Publications – Center for Neural Engineering

Journals, Book Chapters

Berger, T.W., Alger, B. and Thompson, R.F. Neuronal substrate of classical conditioning in the hippocampus. Science, 1976, 192, 483 485.

Thompson, R.F., Berger, T.W., Cegavske, C.F., Patterson, M.M., Roemer, R.A., Teyler, T.J. and Young, R.A. The search for the engram. American Psychologist, 1976, 31, 209 227.

Berger, T.W. and Thompson, R.F. Limbic system interrelations: Functional division among hippocampal-septal connections. Science, 1977, 197, 587 589.

Berger, T.W., and Thompson, R.F. Neuronal plasticity in the limbic system during classical conditioning of the rabbit nictitating membrane response. I. The hippocampus. Brain Research, 1978, 145, 323 346.

Berger, T.W., and Thompson, R.F. Identification of pyramidal cells as the critical elements in hippocampal neuronal plasticity during learning. Proceedings of the National Academy of Sciences, U.S.A., 1978, 75, 1572 1576.

Thompson, R.F., Patterson, M.M. and Berger, T.W. Associative learning in the mammalian nervous system. In Brain and Learning, T.J. Teyler (Ed.), Stamford, Conn.: Greylock Publishers, 1978, pp. 51 90.

Berger, T.W., and Thompson, R.F. Neuronal plasticity in the limbic system during classical conditioning of the rabbit nictitating membrane response. II. Septum and mammillary bodies. Brain Research, 1978, 156, 293 314.

Patterson, M.M., Berger, T.W. and Thompson, R.F. Hippocampal neuronal plasticity recorded from cat during classical conditioning. Brain Research, 1979, 163, 339 343.

Berger, T.W. The hippocampus and “general” mnemonic function. Behavioral and Brain Sciences, 1979, 2, 323 324.

Thompson, R.F., Berry, S.D., Rinaldi, P.C. and Berger, T.W. Habituation and the orienting reflex: The dual-process theory revisited. The Orienting Reflex in Humans. In H.D. Kimmel, E.H. van Olst, and J.F. Orlebek (Eds.), Hillsdale, N.J.: Lawrence Erlbaum Associates, 1979, pp. 21 60.

Berger, T.W. Selective activation of hippocampal neurons. Behavioral and Brain Sciences, 1979, 2, 495 496.

Thompson, R.F., Berger, T.W. and Berry, S.D. An introduction to the anatomy, physiology and chemistry of the brain. In M.C. Wittrock (Ed.), The Brain and Psychology. N.Y.: Academic Press, 1980, pp. 3-32.

Berger, T.W., Laham, R.I. and Thompson, R.F. Hippocampal unit-behavior correlations during classical conditioning. Brain Research, 1980, 193, 229 248.

Berger, T.W., Swanson, G.W., Milner, T.A., Lynch, G.S., and Thompson, R.F. Reciprocal anatomical connections between hippocampus and subiculum: Evidence for subicular innervation of regio superior. Brain Research, 1980, 183, 265 276.

Berger, T.W., Clark, G.A., and Thompson, R.F. Neuronal plasticity recorded from limbic system structures during conditioning. Physiological Psychology, 1980, 8, 155 167.

Thompson, R.F., Berger, T.W., Berry, S.D., Hoehler, F.K., Kettner, R.E., and Weisz, D.J. Hippocampal substrate of classical conditioning. Physiological Psychology, 1980, 8, 262 279.

Thompson, R.F., Berger, T.W. and Berry, S.D. Brain mechanisms of learning. In R.F. Thompson, L.H. Hicks, and V.B. Shvyrkov (Eds.), Neuronal Mechanisms of Goal-Directed Behavior and Learning. N.Y.: Academic Press, 1980, pp. 221 239.

Thompson, R.F., Berger, T.W., Berry, S.D. and Hoehler, F.K. The search for the engram. II. In D. McFadden (Ed.) Neural Mechanisms in Behavior. N.Y.: Springer-Verlag, 1980, pp. 172 222.

Berger, T.W., Milner, T.A., Swanson, G.W., Lynch, G.S., and Thompson, R.F. Reciprocal anatomical connections between anterior thalamus and cingulate-retrosplenial cortex in the rabbit. Brain Research, 1980, 201, 411 417.

Berger, T.W., Semple-Rowland, S. and Bassett, J.L. Hippocampal polymorph neurons are the cells of origin for ipsilateral association and commissural afferents to the dentate gyrus. Brain Research, 1981, 215, 329 336.

Berger, T.W. and Thompson, R.F. Hippocampal cellular plasticity during extinction of classically conditioned nictitating membrane behavior. Behavioural Brain Research, 1982, 4, 63 76.

Berger, T.W. and Orr, W.B. Role of the hippocampus in reversal learning of the rabbit nictitating membrane response. In C.D. Woody (Ed.), Conditioning: Representation of Involved Neural Functions. N.Y.: Plenum, 1982, pp. 1 12.

Berger, T.W., French, E.D., Siggins, G.R. and Bloom, F.E. Ethanol and some tetrohydroisoquinolines alter the discharge of rat hippocampal neurons in vivo when applied by micro-electroosmosis or pressure: Relationship to opiate actions. Pharmacology, Biochemistry and Behavior, 1982, 17, 813 821.

Thompson, R.F., Berger, T.W., Berry, S.D., Clark, G.A., Kettner, R.N., Lavond, D.G., Mauk, M.D., McCormick, D.A., Solomon, P.R., and Weisz, D.J. Neuronal substrates of learning and memory: Hippocampus and other structures. In C.D. Woody (Ed.), Conditioning: Representation of Involved Neural Functions. N.Y.: Plenum, 1982, pp. 115-129.

Bassett, J.L. and Berger, T.W. Associational connections between anterior and posterior subdivisions of the cingulate gyrus in the rabbit. Brain Research, 1982, 248, 371 376.

Berger, T.W. Hippocampal cellular plasticity induced by classical conditioning. In L.W. Swanson, T.J. Teyler, and R.F. Thompson (Eds.), “Mechanisms and functional implications of hippocampal long-term potentiation.” Neurosciences Research Program Bulletin, 1982, 20, 723 729.

Siggins, G.R., Berger, T.W., French, E.D., Shier, T. and Bloom, F.E. Ethanol, salsolinol and tetrahydropapaveroline alter the discharge of neurons in several brain regions: Comparison to opioid effects. In E. Usdin, F.E. Bloom, and J.D. Barchus (Eds.), Betacarbolines and Tetrahydroisoquinolines. N.Y.: Alan R. Liss, 1982, pp. 275-287.

Berger, T.W., Rinaldi, P., Weisz, D.J. and Thompson, R.F. Single unit analysis of different hippocampal cell types during classical conditioning of the rabbit nictitating membrane response. Journal of Neurophysiology, 1983, 50, 1197 1219.

Berger, T.W. and Orr, W.B. Hippocampectomy selectively disrupts discrimination reversal conditioning of the rabbit nictitating membrane response. Behavioural Brain Research, 1983, 8, 49 68.

Thompson, R.F., Berger, T.W., Weisz, D.J., Clark, G.A. and Yang, B Y. Neural unit activity in learning: Neuronal substrate of classical conditioning in the hippocampus. In R. Sinz and M.R. Rosenzweig (Eds.), Psychophysiology: Memory, Motivation and Event-Related Potentials in Mental Operations, Amsterdam (Netherlands): Elsevier, 1983, pp. 103 110.

Thompson, R.F., Berger, T.W. and Madden, J. Cellular processes of learning and memory in the mammalian CNS. In W.M. Cowan, Z.W. Hall and E.R. Kandel (Eds.), Annual Review of Neuroscience, Palo Alto, CA: Annual Reviews, 1983, 6, 447 491.

Berger, T.W. Neural representation of associative learning in the hippocampus. In N. Butters and L.R. Squire (Eds.), The Neuropsychology of Memory. N.Y.: Guilford, 1984, pp. 443 461.

Ross, R.T., Orr, W.B., Holland, P.C. and Berger, T.W. Hippocampectomy disrupts acquisition and retention of learned conditional responding. Behavioral Neuroscience, 1984, 98, 211 225.

Berger, T.W. Long-term potentiation of hippocampal synaptic transmission affects rate of behavioral learning. Science, 1984, 224, 627 630.

Thompson, R.F. and Berger, T.W. Physiological and anatomical mechanisms: Neural basis of learning. In H. Terrace and P. Marler (Eds.), The Biology of Learning. Berlin: Springer-Verlag, 1984, pp. 479-508.

Orr, W.B. and Berger, T.W. Hippocampectomy disrupts topography of conditioned nictitating membrane responses during reversal learning. Behavioral Neuroscience, 1985, 99, 35 45.

Berger, T.W., Kaul, S., Stricker, E.M. and Zigmond, M.J. Hyperinnervation of the striatum by dorsal raphe afferents after dopamine-depleting brain lesions in neonatal rats. Brain Research, 1985, 336, 354-358.
Berger, T.W. and Sclabassi, R.J. Nonlinear systems analysis and its application to study of the functional properties of neural systems. In N.M. Weinberger, J.L. McGaugh and G. Lynch (Eds.), Memory Systems of the Brain: Animal and Human Cognitive Processes. N.Y.: Guilford, 1985, pp. 120 133.

Chiodo, L.A. and Berger, T.W. Dopamine enhances amino acid-induced excitation and inhibition in the striatum. Brain Research, 1986, 375, 198 203.

Onn, S., Berger, T.W., Stricker, E.M. and Zigmond, M.J. Effects of intraventricular 6 hydroxydopamine on the dopaminergic innervation of striatum: An anatomical and biochemical analysis. Brain Research, 1986, 376, 8 19.

