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

You might also read

Related Articles

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

Sort by

Same author

Integrated transcriptomic and proteomic analyses identify novel biomarkers of bladder outlet obstruction.

bioRxiv : the preprint server for biology·2026

Same author

Lymphoid tissue chemokines limit priming duration to preserve CD8<sup>+</sup> T cell functionality.

Science (New York, N.Y.)·2026

Same author

Functional architecture of cardiac TF regulatory landscapes in control of mammalian heart development.

bioRxiv : the preprint server for biology·2026

Same author

HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data.

GigaScience·2025

Same author

Variability in the Diagnosis and Treatment of Interstitial Cystitis/Bladder Pain Syndrome: Internet Survey.

JMIR formative research·2025

Same author

Ultrasound-activated cilia for biofilm control in indwelling medical devices.

Proceedings of the National Academy of Sciences of the United States of America·2025

Same journal

A comprehensive reference genome assembly dataset of birds inhabiting Denmark, Greenland, and the Faroe Islands.

GigaScience·2026

Same journal

NanoporeDB: A Structural Resource Of Multimeric Protein Nanopores For Single-Molecule Sensing.

GigaScience·2026

Same journal

From the Brain Cell Atlas to Precision Neurology: A review of the application of AI-driven multi-omics in brain science.

GigaScience·2026

Same journal

Comparison of Deep Learning Approaches for Extreme Low-SNR Image Restoration.

GigaScience·2026

Same journal

ScopeViewer: A Browser-Based Solution for Visualizing Large Biological Images.

GigaScience·2026

Same journal

ChatMDV: Reducing Technical Barriers in Bioinformatics Analysis using Large Language Models.

GigaScience·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Jul 12, 2025

High-throughput Image Analysis of Tumor Spheroids: A User-friendly Software Application to Measure the Size of Spheroids Automatically and Accurately

High-throughput Image Analysis of Tumor Spheroids: A User-friendly Software Application to Measure the Size of Spheroids Automatically and Accurately

Published on: July 8, 2014

SpheroScan: a user-friendly deep learning tool for spheroid image analysis.

Akshay Akshay^1,2, Mitali Katoch³, Masoud Abedi⁴

¹Functional Urology Research Group, Department for BioMedical Research DBMR, University of Bern, 3008 Bern, Switzerland.

|October 27, 2023

Summary

This summary is machine-generated.

We developed SpheroScan, an automated tool for analyzing 3D spheroid images. This deep learning-based solution enhances the reproducibility and throughput of spheroid assays, advancing 3D cell culture research.

Keywords:

3D spheroids Image analysis Mask R-CNN deep learning high-throughput screening image segmentation

More Related Videos

A Robust Method for the Large-Scale Production of Spheroids for High-Content Screening and Analysis Applications

A Robust Method for the Large-Scale Production of Spheroids for High-Content Screening and Analysis Applications

Published on: December 28, 2021

Generation of 3D Tumor Spheroids for Drug Evaluation Studies

Generation of 3D Tumor Spheroids for Drug Evaluation Studies

Published on: February 24, 2023

Related Experiment Videos

Last Updated: Jul 12, 2025

High-throughput Image Analysis of Tumor Spheroids: A User-friendly Software Application to Measure the Size of Spheroids Automatically and Accurately

High-throughput Image Analysis of Tumor Spheroids: A User-friendly Software Application to Measure the Size of Spheroids Automatically and Accurately

Published on: July 8, 2014

A Robust Method for the Large-Scale Production of Spheroids for High-Content Screening and Analysis Applications

A Robust Method for the Large-Scale Production of Spheroids for High-Content Screening and Analysis Applications

Published on: December 28, 2021

Generation of 3D Tumor Spheroids for Drug Evaluation Studies

Generation of 3D Tumor Spheroids for Drug Evaluation Studies

Published on: February 24, 2023

Area of Science:

Biomedical Engineering
Cell Biology
Drug Discovery

Background:

Three-dimensional (3D) spheroid models offer a more physiologically relevant microenvironment than traditional 2D cultures.
3D spheroid assays enhance understanding of cellular behavior, drug efficacy, and toxicity.
Lack of automated tools hinders reproducibility and throughput in 3D spheroid image analysis.

Purpose of the Study:

To develop an automated, user-friendly tool for analyzing 3D spheroid images.
To improve the reproducibility and throughput of 3D spheroid assays.

Main Methods:

Developed SpheroScan, a web-based tool utilizing deep learning (Mask Regions with Convolutional Neural Networks - R-CNN).
Trained the deep learning model on spheroid images from diverse experimental conditions (IncuCyte and conventional microscopy).
Employed image detection and segmentation for automated analysis.

Main Results:

SpheroScan provides automated analysis for large image datasets.
The tool offers interactive visualization features for in-depth data exploration.
Performance evaluation on validation and test datasets showed promising results.

Conclusions:

SpheroScan significantly advances 3D spheroid image analysis.
The tool facilitates the widespread adoption of 3D spheroid models in research.
Open-source code and tutorials are available for SpheroScan.