ArticleNeuroinformatics2016
Rivulet: 3D Neuron Morphology Tracing with Iterative Back-Tracking.
Article in Neuroinformatics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
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Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Computational Tools for Neuronal Morphometric Analysis: A Systematic Search and Review.Neuroinformatics · 2024Pooled it
- Cerebrovascular Imaging-to-Graph Reconstruction for Individualized Digital Twin Brains.bioRxiv : the preprint server for biology · 2026Article
- First-principles multiscale modeling of cerebral hemodynamics enables personalized predictions of human brain temperature.Scientific reports · 2026Article
- High-Resolution Single-Neuron Reconstruction Analysis in Golgi-Stained Brain Tissues.Cell proliferation · 2026Article
- Modeling 3D mesoscaled neuronal complexity through learning-based dynamic morphometric convolution.Brain informatics · 2026Article
- A multi-stage 3D convolutional neural network algorithm for CT-based lung segment parcellation.Journal of applied clinical medical physics · 2025Article
- Gapr for large-scale collaborative single-neuron reconstruction.Nature methods · 2024Article
- Multiscale engineering of brain organoids for disease modeling.Advanced drug delivery reviews · 2024Review
- Between neurons and networks: investigating mesoscale brain connectivity in neurological and psychiatric disorders.Frontiers in neuroscience · 2024Review
- DNeuroMAT: A Deep-Learning-Based Neuron Morphology Analysis Toolbox.Methods in molecular biology (Clifton, N.J.) · 2024Article
- BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets.Nature methods · 2023Article
- Tracing weak neuron fibers.Bioinformatics (Oxford, England) · 2023Article
- Neuron tracing from light microscopy images: automation, deep learning and bench testing.Bioinformatics (Oxford, England) · 2022Review
- NeuroConstruct: 3D Reconstruction and Visualization of Neurites in Optical Microscopy Brain Images.IEEE transactions on visualization and computer graphics · 2022Article
- Comparisons of healthy human brain temperature predicted from biophysical modeling and measured with whole brain MR thermometry.Scientific reports · 2022Article
- Smart imaging to empower brain-wide neuroscience at single-cell levels.Brain informatics · 2022Review
- Neuron segmentation using 3D wavelet integrated encoder-decoder network.Bioinformatics (Oxford, England) · 2022Article
- Exploring highly reliable substructures in auto-reconstructions of a neuron.Brain informatics · 2021Article
- Retrieving similar substructures on 3D neuron reconstructions.Brain informatics · 2020Article
- Brain-Wide Shape Reconstruction of a Traced Neuron Using the Convex Image Segmentation Method.Neuroinformatics · 2020Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The digital reconstruction of single neurons from 3D confocal microscopic images is an important tool for understanding the neuron morphology and function. However the accurate automatic neuron reconstruction remains a challenging task due to the varying image quality and the complexity in the neuronal arborisation. Targeting the common challenges of neuron tracing, we propose a novel automatic 3D neuron reconstruction algorithm, named Rivulet, which is based on the multi-stencils fast-marching and iterative back-tracking. The proposed Rivulet algorithm is capable of tracing discontinuous areas without being interrupted by densely distributed noises. By evaluating the proposed pipeline with the data provided by the Diadem challenge and the recent BigNeuron project, Rivulet is shown to be robust to challenging microscopic imagestacks. We discussed the algorithm design in technical details regarding the relationships between the proposed algorithm and the other state-of-the-art neuron tracing algorithms.
Indexed as
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27184384What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.