Zigmond, M.J., Stachowiak, M.K., Berger, T.W. and Stricker, E.M. Neurochemical events underlying continued function despite injury to monoaminergic systems. In G. Gilad, A. Gorio and G.W. Kreutzberg (Eds.), Processes of Recovery from Neural Trauma. N.Y.: Springer-Verlag, 1986, pp. 119 128.

Orr, W.B., Gardiner, T.W., Stricker, E.M., Zigmond, M.J. and Berger, T.W. Short-term effects of dopamine-depleting brain lesions on spontaneous activity of striatal neurons: Relation to local dopamine concentration and behavior. Brain Research, 1986, 376, 20 28.

Weikart, C.L. and Berger, T.W. Hippocampectomy disrupts classical conditioning of cross modality reversal learning of the nictitating membrane response. Behavioural Brain Research, 1986, 22, 85 89.

Berger, T.W, Weikart, C.L., Bassett, J.L. and Orr, W.B. Lesions of the retrosplenial cortex produce deficits in reversal learning of the rabbit nictitating membrane response: Implications for potential interactions between hippocampal and cerebellar brain systems. Behavioral Neuroscience, 1986, 100, 796 803.

Berger, T.W., Berry, S.D. and Thompson, R.F. Role of the hippocampus in classical conditioning of aversive and appetitive behaviors. In R.L. Isaacson and K.H. Pribram (Eds.), The Hippocampus, Vol. 4. N.Y.: Plenum, 1986, pp. 203 239.

Nisenbaum, E.S., Stricker, E.M., Zigmond, M.J. and Berger, T.W. Long-term effects of dopamine-depleting brain lesions on spontaneous activity of Type II striatal neurons: Relation to behavioral recovery. Brain Research, 1986, 398, 221 230.

Zigmond, M.J., Stricker, E.M. and Berger, T.W. The neuropathological basis of Parkinson’s disease: Evidence from clinical studies and experimental models. In J.T. Coyle (Ed.), Animals Models of Dementia: A Synaptic Neurochemical Perspective. N.Y.: Alan R. Liss, 1987, pp. 1 38.

Orr, W.B., Stricker, E.M., Zigmond, M.J. and Berger, T.W. Effects of dopamine depletion on the spontaneous activity of Type I striatal neurons: Relation to local dopamine concentration and motor behavior. Synapse, 1987, 1, 461 469.

Berger, T.W. and Weisz, D.J. Single unit analysis of hippocampal pyramidal and granule cells during classical conditioning of the rabbit nictitating membrane response. In I. Gormezano, W.F. Prokasy and R.F. Thompson (Eds.), Classical Conditioning III: Behavioral, Neurophysiological and Neurochemical Studies in the Rabbit. Hillsdale, N.J.: Lawrence Erlbaum, 1987, pp. 217 253.

Berger, T.W., Robinson, G.B., Port, R.L. and Sclabassi, R.J. Nonlinear systems analysis of the functional properties of the hippocampal formation. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling. Los Angeles: Biomedical Simulations Resource, 1987, pp. 73 103.

Sclabassi, R.J., Krieger, D.N. and Berger, T.W. Nonlinear systems analysis of the somatosensory system. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling. Los Angeles: Biomedical Simulations Resource, 1987, pp. 104 127.

Berger, T.W., Nisenbaum, E.S., Stricker, E.M. and Zigmond, M.J. Evidence for two functionally distinct neurons within the striatum and their differential sensitivity to dopamine. In L.A. Chiodo and A.S. Freeman (Eds.), Neurophysiology of Dopaminergic Systems: Current Status and Clinical Perspectives. Detroit: Lake Shore, 1987, pp. 253 284

Berger, T.W. and Sclabassi, R.J. Long-term potentiation and its relation to changes in hippocampal pyramidal cell activity and behavioral learning during classical conditioning. In P.W. Landfield and S.A. Deadwyler (Eds.), Long term Potentiation: From Biophysics to Behavior. N.Y.: Alan R. Liss, 1988, pp. 467 497.

Sclabassi, R.J., Eriksson, J.L., Port, R.L., Robinson, G.B., and Berger, T.W. Nonlinear systems analysis of the hippocampal perforant path-dentate projection. I. Theoretical and interpretational considerations. Journal of Neurophysiology, 1988, 60, 1066-1076.

Berger, T.W., Eriksson, J.L., Ciarolla, D.A. and Sclabassi, R.J. Nonlinear systems analysis of the hippocampal perforant path-dentate projection. II. Effects of random train stimulation. Journal of Neurophysiology, 1988, 60, 1077-1094.

Berger, T.W., Eriksson, J.L., Ciarolla, D.A. and Sclabassi, R.J. Nonlinear systems analysis of the hippocampal perforant path-dentate projection. III. Comparison of random train and paired impulse analyses. Journal of Neurophysiology, 1988, 60, 1095-1109.

Sclabassi, R.J., Krieger, D.N. and Berger, T.W. A systems theoretic approach to the study of CNS function. Annals of Biomedical Engineering, 1988, 16, 17-34.

Nisenbaum, E.S., Orr, W.B. and Berger, T.W. Evidence for two functionally distinct subclasses of neurons within the rat striatum. Journal of Neuroscience, 1988, 11, 4138 4150.

Berger, T.W., Balzer, J.R., Harty, T.P., Robinson, G.B., and R.J. Sclabassi. Long-term potentiation: Its effect on classically conditioned behavior and hippocampal network properties. In H.L. Haas and G. Buzsáki (Eds.), Synaptic Plasticity in the Hippocampus, Berlin: Springer-Verlag, 1988, pp. 190-193.

Nisenbaum, E.S., Zigmond, M.J., Stricker, E.M, and Berger, T.W. Spontaneous activity of Type II and not Type I striatal neurons is correlated with recovery of behavioral function after dopamine-depleting brain lesions. Brain Research, 1988, 473, 389-393.

Robinson, G.B., Port, R.L. and Berger, T.W. Kindling facilitates acquisition of discriminative responding but disrupts reversal learning of the rabbit nictitating membrane response. Behavioural Brain Research, 1989, 31, 279-283.

Zigmond, M.J., Berger, T.W., Grace, A.A., and Stricker, E.M. Compensatory responses to nigrostriatal bundle injury: Studies with 6-hydroxydopamine in an animal model of parkinsonism. Molecular and Chemical Neuropathology, 1989, 10, 185-200.

Sclabassi, R.J., Krieger, D.N., Solomon, J., Samosky, J., Levitan, S., and Berger, T.W. Theoretical decomposition of neuronal networks. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling, Vol. II. N.Y.: Plenum, 1989, pp. 129-146.

Berger, T.W., Harty, T.P., Barrionuevo, G, and Sclabassi, R.J. Modeling of neuronal networks through experimental decomposition. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling, Vol. II. N.Y.: Plenum, 1989, pp. 113-128.

Krieger, D., Berger, T.W., Levitan, S., and Sclabassi, R.J. An interactive package for functional power series characterization of complex systems. Computers and Mathematics in Medicine, 1990, 20, 231-246.

Onn, S-P., Balzer, J.R., Sidney, J.P., Stricker, E.M., Zigmond, M.J., and Berger, T.W. Lesions of the dopaminergic nigrostriatal projection in neonates: Effects on the electrophysiological activity of striatal neurons recorded during adulthood. Brain Research, 1990, 518, 274-278.

Zigmond, M.J., Abercrombie, E., Berger, T.W., Grace, A.A., and Stricker, E.M. Response of nigrostriatal neurons to injury and stress: Relevance to Parkinson’s disease. Trends in Neuroscience, 1990, 13, 290-296.

Berger, T.W., Bassett, J.L., and Orr, W.B. Multiple memory systems and their contribution to classical conditioning. In L. Dachowski and C. Flaherty (Eds.), Current Topics in Animal Learning: Brain, Emotion, and Cognition. N.Y.: Plenum, 1990, pp. 271-310.

Yeckel, M.F. and Berger, T.W. Feedforward excitation of the hippocampus by entorhinal afferents: Redefinition of the role of the trisynaptic pathway. Proceedings of the National Academy of Sciences, 1990, 87, 5832-5836.

Berger, T.W., Barrionuevo, G., Levitan, S.P., Krieger, D.N., and Sclabassi, R.J. Nonlinear systems analysis of network properties of the hippocampal formation. In J.W. Moore and M. Gabriel (Eds.), Neurocomputation and Learning: Foundations of Adaptive Networks. Cambridge, MA: MIT Press, 1991, pp. 283 352.

Berger, T.W., Nisenbaum, E.S., Onn, S-P., and Grace, A.A. Pharmacological and morphological characteristics of functionally distinct subpopulations of striatal neurons. In G. Bernardi, M.B. Carpenter, M.B., G. Di Chiara, M. Morelli, and P. Stanzione (Eds.), The Basal Ganglia III, N.Y.: Plenum, 1991, pp. 335-345.

Robinson, G.B., Sclabassi, R.J., and Berger, T.W. Kindling-induced potentiation of excitatory and inhibitory inputs to hippocampal dentate granule cells. I. Effects on linear and nonlinear response characteristics. Brain Research, 1991, 562, 17-25.

Berger, T.W., and Yeckel, M.F. Long-term potentiation of entorhinal afferents to the hippocampus: Enhanced propagation of activity through the trisynaptic pathway. In M. Baudry and J. Davis (Eds.), Long-Term Potentiation: A Debate of Current Issues. Cambridge, MA: MIT Press, 1991, pp. 327 356.

