ArticleNeuroinformatics2021
GTree: an Open-source Tool for Dense Reconstruction of Brain-wide Neuronal Population.
Article in Neuroinformatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed, 49 citations in OpenAlex.
- A quantitative and precision‑oriented neuronal reconstruction approach based on data grading.Brain informatics · 2026Article
- SegAnyNeuron: a neural image segmentation network with strong generalization performance by modeling image intensity variation.Brain informatics · 2026Article
- Reconstruction of Axonal Projections of Single Neurons Using PointTree.Bio-protocol · 2026Article
- A high-resolution dataset of mouse brain vasculature for deep learning-based reconstruction.Frontiers in neuroinformatics · 2026Article
- A dorsal subiculum-medial mammillary body pathway for spatial memory.Molecular psychiatry · 2025Article
- Automatic and accurate reconstruction of long-range axonal projections of single-neuron in mouse brain.eLife · 2025Article
- A whole-brain male mouse atlas of long-range inputs to histaminergic neurons.Nature communications · 2025Article
- Image enhancement network based on fiber topology-preserving multi-module fusion for neuron reconstruction.Biomedical optics express · 2025Article
- A neuronal imaging dataset for deep learning in the reconstruction of single-neuron axons.Frontiers in neuroinformatics · 2025Article
- Link Brain-Wide Projectome to Neuronal Dynamics in the Mouse Brain.Neuroscience bulletin · 2024Article
- A hierarchically annotated dataset drives tangled filament recognition in digital neuron reconstruction.Patterns (New York, N.Y.) · 2024Article
- Accelerating the continuous community sharing of digital neuromorphology data.FASEB bioAdvances · 2024Article
- Connecto-informatics at the mesoscale: current advances in image processing and analysis for mapping the brain connectivity.Brain informatics · 2024Review
- NeuroEditor: a tool to edit and visualize neuronal morphologies.Frontiers in neuroanatomy · 2024Article
- Whole-brain Optical Imaging: A Powerful Tool for Precise Brain Mapping at the Mesoscopic Level.Neuroscience bulletin · 2023Review
- Article
- Brain-wide dendrites in a near-optimal performance of dynamic range and information transmission.Scientific reports · 2023Article
- Whole-brain mapping of histaminergic projections in mouse brain.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Tracing weak neuron fibers.Bioinformatics (Oxford, England) · 2023Article
- SNAP: a structure-based neuron morphology reconstruction automatic pruning pipeline.Frontiers in neuroinformatics · 2023Article
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Authors and funding
18 authors at 2 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Recent technological advancements have facilitated the imaging of specific neuronal populations at the single-axon level across the mouse brain. However, the digital reconstruction of neurons from a large dataset requires months of manual effort using the currently available software. In this study, we develop an open-source software called GTree (global tree reconstruction system) to overcome the above-mentioned problem. GTree offers an error-screening system for the fast localization of submicron errors in densely packed neurites and along with long projections across the whole brain, thus achieving reconstruction close to the ground truth. Moreover, GTree integrates a series of our previous algorithms to significantly reduce manual interference and achieve high-level automation. When applied to an entire mouse brain dataset, GTree is shown to be five times faster than widely used commercial software. Finally, using GTree, we demonstrate the reconstruction of 35 long-projection neurons around one injection site of a mouse brain. GTree is also applicable to large datasets (10 TB or higher) from various light microscopes.
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