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Correction: Hard real-time closed-loop electrophysiology with the Real-Time eXperiment Interface (RTXI)
2017
PLoS Computational Biology
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Patel YA, George A, Dorval AD, White JA, Christini DJ, Butera RJ (2017) Hard real-time closed-loop electrophysiology with the Real-Time eXperiment Interface (RTXI
RTXI). ...
PLOS Computational Biology Staff
(2017) Correction: Hard real-time closed-loop
electrophysiology with the Real-Time eXperiment
Interface ( ...
doi:10.1371/journal.pcbi.1005656
pmid:28715502
pmcid:PMC5513696
fatcat:lk4ppxekyrejrllgp7nwh735he
Hard real-time closed-loop electrophysiology with the Real-Time eXperiment Interface (RTXI)
2017
PLoS Computational Biology
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The Real-Time eXperiment Interface (RTXI) is an open source software platform for achieving hard real-time data acquisition and closed-loop control in biological experiments while retaining the flexibility ...
The Real-Time Experiment Interface (RTXI, http://www.rtxi.org, Fig 1) is an open source software platform for hard RT, closed-loop data acquisition (DAQ) and experimental control in biological experiments ...
Most importantly, the authors would like to thank the RTXI user-community and greater open-source hardware/software communities for continued feedback, interest, and use of RTXI. ...
doi:10.1371/journal.pcbi.1005430
pmid:28557998
pmcid:PMC5469488
fatcat:qjys7ijbanhrja3rgcxy6xjuum
Dynamic Clamp in Cardiac and Neuronal Systems Using RTXI
[chapter]
2014
Msphere
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In this chapter, we provide an overview of designing and implementing a dynamic clamp experiment using the Real-Time eXperiment Interface (RTXI), an open-source software system tailored for real-time biological ...
While its applications are broad, the approach is straightforward: synthesizing traditional patch clamp, computational modeling, and closed-loop feedback control to simulate a cellular conductance. ...
The dynamic clamp software must operate on the same time scale as the currents it is trying to mimic. Hard real-time operating systems allows for execution of these tasks at a guaranteed timing. ...
doi:10.1007/978-1-4939-1096-0_21
pmid:25023319
pmcid:PMC4880480
fatcat:f6ykxxv46nbo5njwkonkphixj4
Real-time Experiment Interface for biological control applications
2010
2010 Annual International Conference of the IEEE Engineering in Medicine and Biology
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The Real-time Experiment Interface (RTXI) is a fast and versatile real-time biological experimentation system based on Real-Time Linux. ...
RTXI is currently used extensively for two experiment types: dynamic patch clamp and closed-loop stimulation pattern control in neural and cardiac single cell electrophysiology. ...
Acknowledgments This work was supported by the National Institutes of Health under Grant 2-R01RR020115-05. ...
doi:10.1109/iembs.2010.5627397
pmid:21096883
pmcid:PMC3647344
fatcat:4dsyj5dw3baa3ijcomxjeqhqxe
Closed Loop Experiment Manager (CLEM)—An Open and Inexpensive Solution for Multichannel Electrophysiological Recordings and Closed Loop Experiments
2017
Frontiers in Neuroscience
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There is growing need for multichannel electrophysiological systems that record from and interact with neuronal systems in near real-time. ...
We then present our own solution, which we refer to as Closed Loop Experiments Manager (CLEM). ...
AUTHOR CONTRIBUTIONS HH coded the software, analyzed its performance and wrote the manuscript. NEZ conceived the project, coded the software, and wrote the manuscript. ...
doi:10.3389/fnins.2017.00579
pmid:29093659
pmcid:PMC5651259
fatcat:ed5y2is3fjhcbasyij6ad5ixoy
Optical mapping system with real-time control capability
2007
American Journal of Physiology. Heart and Circulatory Physiology
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As previously reported, we have developed a hard real-time software system [originally known as RTLab; now known as real-time experimental interface (RTXI); www.rtxi.org] that accomplishes the stringent ...
REAL-TIME, CLOSED-LOOP intervention is an emerging experiment-control method that promises to provide invaluable new insight into cardiac electrophysiology. ...
GRANTS This work was supported by the Division of Research Resources Grant R01-RR-020115, the National Science Foundation Grant PHY-0513389, and the Kenny Gordon Foundation. ...
doi:10.1152/ajpheart.00588.2007
pmid:17644571
fatcat:wwa75fgrvjdfbetb7m4ph32kjq
Open Ephys: an open-source, plugin-based platform for multichannel electrophysiology
2017
Journal of Neural Engineering
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We thank Filipe Carvalho of the Champalimaud Institute and Andrew Seddon and Melissa Hough of CircuitHub, Inc. for helping with hardware distribution. ...
Acknowledgments We wish to thank the founders of the Allen Institute for Brain Science, Paul G. Allen and Jody Allen, for their vision, encouragement and support. ...
Programming the GUI for use with a real-time operating system, as RTXI has done in their closed-loop electrophysiology software (see next section), would further reduce processing latencies, but would ...
doi:10.1088/1741-2552/aa5eea
pmid:28169219
fatcat:qjnqlqfz7vcuvgsemkr3pzg6ue
The Past, Present, and Future of Real-Time Control in Cellular Electrophysiology
2014
IEEE Transactions on Biomedical Engineering
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The technological driver of these advances was the voltage-clamp method, an early and extremely influential form of real-time control in electrophysiology. ...
