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StdpC: A modern dynamic clamp

Thomas Nowotny, Attila Szűcs, Reynaldo D. Pinto, Allen I. Selverston
2006 Journal of Neuroscience Methods  
With the advancement of computer technology many novel uses of dynamic clamp have become possible.  ...  These examples illustrate that with modern dynamic clamp software like StdpC, the dynamic clamp has developed beyond the mere introduction of artificial synapses or ionic conductances into neurons to a  ...  Taking advantage of the versatility of the new dynamic clamp software we can now create a biophysically more realistic neuron model within the dynamic clamp and connect it to biological neurons through  ... 
doi:10.1016/j.jneumeth.2006.05.034 pmid:16846647 fatcat:gbry5y34s5hq3dbquhm6ewurgm

Real-time closed-loop electrophysiology: towards new frontiers in in vitro investigations in the neurosciences

M Arsiero, H-R Lüscher, M Giugliano
2007 Archives Italiennes de Biologie  
In this contribution, we review some of the most relevant examples of a new trend in in vitro electrophysiology, ranging from the use of dynamic-clamp to multi-electrode distributed feedback stimulation  ...  In contrast, most in vitro preparations and experimental protocols operate autonomously, and do not depend on the output of the studied system.  ...  Quantifying the "burstiness" of the cultures during spontaneous activity and during different stimulation protocols, they observed that slow stimulation through individual electrodes increased "burstiness  ... 
pmid:18075116 fatcat:pgethf2ntzdb5k5jbr5jbbwfvy

Cell-Specific Cardiac Electrophysiology Models

Willemijn Groenendaal, Francis A. Ortega, Armen R. Kherlopian, Andrew C. Zygmunt, Trine Krogh-Madsen, David J. Christini, Andrew D. McCulloch
2015 PLoS Computational Biology  
In this study, we develop a new approach in which data are collected via a series of complex electrophysiology protocols from single cardiac myocytes and then used to tune model parameters via a parallel  ...  The dynamical complexity of the electrophysiological data, which can only be fit by an automated method such as a GA, leads to more accurately parameterized models that can simulate rich cardiac dynamics  ...  The protocol consists of (1) stochastic current-clamp stimulation and (2) multi-step voltage clamping.  ... 
doi:10.1371/journal.pcbi.1004242 pmid:25928268 pmcid:PMC4415772 fatcat:vsc2r7kulzfdtk62cbk5m2hkxq

A reconfigurable visual-programming library for real-time closed-loop cellular electrophysiology

István Biró, Michele Giugliano
2015 Frontiers in Neuroinformatics  
Moreover, advanced experimental protocols requiring real-time closed-loop operation to investigate excitability, plasticity, dynamics, are largely inaccessible to users without moderate to substantial  ...  We provide and validate several examples, implementing conventional and more sophisticated experimental protocols such as dynamic-clamp or the combined use of intracellular and extracellular methods, involving  ...  EPSP SIZE CLAMP Demo of clamping the response size, evoked by extracellular stimulation.  ... 
doi:10.3389/fninf.2015.00017 pmid:26157385 pmcid:PMC4477165 fatcat:qh2kk7uesnfnxmynzjfsnm6p7e

Synaptic Dynamics Do Not Determine Proper Phase of Activity in a Central Pattern Generator

P. Rabbah
2005 Journal of Neuroscience  
implemented with the dynamic-clamp technique.  ...  The phase differences between rhythmically active neurons in a network are thought to arise from the interplay between their intrinsic properties and the temporal dynamics of synapses among these neurons  ...  When the voltage-clamped PD neurons were stimulated with the realistic waveform with duty cycle 17%, we again observed that the dynamics of the IPSPs elicited in the LP and PY neurons were not significantly  ... 
doi:10.1523/jneurosci.3284-05.2005 pmid:16339022 fatcat:psmr645w4jdlvlug63fuhfihl4

Application of active electrode compensation to perform continuous voltage-clamp recordings with sharp microelectrodes