Nisenbaum, E.S., Grace, A.A., and Berger, T.W. Differential contribution of D1 and D2 dopaminergic receptors to the response properties of two functionally distinct subpopulations of striatal neurons. Posters in Neuroscience, 1991, 1, 59-66.

Thiels, E., Weisz, D.J., and Berger, T.W. In vivo modulation of NMDA receptor-dependent long-term potentiation by the glycine modulatory site. Neuroscience, 1992, 46, 501-509.

Nisenbaum, E.S., Berger, T.W., and Grace, A.A. Presynaptic modulation by GABAB receptors of glutamatergic excitation and GABAergic inhibition of neostriatal neurons. Journal of Neurophysiology, 1992, 67, 477-481.

Krieger, D.N., Berger, T.W., and Sclabassi, R.J. Instantaneous characterization of time-varying nonlinear systems. IEEE Transactions in Biomedical Engineering, 1992, 39, 420-424.

Xie, X., Berger, T.W., and Barrionuevo, G. Isolated NMDA receptor-mediated synaptic responses express both LTP and LTD. Journal of Neurophysiology, 1992, 67, 1009 1013.

Nisenbaum, E.S., and Berger, T.W. Functionally distinct subpopulations of striatal neurons are differentially regulated by GABAergic and dopaminergic inputs. I. In vivo studies. Neuroscience, 1992, 48, 561-578.

Nisenbaum, E.S., Grace, A.A., and Berger, T.W. Functionally distinct subpopulations of striatal neurons are differentially regulated by GABAergic and dopaminergic inputs. II. In vitro studies. Neuroscience, 1992, 48, 579-593.

Berger, T.W. and Bassett, J.L. System properties of the hippocampus. In I. Gormezano and E.A. Wasserman (Eds.), Learning and Memory: The Biological Substrates. Hillsdale, N.J.: Lawrence Erlbaum, 1992, pp. 275-320.

Blanpied, T.A., and Berger, T.W. Characterization in vivo of the NMDA receptor- mediated component of the hippocampal dentate population synaptic response to perforant path input. Hippocampus, 1992, 2, 373-388.

Robinson, G.B., Fluharty, S.J., Zigmond, M.J., Sclabassi, R.J., and Berger, T.W. Recovery of hippocampal dentate granule cell responsiveness to entorhinal cortical input following norepinephrine depletion. Brain Research, 1993, 614, 21 28.

Nisenbaum, E.S., Berger, T.W., and Grace, A.A. Depression of glutamatergic and GABAergic synaptic responses in striatal spiny neurons by GABAB receptor stimulation. Synapse, 1993, 14, 221-242.

Zigmond, M.J., Abercrombie, E.D., Berger, T.W., Grace, A.A., and Stricker, E.M. Compensatory responses to partial loss of dopaminergic neurons: Studies with 6 hydroxydopamine. In J.S. Schneider and M. Gupta (Eds.), Current Concepts in Parkinson’s Disease Research. Toronto: Hogrefe and Huber Publishers, 1993, pp. 99 140.

Berger, T.W., Barrionuevo, G., Chauvet, G., Krieger, D.N., Levitan, S.P., and Sclabassi R.J. A theoretical and experimental strategy for realizing a biologically based model of the hippocampus. In M. Baudry, R.F. Thompson, and J.L. Davis (Eds.), Synaptic Plasticity: Molecular, Cellular and Functional Aspects. Cambridge, MA: MIT Press, 1993, pp. 169 207.

Bernath, S., Zigmond, M.J., Nisenbaum, E.S., Vizi, E.S., and Berger, T.W. Na+ influx through Ca2+ channels can promote striatal GABA release in Ca2+-free conditions in response to electrical field depolarization. Brain Research, 1993, 632, 232-238.

Onn, S-P., Berger, T.W., and Grace, A.A. Identification and characterization of striatal cell subtypes using in vivo intracellular recording in rats. I. Basic physiology and response to corticostriatal fiber stimulation. Synapse, 1994, 16, 161-180.

Onn, S-P., Berger, T.W., and Grace, A.A. Identification and characterization of striatal cell subtypes using in vivo intracellular recording in rats. II. Membrane factors underlying paired pulse response profiles. Synapse, 1994, 16, 195-210.

Onn, S-P., Berger, T.W., and Grace, A.A. Identification and characterization of striatal cell subtypes using in vivo intracellular recording and dye-labeling in rats. III. Morphological correlates and compartmental localization. Synapse, 1994, 16, 231 254.

Chauvet, G., and Berger, T.W. A hierarchical model derived from an n-level field theory to study LTP in the hippocampus. In J. Davis and M. Baudry (Eds.), Long-Term Potentiation 2. Cambridge, MA: MIT Press, 1994, pp. 337 369.

Berger, T.W., Chauvet, G., and Sclabassi, R.J. A biologically-based model of the functional properties of the hippocampus. Neural Networks, 1994, 7, 1031-1064.

Berger, T.W., Harty, T.P., Choi, C., Xie, X., Barrionuevo, G., and Sclabassi, R.J. Experimental basis for an input/output model of the hippocampus. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling, Vol. III. N.Y.: Plenum, 1994, pp. 29-53.

Sclabassi, R.J., Kosanovi, B.R., Barrionuevo, G., and Berger, T.W. Computational methods of hippocampal neuronal network decomposition. In V.Z. Marmarelis (Ed.), Advanced Methods of Physiological System Modeling, Vol. III. N.Y.: Plenum, 1994, pp. 55 86.

Thiels, E., Barrionuevo, G., and Berger, T.W. Induction of long-term depression in hippocampus in vivo requires postsynaptic inhibition. Journal of Neurophysiology, 1994, 72, 3009-3016.

Yeckel, M.Y., and Berger, T.W. Monosynaptic excitation of CA1 hippocampal pyramidal neurons by afferents from the entorhinal cortex. Hippocampus, 1995, 5, 108-114.

Berger, T.W., Sheu, B.J., and Tsai, R.H.-K. Biologically realistic models of memory function implemented using analog VLSI technology. In B. Sheu, M. Ismail, E. Sanchez-Sinencio, and T. Wu (Eds.), Microsystems Technology for Multimedia Applications. N.Y.: IEEE Press, 1995, pp. 381 394.

Liaw, J-S., Baudry, M., Chauvet, G., and Berger, T.W. Simulation of molecular mechanisms regulating neurotransmitter release. The Neurobiology of Computation, Boston: Kluwer, 1995, pp. 21-26.

Liaw, J-S., Berger, T.W., and Baudry, M. NMDA receptors: Synaptic, cellular, and network models. In M.A. Arbib (Ed.), The Handbook of Brain Theory and Neural Networks, Cambridge, MA: MIT Press, 1995, pp. 644-647.

Thiels, E., Xie, X., Yeckel, M.F., Barrionuevo, G., and Berger, T.W. NMDA receptor-dependent LTD in different subfields of hippocampus in vivo and in vitro. Hippocampus, 1996, 6, 43-51.

Xie, X., Liaw, J-S., Baudry, M., and Berger, T.W. Novel expression mechanism for short-term potentiation: Experimental and modeling studies. In J.M. Bower (Ed.), Computational Neuroscience, N.Y.: Academic Press, 1996, pp. 33-38.

Xie, X., Barrionuevo, G., and Berger, T.W. Differential expression of short-term potentiation by AMPA and NMDA receptors. Learning and Memory, 1996, 3, 115 123.

Berger, T.W., Yeckel, M.F., and Thiels, E. Network determinants of long-term potentiation and long-term depression. In J. Davis and M. Baudry (Eds.), Long-Term Potentiation 3. Cambridge, MA: MIT Press, 1996, pp. 233 267.

Liaw, J-S., and Berger, T.W. The dynamic synapse: A new concept for neural representation and computation. Hippocampus, 1996, 6, 591-600.

Chauvet, G.A., and Berger, T.W. Higher cognitive function of the hippocampus as the integration of a hierarchical model derived from an n level field theory. In C. Torre and S. Conti (Eds.), Neurobiology, 1996, pp. 103-129.

Xie, X., Liaw, J-S., Baudry, M., and Berger, T.W. Novel expression mechanism for synaptic potentiation: Alignment of presynaptic release site and postsynaptic receptor. Proceedings of the National Academy of Sciences, 1997, 94, 6983 6988.

Tsai, R.H., Sheu, B.J., and Berger, T.W. A VLSI neural network processor based on a model of the hippocampus. Analog Integrated Circuits and Signal Processing, 1998, 15, 201-213.

Yeckel, M.F., and Berger, T.W. Spatial distribution of potentiated synapses in hippocampus: Dependence on cellular mechanisms and network properties. Journal of Neuroscience, 1998, 18, 438 450.

Wang, M.Y., Sheu, B.J., Berger, T.W., Chou, E.Y., and Cho, A.K. Architecture and design of 1 D enhanced cellular neural network processors for signal detection. Analog Integrated Circuits and Signal Processing, 1998, 15, 277-290.

Chian, M.T., Marmarelis, V.Z., and Berger, T.W. Characterization of unobservable neural circuitry in the hippocampus with nonlinear systems analysis. In J.M. Bower (Ed.), Computational Neuroscience, N.Y.: Academic Press, 1998, pp. 43 50.

Dalal, S.S., Marmarelis, V.Z., and Berger, T.W. A nonlinear systems approach of characterizing AMPA and NMDA receptor dynamics. In J.M. Bower (Ed.), Computational Neuroscience, N.Y.: Academic Press, 1998, pp. 155-160.

