Lab Publications

Found 85 results
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2019
Angulo, S. L., Henzi T., Neymotin S. A., Suarez M. D., Lytton W. W., Schwaller B., et al. (2019).  Amyloid pathology–produced unexpected modifications of calcium homeostasis in hippocampal subicular dendrites. Alzheimers. Dement..
Newton, A.. J. H., Conte C.., Eggleston L.., Blasy E.., Hines M.. L., Lytton W.. W., et al. (2019).  Efficient in silico 3D intracellular neuron simulation. Society for Neuroscience 2019 (SFN '19).
Newton, A. J. H., Hines M. L., Lytton W. W., & McDougal R. A. (2019).  Homeostasis and spreading depolarization in multiscale simulation of ischemic stroke.. Society for Neuroscience 2018 (SFN '19).
Graham, J.. W., Gao P.. P., Dura-Bernal S.., Sivagnanam S.., Hines M.. L., Antic S.. D., et al. (2019).  Modeling network effects of dendritic plateau potentials in cortical pyramidal neurons. Society for Neuroscience 2019 (SFN '19).
Dura-Bernal, S., Suter B. A., Gleeson P., Cantarelli M., Quintana A., Rodriguez F., et al. (2019).  NetPyNE, a tool for data-driven multiscale modeling of brain circuits. eLife. 8, e44494.
2018
Mcdougal, R. A., Newton A., Hines M. L., & Lytton WW. (2018).  Building, simulating, and visualizing reaction-diffusion models with NEURON's enhanced rxd module. Society for Neuroscience 2018 (SFN '18).
Mulugeta, L., Drach A., Erdemir A., Hunt C. A., Horner M., Ku J. P., et al. (2018).  Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience. Front. Neuroinform.. 12,
Mulugeta, L., Drach A., Erdemir A., Hunt C. A., Horner M., Ku J. P., et al. (2018).  Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience. Front. Neuroinform.. 12,
Graham, J. W., Angulo S., Gao P. P., Dura-Bernal S., Sivagnanam S., Hines M.., et al. (2018).  Embedded ensemble encoding: A hypothesis for reconciling cortical coding strategies. Society for Neuroscience 2018 (SFN '18).
Antic, S. D., Hines M., & Lytton WW. (2018).  Embedded ensemble encoding hypothesis: The role of the ``Prepared'' cell. J. Neurosci. Res..
Newton, A. J. H., Seidenstein A. H., McDougal R. A., Hines M., & Lytton W. W. (2018).  Extracellular reaction–diffusion in the NEURON simulator: modeling ischemic stroke. Computational Neuroscience Meeting (CNS 18').
Knox, A. T., Glauser T., Tenney J., Lytton WW., & Holland K. (2018).  Modeling pathogenesis and treatment response in childhood absence epilepsy. Epilepsia. 59, 135–145.
Newton, A., Seidenstein A. H., Hines M. L., Mcdougal R. A., & Lytton WW. (2018).  Multiscale simulation of spreading depolarization in ischemic stroke. Society for Neuroscience 2018 (SFN '18).
Dura-Bernal, S., Suter B. A., Quintana A., Cantarelli M., Gleeson P., Rodriguez F., et al. (2018).  NetPyNE: A GUI-based tool to build, simulate and analyze large-scale, data-driven network models in parallel NEURON. Society for Neuroscience 2018 (SFN '18).
Dura-Bernal, S., Gleeson P., Neymotin S., Suter B. A., Quintana A., Cantarelli M., et al. (2018).  NetPyNE: a high-level interface to NEURON to facilitate the development, parallel simulation and analysis of data-driven multiscale network models. Computational Neuroscience Meeting (CNS 18').
Gao, P., Graham J., Angulo S., Dura-Bernal S., Hines M., Lytton W. W., et al. (2018).  Recruitment of neurons into neural ensembles based on dendritic plateau potentials. Computational Neuroscience Meeting (CNS 18').
Gao, P. P., Graham J. W., Angulo S. L., Dura-Bernal S., Hines M. L., Lytton WW., et al. (2018).  Recruitment of neurons into neural ensembles based on dendritic plateau potentials. Society for Neuroscience 2018 (SFN '18).
C Hunt, A., Erdemir A., Gabhann F. Mac, Lytton WW., Sander E. A., Transtrum M. K., et al. (2018).  The Spectrum of Mechanism-oriented Models for Explanations of Biological Phenomena.
Newton, A. J. H., McDougal R. A., Hines M. L., & Lytton W. W. (2018).  Using NEURON for reaction-diffusion modeling of extracellular dynamics. Frontiers in Neuroinformatics.
