Neurosim Lab   @  Downstate/KCHC

Table of Contents

2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 1999 | 1998 | 1997 | 1996 | Educational and review

Research publications


Womack KB, Paliotta C, Strain JF, Ho JS, Skolnick Y, Lytton WW, Turtzo LC, McColl R, Diaz-Arrastia R, Bergold PJ. Measurement of peripheral vision reaction time identifies white matter disruption in patients with mild traumatic brain injury. Journal of Neurotrauma, 2017 (in press) Preprint PDF

Dura-Bernal S, Neymotin SA, Kerr CC, Sivagnanam S, Majumdar A, Francis JT, Lytton WW. Evolutionary algorithm optimization of biological learning parameters in a biomimetic neuroprosthesis. IBM Journal of Research and Development (Special issue on Computational Neuroscience) 2017 61(2/3) Preprint PDF

Neymotin SA, Suter BA, Dura-Bernal S, Shepherd GMG, Migliore M, Lytton WW. Optimizing computer models of corticospinal neurons to replicate in vitro dynamics. Journal of Neurophysiology 2017 117(1):148-162

Neymotin SA, Talbot ZN, Jung JQ, Fenton AA, Lytton WW. Tracking recurrence of correlation structure in neuronal recordings. Journal of Neuroscience Methods 2017 275:1-9


Lin Z, Tropper C, Yao Y, Mcdougal RA, Patoary MN, Lytton WW, Hines ML. Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons. Journal of Simulation 2016 doi:10.1057/s41273-016-0033-x

Lytton WW, Seidenstein AH, Dura-Bernal S, McDougal RA, Schurmann F, Hines ML. Simulation neurotechnologies for advancing brain research: Parallelizing large networks in NEURON. Neural Computation 2016 28:2063-2090

Neymotin SA, Sherif MA, Jung JQ, Kabariti JJ, Lytton WW. Genome-wide associations of schizophrenia studied with computer simulation. Hippocampal Microcircuits: A Computational Modeler's Resource Book Vol. 2. ed.:V Cutsuridis, BP Graham, S Cobb, I Vida. Springer 2016 (in press). Preprint PDF

Lakatos P, Barczak A, Neymotin SA, McGinnis T, Ross D, Javitt D, O'Connell M. Global dynamics of attention and its lapses in primary auditory cortex. Nature Neuroscience 2016 19:1707-1717

Neymotin SA, Dura-Bernal S, Lakatos P, Sanger TD, Lytton WW. Multitarget multiscale simulation for pharmacological treatment of dystonia in motor cortex. Frontiers in Pharmacology 2016 7:157

Dura-Bernal S, Li K, Neymotin SA, Francis JT, Principe JC and Lytton WW. Restoring behavior via inverse neurocontroller in a lesioned cortical spiking model driving a virtual arm. Frontiers in Neuroscience (Neuroprosthetics) 2016 10:28

Neymotin SA, McDougal RA, Bulanova AS, Zeki M, Lakatos P, Terman D, Hines ML, Lytton WW. Calcium regulation of HCN channels supports persistent activity in a multiscale model of neocortex. Neuroscience 2016 316:344-366


Dura-Bernal S, Zhou X, Neymotin SA, Przekwas A, Francis JT, Lytton WW. Cortical spiking network interfaced with virtual musculoskeletal arm and robotic arm. Frontiers in Neurorobotics 2015 9:13

Sanjay M, Neymotin SA, Babu KS. Impaired dendritic inhibition leads to epileptic activity in a computer model of CA3. Hippocampus 2015 25(11):1336-1350.

Li K, Dura-Bernal S, Francis JT, Lytton WW, Principe JC. Repairing lesions via kernel adaptive inverse control in a biomimetic model of sensorimotor cortex. 7th International IEEE EMBS Neural Engineering Conference (NER'15) 2015. PDF

Neymotin SA, McDougal RA, Sherif MA, Fall CP, Hines ML, Lytton WW. Neuronal calcium wave propagation varies with changes in endoplasmic reticulum parameters: a computer model. Neural Computation 2015 27(4):898-924. PDF


Patoary MNI, Lin Z, Tropper C, McDougal RA, Lytton WW. Neuron Time Warp. Proceedings of the 2014 Winter Simulation Conference. A Tolk, SY Diallo, IO Ryzhov, L Yilmaz, S Buckley, and JA Miller, eds. PDF

Lee G, Matsunaga A, Dura-Bernal S, Zhang W, Lytton WW, Francis JT, Fortes JAB. Towards real-time communication between in vivo neurophysiological data sources and simulator-based brain biomimetic models. Journal of Computational Surgery 2014 3:12 PDF

Rowan MS, Neymotin SA, Lytton WW. Electrostimulation to reduce synaptic scaling driven progression of Alzheimer's disease. Front Comput Neurosci 2014 8:39.