Foy, M.R., Xu, J., Xie, X., Brinton, R.D., Thompson, R.F., and Berger, T.W. 17β estradiol enhances NMDA receptor-mediated EPSPs and long-term potentiation. Journal of Neurophysiology, 1999, 81, 925 929.

Iatrou, M., Berger, T.W., and Marmarelis, V.Z. Modeling of nonlinear nonstationary dynamic systems with a novel class of artificial neural networks. IEEE Transactions on Neural Networks, 1999, 10, 327 339.

Liaw, J-S., Xie, X., Ghaffari-Farazi, T., Baudry, M., and Chauvet, G., and Berger, T.W. The role of synaptic geometry on synaptic transmission and efficacy. In M. Baudry, R.F. Thompson, and J.L. Davis (Eds.), Synaptic Plasticity: Molecular, Cellular and Functional Aspects. Cambridge, MA: MIT Press, 1999, pp. 103 142.

Iatrou, M., Berger, T.W., and Marmarelis, V.Z. Application of a novel modeling method to the nonstationary properties of potentiation in the rabbit hippocampus. Annals of Biomedical Engineering, 1999, 27, 581-591.

Chian, M.T., Marmarelis, V.Z., and Berger, T.W. Decomposition of neural systems with nonlinear feedback using stimulus-response data. Neurocomputing, 1999, 26-27, 641-654.

Ghaffari-Farazi, T., Liaw, J S., and Berger, T.W. Consequence of morphological alterations on synaptic function. Neurocomputing, 1999, 26-27, 17-27.

Liaw, J S., and Berger, T.W. Dynamic synapses: Harnessing the computational power of synaptic dynamics. Neurocomputing, 1999, 26-27, 199 206.

Shu, Y., Xie, X., Liaw, J S., and Berger, T.W. A protocol-based simulation for linking computational and experimental studies. Neurocomputing, 1999, 26-27, 1039-1047.

Alataris, K., Berger, T.W., and Marmarelis, V.Z. A novel network for nonlinear modeling of neural systems with arbitrary point-process inputs. Neural Networks, 2000, 13, 255-266.

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Gholmieh, G., Courellis, S., Fakheri, S., Cheung, E., Marmarelis, V.Z., Baudry, M., and Berger, T.W. Detection and classification of neurotoxins using a novel short-term plasticity quantification method. Biosensors and Bioelectronics, 2003, 18, 1467-1478.

Gholmieh, G., Courellis, S., Dimoka, A., Wills, J.D., LaCoss, J., Granacki, J.J., Marmarelis, V.Z., and Berger, T.W. An algorithm for real-time extraction of population EPSP and population spike amplitudes from hippocampal field potential recordings. Journal of Neuroscience Methods, 2004, 136, 111-121.

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Kim, M., Soussou, W., Gholmieh, G., Ahuja, A., Tanguay, Jr., A.R., Berger, T.W., and Brinton, R.D. 17-estradiol potentiates fEPSPs within each subfield of the hippocampus with greatest potentiation of the associational/commissural afferents of CA3. Neuroscience, 2006, 141, 391-406.

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Lu, S., Bansal, B., Soussou, W., Berger, T.W., and Madhukar, A. Receptor-ligand-based specific cell adhesion on solid surfaces: Hippocampal neuronal cells on bilinker functionalized glass. Nano Letters, 2006, 6, 1977-1981.

Gholmieh, G., Courellis, S., Marmarelis, V., Baudry, M., and Berger, T.W. A hippocampal based biosensor for neurotoxin detection and classification using a novel short-term plasticity quantification method. In M. Taketani and M. Baudry (Eds.), Advances In Network Electrophysiology Using Multi Electrode Arrays. New York, N.Y.: Springer, 2006, pp. 293-320.

Song, D., Chan, R.H.M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Nonlinear dynamic modeling of spike train transformations for hippocampal-cortical prostheses. IEEE Transactions in Biomedical Engineering, 2006, 54, 1053-1066.

Berger, T.W., Chapin, J.K., Gerhardt, G.A., McFarland, D.J., Principe, J.C., Soussou, W.V., Taylor, D.M., and Tresco, P.A. International Assessment of Research and Development in Brain-Computer Interfaces. Report sponsored by the NSF, TATRC, NINDS, NSBRI, NIBIB, and the Brain Restoration Foundation. Available at http://www.wtec.org/bci/BCI-finalreport-10Oct2007-lowres.pdf, 2007, pp. 1-234.

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Soussou, W., Youn, G., Brinton, R.D., and Berger, T.W. Neuronal network morphology and electrophysiology of hippocampal neurons cultured on surface-treated multielectrode arrays. IEEE Transactions in Biomedical Engineering, 2007, 54, 1309-1320.

Lu, B., Yamada, W.M., and Berger, T.W. Nonlinear higher-order model for dynamic synapses with multiple vesicle pools. In Robert Kozma and Leonid Perlovsky (Eds.), Neurodynamics of Higher Level Cognition and Consciousness. N.Y.: Springer, 2007, pp. 341-358.

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Dimoka, A., Courellis, S.H., Gholmieh, G., Marmarelis, V.Z., and Berger, T.W. Modeling the nonlinear properties of the in vitro hippocampal perforant-dentate system using multi-electrode array technology. IEEE Transactions in Biomedical Engineering, 2008, 55, 693-702.

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Bouteiller, J-M.C., Baudry, M., and Berger, T.W. EONS: An on-line synaptic modeling platform. In N. Wickramasinghe and E. Geisler, (Eds.), Encyclopedia of Healthcare Information Systems. Hershey, PA: Medical Information Science Reference, 2008, pp. 527-533.

Zanos, T.P., Courellis, S.H., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.M. Nonlinear modeling of causal interrelationships in neuronal ensembles. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2008, 16, 336-352.

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Bouteiller, J-M., Baudry, M., and Berger, T.W. EONS: An interactive platform for modeling glutamatergic synaptic transmission. Journal of Integrative Neuroscience, 2008, 7, 185-197.

Stephens, M.L., Spencer, D.D., Cavus, I., Hsiao, M-C., Song, D., Deadwyler, S.A., Hampson, R.E., Putz, D., Quintero, J.E., Bensalem-Owen, M.K., Hascup, K.N., Rutherford. E.C., Day, B.K., Nickell, J.R., Pomerleau, F., Huettl, P., Burmeister, J.J., Talauliker, P.M., Marmarelis, V.Z., Granacki, J.J., Berger, T.W., and Gerhardt, G.A. Microelectrode-based epilepsy therapy: A hybrid neural prosthesis incorporating seizure prediction and intervention with biomimetic maintenance of normal hippocampal function. In Ivan Soltesz and Kevin Staley (Eds.), Computational Neuroscience in Epilepsy. Amsterdam: Elsevier, 2008, pp. 559-586.

Dimoka, A., Courellis, S.H., Marmarelis, V.Z., and Berger, T.W. Modeling the nonlinear dynamic interactions of afferent pathways in the dentate gyrus of the hippocampus. Annals of Biomedical Engineering, 2008, 36, 852-864.

Bouteiller, J.-M.C., Baudry, M., Allam, S.L., Greget, R., Bischoff, S., and Berger, T.W. Modeling glutamatergic synapses: Insights into mechanisms regulating synaptic efficacy. Journal of Integrative Neuroscience, 2008, 7, 185-197.

Berger, T.W., Gerhardt, G.A., Liker, M., and Soussou, W. The impact of neurotechnology on rehabilitation. IEEE Reviews in Biomedical Engineering, 2008, 1, pp. 157-197.

Song, D., Wang, Z., Marmarelis, V.Z., and Berger, T.W. Parametric and non-parametric modeling of short-term synaptic plasticity. Part I: Computational study. Journal of Computational Neuroscience, 2009, 26, 1-19.

Song, D., Marmarelis, V.Z., and Berger, T.W. Parametric and non-parametric modeling of short-term synaptic plasticity. Part II: Experimental study. Journal of Computational Neuroscience, 2009, 26, 21-37.

Song, D., Chan, R.H.M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Nonlinear modeling of neural population dynamics for hippocampal prostheses. Neural Networks, 2009, 22, 1340-1351.

Lu, B., Dibazar, A.A., George, S., and Berger, T.W. Perimeter security based on noise-robust vehicle detection using nonlinear Hebbian learning. In A. Solanas and A. Martinez-Balleste (Eds.), Advances in Artificial Intelligence for Privacy Protection and Security. N.J.: World Scientific, 2009, pp. 197-221.

Marmarelis, V.Z., Zanos, T.P., and Berger, T.W. Boolean modeling of neural systems with point-process inputs and outputs. Part I: Theory and simulations. Annals of Biomedical Engineering, 2009, 37, 1654-1667.

Zanos, T.P., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Boolean modeling of neural systems with point-process inputs and outputs. Part II: Application to the rat hippocampus. Annals of Biomedical Engineering, 2009, 37, 1668-1682.

Yamada, W.M., and Berger, T.W. Isolated Word Analysis Using Biologically-Based Neural Networks. In Yoel Tenne and Chi-Keong Goh (Eds.), Computational Intelligence in Expensive Optimization Problems, 2010, 24, 637-669.

Lu, B., Dibazar, A., and Berger, T. W. Noise-robust acoustic signature recognition using nonlinear Hebbian learning. Neural Networks, 2010, 23, 1252-1263.

Ambert, N., Greget, R., Haeberlé, O., Bischoff, S., Berger, T. W., Bouteiller, J-M. C., and Baudry, M. Computational studies of NMDA receptors: Differential effects of neuronal activity on efficacy of competitive and noncompetitive antagonists. Open Access Bioinformatics, 2010, 2, 113-125.

