ArticleFrontiers in neuroinformatics2019
ShuTu: Open-Source Software for Efficient and Accurate Reconstruction of Dendritic Morphology.
Article in Frontiers in neuroinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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9 citing papers in PubMed.
- High-throughput analysis of dendrite and axonal arbors reveals transcriptomic correlates of neuroanatomy.Nature communications · 2024Article
- NeuroEditor: a tool to edit and visualize neuronal morphologies.Frontiers in neuroanatomy · 2024Article
- Motor cortex analogue neurons in songbirds utilize Kv3 channels to generate ultranarrow spikes.eLife · 2023Article
- Neuron tracing from light microscopy images: automation, deep learning and bench testing.Bioinformatics (Oxford, England) · 2022Review
- Cell type-specific mechanisms of information transfer in data-driven biophysical models of hippocampal CA3 principal neurons.PLoS computational biology · 2022Article
- Project, toolkit, and database of neuroinformatics ecosystem: A summary of previous studies on "Frontiers in Neuroinformatics".Frontiers in neuroinformatics · 2022Review
- Neuronize v2: Bridging the Gap Between Existing Proprietary Tools to Optimize Neuroscientific Workflows.Frontiers in neuroanatomy · 2020Article
- Article
- ShuTu: Open-Source Software for Efficient and Accurate Reconstruction of Dendritic Morphology.Frontiers in neuroinformatics · 2019Article
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6 authors.
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Abstract
Neurons perform computations by integrating inputs from thousands of synapses-mostly in the dendritic tree-to drive action potential firing in the axon. One fruitful approach to studying this process is to record from neurons using patch-clamp electrodes, fill the recorded neurons with a substance that allows subsequent staining, reconstruct the three-dimensional architectures of the dendrites, and use the resulting functional and structural data to develop computer models of dendritic integration. Accurately producing quantitative reconstructions of dendrites is typically a tedious process taking many hours of manual inspection and measurement. Here we present ShuTu, a new software package that facilitates accurate and efficient reconstruction of dendrites imaged using bright-field microscopy. The program operates in two steps: (1) automated identification of dendritic processes, and (2) manual correction of errors in the automated reconstruction. This approach allows neurons with complex dendritic morphologies to be reconstructed rapidly and efficiently, thus facilitating the use of computer models to study dendritic structure-function relationships and the computations performed by single neurons.
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