microscopy. Microscopy Nodes makes powerful, clear data visualization available to all researchers, regardless of their computational experience, and is available through the Blender extensions platform with comprehensive tutorials.

Indexed as

Imaging, Three-DimensionalMicroscopySoftwareComputer GraphicsHumansImage Processing, Computer-Assisted3D DataBlenderData VisualizationElectron MicroscopyFluorescence Microscopy

Identifiers

PMID41491438
PMCPMC12894756

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.