Scaling and Benchmarking an Evolutionary Algorithm for Constructing Biophysical Neuronal Models.
biophysical neuron model
electrophysiology
evolutionary algorithms
high performance computing
non-convex optimization
strong scaling
weak scaling
Journal
Frontiers in neuroinformatics
ISSN: 1662-5196
Titre abrégé: Front Neuroinform
Pays: Switzerland
ID NLM: 101477957
Informations de publication
Date de publication:
2022
2022
Historique:
received:
23
02
2022
accepted:
18
05
2022
entrez:
5
7
2022
pubmed:
6
7
2022
medline:
6
7
2022
Statut:
epublish
Résumé
Single neuron models are fundamental for computational modeling of the brain's neuronal networks, and understanding how ion channel dynamics mediate neural function. A challenge in defining such models is determining biophysically realistic channel distributions. Here, we present an efficient, highly parallel evolutionary algorithm for developing such models, named
Identifiants
pubmed: 35784184
doi: 10.3389/fninf.2022.882552
pmc: PMC9248031
doi:
Types de publication
Journal Article
Langues
eng
Pagination
882552Informations de copyright
Copyright © 2022 Ladd, Kim, Balewski, Bouchard and Ben-Shalom.
Déclaration de conflit d'intérêts
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Références
Nature. 1996 Jul 25;382(6589):363-6
pubmed: 8684467
Comput Intell Neurosci. 2011;2011:879716
pubmed: 21584256
Exp Neurol. 1959 Nov;1:491-527
pubmed: 14435979
Nat Commun. 2018 Feb 19;9(1):710
pubmed: 29459718
J Neurophysiol. 1994 Jan;71(1):375-400
pubmed: 7512629
J Neurophysiol. 2005 Dec;94(6):3730-42
pubmed: 16093338
Front Neuroinform. 2007 Nov 02;1:1
pubmed: 18974796
Cell. 2015 Oct 08;163(2):456-92
pubmed: 26451489
J Neurosci Methods. 2022 Jan 15;366:109400
pubmed: 34728257
Front Neurosci. 2018 Dec 12;12:941
pubmed: 30618570
Front Neuroinform. 2016 Jun 06;10:18
pubmed: 27375472
J Comput Neurosci. 2004 Jul-Aug;17(1):7-11
pubmed: 15218350
Neuron. 2020 May 6;106(3):388-403.e18
pubmed: 32142648
PLoS Comput Biol. 2021 Jan 29;17(1):e1008114
pubmed: 33513130
Nat Neurosci. 2019 Jul;22(7):1182-1195
pubmed: 31209381
Nat Neurosci. 2004 Dec;7(12):1345-52
pubmed: 15558066
Annu Rev Physiol. 1984;46:455-72
pubmed: 6143532
Front Cell Neurosci. 2017 Mar 15;11:71
pubmed: 28360841
Front Neural Circuits. 2015 Oct 08;9:44
pubmed: 26500503
J Neurophysiol. 1991 Aug;66(2):635-50
pubmed: 1663538
J Neurophysiol. 2005 Apr;93(4):2194-232
pubmed: 15525801
Biophys J. 1962 Mar;2(2 Pt 2):145-67
pubmed: 14490040
J Comput Neurosci. 1999 Sep-Oct;7(2):149-71
pubmed: 10515252
Neuron. 1995 Dec;15(6):1427-39
pubmed: 8845165
Front Neuroinform. 2013 Mar 18;7:4
pubmed: 23508232
Front Neurosci. 2018 May 23;12:291
pubmed: 29875620
Front Neuroinform. 2014 Jan 16;7:41
pubmed: 24474916
Curr Opin Neurobiol. 2014 Apr;25:1-6
pubmed: 24709593
PLoS Comput Biol. 2011 Aug;7(8):e1002133
pubmed: 21876663
Cell Rep. 2021 Aug 3;36(5):109483
pubmed: 34348157
J Neurophysiol. 2002 Feb;87(2):1129-31
pubmed: 11826077
Nat Commun. 2020 Feb 19;11(1):952
pubmed: 32075972
Int J Biomed Comput. 1984 Jan-Feb;15(1):69-76
pubmed: 6698635
Front Neurosci. 2009 Sep 15;3(2):192-7
pubmed: 20011141
Front Neurosci. 2007 Oct 15;1(1):7-18
pubmed: 18982116
Front Neuroinform. 2014 Feb 21;8:16
pubmed: 24600389
J Neurosci. 2001 Jul 15;21(14):5229-38
pubmed: 11438598
J Neurophysiol. 2003 Dec;90(6):3998-4015
pubmed: 12944532
Front Neuroinform. 2019 Sep 19;13:63
pubmed: 31616273
J Neurophysiol. 2016 Nov 1;116(5):2180-2209
pubmed: 27535372
Sci Rep. 2016 Sep 08;6:32749
pubmed: 27605157
J Physiol. 1952 Aug;117(4):500-44
pubmed: 12991237
Neuron. 2016 Nov 2;92(3):628-631
pubmed: 27810006
Front Neuroinform. 2016 Jun 07;10:17
pubmed: 27375471
Biol Cybern. 2008 Nov;99(4-5):241-51
pubmed: 19011918
J Neurosci Methods. 2012;206(2):183-94
pubmed: 22407006
Biol Psychiatry. 2017 Aug 1;82(3):224-232
pubmed: 28256214