Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Three-Dimensional Microscopy in Microbiology01:28

Three-Dimensional Microscopy in Microbiology

755
Three-dimensional imaging techniques are essential in cell biology, allowing researchers to visualize intricate cellular structures with high resolution. Two prominent methods, Differential Interference Contrast Microscopy (DIC) and Confocal Scanning Laser Microscopy (CSLM), provide distinct advantages for imaging live and thick specimens, respectively.Differential Interference Contrast MicroscopyDIC microscopy enhances contrast in transparent, unstained samples by converting phase...
755
Two-Dimensional Microscopy in Microbiology01:29

Two-Dimensional Microscopy in Microbiology

1.0K
Two-dimensional (2D) microscopy encompasses a range of optical techniques that capture images within a single focal plane, offering detailed representations of microscopic structures. These techniques are essential in biological and medical research, enabling the visualization of cellular and subcellular structures with different levels of contrast and specificity.There are several major types of 2D microscopy, each with strengths and applications.Bright-Field MicroscopyBright-field microscopy...
1.0K
Total Internal Reflection Fluorescence Microscopy01:05

Total Internal Reflection Fluorescence Microscopy

11.0K
Total internal reflection fluorescence microscopy or TIRF is an advanced microscopic technique used to visualize fluorophores in samples close to a solid surface with a higher refractive index, such as a glass coverslip. TIRF only allows fluorophores in proximity to the solid surface to be excited. When light from a medium with a lower refractive index (such as air) hits the glass coverslip at a critical angle, the light undergoes total internal reflection stead of passing through the glass.
11.0K
Confocal Fluorescence Microscopy01:16

Confocal Fluorescence Microscopy

19.9K
Confocal microscopy is an advanced microscopic technique. The prime advantage of the confocal microscope over other microscopy techniques is its ability to block the out-of-focus light from the illuminated samples using pinholes. It is widely used with fluorescence optics to obtain high-resolution, sharp contrast images. Unlike optical microscopes, confocal microscopes use a focused beam of light laser to scan the entire sample surface at different z-planes. These microscopes are, therefore,...
19.9K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Sweet and fatty symbionts: Photosynthetic productivity and carbon storage boosted in microalgae within a host.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

Diel remodeling and cellular integration of the nitroplast.

bioRxiv : the preprint server for biology·2026
Same author

NPP-21/TPR is required for developmental control of spindle checkpoint strength in <i>C. elegans</i>.

bioRxiv : the preprint server for biology·2026
Same author

Septin-mediated coupling of protein import and division during chloroplast evolution.

bioRxiv : the preprint server for biology·2026
Same author

RanBP2-dependent annulate lamellae drive nuclear pore assembly and nuclear expansion.

Nature communications·2026
Same author

Multi-step implementation of meiotic crossover patterning.

bioRxiv : the preprint server for biology·2025
Same journal

Publisher Correction: Collagen VI is a fibrosis-associated signal disrupting muscle regeneration across distinct human myopathies.

EMBO reports·2026
Same journal

Food for thought : The role of life cycle thinking in sustainable food system transitions.

EMBO reports·2026
Same journal

AURORA A interacts with DICER and SETD2 to promote S-phase progression.

EMBO reports·2026
Same journal

A distinct E dimer epitope underlies selective recognition by a protective human West Nile virus antibody.

EMBO reports·2026
Same journal

The big picture : Parasites, People and the Path to Ending Schistosomiasis.

EMBO reports·2026
Same journal

C-terminal lysine residues localise NLRP10 at lipid droplets and govern NLRP10 oligomer formation.

EMBO reports·2026
See all related articles

Related Experiment Video

Updated: Jan 13, 2026

A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells
12:49

A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells

Published on: September 28, 2019

13.3K

Microscopy Nodes: versatile 3D microscopy visualization with Blender.

Aafke Gros1, Chandni Bhickta2, Granita Lokaj2

  • 1European Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany. aafke.gros@embl.de.

EMBO Reports
|January 6, 2026
PubMed
Summary
This summary is machine-generated.

Microscopy Nodes is a new Blender extension for easy 3D visualization of large microscopy datasets. It supports various data types and visualization modes, enhancing biological data communication for researchers.

Keywords:
3D DataBlenderData VisualizationElectron MicroscopyFluorescence Microscopy

More Related Videos

Non-invasive 3D-Visualization with Sub-micron Resolution Using Synchrotron-X-ray-tomography
08:51

Non-invasive 3D-Visualization with Sub-micron Resolution Using Synchrotron-X-ray-tomography

Published on: May 27, 2008

13.6K
Author Spotlight: Unraveling Bacterial Responses to Antibiotics and Immune System in Tissues
08:01

Author Spotlight: Unraveling Bacterial Responses to Antibiotics and Immune System in Tissues

Published on: March 1, 2024

1.4K

Related Experiment Videos

Last Updated: Jan 13, 2026

A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells
12:49

A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells

Published on: September 28, 2019

13.3K
Non-invasive 3D-Visualization with Sub-micron Resolution Using Synchrotron-X-ray-tomography
08:51

Non-invasive 3D-Visualization with Sub-micron Resolution Using Synchrotron-X-ray-tomography

Published on: May 27, 2008

13.6K
Author Spotlight: Unraveling Bacterial Responses to Antibiotics and Immune System in Tissues
08:01

Author Spotlight: Unraveling Bacterial Responses to Antibiotics and Immune System in Tissues

Published on: March 1, 2024

1.4K

Area of Science:

  • Scientific Visualization
  • Bioimaging
  • Computational Biology

Background:

  • Effective visualization of 3D microscopy data is crucial for biological research communication.
  • Existing scientific 3D rendering software often lacks the flexibility of general 3D platforms like Blender.
  • Directly loading microscopy data into Blender is challenging.

Purpose of the Study:

  • To introduce Microscopy Nodes, a Blender extension for seamless integration of large microscopy data.
  • To enable efficient loading and visualization of up to 5D microscopy data within Blender.
  • To leverage Blender's rendering capabilities for high-quality biological visualizations.

Main Methods:

  • Developed Microscopy Nodes as an extension for the Blender 3D graphics platform.
  • Implemented efficient loading for Tif and OME-Zarr microscopy file formats.
  • Integrated support for volumetric, isosurface, and label-mask visualization modes.

Main Results:

  • Microscopy Nodes allows seamless integration and visualization of large-scale 3D microscopy data.
  • The extension supports data up to 5 dimensions and various file formats.
  • Users can employ diverse visualization techniques, including slicing and annotation, within Blender.

Conclusions:

  • Microscopy Nodes bridges the gap between scientific data and flexible 3D visualization tools.
  • It empowers researchers to create high-quality visualizations for both light and electron microscopy data.
  • The extension democratizes advanced data visualization for scientists of all computational backgrounds.