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

Overview of Microscopy Techniques

Overview of Microscopy Techniques

The early pioneers of microscopy opened a window into the invisible world of microorganisms. In 1830, Joseph Jackson Lister created an essentially modern light microscope. The 20th century saw the development of microscopes that leveraged nonvisible light, such as fluorescence microscopy that uses an ultraviolet light source and electron microscopy that uses short-wavelength electron beams. These advances significantly improved magnification, image resolution, and contrast. By comparison, the...

You might also read

Related Articles

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

Sort by

Same author

HIF1α activation is associated with increased CaV3.2 expression and hypoxia-induced neuronal hyperexcitability.

Neurobiology of disease·2026

Same author

Simultaneous brain-wide single-cell recording resolves spatiotemporal memory architecture.

bioRxiv : the preprint server for biology·2026

Same author

GloBIAS: strengthening the foundations of bioimage analysis.

Nature methods·2026

Same author

Structurally exclusive Teneurin complexes orchestrate divergent programs in early cortical development.

Nature communications·2026

Same author

Perinatal liver sympathetic innervation governs body size.

Communications biology·2026

Same author

Structural plasticity of the axon initial segment in hippocampal granule cells after entorhinal denervation.

Brain research bulletin·2026

Same journal

ClairS: a deep-learning method for long-read tumor-normal pair somatic small variant calling.

Nature methods·2026

Same journal

RNAbpFlow: base pair-augmented SE(3) flow matching for conditional RNA 3D structure generation.

Nature methods·2026

Same journal

Spatio-DARLIN enables robust and efficient in situ lineage tracing in mice at single-cell resolution.

Nature methods·2026

Same journal

EasyGrid: a versatile platform for automated cryo-EM sample preparation and quality control.

Nature methods·2026

Same journal

Cloud-based microscope enables live neuroimaging for 24 h and beyond with worldwide access.

Nature methods·2026

Same journal

Deep molecular profiling in three dimensions.

Nature methods·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Jun 14, 2026

Workflow for High-content, Individual Cell Quantification of Fluorescent Markers from Universal Microscope Data, Supported by Open Source Software

Workflow for High-content, Individual Cell Quantification of Fluorescent Markers from Universal Microscope Data, Supported by Open Source Software

Published on: December 16, 2014

Arkitekt: streaming analysis and real-time workflows for microscopy.

Johannes Roos^1,2, Stéphane Bancelin¹, Tom Delaire¹

¹Interdisciplinary Institute for Neuroscience, University of Bordeaux, CNRS, Bordeaux, France.

|September 18, 2024

Summary

This summary is machine-generated.

Arkitekt is an open-source tool that enables real-time, complex quantitative microscopy workflows by orchestrating various bioimage applications. This solution addresses the need for efficient data management and multitool interoperability in modern bioimaging.

More Related Videos

Spatial Temporal Analysis of Fieldwise Flow in Microvasculature

Spatial Temporal Analysis of Fieldwise Flow in Microvasculature

Published on: November 18, 2019

Substructure Analyzer: A User-Friendly Workflow for Rapid Exploration and Accurate Analysis of Cellular Bodies in Fluorescence Microscopy Images

Substructure Analyzer: A User-Friendly Workflow for Rapid Exploration and Accurate Analysis of Cellular Bodies in Fluorescence Microscopy Images

Published on: July 15, 2020

Related Experiment Videos

Last Updated: Jun 14, 2026

Workflow for High-content, Individual Cell Quantification of Fluorescent Markers from Universal Microscope Data, Supported by Open Source Software

Workflow for High-content, Individual Cell Quantification of Fluorescent Markers from Universal Microscope Data, Supported by Open Source Software

Published on: December 16, 2014

Spatial Temporal Analysis of Fieldwise Flow in Microvasculature

Spatial Temporal Analysis of Fieldwise Flow in Microvasculature

Published on: November 18, 2019

Substructure Analyzer: A User-Friendly Workflow for Rapid Exploration and Accurate Analysis of Cellular Bodies in Fluorescence Microscopy Images

Substructure Analyzer: A User-Friendly Workflow for Rapid Exploration and Accurate Analysis of Cellular Bodies in Fluorescence Microscopy Images

Published on: July 15, 2020

Area of Science:

Bioimage analysis
Quantitative microscopy
Computational biology

Background:

Quantitative microscopy workflows are increasingly complex due to deep learning advancements and high-throughput imaging.
Generating terabytes of data daily necessitates efficient data management and multitool interoperability.
Existing solutions for bioimage analysis lack flexibility, scalability, and real-time capabilities.

Purpose of the Study:

To introduce Arkitekt, an open-source middleware for real-time quantitative microscopy workflows.
To enable efficient orchestration and data management for complex bioimage analysis.
To facilitate the integration of various bioimage applications for enhanced microscopy capabilities.

Main Methods:

Arkitekt acts as a middleman, connecting users with bioimage applications.
It supports local and remote execution of popular bioimage software.
Includes modules for visualization, analysis, source code execution, and piloting acquisition software.

Main Results:

Arkitekt enables complex quantitative microscopy workflows in real time.
It provides reliable and efficient orchestration of bioimage software.
Facilitates 'smart microscopy' by integrating diverse functionalities.

Conclusions:

Arkitekt enhances the efficiency and flexibility of quantitative microscopy.
It addresses the limitations of existing offline bioimage analysis solutions.
Arkitekt makes advanced, real-time bioimage analysis more accessible.