Song, D. and Berger, T.W. Identification of nonlinear dynamics in neural population activity. In Karim G. Oweiss (Ed.), Statistical Signal Processing for Neuroscience and Neurotechnology. Amsterdam: Elsevier, 2010, pp. 103-128.

Berger, T.W., Song, D., Chan, R.H.W., and Marmarelis, V.Z. The neurobiological basis of cognition: Identification by multi-input, multi-output nonlinear dynamic modeling. Proceedings of the IEEE, 2010, 98, 356-374.

Lu, U., Song, D., and Berger, T.W. Nonlinear dynamic modeling of synaptically driven single hippocampal neuron intracellular activity. IEEE Transactions on Biomedical Engineering, 2010, 58, 1303-1313.

Hampson, R.E., Simeral, J.D., Berger, T.W., Song, D., Chan, H.M.R., and Deadwyler, S.A. Cognitively Relevant Recoding in Hippocampus: Beneficial Feedback of Ensemble Codes in a Closed-Loop Paradigm. In R. Vertes and R. Stackman (Eds.), Electrophysiological Recording Techniques. New York, NY: Springer, 2011, pp. 215-240.

Dibazar, A.A., Yousefi, A., Park, H.O., Lu, B., George, S.T. and Berger, T.W. Intelligent recognition of acoustic and vibration threats for security breach detection: Close proximity danger identification and perimeter protection. Homeland Security Affairs, Supplement no. 3, 2011.

Berger, T.W., Hampson, R.E., Song, D., Goonawardena, A., Marmarelis, V.Z., and Deadwyler, S.A. A cortical neural prosthesis for restoring and enhancing memory. Journal of Neural Engineering, 2011, 8, 046017.

Hampson, R.E., Sweatt, A.J., Goonawardena, A.V., Song, D., Chan, R.H.M., Berger, T.W., and Deadwyler, S.A. Memory encoding in hippocampus is negatively influenced by cannabinoid CB1 receptors. Behavioural Pharmacology, 2011, 22, 335-346.

Bouteiller, J-M.C., Allam, S.L., Hu, E.Y., Greget, R., Ambert, N., Keller, A.F., Bischoff, S., Baudry, M., and Berger, T.W. Integrated multi-scale modeling of the nervous system: Predicting changes in hippocampal network activity by a positive AMPA receptor modulator. IEEE Transactions on Biomedical Engineering. 2011, 58, 3008-3011.

Li, W.X.Y., Chan, R.H.M., Zhang, W., Cheung, R.C.C., Song, D., and Berger, T.W. High-performance and scalable system architecture of generalized Laguerre-Volterra MIMO models for neural population spiking activities. IEEE Journal on Emerging and Selected Topics in Circuits and Systems, 2011, 1, 489-501.

Greget, R., Pernot, F., Bouteiller, J-M C., Ghaderi, V., Allam, S., Keller, A.F., Ambert, N., Legendre, A., Sarmis, M., Haeberle, O., Faupel, M., Bischoff, S., Berger, T.W., and Baudry, M. Simulation of postsynaptic glutamate receptors reveals critical features of glutamatergic transmission. PLoS ONE, 2011, 6:1-18.

Lu, U., Roach, S.M., Song, D., and Berger, T.W. Nonlinear dynamic modeling of neuron action potential threshold during synaptically-driven broadband intracellular activity. IEEE Transactions on Biomedical Engineering, 2012, 59, 706-716.

Hampson, R.E., Song, D., Chan, R.H.M., Sweatt, A.J., Fuqua, J., Gerhardt, G.A., Shin, D., Marmarelis, V.Z., Berger, T.W., Deadwyler, S.A. A nonlinear model for hippocampal cognitive prostheses: Memory facilitation by hippocampal ensemble stimulation. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2012, 20, 184-197.

Hampson, R.E., Song, D., Chan, R.H.M., Sweatt, A.J., Riley, M., Goonawardena, A., Marmarelis, V.Z., Gerhardt, G.A., Berger, T.W., Deadwyler, S.A. Closing the loop for memory prostheses: Detecting the role of hippocampal neural ensembles using nonlinear models. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2012, 20, 510-525.

Taghva, A., Song, D., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Determination of relevant neuron-neuron connections for neural prosthetics using time-delayed mutual information: Tutorial and preliminary results. World Neurosurgery, 2012, DOI: 10.1016/j.wneu.2011.09.002.

Berger, T.W., Song, D., Chan, R.H.M., Shin, D., Marmarelis, V.Z., Hampson, R.E., Sweatt, A.J., Heck, C.N., Liu. C.Y., Wills, J., LaCoss, J., Granacki, J.J., Gerhardt, G.A., and Deadwyler, S.A. Role of the hippocampus in memory formation: Restorative encoding memory integration neural device as a cognitive neural prosthesis. IEEE Pulse, 2012, 3, 17-22.

Berger, T.W., Song, D., Chan, R.H.M., Marmarelis, V.Z., LaCoss, J., Wills, J., Hampson, R.E., Deadwyler, S.A., and Granacki, J.J. A hippocampal cognitive prosthesis: Multi-input, multi-output nonlinear modeling and VLSI implementation. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2012, 20, 198-211.

Hampson, R.E., Song, D., Chan, R.H.M., Sweatt, A.J., Fuqua, J., Gerhardt, G.A., Marmarelis, V.Z., Berger, T.W., and Deadwyler, S.A. A nonlinear model for cortical prosthetics: Memory facilitation by hippocampal ensemble stimulation. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2012, 20, 184-197.

Marmarelis, V.Z., Shin, D., Hampson, R.E., Deadwyler, S.A., Song, D., and Berger, T.W. Design of optimal stimulation patterns for neuronal ensembles based on Volterra-type hierarchical modeling, Journal of Neural Engineering, 2012, 9, 066003.

Hampson, R.E., Gerhardt, G.A., Marmarelis, V.Z., Song, D., Opris, I., Santos, L., Berger, T.W., Deadwyler, S.A. Facilitation and restoration of cognitive function in primate prefrontal cortex by a neuroprosthesis that utilizes minicolumn-specific neural firing. Journal of Neural Engineering, 2012, 9, 1-17.

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, 2012, 6, doi:10.3389/fncom.2012.00070.

Tu, C.Y., Song, D., Breidt, F.J., Berger, T.W., and Wang, H. Functional Model Selection for Sparse Binary Time Series with Multiple Inputs. In Scott H. Holan, William R. Bell, and Tucker S. McElroy (Eds.), Economic Times Series: Modeling and Seasonality. Boca Raton, FL: Chapman and Hall/CRC, 2012.

Marmarelis V.Z., Shin, D.C., Song, D., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Nonlinear modeling of dynamic interactions within neuronal ensembles using principal dynamic modes. Journal of Computational Neuroscience,2012, DOI 10.1007/s10827-012-0407-7

Opris, I., Hampson, R.E., Gerhardt, G.A., Berger, T. W., and Deadwyler, S.A. Columnar processing in primate prefrontal cortex: Evidence for executive control microcircuits. Journal of Cognitive Neuroscience, 2012, 24, 2334-2347

Opris, I., Fuqua, J., Huettl, P., Gerhardt, G.A., Berger, T.W., Hampson, R.E., and Deadwyler, S.A. Closing the loop in primate prefrontal cortex: Inter-laminar processing. Frontiers in Neural Circuits, 2012, 6, 88. DOI 10.3389/fncir.2012.00088.

Song, D., Wang, H., Tu, C.Y., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Identification of sparse neural functional connectivity using penalized likelihood estimation and basis functions. Journal of Computational Neuroscience, 2013, 35, 335-357.

Li, W.X.Y., Chan, R.H.M., Zhang, W., Cheung, R.C.C., Song, D., and Berger, T.W. High-performance and scalable system architecture for hippocampal neural firing activity prediction based on FPGAs. In Wim Vanderbauwhede and Khaled Benkrid (Eds.), High-Performance Computing using FPGAs, New York, NY: Springer, 2013, pp. 177-207.

Hsiao, M-C., Song, D., and Berger, T.W. Nonlinear dynamical control-based model of in vitro hippocampal output. Frontiers in Neural Circuits, 2013, 7, 1-14.

Berger, T.W., Song, D., Chan, R.H.M., Marmarelis, V.Z., LaCoss, J., Wills, J., Granacki, J.J., Gerhardt, G.A., Hampson, R.E., and Deadwyler, S.A. Reverse Engineering the Brain: A Hippocampal Cognitive Prosthesis for Repair and Enhancement of Memory Function. In Bin He (Ed.), Neural Engineering. NY, NY: Springer, 2013, 725-764.

Li, W.X.Y., Chan, R.H.M., Song, D., Berger, T.W., and Cheung, R.C.C. Real-time prediction of neuronal population spiking activity using FPGAs. IEEE Transactions on Biomedical Circuits and Systems, 2013, 99, 1-10.

Hampson, R.E., Song, D., Opris, I., Santos, L., Shin, D., Gerhardt, G.A., Marmarelis, V.Z., Berger, T.W., and Deadwyler, S.A. Facilitation of memory encoding in primate hippocampus by a neuroprosthesis that promotes task specific neural firing. Journal of Neural Engineering, 2013, 10, 066013.

Opris, I., Santos, L., Gerhardt, G.A., Song, D., Berger, T.W., Hampson, R.E., and V.Z., Deadwyler, S.A. Prefrontal cortical microcircuits bind perception to executive control. Scientific Reports, 2013, DOI: 10.1038/srep02285.

Marmarelis, V.Z., Shin, D., Song, D., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Nonlinear modeling of dynamic interactions within neuronal ensembles using principal dynamic modes. Journal of Computational Neuroscience, 2013, 34, 73-87.

