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.. _publications_using_neuron:

Publications using NEURON
=========================

Each item in this list is a publication about work that actually used
NEURON. With rare exceptions abstracts have been omitted. Please help
us keep this list complete and accurate by addressing questions,
corrections, additions, or comments to **ted dot carnevale at yale
dot edu**

----

Total of **2672** items verified as of *February 15, 2022*.

----

Abbasi, S., Abbasi, A. and Sarbaz, Y.. Introducing treatment
strategy for cerebellar ataxia in mutant med mice: combination of
acetazolamide and 4-aminopyridine. *Computer Methods and Programs
in Biomedicine* 113:697-704, 10.1016/j.cmpb.2013.11.008, 2014.

Abbasi, S., Abbasi, A., Sarbaz, Y. and Janahmadi, M.. Power
spectral density analysis of Purkinje cell tonic and burst firing
patterns from a rat model of ataxia and riluzole treated. *Basic
and Clinical Neuroscience* 8:61-68, 10.15412/J.BCN.03080108, 2017.

Abbasi, S., Abbasi, A., Sarbaz, Y. and Shahabi, P.. Contribution
of somatic and dendritic SK channels in the firing rate of deep
cerebellar nuclei: implication in cerebellar ataxia. *Basic and
Clinical Neuroscience* 7:57-62, 2016.

Abdelaal, A. Y., Mousa, M. H., Gamal, M., Khalil, M. I.,
Elbasiouny, S. M. and Eldawlatly, S.. A classification approach to
recognize the firing of spinal motoneurons in amyotrophic lateral
sclerosis. *Annual International Conference of the IEEE
Engineering in Medicine and Biology Society* 2020:3680-3683,
10.1109/EMBC44109.2020.9176551, 2020.

Aberra, A. S., Peterchev, A. V. and Grill, W. M.. Biophysically
realistic neuron models for simulation of cortical stimulation.
*Journal of Neural Engineering* 15:066023,
10.1088/1741-2552/aadbb1, 2018.

Aberra, A. S., Wang, B., Grill, W. M. and Peterchev, A. V..
Simulation of transcranial magnetic stimulation in head model with
morphologically-realistic cortical neurons. *Brain Stimulation*
13:175-189, 10.1016/j.brs.2019.10.002, 2020.

Abrahamsson, T., Cathala, L., Matsui, K., Shigemoto, R. and
Digregorio, D. A.. Thin dendrites of cerebellar interneurons
confer sublinear synaptic integration and a gradient of short-term
plasticity. *Neuron* 73:1159-1172, 10.1016/j.neuron.2012.01.027,
2012.

Acciarito, S., Cardarilli, G. C., Cristini, A., Di Nunzio, L.,
Fazzolari, R., Khanal, G. M., Re, M. and Susi, G.. Hardware design
of LIF with Latency neuron model with memristive STDP synapses.
*Integration-the VLSI Journal* 59:81-89,
10.1016/j.vlsi.2017.05.006, 2017.

Acker, C. D. and Antic, S. D.. Quantitative assessment of the
distributions of membrane conductances involved in action
potential backpropagation along basal dendrites. *Journal of
Neurophysiology* 101:1524-1541, 2009.

Acker, C. D., Hoyos, E. and Loew, L. M.. EPSPs measured in
proximal dendritic spines of cortical pyramidal neurons. *eNeuro*
3:ENEURO.0050-15.2016, 10.1523/ENEURO.0050-15.2016, 2016.

Ackermann, D. M., Bhadra, N., Gerges, M. and Thomas, P. J..
Dynamics and sensitivity analysis of high-frequency conduction
block. *Journal of Neural Engineering* 8:065007,
10.1088/1741-2560/8/6/065007, 2011.

Ackermann, Jr., D. M., Foldes, E. L., Bhadra, N. and Kilgore, K.
L.. Effect of bipolar cuff electrode design on block thresholds in
high-frequency electrical neural conduction block. *IEEE
Transactions on Neural Systems and Rehabilitation Engineering*
17:469-477, 10.1109/TNSRE.2009.2034069, 2009.

Adesnik, H. and Scanziani, M.. Lateral competition for cortical
space by layer-specific horizontal circuits. *Nature* 464:1155-60,
10.1038/nature08935, 2010.