Eguchi A, Neymotin SA, Stringer SM. Color opponent receptive fields self-organize in a biophysical model of visual cortex via spike-timing dependent plasticity. Front Neural Circuits 2014 8:16.

Lytton WW, Neymotin SA, Kerr CC. Multiscale modeling for clinical translation in neuropsychiatric disease J Computational Surgery 2014 1:7 PDF

Chadderdon GL, Mohan A, Suter BA, Neymotin SA, Kerr CC, Francis JT, Shepherd GMG, Lytton WW. Motor cortex microcircuit simulation based on brain activity mapping. Neural Computation 2014 26(7):1239-1262 PDF

Dura-Bernal S, Chadderdon GL, Neymotin SA, Francis JT, Lytton WW. Towards a real-time interface between a biomimetic model of sensorimotor cortex and a robotic arm. Pattern Recognition Letters: Special Issue on Multimodal Interfaces, 2014 36(15):204-212, PDF


Dura-Bernal S, Chadderdon GL, Neymotin SA, Xianlian Z, Przekwas A, Francis JT, Lytton WW. Virtual musculoskeletal arm and robotic arm driven by a biomimetic model of sensorimotor cortex with reinforcement learning. IEEE Signal Processing in Medicine and Biology Symposium (SPMB13), IEEE Xplore PDF

McDougal RA, Hines ML, Lytton WW. Reaction-diffusion in the NEURON simulator. Front Neuroinformatics 2013 7:28 PDF

McDougal RA, Hines ML, Lytton WW. Water-tight membranes from neuronal morphology files. J Neurosci Methods, 2013 220(2):167-178. PDF

Neymotin SA, Chadderdon GL, Kerr CC, Francis JT, Lytton WW. Reinforcement learning of 2-joint virtual arm reaching in a computer model of sensorimotor cortex. Neural Computation, 2013 25(12):3263-3293. PDF

Neymotin SA, Hilscher MM, Moulin TC, Skolnick Y, Lazarewicz MT, Lytton WW. Ih tunes theta/gamma oscillations and cross-frequency coupling in an in silico CA3 model. PLOS ONE 8:e76285, 2013.

Lytton WW, Neymotin SA, Wester JC, Contreras D. Neocortical simulation for epilepsy surgery guidance: Localization and intervention, in Computational Surgery and Dual Training, Bass B; Garbey M, Eds.; Springer. PDF

Kerr CC, Van Albada SJ, Neymotin SA, Chadderdon GL, Robinson PA, Lytton WW. Cortical information flow in Parkinson's disease: a composite network/field model. Front Comput Neurosci 2013 7:39. PDF, PMID:23630492, 2013

Rowan M, Neymotin S. Synaptic scaling balances learning in a spiking model of neocortex M. Tomassini et al., eds, 11th Int. Conf. Adaptive and Natural Comp. Algorithms (ICANNGA), LNCS 7824:20-29, Lausanne, 2013, Springer.

Song W, Kerr CC, Lytton WW, Francis JT. Cortical plasticity induced by spike-triggered microstimulation in primate somatosensory cortex. PLOS ONE 8:e57453, PMID:23472086, 2013


Sanchez JC, Lytton WW, Carmena JM, Principe JC, Fortes J, Barbour RL, Francis JT. Dynamically Repairing and Replacing Neural Networks. IEEE Pulse 2012 3(1):57-59. PDF

Chadderdon GL, Neymotin SA, Kerr CC, Lytton WW. Reinforcement learning of targeted movement in a spiking neuronal model of motor cortex. PLOS ONE 2012 7(10):e47251.Front Comput Neurosci 2012 6:57.

