Lab Publications | Neurosim lab

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B

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).

C

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. 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).

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).

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).

Sherif, M. A., Skosnik P., Hajs M., & Lytton WW. (2015). Computer model of endocannabinoid effects in CA3. Society for Neuroscience 2015 (SFN '15).

E

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).

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).

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.

Mcdougal, R. A., Tropper C., Hines M. L., & Lytton WW. (2016). Expanding NEURON support for reaction-diffusion models. Society for Neuroscience 2016 (SFN '16).

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').

H

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).

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).

I

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').

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).

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).

Neymotin, SA., H L., AA F., & Lytton WW. (2010). Interictal EEG discoordination in a rat seizure model. Statistical Analysis of Neuronal Data.

J

Lytton, W. W., & Hines M. (2007). Just-in-time connectivity for very large neuronal networks. Computational Neuroscience Meeting (CNS 07').

M

McDougal, RA., Hines ML., & Lytton WW. (2014). A method for multi-simulator reaction-diffusion with NEURON. Computational Neuroscience.

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).

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).

Seidenstein, A., Mcdougal R. A., Hines M. L., & Lytton WW. (2016). Mosaic multiscale computer modeling of ischemic stroke. Society for Neuroscience 2016 (SFN '16).

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).

N

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').

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.

O

Mcdougal, R. A., Lytton WW., & Hines M. L. (2011). Object-oriented reaction-diffusion modeling in the neuron simulator. Society for Neuroscience 2011 (SFN '11).

P

Tropper, C., Zhongwei L., Mcdougal R. A., Hines M., & Lytton WW. (2015). Parallel reaction-diffusion simulation in NEURON. Society for Neuroscience 2015 (SFN '15).

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., 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).

Seidenstein, A. H., McDougal R. A., Hines M. L., & Lytton WW. (2015). Parallelizing large networks using NEURON-Python. BMC Neuroscience.

R

McDougal, R., Hines ML., & Lytton WW. (2012). Reaction-diffusion modeling in the NEURON simulator. Computational Neuroscience.

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).

S

Tropper, C., Pataory M., Mcdougal R., Hines M., & Lytton WW. (2014). Stochastic diffusion simulation in NEURON. Society for Neuroscience 2014 (SFN '14).