Adonias, G. L., Duffy, C., Barros, M. T., McCoy, C. E. and
Balasubramaniam, S.. Analysis of the information capacity of
neuronal molecular communications under demyelination and
remyelination. *IEEE Transactions on Neural Systems and
Rehabilitation Engineering* 29:2765-2774,
10.1109/TNSRE.2021.3137350, 2021.

Adonias, G. L., Siljak, H., Barros, M. T., Marchetti, N., White,
M. and Balasubramaniam, S.. Reconfigurable filtering of
neuro-spike communications using synthetically engineered logic
circuits. *Frontiers In Computational Neuroscience* 14:556628,
10.3389/fncom.2020.556628, 2020a.

Adonias, G. L., Yastrebova, A., Barros, M. T., Koucheryavy, Y.,
Cleary, F. and Balasubramaniam, S.. Utilizing neurons for digital
logic circuits: a molecular communications analysis. *IEEE
Transactions on NanoBioscience* 19:224-236,
10.1109/TNB.2020.2975942, 2020b.

Aghvami, S. S., Müller, M., Araabi, B. N. and Egger, V..
Coincidence detection within the excitable rat olfactory bulb
granule cell spines. *Journal of Neuroscience* 39:584-595,
10.1523/JNEUROSCI.1798-18.2018, 2019.

Aguiar, P., Sousa, M. and Lima, D.. NMDA channels together with
L-type calcium currents and calcium-activated nonspecific cationic
currents are sufficient to generate windup in WDR neurons.
*Journal of Neurophysiology* 104:1155-1166, 10.1152/jn.00834.2009,
2010.

Aguiar, P. and Willshaw, D.. Hippocampal mossy fibre boutons as
dynamical synapses. *Neurocomputing* 58-60:699-703, 2004.

Ahlfors, S. P. and Wreh, 2nd, C.. Modeling the effect of dendritic
input location on MEG and EEG source dipoles. *Medical and
Biological Engineering and Computing* 53:879-887,
10.1007/s11517-015-1296-5, 2015.

Ahmed, B., Anderson, J. C., Douglas, R. J., Martin, K. A. C. and
Whitteridge, D.. Estimates of the net excitatory currents evoked
by visual stimulation of identified neurons in cat visual cortex.
*Cerebral Cortex* 8:462-476, 1998.

Ait Ouares, K., Filipis, L., Tzilivaki, A., Poirazi, P. and
Canepari, M.. Two distinct sets of Ca2+ and K+ channels are
activated at different membrane potentials by the climbing fiber
synaptic potential in Purkinje neuron dendrites. *Journal of
Neuroscience* 39:1969-1981, 10.1523/JNEUROSCI.2155-18.2018, 2019.

Akbari, A., Moradi, K., Hadaeghi, F., Gharibzadeh, S. and
Emkanjoo, Z.. Is "capacitive coupling" purely excitatory in the
cardiac tissue?. *Frontiers in Physiology* 5:77,
10.3389/fphys.2014.00077, 2014.

Akemann, W. and Knöpfel, T.. Interaction of Kv3 potassium channels
and resurgent sodium current influences the rate of spontaneous
firing of Purkinje neurons. *Journal of Neuroscience*
26:4602-4612, 2006.

Akemann, W., Lundby, A., Mutoh, H. and Knöpfel, T.. Effect of
voltage sensitive fluorescent proteins on neuronal excitability.
*Biophysical Journal* 96:3959-3976, 2009.

Akiyama, H., Shimizu, Y., Miyakawa, H. and Inoue, M..
Extracellular DC electric fields induce nonuniform membrane
polarization in rat hippocampal CA1 pyramidal neurons. *Brain
Research* 1383:22-35, 10.1016/j.brainres.2011.01.097, 2011.

Alessi, C., Raspanti, A. and Magistretti, J.. Two distinct types
of depolarizing afterpotentials are differentially expressed in
stellate and pyramidal-like neurons of entorhinal-cortex layer
II.. *Hippocampus* 26:380-404, 10.1002/hipo.22529, 2016.

