Jonathan Rubin, PhD

Professor, Mathematics


501 Thackeray Hall
F: 624-8397
Website >


PhD, Brown University (Division of Applied Mathematics) (1996)


Theoretical and computational modeling of dynamics in neuronal networks.

Research Summary

Dr. Rubin's research focuses on computational modeling of networks of coupled neurons. He is particularly interested in how intrinsic cellular properties combine with synaptic properties, such as plasticity and architecture of connections, to generate neuronal activity patterns. Dr. Rubin is currently using simulations and theoretical analysis to elucidate how the modulation of such patterns contributes to movement disorders, such as Parkinson's disease, and to pacemaking, as occurs in respiratory rhythms. He also considers more abstract questions of how various network components interact to produce waves of activity or localized, sustained activity. In addition to projects in these areas, many computational opportunities for students exist in Dr. Rubin's study of the mechanisms and computational implications of spike-timing dependent plasticity.


R. Rosenbaum, J.E. Rubin, and B. Doiron, "Short term synaptic depression and stochastic vesicle dynamics reduce and reshape neuronal correlations", J. Neurophysiol., doi:10.1152/jn.00733.2012.
Y. Wang and J.E. Rubin, "Multiple timescale mixed bursting dynamics in a respiratory neuron model", J. Comp. Neurosci., 41:245-268, 2016.

V.L. Corbit*, T.C. Whalen*, K.T. Zitelli, S.Y. Crilly, J.E. Rubin**, A.H. Gittis**, "Pallidostriatal projections promote beta oscillations in a dopamine-depleted biophysical network model", J. Neurosci., 36: 5556-5571, 2016.
B. Bacak, T. Kim, J.C. Smith, J.E. Rubin, and I.A. Rybak, "Mixed-mode oscillations and population bursting in the pre-Botzinger complex", eLife, 5 (2016): e13403. Access online.
M. Duanmu, N. Whitaker, P.G. Kevrekidis, A. Vainchtein, and J. Rubin, "Traveling wave solutions in a chain of periodically forced coupled nonlinear oscillators", Physica D, doi:10.1016/j.physd.2016.02.001, 2016.
D.R. Cleary, A.M. Raslan, J.E. Rubin, D. Baghat, A. Viswanathan, M.M. Heinricher, and K.J. Burchiel, "Deep brain stimulation entrains local neuronal firing in human globus pallidus internus", J. Neurophysiol., accepted.

C. Park and J.E. Rubin, "Cooperation of intrinsic bursting and calcium oscillations underlying activity patterns of model pre-Botzinger complex neurons", J. Comp. Neurosci., DOI 10.1007/s10827-012-0425-5.

R. Rosenbaum, J. Rubin, and B. Doiron, "Short term synaptic depression imposes a frequency dependent filter on synaptic information transfer", PLoS Comp. Biol., 8: e1002557, 2012.

J. Rubin and D. Terman, "Explicit maps to predict activation order in multiphase rhythms of a coupled cell network", J. Math. Neurosci., 2:4, DOI 10.1186/2190-8567-2-4, 2012.

J.E. Rubin, C.C. McIntyre, R.S. Turner and T. Wichmann, "Basal ganglia activity patterns in parkinsonism and computational modeling of their downstream effects", Eur. J. Neurosci., 36, 2213-2228, 2012. Check out a related video interview on the EJN site!

R. Curtu and J. Rubin, "Interaction of canard and singular Hopf mechanisms in a neural model", SIAM J. Appl. Dyn Syst., 10: 1443-1479, 2011.

P. Reitsma, B. Doiron, and J. Rubin, "Correlation transfer from basal ganglia to thalamus in Parkinson's disease", Frontiers Comp. Neurosci., 5: doi10.3389/fncom.2011.00058, 2011.