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A software tool for the analysis of neuronal morphology data

Anatomy plays a fundamental role in supporting and shaping nervous system activity. The remarkable progress of computer processing power within the last two decades has enabled the generation of electronic databases of complete three-dimensional (3D) dendritic and axonal morphology for neuroanatomic...

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Autores principales: Ledderose, Julia, Sención, Luis, Salgado, Humberto, Arias-Carrión, Oscar, Treviño, Mario
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928584/
https://www.ncbi.nlm.nih.gov/pubmed/24529393
http://dx.doi.org/10.1186/1755-7682-7-6
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author Ledderose, Julia
Sención, Luis
Salgado, Humberto
Arias-Carrión, Oscar
Treviño, Mario
author_facet Ledderose, Julia
Sención, Luis
Salgado, Humberto
Arias-Carrión, Oscar
Treviño, Mario
author_sort Ledderose, Julia
collection PubMed
description Anatomy plays a fundamental role in supporting and shaping nervous system activity. The remarkable progress of computer processing power within the last two decades has enabled the generation of electronic databases of complete three-dimensional (3D) dendritic and axonal morphology for neuroanatomical studies. Several laboratories are freely posting their reconstructions online after result publication v.gr. NeuroMorpho.Org (Nat Rev Neurosci7:318–324, 2006). These neuroanatomical archives represent a crucial resource to explore the relationship between structure and function in the brain (Front Neurosci6:49, 2012). However, such 'Cartesian’ descriptions bear little intuitive information for neuroscientists. Here, we developed a simple prototype of a MATLAB-based software tool to quantitatively describe the 3D neuronal structures from public repositories. The program imports neuronal reconstructions and quantifies statistical distributions of basic morphological parameters such as branch length, tortuosity, branch's genealogy and bifurcation angles. Using these morphological distributions, our algorithm can generate a set of virtual neurons readily usable for network simulations.
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spelling pubmed-39285842014-03-05 A software tool for the analysis of neuronal morphology data Ledderose, Julia Sención, Luis Salgado, Humberto Arias-Carrión, Oscar Treviño, Mario Int Arch Med Review Anatomy plays a fundamental role in supporting and shaping nervous system activity. The remarkable progress of computer processing power within the last two decades has enabled the generation of electronic databases of complete three-dimensional (3D) dendritic and axonal morphology for neuroanatomical studies. Several laboratories are freely posting their reconstructions online after result publication v.gr. NeuroMorpho.Org (Nat Rev Neurosci7:318–324, 2006). These neuroanatomical archives represent a crucial resource to explore the relationship between structure and function in the brain (Front Neurosci6:49, 2012). However, such 'Cartesian’ descriptions bear little intuitive information for neuroscientists. Here, we developed a simple prototype of a MATLAB-based software tool to quantitatively describe the 3D neuronal structures from public repositories. The program imports neuronal reconstructions and quantifies statistical distributions of basic morphological parameters such as branch length, tortuosity, branch's genealogy and bifurcation angles. Using these morphological distributions, our algorithm can generate a set of virtual neurons readily usable for network simulations. BioMed Central 2014-02-17 /pmc/articles/PMC3928584/ /pubmed/24529393 http://dx.doi.org/10.1186/1755-7682-7-6 Text en Copyright © 2014 Ledderose et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Review
Ledderose, Julia
Sención, Luis
Salgado, Humberto
Arias-Carrión, Oscar
Treviño, Mario
A software tool for the analysis of neuronal morphology data
title A software tool for the analysis of neuronal morphology data
title_full A software tool for the analysis of neuronal morphology data
title_fullStr A software tool for the analysis of neuronal morphology data
title_full_unstemmed A software tool for the analysis of neuronal morphology data
title_short A software tool for the analysis of neuronal morphology data
title_sort software tool for the analysis of neuronal morphology data
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928584/
https://www.ncbi.nlm.nih.gov/pubmed/24529393
http://dx.doi.org/10.1186/1755-7682-7-6
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