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

A multifunctional composite film comprising a citric acid-crosslinked polysaccharide matrix loaded with nutmeg essential oil nanoemulsion: suitable for facilitating active wound healing.

Biomaterials advances·2026

Same author

Self-Oriented Gradient Ionic Skins for Dual-Function Electromagnetic Shielding and Self-Powered Sensing.

Nano-micro letters·2026

Same author

Dynamic financial tail risk networks: A backtesting-based conditional expected shortfall approach.

PloS one·2026

Same author

Joint full waveform inversion and source localization of virtual and actual passive source seismic data.

Scientific reports·2026

Same author

Coordinated liver-serum-adipose lipid alterations and hepatic proteins regulate tissue-specific deposition of intramuscular and abdominal fat in chickens.

Poultry science·2026

Same author

Correlation of Patient-Reported Symptoms With Rhinogram Features Beyond Simple Airway Resistance.

The Annals of otology, rhinology, and laryngology·2026

Same journal

Metabolically Faithful 3D PET Restoration via Volumetric Swin Transformers.

Neuroinformatics·2026

Same journal

CytoCLIP: Learning Cytoarchitectural Characteristics in Developing Human Brain Using Contrastive Language Image Pre-Training.

Neuroinformatics·2026

Same journal

Increasing the Reliability of Functional Connectivity by Predicting Long-Scan Functional Connectivity based on Short-Scan Functional Connectivity: Model Exploration, Explanation, Validation, and Application.

Neuroinformatics·2026

Same journal

HESREN: A Derivative-Informed Reservoir Framework for Detecting Transient Neural Events and Windowless Estimation of Dynamic Functional Connectivity.

Neuroinformatics·2026

Same journal

Computational Morphometry of Peripheral Nerves: A Pipeline Perspective on Reproducibility and Generalization.

Neuroinformatics·2026

Same journal

Multimodal Branched Transport Infers Anatomically Aligned Brain Reaction Maps.

Neuroinformatics·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Mar 21, 2026

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Published on: February 15, 2017

Rivulet: 3D Neuron Morphology Tracing with Iterative Back-Tracking.

Siqi Liu¹, Donghao Zhang², Sidong Liu²

¹School of Information Technologies, University of Sydney, Darlington, NSW, Australia. siqi.liu@sydney.edu.au.

Neuroinformatics

|May 18, 2016

Summary

This summary is machine-generated.

We developed Rivulet, a novel algorithm for automatic 3D neuron reconstruction from microscopy images. This tool accurately traces neuronal structures, overcoming challenges like noise and complex branching patterns.

Keywords:

3D neuron reconstruction Neuron morphology

More Related Videos

Imaging and Quantification of Intact Neuronal Dendrites via CLARITY Tissue Clearing

Imaging and Quantification of Intact Neuronal Dendrites via CLARITY Tissue Clearing

Published on: April 20, 2021

Author Spotlight: Optimizing Dendritic Spine Analysis for Balanced Manual and Automated Assessment in the Hippocampus CA1 Apical Dendrites

Author Spotlight: Optimizing Dendritic Spine Analysis for Balanced Manual and Automated Assessment in the Hippocampus CA1 Apical Dendrites

Published on: September 27, 2024

Related Experiment Videos

Last Updated: Mar 21, 2026

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Published on: February 15, 2017

Imaging and Quantification of Intact Neuronal Dendrites via CLARITY Tissue Clearing

Imaging and Quantification of Intact Neuronal Dendrites via CLARITY Tissue Clearing

Published on: April 20, 2021

Author Spotlight: Optimizing Dendritic Spine Analysis for Balanced Manual and Automated Assessment in the Hippocampus CA1 Apical Dendrites

Author Spotlight: Optimizing Dendritic Spine Analysis for Balanced Manual and Automated Assessment in the Hippocampus CA1 Apical Dendrites

Published on: September 27, 2024

Area of Science:

Neuroscience
Computational Biology
Image Analysis

Background:

Accurate digital reconstruction of single neurons from 3D confocal microscopy images is crucial for understanding neuronal morphology and function.
Automatic neuron reconstruction faces challenges due to variable image quality and complex neuronal arborization.

Purpose of the Study:

To propose a novel automatic 3D neuron reconstruction algorithm, Rivulet, designed to address common neuron tracing challenges.
To develop a robust algorithm capable of tracing discontinuous neuronal areas and handling noise effectively.

Main Methods:

The Rivulet algorithm utilizes multi-stencils fast-marching and iterative back-tracking techniques.
The algorithm is designed to trace discontinuous neuronal structures and is robust against densely distributed noise.

Main Results:

Rivulet demonstrates robustness in tracing challenging microscopic image stacks.
Performance was evaluated using datasets from the Diadem challenge and the BigNeuron project.

Conclusions:

The proposed Rivulet algorithm offers an effective solution for automatic 3D neuron reconstruction.
Rivulet shows promise in overcoming limitations of existing neuron tracing methods, particularly in complex and noisy image data.