Kerr CC, Neymotin SA, Chadderdon G, Fietkiewicz C, Francis JT, Lytton WW. Electrostimulation as a Prosthesis for Repair of Information Flow in a Computer Model of Neocortex. IEEE Trans Neural Syst Rehabil Eng 2012 20:153-160. PDF

Elm JJ, Kieburtz K and NINDS NET-PD [Lytton WW on investigator team]. Investigators Design innovations and baseline findings in a long-term Parkinson's trial: the National Institute of Neurological Disorders and Stroke Exploratory Trials in Parkinson's Disease Long-Term Study-1. Movement disorders (2012) 12:27


Neymotin SA, Kerr CC, Francis JT, Lytton WW. Training oscillatory dynamics with spike-timing-dependent plasticity in a computer model of neocortex. IEEE Signal Processing in Medicine and Biology. 2011 Dec 10 PDF

Neymotin SA, Lytton WW, Olypher AO, Fenton AA. Measuring the quality of neuronal identification in ensemble recordings. J Neurosci. 2011 31:16398-16409 PDF

Neymotin SA, Lazarewicz MT, Sherif M, Contreras D, Finkel LH, Lytton WW. Ketamine disrupts theta modulation of gamma in a computer model of hippocampus. J Neurosci. 2011 31:11733-11743 PDF

Neymotin SA, Lee H, Park E, Fenton AA, Lytton WW. Emergence of physiological oscillation frequencies in a computer model of neocortex. Front Comput Neurosci. 2011 5:19.

Neymotin SA, Jacobs KM, Fenton AA, Lytton WW. Synaptic information transfer in computer models of neocortical columns. J Comput Neurosci. 2011 30(1):69-84. PDF


Neymotin SA, Lee H, Fenton AA, Lytton WW. Interictal EEG discoordination in a rat seizure model. J Clin Neurophysiol. 2010 27(6):438-44. PDF

Omurtag A, Lytton WW. Spectral method and high-order finite differences for the nonlinear cable equation. Neural Comput. 2010 22(8):2113-36. PDF

Fenton AA, Lytton WW, Barry JM, Lenck-Santini PP, Zinyuk LE, KubĂ­k S, Bures J, Poucet B, Muller RU, Olypher AV. Attention-like modulation of hippocampus place cell discharge. J Neurosci. 2010 30(13):4613-25. PDF


Lytton WW, Omurtag A, Neymotin SA, Hines ML. Just-in-time connectivity for large spiking networks. Neural Comput. 2008 20(11):2745-56. PDF

Fenton AA, Kao HY, Neymotin SA, Olypher A, Vayntrub Y, Lytton WW, Ludvig N. Unmasking the CA1 ensemble place code by exposures to small and large environments: more place cells and multiple, irregularly arranged, and expanded place fields in the larger space. J Neurosci. 2008 28(44):11250-62. PDF

Lytton WW. Computer modelling of epilepsy. Nat Rev Neurosci. 2008 9(8):626-37. PDF

Lytton WW, Neymotin SA, Hines ML. The virtual slice setup. J Neurosci Methods. 2008 171(2):309-15. PDF

Orman R, Von Gizycki H, Lytton WW, Stewart M. Local axon collaterals of area CA1 support spread of epileptiform discharges within CA1, but propagation is unidirectional. Hippocampus. 2008 18(10):1021-33. PDF

Lytton WW, Orman R, Stewart M. Broadening of activity with flow across neural structures. Perception. 2008 37(3):401-7. PDF

Neymotin S, Uhlrich D, Manning K, Lytton W. Data-mining of time-domain features from neural extracellular field data. Peer-reviewed chapter in Computational Intelligence in Biomedicine and Bioinformatics. Springer 2008. PDF


Lytton WW, Omurtag A. Tonic-clonic transitions in computer simulation. J Clin Neurophysiol. 2007 24(2):175-81. PDF

Lytton WW, Stewart M. Data mining through simulation. Methods Mol Biol. 2007;401:155-66. PDF


Migliore M, Cannia C, Lytton WW, Markram H, Hines ML. Parallel network simulations with NEURON. J Comput Neurosci. 2006 Oct;21(2):119-29. PDF

Lytton WW. Neural Query System: Data-mining from within the NEURON simulator. Neuroinformatics. 2006;4(2):163-76. PDF

Lytton WW; Stewart M. Rule-based firing for network simulations. Neurocomputing, 69:1160-1164, 2006. PDF


Uhlrich DJ, Manning KA, O'Laughlin ML, Lytton WW. Photic-induced sensitization: acquisition of an augmenting spike-wave response in the adult rat through repeated strobe exposure. J Neurophysiol. 2005 Dec;94(6):3925-37. PDF

