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

You might also read

Related Articles

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

Sort by
Same author

Unveiling Candidate Markers for Drug Resistance or Synthetic Lethality in Cervical Cancer: Integrative Analysis of Genetic and Pharmacoprofiling.

Cancer reports (Hoboken, N.J.)·2026
Same author

The cell cycle variant in multiciliated cells incorporates 2 centriole biogenesis cycles.

bioRxiv : the preprint server for biology·2026
Same author

A 48-class handwritten dataset for the endangered chakma language.

Data in brief·2026
Same author

In vivo autofluorescence lifetime imaging of spatial metabolic heterogeneities and learning-induced changes in the <i>Drosophila</i> mushroom body.

eLife·2026
Same author

Large scale compound selection guided by cell painting reveals activity cliffs and functional relationships.

Communications biology·2026
Same author

Ex vivo drug sensitivity profiling to complement molecular profiling in pediatric precision oncology.

NPJ precision oncology·2026
Same journal

Chlorinated VSLSs Surpass HCFCs in CFC-11-Equivalent Emissions for Ozone Layer Depletion in China.

Nature communications·2026
Same journal

Author Correction: Charge transfer in triphenylamine-tetrazine covalent organic frameworks for solar-driven hydrogen peroxide production.

Nature communications·2026
Same journal

Vegetation browning patterns under compound soil and atmospheric dryness in northern permafrost ecosystems.

Nature communications·2026
Same journal

Voltage imaging of CA1 pyramidal cells and SST+ interneurons reveals stability and plasticity mechanisms of spatial firing.

Nature communications·2026
Same journal

Radical-omics reveals the hydrogen-abstraction pathway of isoprene oxidation.

Nature communications·2026
Same journal

Toughening elastomer via sequentially activated multi-pathway energy dissipation.

Nature communications·2026
See all related articles

Related Experiment Video

Updated: Mar 1, 2026

Engineering Three-dimensional Epithelial Tissues Embedded within Extracellular Matrix
08:49

Engineering Three-dimensional Epithelial Tissues Embedded within Extracellular Matrix

Published on: July 10, 2016

8.0K

Smooth 2D manifold extraction from 3D image stack.

Asm Shihavuddin1, Sreetama Basu1,2, Elton Rexhepaj1,3

  • 1Institut de Biologie de l'Ecole Normale Superieure (IBENS), CNRS UMR8197, Inserm U1024, Ecole Normale Superieure, PSL Research University, 46 Rue d'Ulm, 75005 Paris, France.

Nature Communications
|June 1, 2017
PubMed
Summary
This summary is machine-generated.

Maximum intensity projection in 3D microscopy creates artifacts. Our new smooth manifold extraction algorithm provides accurate 2D visualizations of 3D image stacks, preserving spatial relationships for better biological interpretation.

More Related Videos

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

13.5K
Author Spotlight: Advancing 3D Modeling for Enhanced Diagnosis and Treatment of Pulmonary Nodules in Early-Stage Lung Cancer
07:53

Author Spotlight: Advancing 3D Modeling for Enhanced Diagnosis and Treatment of Pulmonary Nodules in Early-Stage Lung Cancer

Published on: October 13, 2023

2.2K

Related Experiment Videos

Last Updated: Mar 1, 2026

Engineering Three-dimensional Epithelial Tissues Embedded within Extracellular Matrix
08:49

Engineering Three-dimensional Epithelial Tissues Embedded within Extracellular Matrix

Published on: July 10, 2016

8.0K
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

13.5K
Author Spotlight: Advancing 3D Modeling for Enhanced Diagnosis and Treatment of Pulmonary Nodules in Early-Stage Lung Cancer
07:53

Author Spotlight: Advancing 3D Modeling for Enhanced Diagnosis and Treatment of Pulmonary Nodules in Early-Stage Lung Cancer

Published on: October 13, 2023

2.2K

Area of Science:

  • Biophysics
  • Bioimaging
  • Computational Biology

Background:

  • Three-dimensional (3D) fluorescence microscopy is crucial for studying biological structures like cells and tissues.
  • Maximum intensity projection (MIP) is a common 3D rendering technique but introduces artifacts due to its discontinuous voxel extraction, potentially leading to misinterpretations.
  • Accurate visualization is essential for understanding complex biological spatial relationships.

Purpose of the Study:

  • To develop a novel algorithm for improved 2D visualization of 3D microscopy data.
  • To overcome the limitations of maximum intensity projection by preserving local spatial relationships.
  • To provide a user-friendly tool for accurate interpretation of 3D image stacks.

Main Methods:

  • Development of the smooth manifold extraction algorithm.
  • Application of the algorithm to various biological datasets acquired using confocal and wide-field microscopy.
  • Creation of a parameter-free ImageJ/Fiji plugin for easy implementation.

Main Results:

  • The smooth manifold extraction algorithm generates continuous, focused 2D representations from 3D volumes.
  • This method effectively preserves local spatial relationships, unlike MIP.
  • Demonstrated utility across diverse biological imaging applications, confirming its robustness.

Conclusions:

  • Smooth manifold extraction offers a significant improvement over traditional MIP for 3D microscopy image analysis.
  • The developed ImageJ/Fiji plugin enables accurate and artifact-free 2D visualization and interpretation of 3D image stacks.
  • This approach enhances the reliability of biological discoveries derived from 3D imaging data.