Alfonsa, H., Merricks, E. M., Codadu, N. K., Cunningham, M. O.,
Deisseroth, K., Racca, C. and Trevelyan, A. J.. The contribution
of raised intraneuronal chloride to epileptic network activity.
*Journal of Neuroscience* 35:7715-7726,
10.1523/JNEUROSCI.4105-14.2015, 2015.

Allain, A.-E., Cazenave, W., Delpy, A., Exertier, P., Barthe, C.,
Meyrand, P., Cattaert, D. and Branchereau, P.. Nonsynaptic glycine
release is involved in the early KCC2 expression. *Developmental
Neurobiology* 76:764-779, 10.1002/dneu.22358, 2016.

Allam, S. L., Ghaderi, V. S., Bouteiller, J.-M. C., Legendre, A.,
Ambert, N., Greget, R., Bischoff, S., Baudry, M. and Berger, T.
W.. A computational model to investigate astrocytic glutamate
uptake influence on synaptic transmission and neuronal spiking.
*Frontiers in Computational Neuroscience* 6:70,
10.3389/fncom.2012.00070, 2012.

Alle, H. and Geiger, J. R. P.. Combined analog and action
potential coding in hippocampal mossy fibers. *Science*
311:1290-1293, 2006.

Alle, H. and Geiger, J. R. P.. GABAergic spill-over transmission
onto hippocampal mossy fiber boutons. *Journal of Neuroscience*
27:942-950, 2007.

Alle, H., Roth, A. and Geiger, J. R. P.. Energy-efficient action
potentials in hippocampal mossy fibers. *Science* 325:1405-1408,
10.1126/science.1174331, 2009.

Allen, J. M. and Elbasiouny, S. M.. The effects of model
composition design choices on high-fidelity simulations of
motoneuron recruitment and firing behaviors. *Journal of Neural
Engineering* 15:036024, 10.1088/1741-2552/aa9db5, 2018.

Allken, V., Chepkoech, J.-L., Einevoll, G. T. and Halnes, G.. The
subcellular distribution of T-type Ca2+ channels in interneurons
of the lateral geniculate nucleus. *PLoS ONE* 9:e107780,
10.1371/journal.pone.0107780, 2014.

Almog, M., Barkai, T., Lampert, A. and Korngreen, A..
Voltage-gated sodium channels in neocortical pyramidal neurons
display Cole-Moore activation kinetics. *Frontiers in Cellular
Neuroscience* 12:187, 10.3389/fncel.2018.00187, 2018.

Almog, M. and Korngreen, A.. A quantitative description of
dendritic conductances and its application to dendritic excitation
in layer 5 pyramidal neurons. *Journal of Neuroscience*
34:182-196, 10.1523/JNEUROSCI.2896-13.2014, 2014.

Alturki, A., Feng, F., Nair, A., Guntu, V. and Nair, S. S..
Distinct current modules shape cellular dynamics in model neurons.
*Neuroscience* 334:309-331, 10.1016/j.neuroscience.2016.08.016,
2016.

Alvarez, F. P. and Destexhe, A.. Simulating cortical network
activity states constrained by intracellular recordings.
*Neurocomputing* 58:285-290, 2004.

Al-Yaari, M., Yamada, R. and Kuba, H.. Excitatory-inhibitory
synaptic coupling in avian nucleus magnocellularis. *Journal of
Neuroscience* 40:619-631, 10.1523/JNEUROSCI.1124-19.2019, 2020.

Amarillo, Y., Tissone, A. I., Mato, G. and Nadal, M. S.. Inward
rectifier potassium current IKir promotes intrinsic pacemaker
activity of thalamocortical neurons. *Journal of Neurophysiology*
119:2358-2372, 10.1152/jn.00867.2017, 2018.

Amarillo, Y., Zagha, E., Mato, G., Rudy, B. and Nadal, M. S.. The
interplay of seven subthreshold conductances controls the resting
membrane potential and the oscillatory behavior of thalamocortical
neurons. *Journal of Neurophysiology* 112:393-410,
10.1152/jn.00647.2013, 2014.

Amatrudo, J. M., Weaver, C. M., Crimins, J. L., Hof, P. R.,
Rosene, D. L. and Luebke, J. I.. Influence of highly distinctive
structural properties on the excitability of pyramidal neurons in
monkey visual and prefrontal cortices. *Journal of Neuroscience*
32:13644-13660, 10.1523/JNEUROSCI.2581-12.2012, 2012.