Deadwyler, S.A., Berger, T.W., Sweat, A., Song, D., Chan, R.H.M., Opris, I., Gerhardt, G.A., Marmarelis, V.Z., and Hampson, R.E. Donor/recipient enhancement of memory in rat hippocampus. Frontiers in Systems Neuroscience, 2013, DOI: 10.3389/fnsys.2013.00120.

Albash T., Bouteiller J.-M. C., Berger T.W., Baudry M., Haas S. Back action on neurotransmitters by receptor binding reveals an optimal receptor density profile. Journal of Computational Science and Systems Biology, 2013, 6, 327-336. doi: 10.4172/0974-7230.1000129.

Song, D., Harway, M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Extraction and restoration of hippocampal spatial memories with nonlinear dynamical modeling. Frontiers in Systems Neuroscience, 2014, DOI: 10.3389/ fnsys.2014.00097.

Bouteiller J.-M. C., and Berger, T.W. Tri-partite synapse (Neuron-astrocyte interactions), Conductance models. Encyclopedia of Computational Neuroscience. New York, NY: Springer, 2014. DOI: 10.1007/978-1-4614-7320-6_363-1.

Song, D., and Berger, T.W. Hippocampal memory prosthesis. Encyclopedia of Computational Neuroscience. New York, NY: Springer, 2014, DOI: 10.1007/978-1-4614-7320-6_558-1.

Xin, Y., Li, W.X.Y., Cheung, R.C.C., Chan, R.H.M., Yan, H., Song, D., and Berger, T.W. An FPGA based scalable architecture of a stochastic state point process filter (SSPPF) to track the nonlinear dynamics underlying neural spiking. Microelectronics Journal, 2014, 45, 690-701.

Sandler, R., Song, D., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Model-based assessment of an in-vivo predictive relationship from CA1 to CA3 in the rodent hippocampus. Journal of Computational Neuroscience, 2014, DOI: 10.1007/s10827-014-0530-8.

Song, D., Hsiao, M-C., Opris, I., Hampson, R.E., Marmarelis, V.Z., Gerhardt, G.A., Deadwyler, S.A., and Berger, T.W. Hippocampal microcircuits, functional connectivity, and prostheses. In Ioan Opris, and Manuel Casanova (Eds.), Recent Advances in the Modular Organization of the Cerebral Cortex. New York, NY: Springer, 2014; 385-406.

Deadwyler, S.A., Opris, I., Santos, L.M., Hampson, R.E., Gerhardt, G.A., Song, D., Marmarelis, V.Z., Berger, T.W. Extraction of cortical modularity patterns for neural prosthetics. In Ioan Opris, and Manuel Casanova (Eds.), Recent Advances in the Modular Organization of the Cerebral Cortex. New York, NY: Springer, 2014; 367-384.

Song, D., Chan, R.H.M., Robinson, B.S., Marmarelis, V.Z., Opris, I., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Identification of functional synaptic plasticity from spiking activities using nonlinear dynamical modeling. Journal of Neuroscience Methods, 2015, 244, 123-135, DOI: 10.1016/j.jneumeth. 2014.09.023.

Hsiao, M-C., Yu, P-N., Song, D., Liu, C.Y., Heck, C.N., Millett, D., and Berger, T.W. An in vitro seizure model from human hippocampal slices using multi-electrode arrays. Journal of Neuroscience Methods, 2015, 244, 154-163, DOI: 10.1016/j.jneumeth. 2014.09.010.

Xin, Y., Li, W.X.Y., Zhang, Z., Cheung, R.C.C., Song, D., and Berger, T.W. An application specific instruction set processor (ASIP) for adaptive filters in neural prosthetics. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2015, DOI: 10.1109/TCBB.2015.2440248.

Ghaderi, V., Song, D., Choma, J., and Berger, T.W. Nonlinear cognitive signal processing in ultra-low-power programmable analog hardware. IEEE Transactions on Circuits and Systems II, 2015, 62, 124-128.

Deadwyler, S.A., Berger, T.W., Opris, I., Song, D., and Hampson, R.E. Neurons and networks organizing and sequencing memories. Brain Research, 2015, DOI: 10.1016/j.brainres.2014.12.037.

Sandler, R., Deadwyler, S.A., Hampson, R.E., Song, D., Berger, T.W., and Marmarelis, V.Z. System identification of point-process neural systems using probability based Volterra kernels. Journal of Neuroscience Methods, 2015, 179-192, DOI: 10.1016/ j.jneumeth.2014.11.013.

Hendrickson, P., Yu, G., Song, D., and Berger, T.W. A million-plus neuron model of the hippocampal dentate gyrus: Critical role for topography in determining spatio-temporal network dynamics. IEEE Transactions on Biomedical Engineering, 2015, DOI: 10.1109/TBME.2015.2445771.

Song, D., and Berger, T.W. Nonlinear dynamical modeling for hippocampal memory prostheses. In Tony Prescott, and Paul Verschure (Eds.), Living Machines: A Handbook of Research in Biomimetic and Biohybrid Systems. Oxford: Oxford University Press, under review.

Allam, S.L., Bouteiller, J-M.C, Baudry, M., and Berger, T.W. Ionotropic glutamate receptor distribution on the postsynaptic membrane: Number, distributions and ratios. Submitted for publication.

Sandler, R., Song, D., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Hippocampal closed-loop modeling and implications for seizure stimulation design. Journal of Neural Engineering, 2015, 12, 056017.

Hu, E., Bouteiller, J-M.C., Song, D., Baudry, M., and Berger, T.W. Volterra representation enables modeling of complex synaptic nonlinear dynamics in large-scale simulations. Frontiers in Computational Neuroscience, 2015, DOI: 10.3389/ fncom.2015.00112.

Opris, I., Santos, L., Gerhardt, G.A., Song, D., Berger, T.W., Hampson, R.E., and Deadwyler, S.A. Distributed encoding of spatial and object categories in primate hippocampal microcircuits. Frontiers in Neuroscience, 2015, DOI: 10.3389/ fnins.2015.00317.

Hendrickson, P., Yu, G., Song, D., and Berger, T.W. Interactions between inhibitory interneurons and excitatory associational circuitry in determining spatio-temporal dynamics of hippocampal dentate granule cells: a large-scale computational study. Frontiers in Systems Neuroscience, 2015, DOI: 10.3389/fnsys.2015.00155.

Li, W.X.Y., Cheung, R.C.C., Xin, Y., Song, D., and Berger, T.W. An FPGA-based high-performance neural ensemble spiking activity simulator utilizing generalized Volterra kernel and complexity analysis. Journal of Circuits, Systems, and Computers, 2016, 25, 164004.

Harty, T.P., Berger, T.W., Sclabassi, R.J., and Barrionuevo, G. Nonlinear systems analysis of the in vitro hippocampal dentate gyrus. I. Characterization of granule cell response to perforant path input. In preparation.

Harty, T.P., Berger, T.W., Sclabassi, R.J., and Barrionuevo, G. Nonlinear systems analysis of the in vitro hippocampal dentate gyrus. II. Contribution of GABAA and GABAB receptor function. In preparation.

Song, D., Robinson, B.S., Hampson, R.E., Marmarelis, V.Z., Deadwyler, S.A., and Berger, T.W. Sparse large-scale nonlinear dynamical modeling of human hippocampus for memory prostheses. IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2016, DOI: 10.1109/TNSRE.2016.2604423.

Robinson, B.S., Berger, T.W., and Song, D. Identification of stable spike-timing-dependent plasticity from spiking activity with generalized multilinear modeling. Neural Computation, 2016, DOI: 10.1162/NECO_a_00883.

Deadwyler, S.A., Hampson, R.E., Song, D., Opris, I., Gerhardt, G.A., Marmarelis, V.Z., and Berger, T.W. A cognitive prosthesis for memory facilitation by closed-loop functional ensemble stimulation of hippocampal neurons in primate brain. Experimental Neurology, 2016, DOI: 10.1016/j.expneurol.2016.05.031.

Li, W.X.Y., Cheung, R.C.C., Xin, Y., Song, D., and Berger, T.W. An FPGA-based high- performance neural ensemble spiking activity simulator utilizing generalized Volterra kernel and complexity analysis. Journal of Circuits, Systems, and Computers, 2016, 25(1), 164004.

Bouteiller, J-M. C., and Berger, T.W., The Role of Simulations in Neuropharmacology in Computational Neurology – Computational Psychiatry: How and Why. Editors: Peter Erdi, Basabdatta Sen Bhattacharva, Amy Cochran. 2017, Springer. ISBN 978-3-319-49959-8.

Hirschberg, A., Xu, H., Scholten, K., Berger, T.W., Song, D., and Meng, E. Development of an anatomically conformal parylene neural probe array for multi-region hippocampal recordings. Micro Electro Mechanical Systems (MEMS), 2017 IEEE 30th International Conference on, 2017, DOI: 11.1109/MEMSYS.2017.7863357

Anne F. Keller, Jean-Marie C. Bouteiller, Theodore W. Berger. Computational exploration of NMDA receptors. Book Chapter in the book Methods in Molecular Biology: NMDA receptors, Springer.
Calcium Hypothesis of Alzheimer’s disease and brain aging: A framework for integrating new evidence into a comprehensive theory of pathogenesis. Written by the Alzheimer’s Association Calcium Hypothesis Workgroup; Workgroup members: Ottavio Arancio; Bezprozvanny, Ilya; Theodore Berger; Jean-Marie Bouteiller; Maria Carrillo; John Disterhoft; Kevin Foskett; Ara S. Khachaturian; Frank LaFerla; Philip W. Landfield; Eliezer Masliah; Mark Mattson; Mary L. Michaelis; Ralph Nixon; Heather Snyder; Grace Stutzmann; Olivier Thibault; Austin Yang; Zaven S. Khachaturian; and Ken Scholz. Alzheimer’s & Dementia: The Journal of the Alzheimer’s Association, Volume 13, Issue 2, 178 – 182.e17. DOI: http://dx.doi.org/10.1016/j.jalz.2016.12.006.

