Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Electron Microscope Tomography and Single-particle Reconstruction

Electron Microscope Tomography and Single-particle Reconstruction

Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
Electron tomography can be performed either in TEM or STEM (scanning transmission...

You might also read

Related Articles

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

Sort by

Same author

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Frontiers in bioinformatics·2026

Same author

EMICSS: added-value annotations for EMDB entries.

Bioinformatics advances·2025

Same author

MIFA: Metadata, Incentives, Formats and Accessibility guidelines to improve the reuse of AI datasets for bioimage analysis.

Nature methods·2025

Same author

Extending the reach of single-particle cryoEM.

Current opinion in structural biology·2025

Same author

PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank.

Database : the journal of biological databases and curation·2024

Same author

IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods.

Journal of molecular biology·2024

Same journal

Ultrastructural evidence of autophagy-related processes and mitochondrial remodeling in the myxozoan parasite Henneguya piaractus.

Journal of structural biology·2026

Same journal

Architecture and dynamics of a supramolecular oxygen transport system in human homogentisate 1,2-Dioxygenase.

Journal of structural biology·2026

Same journal

Connecting pathways between mineralized fibrocartilage and bone at the Achilles tendon insertion.

Journal of structural biology·2026

Same journal

Structural and functional characterization of thermostable EstS1 esterase for BHET degradation.

Journal of structural biology·2026

Same journal

Following the white rabbit: multiscale 2D3D correlative imaging of bone structure.

Journal of structural biology·2026

Same journal

The mantis shrimp eye imaged in 3D using 4th generation synchrotron multiscale phase contrast tomography.

Journal of structural biology·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Mar 25, 2026

Array Tomography Workflow for the Targeted Acquisition of Volume Information using Scanning Electron Microscopy

Array Tomography Workflow for the Targeted Acquisition of Volume Information using Scanning Electron Microscopy

Published on: July 15, 2021

Web-based volume slicer for 3D electron-microscopy data from EMDB.

José Salavert-Torres¹, Andrii Iudin², Ingvar Lagerstedt²

¹Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, United Kingdom; Present address: Universitat Politècnica de València, DISCA, Edificio 1G - Lab 3S-15, Camino de Vera S/N, 46022 València, Spain.

Journal of Structural Biology

|February 16, 2016

Summary

This summary is machine-generated.

The Volume slicer is a new web tool for visualizing 3D electron microscopy (EM) reconstructions. It allows users to view and navigate slices along orthogonal axes, aiding in quality checks.

Keywords:

Electron Microscopy Visualisation Web components

More Related Videos

From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data

From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data

Published on: August 13, 2014

Targeted Studies Using Serial Block Face and Focused Ion Beam Scan Electron Microscopy

Targeted Studies Using Serial Block Face and Focused Ion Beam Scan Electron Microscopy

Published on: August 10, 2019

Related Experiment Videos

Last Updated: Mar 25, 2026

Array Tomography Workflow for the Targeted Acquisition of Volume Information using Scanning Electron Microscopy

Array Tomography Workflow for the Targeted Acquisition of Volume Information using Scanning Electron Microscopy

Published on: July 15, 2021

From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data

From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data

Published on: August 13, 2014

Targeted Studies Using Serial Block Face and Focused Ion Beam Scan Electron Microscopy

Targeted Studies Using Serial Block Face and Focused Ion Beam Scan Electron Microscopy

Published on: August 10, 2019

Area of Science:

Structural Biology
Biophysics
Computational Biology

Background:

Electron microscopy (EM) is crucial for visualizing molecular structures.
Interactive visualization tools are needed for analyzing 3D EM reconstructions.
The EM Data Bank (EMDB) stores valuable 3D EM data.

Purpose of the Study:

To introduce the Volume slicer, a web-based tool for viewing 3D EM data.
To provide interactive visualization of 2D slices from EM reconstructions.
To facilitate quick quality assessment of EM data.

Main Methods:

Development of a web-based slice viewer (Volume slicer).
Implementation of functionality to view and navigate 3D EM reconstructions along orthogonal axes.
User-experience testing with the EM community.

Main Results:

The Volume slicer enables intuitive viewing and navigation of EM data slices.
User testing confirmed the tool's ease of use and relevance.
The tool addresses community demand for web-based visualization of 2D slice data.

Conclusions:

The Volume slicer is a valuable tool for initial quality checks of EM reconstructions.
Future development aims to create a comprehensive Volume browser integrating EMDB and PDB data.
The tool supports the broader scientific community's need for accessible EM data visualization.