Ambros-Ingerson, J., Grover, L. M. and Holmes, W. R.. A
classification method to distinguish cell-specific responses
elicited by current pulses in hippocampal CA1 pyramidal cells.
*Neural Computation* 20:1512-1536, 2008.

Ambros-Ingerson, J. and Holmes, W. R.. Analysis and comparison of
morphological reconstructions of hippocampal field CA1 pyramidal
cells. *Hippocampus* 15:302-315, 2005.

Amir, R. and Devor, M.. Electrical excitability of the soma of
sensory neurons is required for spike invasion of the soma, but
not for through-conduction. *Biophysical Journal* 84:2181-2191,
2003a.

Amir, R. and Devor, M.. Extra spike formation in sensory neurons
and the disruption of afferent spike patterning. *Biophysical
Journal* 84:2700-2708, 2003b.

Amir, R., Kocsis, J. D. and Devor, M.. Multiple interacting sites
of ectopic spike electrogenesis in primary sensory neurons.
*Journal of Neuroscience* 25:2576-2585, 2005.

Amir, R., Liu, C.-N., Kocsis, J. D. and Devor, M.. Oscillatory
mechanism in primary sensory neurones. *Brain* 125:421-435, 2002a.

Amir, R., Michaelis, M. and Devor, M.. Burst discharge in primary
sensory neurons: triggered by subthreshold oscillations,
maintained by depolarizing afterpotentials. *Journal of
Neuroscience* 22:1187-1198, 2002b.

Amos, G. J., Jacobson, I., Duker, G. and Carlsson, L.. Block of
HERG-carried K+ currents by the new repolarization delaying agent
H 345/52. *Journal of Cardiovascular Electrophysiology*
14:651-658, 2003.

Amsalem, O., Eyal, G., Rogozinski, N., Gevaert, M., Kumbhar, P.,
Schürmann, F. and Segev, I.. An efficient analytical reduction of
detailed nonlinear neuron models. *Nature Communications* 11:288,
10.1038/s41467-019-13932-6, 2020.

Amsalem, O., Van Geit, W., Muller, E., Markram, H. and Segev, I..
From neuron biophysics to orientation selectivity in electrically
coupled networks of neocortical L2/3 large basket cells. *Cerebral
Cortex* 26:3655-3668, 10.1093/cercor/bhw166, 2016.

An, L., Tang, Y., Wang, Q., Pei, Q., Wei, R., Duan, H. and Liu, J.
K.. Coding capacity of purkinje cells with different schemes of
morphological reduction. *Frontiers In Computational Neuroscience*
13:29, 10.3389/fncom.2019.00029, 2019.

Anastassiou, C. A., Montgomery, S. M., Barahona, M., Buzsáki, G.
and Koch, C.. The effect of spatially inhomogeneous extracellular
electric fields on neurons. *Journal of Neuroscience*
30:1925-1936, 10.1523/JNEUROSCI.3635-09.2010, 2010.

Anaya, C. J., Zander, H. J., Graham, R. D., Sankarasubramanian, V.
and Lempka, S. F.. Evoked potentials recorded from the spinal cord
during neurostimulation for pain: a computational modeling study.
*Neuromodulation* 23:64-73, 10.1111/ner.12965, 2020.

Anderson, D. N., Anderson, C., Lanka, N., Sharma, R., Butson, C.
R., Baker, B. W. and Dorval, A. D.. The μDBS: multiresolution,
directional deep brain stimulation for improved targeting of small
diameter fibers. *Frontiers in Neuroscience* 13:1152,
10.3389/fnins.2019.01152, 2019a.

Anderson, D. N., Duffley, G., Vorwerk, J., Dorval, A. D. and
Butson, C. R.. Anodic stimulation misunderstood: preferential
activation of fiber orientations with anodic waveforms in deep
brain stimulation. *Journal of Neural Engineering* 16:016026,
10.1088/1741-2552/aae590, 2019b.

Anderson, D. N., Osting, B., Vorwerk, J., Dorval, A. D. and
Butson, C. R.. Optimized programming algorithm for cylindrical and
directional deep brain stimulation electrodes. *Journal of Neural
Engineering* 15:026005, 10.1088/1741-2552/aaa14b, 2018a.