For over 60 years, real-time control has been an important technique in the study of excitable cells. Two such control-based technologies are reviewed here. ...
This work was supported by the National Institutes of Health (R01 MH085074, R01 NS078331, R01 EB016407) and the State of Utah. ...
doi:10.1109/tbme.2014.2314619
pmid:24710815
pmcid:PMC4086259
fatcat:yspnvyau4jetlhwxfdx4vvsksy
Neural ensemble communities: open-source approaches to hardware for large-scale electrophysiology
2015
Current Opinion in Neurobiology
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Key interfaces within multichannel electrophysiology platforms. Overview of the main components and interfaces in multichannel electrophysiology systems. ...
One often-overlooked factor when selecting a platform for largescale electrophysiology is whether or not a particular data acquisition system is 'open' or 'closed': that is, whether or not the system's ...
JPN was supported by the Center for Brains, Minds and Machines (CBMM), funded by the USA National Science Foundation STC award CCF-1231216. ...
doi:10.1016/j.conb.2014.11.004
pmid:25528614
pmcid:PMC4447530
fatcat:v4zhm2vozfh7xbtbtlfj3fy2du
Dynamic clamp with StdpC software
2011
Nature Protocols
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The software enables the configuration and operation of a wide range of complex and fully automated dynamic clamp experiments via an intuitive and powerful interface with a minimal initial lead-time of ...
Use of this protocol does not require specialist hardware, costly commercial software, experience in real time operating systems or a strong programming background. ...
Pinto for the initial development work of Dynclamp 2/4, the early predecessor of StdpC, and to A. Szücs for years of testing StdpC. This work was financed partially by an RCUK fellowship to TN. ...
doi:10.1038/nprot.2010.200
pmid:21372819
pmcid:PMC3188375
fatcat:fzyhq3hpvzbprjxwyhw6qn6llq
A reconfigurable visual-programming library for real-time closed-loop cellular electrophysiology
2015
Frontiers in Neuroinformatics
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closed-loop real-time control. ...
Moreover, advanced experimental protocols requiring real-time closed-loop operation to investigate excitability, plasticity, dynamics, are largely inaccessible to users without moderate to substantial ...
Financial support from the 7th Framework Programme of the European Commission (ICT Future Emerging Technology ENLIGHTENMENT project, contract n. 306502), the Interuniversity Attraction Poles Program initiated ...
doi:10.3389/fninf.2015.00017
pmid:26157385
pmcid:PMC4477165
fatcat:qh2kk7uesnfnxmynzjfsnm6p7e
Falcon: a highly flexible open-source software for closed-loop neuroscience
2017
Journal of Neural Engineering
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Acknowledgments We are grateful to Cristian Inel for his important contrib ution in the development of a predecessor software framework, Frédéric Michon for his help with online burst detection in vivo ...
, Joana Serpa Santos for providing the datasets used for testing online ripple detection and Nicolas Sist for his feedback on the installation and use of the software. ...
RTXI [28] has only a single real-time thread). ...
doi:10.1088/1741-2552/aa7526
pmid:28548044
fatcat:g44ybgrcujc6zaurorxnswvvpu
Toward Building Hybrid Biological/in silico Neural Networks for Motor Neuroprosthetic Control
2015
Frontiers in Neurorobotics
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In order to evaluate the practicality of the BNDE for neuroprosthetic control experiments, a novel, adaptive BMI controller was developed and tested using real-time closed-loop simulations. ...
We built the BNDE around a hard real-time system so that it is capable of creating simulated synapses from extracellularly recorded neurons to model neurons. ...
real-Time closed-loop simulation Methods To evaluate the practicality of the BNDE for neuroprosthetic control experiments and study the performance of the B-BMI, we performed real-time closed-loop simulations ...
doi:10.3389/fnbot.2015.00008
pmid:26321943
pmcid:PMC4531252
fatcat:bcpjmrnbf5d5rk7ncoymyujikm
Dynamic clamp constructed phase diagram of the Hodgkin-Huxley action potential model
[article]
2019
bioRxiv
pre-print
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This biological-computational hybrid enabled us to explore functional relations in the parameter space, experimentally validate the phase diagram of the Hodgkin-Huxley model, and demonstrate activity-dependence ...
Here we experimentally construct excitable membranes using the dynamic clamp and voltage-gated potassium ionic channels (Kv1.3) expressed in Xenopus oocytes. ...
Hard real-time closed-loop electrophysiology with the Real-Time eXperiment Interface (RTXI). PLOS Computational Biology 13, 5 (2017), e1005430. [35] Rinzel, J., and Ermentrout, G. B. ...
doi:10.1101/766154
fatcat:pa7egtkyqjchxd2273vtluhexy
Dynamic clamp constructed phase diagram for the Hodgkin and Huxley model of excitability
2020
Proceedings of the National Academy of Sciences of the United States of America
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Here we experimentally assembled excitable membranes using the dynamic clamp and voltage-gated potassium ionic channels (Kv1.3) expressed in Xenopus oocytes. ...
The 1950s Hodgkin and Huxley explicit formulation provides a mathematical framework for understanding excitability, as the consequence of the properties of voltage-gated sodium and potassium channels. ...
real-time closed loop design. ...
doi:10.1073/pnas.1916514117
pmid:32024761
fatcat:nvciwkmjtzfmlaol7zywn3fkoi
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