Literature DB >> 22654177

A database of computational models of a half-center oscillator for analyzing how neuronal parameters influence network activity.

Anca Doloc-Mihu1, Ronald L Calabrese.   

Abstract

A half-center oscillator (HCO) is a common circuit building block of central pattern generator networks that produce rhythmic motor patterns in animals. Here we constructed an efficient relational database table with the resulting characteristics of the Hill et al.'s (J Comput Neurosci 10:281-302, 2001) HCO simple conductance-based model. The model consists of two reciprocally inhibitory neurons and replicates the electrical activity of the oscillator interneurons of the leech heartbeat central pattern generator under a variety of experimental conditions. Our long-range goal is to understand how this basic circuit building block produces functional activity under a variety of parameter regimes and how different parameter regimes influence stability and modulatability. By using the latest developments in computer technology, we simulated and stored large amounts of data (on the order of terabytes). We systematically explored the parameter space of the HCO and corresponding isolated neuron models using a brute-force approach. We varied a set of selected parameters (maximal conductance of intrinsic and synaptic currents) in all combinations, resulting in about 10 million simulations. We classified these HCO and isolated neuron model simulations by their activity characteristics into identifiable groups and quantified their prevalence. By querying the database, we compared the activity characteristics of the identified groups of our simulated HCO models with those of our simulated isolated neuron models and found that regularly bursting neurons compose only a small minority of functional HCO models; the vast majority was composed of spiking neurons.

Entities:  

Keywords:  Automated analysis; Bursting; Central pattern generator; Database; Isolated neuron; Large datasets; Oscillation; Parameter variation; Simulation

Year:  2011        PMID: 22654177      PMCID: PMC3101324          DOI: 10.1007/s10867-011-9215-y

Source DB:  PubMed          Journal:  J Biol Phys        ISSN: 0092-0606            Impact factor:   1.365


  19 in total

1.  A model of a segmental oscillator in the leech heartbeat neuronal network.

Authors:  A A Hill; J Lu; M A Masino; O H Olsen; R L Calabrese
Journal:  J Comput Neurosci       Date:  2001 May-Jun       Impact factor: 1.621

Review 2.  Neuronal control of leech behavior.

Authors:  William B Kristan; Ronald L Calabrese; W Otto Friesen
Journal:  Prog Neurobiol       Date:  2005-11-02       Impact factor: 11.685

Review 3.  Invertebrate central pattern generation moves along.

Authors:  Eve Marder; Dirk Bucher; David J Schulz; Adam L Taylor
Journal:  Curr Biol       Date:  2005-09-06       Impact factor: 10.834

Review 4.  Variability, compensation and homeostasis in neuron and network function.

Authors:  Eve Marder; Jean-Marc Goaillard
Journal:  Nat Rev Neurosci       Date:  2006-07       Impact factor: 34.870

Review 5.  Insights from models of rhythmic motor systems.

Authors:  Astrid A Prinz
Journal:  Curr Opin Neurobiol       Date:  2006-10-23       Impact factor: 6.627

6.  Parameter space analysis suggests multi-site plasticity contributes to motor pattern initiation in Tritonia.

Authors:  Robert J Calin-Jageman; Mark J Tunstall; Brett D Mensh; Paul S Katz; William N Frost
Journal:  J Neurophysiol       Date:  2007-07-25       Impact factor: 2.714

7.  Using constraints on neuronal activity to reveal compensatory changes in neuronal parameters.

Authors:  Andrey V Olypher; Ronald L Calabrese
Journal:  J Neurophysiol       Date:  2007-09-12       Impact factor: 2.714

8.  Alternative to hand-tuning conductance-based models: construction and analysis of databases of model neurons.

Authors:  Astrid A Prinz; Cyrus P Billimoria; Eve Marder
Journal:  J Neurophysiol       Date:  2003-08-27       Impact factor: 2.714

9.  Database analysis of simulated and recorded electrophysiological datasets with PANDORA's toolbox.

Authors:  Cengiz Günay; Jeremy R Edgerton; Su Li; Thomas Sangrey; Astrid A Prinz; Dieter Jaeger
Journal:  Neuroinformatics       Date:  2009-05-28

10.  Channel density distributions explain spiking variability in the globus pallidus: a combined physiology and computer simulation database approach.

Authors:  Cengiz Günay; Jeremy R Edgerton; Dieter Jaeger
Journal:  J Neurosci       Date:  2008-07-23       Impact factor: 6.167

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  17 in total

1.  A positive feedback at the cellular level promotes robustness and modulation at the circuit level.

Authors:  Julie Dethier; Guillaume Drion; Alessio Franci; Rodolphe Sepulchre
Journal:  J Neurophysiol       Date:  2015-08-26       Impact factor: 2.714

2.  Differential effects of conductances on the phase resetting curve of a bursting neuronal oscillator.

Authors:  Wafa Soofi; Astrid A Prinz
Journal:  J Comput Neurosci       Date:  2015-04-03       Impact factor: 1.621

3.  Optimizing computer models of corticospinal neurons to replicate in vitro dynamics.

Authors:  Samuel A Neymotin; Benjamin A Suter; Salvador Dura-Bernal; Gordon M G Shepherd; Michele Migliore; William W Lytton
Journal:  J Neurophysiol       Date:  2016-10-19       Impact factor: 2.714

Review 4.  Small is beautiful: models of small neuronal networks.

Authors:  Damon G Lamb; Ronald L Calabrese
Journal:  Curr Opin Neurobiol       Date:  2012-02-22       Impact factor: 6.627

5.  The virtual brain integrates computational modeling and multimodal neuroimaging.

Authors:  Petra Ritter; Michael Schirner; Anthony R McIntosh; Viktor K Jirsa
Journal:  Brain Connect       Date:  2013

6.  From global to local: exploring the relationship between parameters and behaviors in models of electrical excitability.

Authors:  Patrick Fletcher; Richard Bertram; Joel Tabak
Journal:  J Comput Neurosci       Date:  2016-04-01       Impact factor: 1.621

Review 7.  The neural control of heartbeat in invertebrates.

Authors:  Ronald L Calabrese; Brian J Norris; Angela Wenning
Journal:  Curr Opin Neurobiol       Date:  2016-08-31       Impact factor: 6.627

8.  A modeling exploration of how synaptic feedback to descending projection neurons shapes the activity of an oscillatory network.

Authors:  Nickolas Kintos; Farzan Nadim
Journal:  SIAM J Appl Dyn Syst       Date:  2014-08-12       Impact factor: 2.316

Review 9.  Computational Modeling of Spinal Locomotor Circuitry in the Age of Molecular Genetics.

Authors:  Jessica Ausborn; Natalia A Shevtsova; Simon M Danner
Journal:  Int J Mol Sci       Date:  2021-06-25       Impact factor: 5.923

10.  High prevalence of multistability of rest states and bursting in a database of a model neuron.

Authors:  Bóris Marin; William H Barnett; Anca Doloc-Mihu; Ronald L Calabrese; Gennady S Cymbalyuk
Journal:  PLoS Comput Biol       Date:  2013-03-07       Impact factor: 4.475

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