Lytton WW, Orman R, Stewart M. Computer simulation of epilepsy: implications for seizure spread and behavioral dysfunction. Epilepsy Behav. 2005 Nov;7(3):336-44. PDF

Lytton WW, Hines ML. Independent variable time-step integration of individual neurons for network simulations. Neural Comput. 2005 Apr;17(4):903-21. PDF

Lytton WW; Stewart M. A rule-based firing model for neural networks. Int. J. for Bioelectromagnetism, 7:47-50, 2005.PDF


Lytton WW, Hines M. Hybrid neural networks--combining abstract and realistic neural units. Conf Proc IEEE Eng Med Biol Soc. 2004;6:3996-8. PDF


Briska AM, Uhlrich DJ, Lytton WW. Computer model of passive signal integration based on whole-cell in vitro studies of rat lateral geniculate nucleus. Eur J Neurosci. 2003 Apr;17(8):1531-41. PDF


From Computer to Brain Springer, 2002. Japanese translation 2006. Introduction


Chover J, Haberly LB, Lytton WW. Alternating dominance of NMDA and AMPA for learning and recall: a computer model. Neuroreport. 2001 Aug 8;12(11):2503-7. PDF


Neville KR, Lytton WW. Potentiation of Ca2+ influx through NMDA channels by action potentials: a computer model. Neuroreport. 1999 Nov 26;10(17):3711-6. PDF

Lytton WW, Lipton P. Can the hippocampus tell time? The temporo-septal engram shift model. Neuroreport. 1999 Aug 2;10(11):2301-6. PDF

Zhu JJ, Lytton WW, Xue JT, Uhlrich DJ. An intrinsic oscillation in interneurons of the rat lateral geniculate nucleus. J Neurophysiol. 1999 Feb;81(2):702-11. PDF

Zhu JJ, Uhlrich DJ, Lytton WW. Properties of a hyperpolarization-activated cation current in interneurons in the rat lateral geniculate nucleus. Neuroscience. 1999;92(2):445-57. PDF

Zhu JJ, Uhlrich DJ, Lytton WW. Burst firing in identified rat geniculate interneurons. Neuroscience. 1999;91(4):1445-60. PDF

Lytton WW, Williams ST, Sober SJ. Unmasking unmasked: neural dynamics following stroke. Prog Brain Res. 1999;121:203-18. PDF


Lytton WW. Adapting a feedforward heteroassociative network to Hodgkin-Huxley dynamics. J Comput Neurosci. 1998 Dec;5(4):353-64. PDF

Lytton WW, Hellman KM, Sutula TP. Computer models of hippocampal circuit changes of the kindling model of epilepsy. Artif Intell Med. 1998 May;13(1-2):81-97. PDF

Thomas E, Lytton WW. Computer model of antiepileptic effects mediated by alterations in GABA(A)-mediated inhibition. Neuroreport. 1998 Mar 9;9(4):691-6. PDF


Sober SJ, Stark JM, Yamasaki DS, Lytton WW. Receptive field changes after strokelike cortical ablation: a role for activation dynamics. J Neurophysiol. 1997 Dec;78(6):3438-43. PDF

Kapur A, Lytton WW, Ketchum KL, Haberly LB. Regulation of the NMDA component of EPSPs by different components of postsynaptic GABAergic inhibition: computer simulation analysis in piriform cortex. J Neurophysiol. 1997 Nov;78(5):2546-59. PDF

Kapur A, Pearce RA, Lytton WW, Haberly LB. GABAA-mediated IPSCs in piriform cortex have fast and slow components with different properties and locations on pyramidal cells. J Neurophysiol. 1997 Nov;78(5):2531-45. PDF

Lytton WW. Computer model of clonazepam's effect in thalamic slice. Neuroreport. 1997 Oct 20;8(15):3339-43. PDF

Deyo SN, Lytton WW. Inhibition can disrupt hypersynchrony in model neuronal networks. Prog Neuropsychopharmacol Biol Psychiatry. 1997 Jul;21(5):735-50. PDF

Lytton WW, Contreras D, Destexhe A, Steriade M. Dynamic interactions determine partial thalamic quiescence in a computer network model of spike-and-wave seizures. J Neurophysiol. 1997 Apr;77(4):1679-96. PDF


Lytton WW. Optimizing synaptic conductance calculation for network simulations. Neural Comput. 1996 Apr 1;8(3):501-9. PDF