Jean-Marie C. Bouteiller, Theodore W. Berger, The Role of Simulations in Neuropharmacology in Computational Neurology – Computational Psychiatry: How and Why; Editors: Peter Erdi, Basabdatta Sen Bhattacharva, Amy Cochran. January 2017, Springer. ISBN 978-3-319-49959-8.

Clayton Bingham, Gene Yu, Kyle Loizos, Jean-Marie C. Bouteiller, Dong Song, Theodore W. Berger (2016), Optimization of cortical electrode design, placement, and stimulation via co-simulation of large-scale compartmental neuronal and multi-resolution admittance models. Frontiers in Computational Neuroscience. Submitted for Review.

Renaud Greget, Selma Dadak, Laure Barbier, Fabien Lauga, Sandra Linossier-Pierre, Fabien Pernot, Arnaud Legendre, Nicolas Ambert, Jean-Marie Bouteiller, Frédéric Dorandeu, Serge Bischoff, Michel Baudry, Laurent Fagni, Saliha Moussaoui; Modeling and simulation of organophosphate-induced neurotoxicity :Prediction and validation by experimental studies, NeuroToxicology 54 · April 2016; DOI: 10.1016/j.neuro.2016.04.013.

Yu, G.J., Hendrickson, P.J., Song, D., and Berger, T.W. “Spatio-temporal patterns of granule cell activity revealed by a large-scale, biologically realistic model of the hippocampal dentate gyrus.” In: Hippocampal Microcircuits, Vol. II (eds. Cutsuridis V., Graham B.P., Cobb S., and Vida I.), New York: Springer, Forthcoming 2017.

Ramirez-Zamora, A., Giordano, J., Gunduz, A., Brown, P., Sanchez, J., Foote, K.D., Almeida, L., Starr, P., Bronte-Stewart, H.M., Hu, W., McIntyre, C., Goodman, W., Kumsa, D., Grill, W.M., Walker, H., Johnson, M., Vitek, J.L., Greene, D., Rizzuto, D.S., Song, D., Berger, T.W., Hampson, R.E., Deadwyler, S.A., Hochberg, L., Schiff, N., Stypulkowski, P., Worrell, G., Tiruvadi, V., Mayberg, H., Jimenez-Shahed, J., Pranav, N., Sheth, S., Gross, R., Lempka, S.F., Deeb, W., and Okun, M.S. Evolving applications, technological challenges and future opportunities in neuromodulation: Proceedings of the Fifth Annual Deep Brain Stimulation Think Tank. Frontiers, in submission.

Xu, H., Hirschberg, A.W., Scholten, K., Berger, T.W., Song, D., and Meng, E. Acute in vivo testing of a conformal polymer microelectrode array for multi-region hippocampal recording. Journal of Neural Engineering, in revision.

Hampson, R.E., Song, D., Robinson, B.S., Fetterhoff, D., Dakos, A.S., Roeder, B.M., Wicks, R.T., Witcher, M.R., Couture, D.E., Laxton, A.W., Munger-Clary, H., Popli, G., Sollman, M.J., Marmarelis, V.Z., Berger, T.W., and Deadwyler, S.A. A hippocampal neural prosthetic for restoration of human memory function, 2017, in revision.

Geng, K., Shin, D., Song, D., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Neuronal model network approach to modeling the encoding dynamics and functional connectivity of neural systems, 2017, under Review.

Refereed Conference Proceedings

Krieger, D., Solomon, J., Levitan, S., Berger, T., Barrionuevo, G., Larimore, W., and Sclabassi, R. A neurophysiologic neural net model. Proceedings of the 19th Annual Pittsburgh Conference on Modeling and Simulation, 1988, 19, pp. 2397 2401.

Sclabassi, R.J., Krieger, D.N., Barrionuevo, G., Levitan, S.P., and Berger, T.W. Identification of hippocampal network function. Proceedings of the International Conference of the IEEE/EMBS, 1990, pp. 1886-1888.

Berger, T.W., Harty, T.P., Xie, X., Barrionuevo, G., and Sclabassi, R.J. Modeling of neuronal networks through experimental decomposition. Proceedings of the IEEE 34th Midwest Symposium on Circuits and Systems, 1992, pp. 91-97.

Sclabassi, R.J., Krieger, D.N., Solomon, J., Kosanovic, B., and Berger, T.W. Theoretical decomposition of neuronal networks. Proceedings of the IEEE 34th Midwest Symposium on Circuits and Systems, 1992, pp. 114-117.

Sclabassi, R.J., Kosanovic, B.R., Barrionuevo, G., Berger, T. Nonlinear properties of the hippocampal formation. In M. Penna, S. Chittajallu, and P.G. Madhavan (Eds.), Proceedings of the Computational Neuroscience Symposium, 1992, Indianapolis, IN: MIRG Publishers, pp 81 105.

Chen, O. T-C., Berger, T., and Sheu, B. VLSI implementation of a nonlinear systems model of the hippocampus. Proceedings of the IEEE International Conference on Neural Networks, 1994, 4, pp. 2009 2014.

Chen, O.T-C., Berger, T., and Sheu, B. VLSI implementation of the hippocampal dentate gyrus. World Congress on Neural Networks, 1994, (Vol. II) pp. 647 652.

Berger, T.W., Sheu, B.J., and Tsai, R.H.-J. Analog VLSI implementation of a nonlinear model of the hippocampal brain region. Proceedings of the Third IEEE International Workshop on Cellular Neural Networks and their Applications (CNNA-94), 1994, Rome, Italy, pp. 47 51.

Tsai, R.H-J., Chou, E.Y., Sheu, B.J., and Berger, T.W. A hippocampal model imple-mentation using VLSI table-lookup and model-based approaches. Proceedings of the IEEE International Conference on Neural Networks, Vol. 3, 1995, pp. 1508-1512.

Sheu, B.J., Berger, T.W., Wu, T.H., and Tsai, R.H. VLSI neural network implementation of a hippocampal model. Proceedings of the IEEE International Symposium on Circuits and Systems. 1995, 3, pp. 1664 1667.

Berger, T.W., Sheu, B.J., and Tsai, R.H.-J. Analog VLSI implementation of biological neural network models. Proceedings of the IEEE International Conference on Neural Networks (Plenary, Panel and Special Sessions volume), 1996, pp. 12 17.

Tsai, R.H., Sheu, B.J., and Berger, T.W. VLSI design for real-time signal processing based on biologically realistic neural models. Proceedings of the IEEE International Conference on Neural Networks, Vol. 2, 1996, pp. 676 681.

Saglam, M., Marmarelis V., and Berger, T. Identification of brain systems with feedforward artificial neural networks. World Congress on Neural Networks, 1996, pp. 478 481.

Chen, D.C., Sheu, B.J., and Berger, T.W. A compact neural network based CDMA receiver for multimedia wireless communication. Proceedings of the IEEE Conference on Computer Design: VLSI in Computers and Processors, 1996, pp. 99 103.

Liaw, J S. and Berger, T.W. Computing with dynamic synapses: A case study of speech recognition. Proceedings of the IEEE International Conference on Neural Networks, 1997, pp. 350 355.

Chian, M.T., Marmarelis, V.Z., and Berger, T.W. Characterization of unobservable neural circuitry in the hippocampus with nonlinear systems analysis. Proceedings of the 4th Joint Symposium on Neural Computation, 1997, 7, pp. 43 50.

Dalal, S.S., Marmarelis, V.Z., and Berger, T.W. A nonlinear positive feedback model of glutamatergic synaptic transmission in dentate gyrus. Proceedings of the 4th Joint Symposium on Neural Computation, 1997, 7, pp. 68 75.

Tsai, R., Sheu, B., and Berger, T.W. Design of a programmable pulse-coded neural processor for the hippocampus. Proceedings of the IEEE International Joint Conference on Neural Networks, 1998, 1, pp. 784 789.

Liaw, J S. and Berger, T.W. Robust speech recognition with dynamic synapses. Proceedings of the IEEE International Joint Conference on Neural Networks, 1998, 3, pp. 2175-2179.

Park, Y., Liaw, J S. Sheu, B.J., and Berger, T.W. Compact VLSI neural network circuit with high-capacity dynamic synapses. Proceedings of the IEEE International Joint Conference on Neural Networks, 2000, 4, pp. 214 218.

Courellis, S.H., Marmarelis, V.Z., and Berger, T.W. Modeling event-driven nonlinear dynamics in biological neural networks. Proceedings of the 7th Symposium on Neural Computation, 2000, 10, pp. 28-35.

George, S.T., Dibazar, A., Liaw, J-S., and Berger, T.W. Speaker recognition using dynamic synapse based neural networks with wavelet preprocessing. Proceedings of the IEEE International Joint Conference on Neural Networks, 2001, 2, pp. 1122-1125.

Heidari Namarvar, H., Liaw, J-S., and Berger, T.W. A new dynamic synapse neural network for speech recognition. Proceedings of the IEEE International Joint Conference on Neural Networks, 2001, 4, pp. 2985 2990.

Heidari Namarvar, H., Dibazar, A.A., and Berger, T.W. The Gauss-Newton learning method for a generalized dynamic synapse neural network. Proceedings of the IEEE International Joint Conference on Neural Networks, 2002, 2, 1206-1211.