J F Gómez-González, A Destexhe, T Bal
2014 Journal of Neural Engineering  
The AECVC method provides an entirely digital method to perform continuous recording and smooth switching between voltage-clamp, current clamp or dynamic-clamp configurations without introducing artifacts  ...  We compared the performance of the two methods to dSEVC using a dynamic model cell and experiments in brain slices. Significance.  ...  In order to perform advanced tests of the AECVC we built a 'dynamic model cell' (DMC) ( figure 3(B) ), which is a passive electronic model cell endowed with realistic membrane properties simulated by  ... 
doi:10.1088/1741-2560/11/5/056028 pmid:25246226 fatcat:4rp6bwwlhvhknbukvqweudpftu

Dynamic clamp with StdpC software

Ildikó Kemenes, Vincenzo Marra, Michael Crossley, Dávid Samu, Kevin Staras, György Kemenes, Thomas Nowotny
2011 Nature Protocols  
Here, we present a dynamic clamp protocol using free, fully integrated, open-source software (StdpC, Spike timing dependent plasticity Clamp).  ...  Dynamic clamp is a powerful method that allows the introduction of artificial electrical components into target cells to simulate ionic conductances and synaptic inputs.  ...  Other researchers have even extended the principles of dynamic clamp to interact with the nervous system through mechanical stimulation 24 or micro-injection of drugs 25 .  ... 
doi:10.1038/nprot.2010.200 pmid:21372819 pmcid:PMC3188375 fatcat:fzyhq3hpvzbprjxwyhw6qn6llq

Dynamic action potential clamp predicts functional separation in mild familial and severe de novo forms ofSCN2Aepilepsy

Géza Berecki, Katherine B. Howell, Yadeesha H. Deerasooriya, Maria Roberta Cilio, Megan K. Oliva, David Kaplan, Ingrid E. Scheffer, Samuel F. Berkovic, Steven Petrou
2018 Proceedings of the National Academy of Sciences of the United States of America  
Dynamic clamp is well positioned to impact our understanding of pathomechanisms and for development of disease mechanism-targeted therapies in genetic epilepsy. de novo SCN2A mutation | dynamic action  ...  potential clamp | epilepsy | voltage clamp | modeling  ...  We used two stimulating protocols to elicit action potentials.  ... 
doi:10.1073/pnas.1800077115 pmid:29844171 fatcat:wnutbiiklvf7zeszhvxmkjbhfa

Nanoscale Nonlinear Dynamic Characterization of the Neuron-Electrode Junction

V. Thakore, A. Behal, P. Molnar, D. C. Leistritz, J. J. Hickman
2008 Journal of Computational and Theoretical Nanoscience  
For the characterization, NG108-15 cells were cultured on microelectrode arrays and stimulated with broadband Gaussian white noise under voltage clamp mode.  ...  We present here the results obtained from a 'data-true' nonlinear dynamic characterization of the neuron-electrode junction using Volterra-Wiener modeling.  ...  Micrograph of a neuron that is over an extracellular microelectrode while simultaneously being stimulated with bandlimited Gaussian white noise through a glass patch-clamp micropipette.  ... 
doi:10.1166/jctn.2008.1114 pmid:20204183 pmcid:PMC2831233 fatcat:nkjsrstuljfnzgmbuhzqv3ybyq

Matching storage and recall: hippocampal spike timing–dependent plasticity and phase response curves

Máté Lengyel, Jeehyun Kwag, Ole Paulsen, Peter Dayan
2005 Nature Neuroscience  
Here, we develop a normative theory of autoassociative memory encompassing such network dynamics.  ...  We show through simulation that such memories are competent analog autoassociators and demonstrate directly that the attributes of phase response curves of CA3 pyramidal cells recorded in vitro qualitatively  ...  Sinusoidal inhibitory conductance mimicking hippocampal theta oscillation (5 Hz) was injected through the patch pipette using dynamic clamp. An EPSP was evoked using extracellular stimulation.  ... 
doi:10.1038/nn1561 pmid:16261136 fatcat:uqnsdqceo5asfc2uf2oxmxzwr4