Lytton WW, Destexhe A, Sejnowski TJ. Control of slow oscillations in the thalamocortical neuron: a computer model. Neuroscience. 1996 Feb;70(3):673-84. PDF

Educational and review

Lytton WW. From Computer to Brain Springer, 2002. Japanese translation 2006. Introduction

Lytton WW et al. (2017) Uniting biology and maths to understand the human brain. Scientia

Lytton WW (2017) Computers, causality and cure in epilepsy [Commentary on Proix et al. in same issue] Brain. Preprint PDF

Lytton WW, Arle J, Bobashev G, Ji S, Klassen TL, Marmarelis VZ, Schwaber J, Sherif MA, Sanger T. (2017) Multiscale modeling in the clinic: Diseases of the brain and nervous system. Journal of Computational Surgery. Preprint PDF

Sherif MA, Lytton WW (2016). Brain Diseases. in From Neuron to Cognition via Computational Neuroscience. ed.: MA Arbib, JJ Bonaiuto. MIT.

McDougal RA, Bulanova AS and Lytton WW (2016). Reproducibility in Computational Neuroscience Models and Simulations. IEEE Transactions on Biomedical Engineering. 2016 63(10):2021-2035.

Lytton WW, Vadigepalli R, Kramer MA (2015) Multiscale Computational Modeling for the US BRAIN initiative . white paper cited by NIH BRAIN MSM RFA.

Seidenstein AH, Barone FC, Lytton WW (2015) Computer modeling of ischemic stroke. Scholarpedia, 10(3):32015.

Lytton WW Computational Neuroscience, in Encyclopedia of the Neurological Sciences Ed. 2 MJ Aminoff and RB Daroff, eds., Oxford: Academic Press, vol. 1:844-847, 2014 PDF (prior edition: Ed. 1)

Taxin ZH, Neymotin SA, Mohan A, Lipton P, Lytton WW. Modeling molecular pathways of neuronal ischemia. Prog Mol Biol Transl Sci. 2014 123:249-75.PDF

Lytton WW, McDougal RA. Deterministic Reaction-Diffusion Simulators. Encyclopedia of Computational Neuroscience 2014. PDF

Lytton WW. Modeling of Disease - Molecular Level: Overview. Encyclopedia of Computational Neuroscience 2014. PDF

Neymotin SA, Taxin Z, Mohan A, Lipton P. Brain Ischemia and Stroke. Encyclopedia of Computational Neuroscience 2014. PDF

Neymotin SA, Mathew AM, Kerr CC, Lytton WW. Computational Neuroscience of Neuronal Networks. In Neuroscience in the 21st Century, Donald Pfaff (ed.). Springer Verlag, 2013. PDF

Lytton WW, Kerr CC. Computational Neuroscience of Neurons and Synapses. In Neuroscience in the 21st Century, Donald Pfaff (ed.). Springer Verlag, 2013.PDF

Sanchez JC, Lytton WW, Carmena JM, Principe JC, Fortes J, Barbour RL, Francis JT. Dynamically Repairing and Replacing Neural Networks. IEEE Pulse 2012 3(1):57-59. PDF

Mathew AM, Computing in the Neocortex. Neurdon: all things brain and technology blog, 2011 Link

Lytton WW. Computer modelling of epilepsy. Nat Rev Neurosci. 2008 9(8):626-37. PDF

Lytton WW, Stewart M, Hines ML. Simulation of large networks: technique and progress in Computational Neuroscience in Epilepsy, I Soltesz and K Staley, eds., Elsevier, 2008.PDF

Gunay C, Smolinski TG, Lytton WW, Morse TM and others. Computational Intelligence in Electrophysiology: Current Trends and Open Problems in Studies in Computational Intelligence , 122:325-359, 2008.PDF

Lytton WW. Judgment-based medicine; response to "Evidence-based medicine or faith-based medicine?". MedGenMed. 2005;7(1):33. PDF

Lytton WW, Wathey JC. Realistic single-neuron modeling. Seminars in Neuroscience, 4:15-25, 1992. PDF

Lytton WW. Science education in the preclinical curriculum (letter). Archives of Internal Medicine, 148:2508-2509, 1988. PDF


About the lab

Professor William W. Lytton - Uniting biology and math to understand the brain. Scientia. 2016. PDF

Spanish newspaper article on Salvador Dura Bernal and the lab. La Provincia. 2016. PDF