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Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells

We have attempted to reproduce a biologically-constrained point-neuron model of CA1 pyramidal cells. The original models, developed for the Brian simulator, captured the frequency-current profiles of both strongly and weakly adapting cells. As part of the present study, we reproduced the model for d...

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Detalles Bibliográficos
Autores principales: Appukuttan, Shailesh, Davison, Andrew P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9679150/
https://www.ncbi.nlm.nih.gov/pubmed/36424953
http://dx.doi.org/10.3389/fnint.2022.1041423
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author Appukuttan, Shailesh
Davison, Andrew P.
author_facet Appukuttan, Shailesh
Davison, Andrew P.
author_sort Appukuttan, Shailesh
collection PubMed
description We have attempted to reproduce a biologically-constrained point-neuron model of CA1 pyramidal cells. The original models, developed for the Brian simulator, captured the frequency-current profiles of both strongly and weakly adapting cells. As part of the present study, we reproduced the model for different simulators, namely Brian2 and NEURON. The reproductions were attempted independent of the original Brian implementation, relying solely on the published article. The different implementations were quantitatively validated, to evaluate how well they mirror the original model. Additional tests were developed and packaged into a test suite, that helped further characterize and compare various aspects of these models, beyond the scope of the original study. Overall, we were able to reproduce the core features of the model, but observed certain unaccountable discrepancies. We demonstrate an approach for undertaking these evaluations, using the SciUnit framework, that allows for such quantitative validations of scientific models, to verify their accurate replication and/or reproductions. All resources employed and developed in our study have been publicly shared via the EBRAINS Live Papers platform.
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spelling pubmed-96791502022-11-23 Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells Appukuttan, Shailesh Davison, Andrew P. Front Integr Neurosci Neuroscience We have attempted to reproduce a biologically-constrained point-neuron model of CA1 pyramidal cells. The original models, developed for the Brian simulator, captured the frequency-current profiles of both strongly and weakly adapting cells. As part of the present study, we reproduced the model for different simulators, namely Brian2 and NEURON. The reproductions were attempted independent of the original Brian implementation, relying solely on the published article. The different implementations were quantitatively validated, to evaluate how well they mirror the original model. Additional tests were developed and packaged into a test suite, that helped further characterize and compare various aspects of these models, beyond the scope of the original study. Overall, we were able to reproduce the core features of the model, but observed certain unaccountable discrepancies. We demonstrate an approach for undertaking these evaluations, using the SciUnit framework, that allows for such quantitative validations of scientific models, to verify their accurate replication and/or reproductions. All resources employed and developed in our study have been publicly shared via the EBRAINS Live Papers platform. Frontiers Media S.A. 2022-11-08 /pmc/articles/PMC9679150/ /pubmed/36424953 http://dx.doi.org/10.3389/fnint.2022.1041423 Text en Copyright © 2022 Appukuttan and Davison. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Neuroscience
Appukuttan, Shailesh
Davison, Andrew P.
Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title_full Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title_fullStr Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title_full_unstemmed Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title_short Reproducing and quantitatively validating a biologically-constrained point-neuron model of CA1 pyramidal cells
title_sort reproducing and quantitatively validating a biologically-constrained point-neuron model of ca1 pyramidal cells
topic Neuroscience
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9679150/
https://www.ncbi.nlm.nih.gov/pubmed/36424953
http://dx.doi.org/10.3389/fnint.2022.1041423
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