2017
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Denham, S., Poirazi P., De Schutter E., Friston K., Chan H. Ka, Nowotny T., et al. (2017).  26th Annual Computational Neuroscience Meeting (CNS*2017): Part 1. BMC Neuroscience. 18, 58.
Lin, Z., Tropper C., Yao Y., McDougal R. A., Patoary MN., Lytton WW., et al. (2017).  Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons. J Simulation. 11, 267.
Womack, KB., Paliotta C., Strain JF., Ho JS., Skolnick Y., Lytton WW., et al. (2017).  Measurement of peripheral vision reaction time identifies white matter disruption in patients with mild traumatic brain injury. J Neurotrauma.
Newton, A., Mcdougal R. A., Hines M. L., Miyazaki K., Ross W. N., & Lytton WW. (2017).  Modeling electrodiffusion with the NEURON reaction-diffusion module. Society for Neuroscience 2017 (SFN '17).
Lin, Z., Tropper C., McDougal R. A., Patoary M. Nazrul Ish, Lytton WW., Yao Y., et al. (2017).  Multithreaded Stochastic PDES for Reactions and Diffusions in Neurons. ACM Transactions on Modeling and Computer Simulation (TOMACS). 27, 7.
Mcdougal, R. A., Newton A. J. H., Patoary M. N. I., Tropper C., Hines M. L., & Lytton WW. (2017).  Parallel stochastic spines in NEURON reaction-diffusion simulations. Society for Neuroscience 2017 (SFN '17).
2016
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Sharpee, T. O., Destexhe A., Kawato M., Sekulić V., Skinner F. K., Wójcik D. K., et al. (2016).  25th Annual Computational Neuroscience Meeting: CNS-2016. BMC Neuroscience. 17, 54.
Neymotin, S., McDougal R. A., Bulanova AS., Zeki M., Lakatos P., Terman D., et al. (2016).  Calcium regulation of HCN channels supports persistent activity in a multiscale model of neocortex. Neurosci. 316, 344-366.
Mcdougal, R. A., Tropper C., Hines M. L., & Lytton WW. (2016).  Expanding NEURON support for reaction-diffusion models. Society for Neuroscience 2016 (SFN '16).
Seidenstein, A., Mcdougal R. A., Hines M. L., & Lytton WW. (2016).  Mosaic multiscale computer modeling of ischemic stroke. Society for Neuroscience 2016 (SFN '16).
Lytton, WW., Seidenstein AH., Dura-Bernal S., McDougal R. A., Schürmann F., & Hines ML. (2016).  Simulation neurotechnologies for advancing brain research: parallelizing large networks in NEURON. Neural Comput. 28, 2063-2090.
2015
Sherif, M. A., Skosnik P., Hajs M., & Lytton WW. (2015).  Computer model of endocannabinoid effects in CA3. Society for Neuroscience 2015 (SFN '15).
Mcdougal, R. A., Bulanova A. S., Hines M. L., & Lytton WW. (2015).  Hybrid 1d/3d reaction-diffusion in the neuron simulator. Society for Neuroscience 2015 (SFN '15).
Neymotin, S., McDougal R. A., Sherif MA., Fall CP., Hines ML., & Lytton WW. (2015).  Neuronal calcium wave propagation varies with changes in endoplasmic reticulum parameters: a computer model. Neural Comput. 27, 898–924.
Seidenstein, A., Neymotin S. A., Fesharaki A., Hines M. L., Mcdougal R. A., Bulanova A. S., et al. (2015).  Neuronal network bump attractors augmented by calcium up-regulation of Ih in a multiscale computer model of prefrontal cortex. Society for Neuroscience 2015 (SFN '15).
Lin, Z., Tropper C., Patoary M. Nazrul Ish, McDougal R. A., Lytton WW., & Hines M. L. (2015).  Ntw-mt: A multi-threaded simulator for reaction diffusion simulations in neuron. Proceedings of the 3rd ACM SIGSIM Conference on Principles of Advanced Discrete Simulation. 157–167.
Tropper, C., Zhongwei L., Mcdougal R. A., Hines M., & Lytton WW. (2015).  Parallel reaction-diffusion simulation in NEURON. Society for Neuroscience 2015 (SFN '15).
Seidenstein, A. H., McDougal R. A., Hines M. L., & Lytton WW. (2015).  Parallelizing large networks using NEURON-Python. BMC Neuroscience.
2014
Mcdougal, R. A., Hines M. L., & Lytton WW. (2014).  Calcium 'impedance mismatch' – the role of geometry on diffusion dynamics. Society for Neuroscience 2014 (SFN '14).
Neymotin, S. A., McDougal R. A., Hines M., & Lytton W. W. (2014).  Calcium regulation of HCN supports persistent activity associated with working memory: a multiscale model of prefrontal cortex. Computational Neuroscience Meeting (CNS 14').