Dynamic Control of Presynaptic Ca2+ Inflow by Fast-Inactivating K+ Channels in Hippocampal Mossy Fiber Boutons

Jörg R.P. Geiger, Peter Jonas
2000 Neuron  
., 1997) but also show dynamic resolution (see Experimental Procedures), we obtained patch-clamp recordings from spherical structures of 3-5 m diameter in stratum lucidum of acute hippocampal  ...  to 3-fold during high-frequency stimulation.  ...  Voltage protocol: mock action potentials in (A) (holding potential Ϫ80 mV, 75 s ramp to ϩ40 mV, 125 s at ϩ40 mV, and ramp of variable duration back to Ϫ80 mV) and realistic action potentials in (B) (action  ... 
doi:10.1016/s0896-6273(00)00164-1 pmid:11163277 fatcat:q3hv5van6zer3cffelw3v6p3he

Dynamic clamp constructed phase diagram for the Hodgkin and Huxley model of excitability

Hillel Ori, Hananel Hazan, Eve Marder, Shimon Marom
2020 Proceedings of the National Academy of Sciences of the United States of America  
Here we experimentally assembled excitable membranes using the dynamic clamp and voltage-gated potassium ionic channels (Kv1.3) expressed in Xenopus oocytes.  ...  Moreover, we demonstrate activity dependence and hysteretic dynamics over the phase diagram due to the impacts of complex slow inactivation kinetics.  ...  Following the voltage clamp protocol, the system configuration was switched to dynamic clamp mode to screen the S-K plane.  ... 
doi:10.1073/pnas.1916514117 pmid:32024761 fatcat:nvciwkmjtzfmlaol7zywn3fkoi

Complex Dynamics in Simplified Neuronal Models: Reproducing Golgi Cell Electroresponsiveness

Alice Geminiani, Claudia Casellato, Francesca Locatelli, Francesca Prestori, Alessandra Pedrocchi, Egidio D'Angelo
2018 Frontiers in Neuroinformatics  
Although these properties emerge from detailed representations of molecular-level mechanisms in "realistic" models, they cannot usually be generated by simplified neuronal models (although these may show  ...  Importantly, E-GLIF is designed to maintain a correspondence between model parameters and neuronal membrane mechanisms through a minimum set of equations.  ...  (C) The short continuous stimulation protocol is represented.  ... 
doi:10.3389/fninf.2018.00088 pmid:30559658 pmcid:PMC6287018 fatcat:nizmdoom6vab7hxdc4r3y7cks4

Integrated Mechanisms of Anticipation and Rate-of-Change Computations in Cortical Circuits

Gabriel D. Puccini, Maria V. Sanchez-Vives, Albert Compte
2007 PLoS Computational Biology  
Through biophysically realistic computer simulations and neuronal recordings, we show that the rateof-change computation is operated robustly in cortical networks through the combination of two ubiquitous  ...  These basic computations of the cortical microcircuit emerge through the interplay of neuronal connectivity, cellular intrinsic properties, and synaptic plasticity dynamics.  ...  By doing this, we reconstructed a smoother voltage time series that only incorporated events associated with our stimulation protocol.  ... 
doi:10.1371/journal.pcbi.0030082 pmid:17500584 pmcid:PMC1866356 fatcat:srl2bv6hhneq7oginvqzwzv5wu

Integrated Mechanisms of Anticipation and Rate-of-Change Computations in Cortical Circuits

Gabriel Dario Puccini, Maria V Sanchez-Vives, Albert Compte
2005 PLoS Computational Biology  
Through biophysically realistic computer simulations and neuronal recordings, we show that the rateof-change computation is operated robustly in cortical networks through the combination of two ubiquitous  ...  These basic computations of the cortical microcircuit emerge through the interplay of neuronal connectivity, cellular intrinsic properties, and synaptic plasticity dynamics.  ...  By doing this, we reconstructed a smoother voltage time series that only incorporated events associated with our stimulation protocol.  ... 
doi:10.1371/journal.pcbi.0030082.eor fatcat:zqwca35bcrhdzjgbatillbvo5i
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