Anderson, J. C., Binzegger, T., Kahana, O., Segev, I. and Martin,
K. A. C.. Dendritic asymmetry cannot account for directional
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Anderson, R. W., Farokhniaee, A., Gunalan, K., Howell, B. and
McIntyre, C. C.. Action potential initiation, propagation, and
cortical invasion in the hyperdirect pathway during subthalamic
deep brain stimulation. *Brain Stimulation* 11:1140-1150,
10.1016/j.brs.2018.05.008, 2018b.

Andrade, A., Hope, J., Allen, A., Yorgan, V., Lipscombe, D. and
Pan, J. Q.. A rare schizophrenia risk variant of CACNA1I disrupts
CaV3.3 channel activity. *Scientific Reports* 6:34233,
10.1038/srep34233, 2016.

Andree, A., Li, N., Butenko, K., Kober, M., Chen, J. Z., Higuchi,
T., Fauser, M., Storch, A., Ip, C. W., Kühn, A. A., Horn, A. and
van Rienen, U.. Deep brain stimulation electrode modeling in rats.
*Experimental Neurology* 350:113978,
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Andreozzi, E., Carannante, I., D'Addio, G., Cesarelli, M. and
Balbi, P.. Phenomenological models of Nav1.5. A side by side,
procedural, hands-on comparison between Hodgkin-Huxley and kinetic
formalisms.. *Scientific Reports* 9:17493,
10.1038/s41598-019-53662-9, 2019.

Androuin, A., Potier, B., Nägerl, U. V., Cattaert, D., Danglot,
L., Thierry, M., Youssef, I., Triller, A., Duyckaerts, C.,
Hachimi, K. H. E., Dutar, P., Delatour, B. and Marty, S.. Evidence
for altered dendritic spine compartmentalization in Alzheimer's
disease and functional effects in a mouse model. *Acta
Neuropathologica* 135:839-854, 10.1007/s00401-018-1847-6, 2018.

Angelo, K., London, M., Christensen, S. R. and Häusser, M.. Local
and global effects of I-h distribution in dendrites of mammalian
neurons. *Journal of Neuroscience* 27:8643-8653, 2007.

Angulo, S. L., Henzi, T., Neymotin, S. A., Suarez, M. D., Lytton,
W. W., Schwaller, B. and Moreno, H.. Amyloid pathology-produced
unexpected modifications of calcium homeostasis in hippocampal
subicular dendrites. *Alzheimer's and Dementia* 16:251-261,
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Angulo, S. L., Orman, R., Neymotin, S. A., Liu, L., Buitrago, L.,
Cepeda-Prado, E., Stefanov, D., Lytton, W. W., Stewart, M., Small,
S. A., Duff, K. E. and Moreno, H.. Tau and amyloid-related
pathologies in the entorhinal cortex have divergent effects in the
hippocampal circuit. *Neurobiology of Disease* 108:261-276,
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Anirudhan, A. and Narayanan, R.. Analogous synaptic plasticity
profiles emerge from disparate channel combinations. *Journal of
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Ankri, L., Ezra-Tsur, E., Maimon, S. R., Kaushansky, N. and
Rivlin-Etzion, M.. Antagonistic center-surround mechanisms for
direction selectivity in the retina. *Cell Reports* 31:107608,
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Antunes, G., Faria da Silva, S. F. and Simoes de Souza, F. M..
Mirror neurons modeled through spike-timing-dependent plasticity
are affected by channelopathies associated with autism spectrum
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10.1142/S0129065717500587, 2018.

Anwar, H., Hepburn, I., Nedelescu, H., Chen, W. and De Schutter,
E.. Stochastic calcium mechanisms cause dendritic calcium spike
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Appukuttan, S., Brain, K. L. and Manchanda, R.. A computational
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Appukuttan, S., Brain, K. L. and Manchanda, R.. Effect of
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Arai, I., Tanaka, M. and Tachibana, M.. Active roles of
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Araya, R., Vogels, T. P. and Yuste, R.. Activity-dependent
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Ariav, G., Polsky, A. and Schiller, J.. Submillisecond precision
of the input-output transformation function mediated by fast
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