Neymotin, S., McDougal R. A., Hines ML., & Lytton WW. (2014).  Calcium regulation of HCN supports persistent activity associated with working memory: a multiscale model of prefrontal cortex. BMC Neuroscience. 15, P108.
Neymotin, S. A., Mcdougal R. A., Hines M. L., & Lytton WW. (2014).  Calcium regulation of HCN supports persistent activity associated with working memory: A multiscale model of prefrontal cortex. Society for Neuroscience 2014 (SFN '14).
Bulanova, AS., McDougal RA., Neymotin SA., Mutai V., Lytton WW., & Hines M. (2014).  Integrating Systems Biology Markup Language (SBML) with NEURON. Computational Neuroscience.
Bulanova, A. S., Mcdougal R. A., Neymotin S. A., Mutai V. K., Lytton WW., & Hines M. L. (2014).  Integrating Systems Biology Markup Language (SBML) with NEURON. Society for Neuroscience 2014 (SFN '14).
McDougal, RA., Hines ML., & Lytton WW. (2014).  A method for multi-simulator reaction-diffusion with NEURON. Computational Neuroscience.
Tropper, C., Pataory M., Mcdougal R., Hines M., & Lytton WW. (2014).  Stochastic diffusion simulation in NEURON. Society for Neuroscience 2014 (SFN '14).
2013
Sherif, M. A., Mcdougal R., Neymotin S., Hines M., & Lytton WW. (2013).  Calcium wave propagation varies with changes in endoplasmic reticulum parameters: A computer model. Society for Neuroscience 2013 (SFN '13).
Neymotin, S., Hilscher MM., Moulin TC., Skolnick Y., Lazarewicz MT., & Lytton WW. (2013).  Ih Tunes theta/gamma oscillations and cross-frequency coupling in an in silico CA3 model. PLoS One. 8, e76285.
Hines, M. L., Mcdougal R., Neymotin S. A., Tropper C., & Lytton WW. (2013).  Interfaces in multiscale reaction-diffusion models in the NEURON simulator. Society for Neuroscience 2013 (SFN '13).
Tropper, C., Patoary M. N. I., Mcdougal R. A., Hines M. L., & Lytton WW. (2013).  Parallel stochastic simulation of neuronal reaction-diffusion equations. Society for Neuroscience 2013 (SFN '13).
McDougal, R. A., Hines ML., & Lytton WW. (2013).  Reaction-Diffusion in the NEURON Simulator. Front Neuroinform. 7:28,
McDougal, R. A., Hines ML., & Lytton WW. (2013).  Water-tight membranes from neuronal morphology files. J Neurosci Methods. 220, 167–178.
2012
Mcdougal, R. A., Hines M. L., & Lytton WW. (2012).  Calcium-electrical interactions: An example of reaction-diffusion in the neuron simulator. Society for Neuroscience 2012 (SFN '12).
Hilscher, M. M., Moulin T., Skolnick Y., Lytton W. W., & Neymotin S. A. (2012).  Ih modulates theta rhythm and synchrony in computer model of CA3. Computational Neuroscience Meeting (CNS 12').
McDougal, R., Hines ML., & Lytton WW. (2012).  Reaction-diffusion modeling in the NEURON simulator. Computational Neuroscience.
McDougal, R. A., Skolnick Y., Schaff JC., Lytton WW., & Hines ML. (2012).  Reaction-diffusion modeling in the NEURON simulator. BMC Neuroscience. 13, P119.
2011
Mcdougal, R. A., Lytton WW., & Hines M. L. (2011).  Object-oriented reaction-diffusion modeling in the neuron simulator. Society for Neuroscience 2011 (SFN '11).
2010
Neymotin, SA., H L., Park EH., AA F., & Lytton WW. (2010).  Emergent oscillations in neocortex: a simulation study. Dynamical Neuroscience XVIII: The Resting Brain: Not at Rest! Satellite meeting for Society for Neuroscience Meeting.
Neymotin, SA., H L., AA F., & Lytton WW. (2010).  Interictal EEG discoordination in a rat seizure model. Statistical Analysis of Neuronal Data.
2008
Holmes, W. R., Jung R., & Roberts P. (2008).  Computational Neuroscience (CNS*2008). BMC Neuroscience. 9, I1.
Lytton, WW., Omurtag A., Neymotin S., & Hines ML. (2008).  Just-in-time connectivity for large spiking networks. ncomp. 20, 2745-2756.
Lytton, WW., Stewart M., & Hines ML. (2008).  Simulation of large networks: technique and progress. (Soltesz, I., & Staley K., Ed.).Computational Neuroscience in Epilepsy. 3-17.