ArticleNeuroinformatics2017
SparseTracer: the Reconstruction of Discontinuous Neuronal Morphology in Noisy Images.
Article in Neuroinformatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
- A quantitative and precision‑oriented neuronal reconstruction approach based on data grading.Brain informatics · 2026Article
- A Million-Scale, Difficulty-Stratified Optical-Microscopy Image Annotation for Neuron Reconstruction.Scientific data · 2026Article
- Image enhancement network based on fiber topology-preserving multi-module fusion for neuron reconstruction.Biomedical optics express · 2025Article
- A hierarchically annotated dataset drives tangled filament recognition in digital neuron reconstruction.Patterns (New York, N.Y.) · 2024Article
- Tracing weak neuron fibers.Bioinformatics (Oxford, England) · 2023Article
- Neuron tracing from light microscopy images: automation, deep learning and bench testing.Bioinformatics (Oxford, England) · 2022Review
- Exploring highly reliable substructures in auto-reconstructions of a neuron.Brain informatics · 2021Article
- GTree: an Open-source Tool for Dense Reconstruction of Brain-wide Neuronal Population.Neuroinformatics · 2021Article
- Automated Neuron Tracing Using Content-Aware Adaptive Voxel Scooping on CNN Predicted Probability Map.Frontiers in neuroanatomy · 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
- Weakly Supervised Learning of 3D Deep Network for Neuron Reconstruction.Frontiers in neuroanatomy · 2020Article
- Identifying Weak Signals in Inhomogeneous Neuronal Images for Large-Scale Tracing of Sparsely Distributed Neurites.Neuroinformatics · 2019Article
- FMST: an Automatic Neuron Tracing Method Based on Fast Marching and Minimum Spanning Tree.Neuroinformatics · 2019Article
- Optimization of Traced Neuron Skeleton Using Lasso-Based Model.Frontiers in neuroanatomy · 2019Article
- Plastic embedding immunolabeled large-volume samples for three-dimensional high-resolution imaging.Biomedical optics express · 2017Article
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Authors and funding
9 authors.
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Abstract
Digital reconstruction of a single neuron occupies an important position in computational neuroscience. Although many novel methods have been proposed, recent advances in molecular labeling and imaging systems allow for the production of large and complicated neuronal datasets, which pose many challenges for neuron reconstruction, especially when discontinuous neuronal morphology appears in a strong noise environment. Here, we develop a new pipeline to address this challenge. Our pipeline is based on two methods, one is the region-to-region connection (RRC) method for detecting the initial part of a neurite, which can effectively gather local cues, i.e., avoid the whole image analysis, and thus boosts the efficacy of computation; the other is constrained principal curves method for completing the neurite reconstruction, which uses the past reconstruction information of a neurite for current reconstruction and thus can be suitable for tracing discontinuous neurites. We investigate the reconstruction performances of our pipeline and some of the best state-of-the-art algorithms on the experimental datasets, indicating the superiority of our method in reconstructing sparsely distributed neurons with discontinuous neuronal morphologies in noisy environment. We show the strong ability of our pipeline in dealing with the large-scale image dataset. We validate the effectiveness in dealing with various kinds of image stacks including those from the DIADEM challenge and BigNeuron project.
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