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NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON

One of the fundamental goals in neuroscience is to determine how the brain processes information and ultimately controls the execution of complex behaviors. Over the past four decades, there has been a steady growth in our knowledge of the morphological and functional diversity of neurons, the build...

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Autores principales: Cobb, Evan A. W., Petroccione, Maurice A., Scimemi, Annalisa
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9832141/
https://www.ncbi.nlm.nih.gov/pubmed/36627356
http://dx.doi.org/10.1038/s41598-022-27302-8
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author Cobb, Evan A. W.
Petroccione, Maurice A.
Scimemi, Annalisa
author_facet Cobb, Evan A. W.
Petroccione, Maurice A.
Scimemi, Annalisa
author_sort Cobb, Evan A. W.
collection PubMed
description One of the fundamental goals in neuroscience is to determine how the brain processes information and ultimately controls the execution of complex behaviors. Over the past four decades, there has been a steady growth in our knowledge of the morphological and functional diversity of neurons, the building blocks of the brain. These cells clearly differ not only for their anatomy and ion channel distribution, but also for the type, strength, location, and temporal pattern of activity of the many synaptic inputs they receive. Compartmental modeling programs like NEURON have become widely used in the neuroscience community to address a broad range of research questions, including how neurons integrate synaptic inputs and propagate information through complex neural networks. One of the main strengths of NEURON is its ability to incorporate user-defined information about the realistic morphology and biophysical properties of different cell types. Although the graphical user interface of the program can be used to run initial exploratory simulations, introducing a stochastic representation of synaptic weights, locations and activation times typically requires users to develop their own codes, a task that can be overwhelming for some beginner users. Here we describe NRN-EZ, an interactive application that allows users to specify complex patterns of synaptic input activity that can be integrated as part of NEURON simulations. Through its graphical user interface, NRN-EZ aims to ease the learning curve to run computational models in NEURON, for users that do not necessarily have a computer science background.
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spelling pubmed-98321412023-01-12 NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON Cobb, Evan A. W. Petroccione, Maurice A. Scimemi, Annalisa Sci Rep Article One of the fundamental goals in neuroscience is to determine how the brain processes information and ultimately controls the execution of complex behaviors. Over the past four decades, there has been a steady growth in our knowledge of the morphological and functional diversity of neurons, the building blocks of the brain. These cells clearly differ not only for their anatomy and ion channel distribution, but also for the type, strength, location, and temporal pattern of activity of the many synaptic inputs they receive. Compartmental modeling programs like NEURON have become widely used in the neuroscience community to address a broad range of research questions, including how neurons integrate synaptic inputs and propagate information through complex neural networks. One of the main strengths of NEURON is its ability to incorporate user-defined information about the realistic morphology and biophysical properties of different cell types. Although the graphical user interface of the program can be used to run initial exploratory simulations, introducing a stochastic representation of synaptic weights, locations and activation times typically requires users to develop their own codes, a task that can be overwhelming for some beginner users. Here we describe NRN-EZ, an interactive application that allows users to specify complex patterns of synaptic input activity that can be integrated as part of NEURON simulations. Through its graphical user interface, NRN-EZ aims to ease the learning curve to run computational models in NEURON, for users that do not necessarily have a computer science background. Nature Publishing Group UK 2023-01-10 /pmc/articles/PMC9832141/ /pubmed/36627356 http://dx.doi.org/10.1038/s41598-022-27302-8 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Cobb, Evan A. W.
Petroccione, Maurice A.
Scimemi, Annalisa
NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title_full NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title_fullStr NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title_full_unstemmed NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title_short NRN-EZ: an application to streamline biophysical modeling of synaptic integration using NEURON
title_sort nrn-ez: an application to streamline biophysical modeling of synaptic integration using neuron
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9832141/
https://www.ncbi.nlm.nih.gov/pubmed/36627356
http://dx.doi.org/10.1038/s41598-022-27302-8
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