Dibazar, A.A., Narayanari, S., and Berger, T.W. Feature analysis for automatic detection of pathological speech. Proceedings of the Second Joint EMBS/BMES Conference, 2002, pp. 182-183.

Wang, Z., Song, D., and Berger, T.W. Experimental and modeling studies of the contribution of NMDA receptor-channels to the expression of long-term potentiation. Proceedings of the Second Joint EMBS/BMES Conference, 2002, pp. 1962-1963.

Song, D., Marmarelis, V.Z., and Berger, T.W. Parametric and non-parametric models of short-term plasticity. Proceedings of the Second Joint EMBS/BMES Conference, 2002, pp. 1964-1965

Han, M., Gholmieh, G., Soussou, W., Berger, T.W., and Tanguay, A.R. Conformally-mapped multi-electrode arrays for in vitro stimulation and recording from acute hippocampal slices. Proceedings of the Second Joint EMBS/BMES Conference, 2002, pp. 2127-2128.

Namarvar, H.H., and Berger, T.W. Trust region nonlinear optimization learning method for dynamic synapse neural networks. Proceedings of the IEEE International Joint Conference on Neural Networks, 2003, 4, pp. 2848-2853.

Namarvar, H.H., and Berger, T.W. Robust command recognition using kernel learning algorithms. Proceedings of the IEEE International Joint Conference on Neural Networks, 2003, 4, pp. 3134-3139.

Dibazar, A.A., Namarvar, H.H., and Berger, T.W. A new approach for isolated word recognition using dynamic synapse neural networks. Neural Networks, 2003, 4, pp. 3146-3150.

Berger, T.W., Granacki, J.J., Marmarelis, V.Z., Sheu, B.J., and Tanguay, Jr., A.R. Brain-implantable biomimetic electronics as neural prosthetics. Proceedings of the 1st International IEEE EMBS Conference on Neural Engineering, 2003, pp. 108-111.

Song, D., Wang, Z., Marmarelis, V.Z., and Berger, T.W. Non-parametric interpretation and validation of parametric models of short-term plasticity. Proceedings of the IEEE EMBS Conference, 2003, pp. 1901-1904.

Wang, Z., Xie, X., Song, D., and Berger, T.W. Probabilistic transformation of temporal information at individual synapses. Proceedings of the IEEE EMBS Conference, 2003, pp. 1909-1912.

Gholmieh, G., Courellis, S.H., Song, D., Wang, Z., Marmarelis, V.Z., and Berger, T.W. Characterization of short-term plasticity of the dentate gyrus-CA3 system using nonlinear systems analysis. Proceedings of the IEEE EMBS Conference, 2003, pp. 1929-1932.

Dimoka, A., Courellis, S.H., Song, D., Marmarelis, V.Z., and Berger, T.W. Identification of lateral and medial perforant path using single- and dual-input random impulse train stimulation. Proceedings of the IEEE EMBS Conference, 2003, pp. 1933-1936.

Berger, T.W., Granacki, J.J., Marmarelis, V.Z., Sheu, B.J., and Tanguay, Jr., A.R. Brain-implantable biomimetic electronics as neural prosthetics. Proceedings of the IEEE EMBS Conference, 2003, pp. 1956-1959.

Courellis, S.H., Gholmieh, G., Marmarelis, V.Z., and Berger, T.W. Modeling nonlinear neural dynamics with Volterra-Poisson kernels. Proceedings of the IEEE International Joint Conference on Neural Networks, Budapest, Hungary, 2004.

Dibazar, A.A., Song, D., Yamada, W., and Berger, T.W. Speech recognition based on fundamental principles of the brain. Proceedings of the IEEE International Joint Conference on Neural Networks, Budapest, Hungary, 2004.

Woollard, D., Yamada, W., and Berger, T.W. Software engineering for neural dynamics: A case study. Proceedings of the First International Workshop on Software Engineering for High Performance Computing System Applications. Edinburgh, Scotland. May, 2004.

Srinivasan, V., Will, J.D., LaCoss, J., Chan, C-H., Hsiao, M-C., Khanna, S., Gholmieh, G., Courellis, S., Granacki, J.J., Berger, T.W. Real-time hardware neural spike amplitude extraction. Proceedings of the IEEE Workshop on Biological Circuits and Systems (BioCAS2004), Singapore, 2004.

Woollard, D., Medvidovic, N., Yamada, W., and Berger, T.W. ADaPT: An event-passing protocol for reducing delivery costs in scatter-gather parallel processes. Proceedings of the First Workshop on Patterns in High Performance Computing. Urbana-Champaign, Illinois. May, 2005.

Berger, T.W., Gholmieh, G., Hsiao, M-C., Song, D., Granacki, J.J., Wills, J., LaCoss, J., Srinivasan, V., Marmarelis, V.Z., Courellis, S.H., Erinjippurath, G., Tanguay, A.R., Ahuja, A., Nasiatka, P., Deadwyler, S.A., Hampson, R.E., and Gerhardt, G.A. Implantable biomimetic electronics as neural prostheses for lost cognitive function. Proceedings of the 6th Asian-Pacific Conference on Medical and Biological Engineering, Tsukuba, Japan, 2005.

Berger, T.W., Granacki, J.J., Marmarelis, V.Z., Tanguay, Jr., A.R., Deadwyler, S.A., Gerhardt, G.A. Implantable biomimetic electronics as neural prosthetics for lost cognitive function. Proceedings of the IEEE International Joint Conference on Neural Networks, 2005, 5, pp. 3109-3114.

Lu, B., Yamada, W., and Berger, T.W. Nonlinear queuing model for dynamic synapses with multiple transmitter pools. Proceedings of the IEEE International Joint Conference on Neural Networks, 2006, pp. 181-187.

Dibazar, A., Bangalore, A., Park, H., George, S., Yamada, W., and Berger, T.W. Hardware implementations of dynamic synapse neural networks for acoustic sound recognition. Proceedings of the IEEE International Joint Conference on Neural Networks, 2006, pp. 2015-2022.

Bouteiller, J-M. Qiu, Y., Ziane, M.B., Baudry, M., and Berger, T.W. EONS: An online synaptic modeling platform. Proceedings of the IEEE EMBS Conference, 2006, pp. 4155-4158.

Courellis, S.H., Zanos T.P., Hsiao, M.C., Hampson. R.E., Deadwyler, S.A., Marmarelis, V.Z., and Berger, T.W. Modeling hippocampal nonlinear dynamic transformations with principal dynamic modes. Proceedings of the IEEE EMBS Conference, 2006, pp. 2300-2303.

Zanos, T.P., Courellis, S.H., Hampson, R.E., Deadwyler, S.A., Marmarelis, V.Z., and Berger, T.W. A multi-input modeling approach to quantify hippocampal nonlinear dynamic transformations. Proceedings of the IEEE EMBS Conference, 2006, pp. 4967-49760.

Dimoka, A., Courellis, S.H., Marmarelis, V.Z., and Berger, T.W. Modeling the nonlinear dynamic interactions of the lateral and the medial perforant path of the hippocampal dentate gyrus. Proceedings of the IEEE EMBS Conference, 2006, pp. 5539-5542.

Song, D., Chan, R.H.M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Physiologically plausible stochastic nonlinear kernel models of spike train to spike train transformation. Proceedings of the IEEE EMBS Conference, 2006, pp. 6129-6132.

Hsiao, M-C., Chan, C-H., Srinivasan, V., Ahuja, A., Erinjippurath, G., Zanos, T.P., Gholmieh, G., Song, D., Wills, J.D., LaCoss, J., Courellis, S., Tanguay, Jr., A.R., Granacki, J.J., Marmarelis, V.Z., and Berger, T.W. VLSI implementation of a nonlinear neuronal model: A “neural prosthesis” to restore hippocampal trisynaptic dynamics. Proceedings of the IEEE EMBS Conference, 2006, pp. 4396-4399.

Marmarelis, V.Z., Zanos, T.P., Courellis, S.H., and Berger, T.W. Boolean modeling of neural systems with point-process inputs and outputs. Proceedings of the IEEE EMBS Conference, 2006, pp. 2144-2147.

Xiaping, X., Song, D., Wang, Z., Marmarelis, V.Z., Berger, T.W. Interaction of short-term neuronal plasticity and synaptic plasticity revealed by nonlinear systems analysis in dentate granule cells. Proceedings of the IEEE EMBS Conference, 2006, pp. 5543-5546.

Dibazar, A.A., Berger, T.W., and Narayanan, S.S. Pathological voice assessment. Proceedings of the IEEE EMBS Conference, 2006, pp. 1669-1673.

Lu, B., Yamada, W.M., and Berger, T.W. Nonlinear dynamic neural network for text-independent, speaker identification using information theoretic learning technology. Proceedings of the IEEE EMBS Conference, 2006, pp. 2442-2445.

Dibazar, A., Park, H.O., and Berger, T.W. The application of dynamic synapse neural networks to footstep and vehicle recognition. Proceedings of the IEEE International Joint Conference on Neural Networks, 2007, pp. 1468-1472.

Lu, B., Yamada, W.M., and Berger, T.W. Asymmetric synaptic plasticity based on arbitrary pre- and postsynaptic timing spikes using finite state modeling. Proceedings of the IEEE International Joint Conference on Neural Networks, 2007, pp. 1235-1240.

Song, D., Chan, R. H. M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Statistical selection of multiple-input multiple-output nonlinear dynamic models of spike train transformation. Proceedings of the 29th Annual IEEE EMBS Conference, 2007, pp. 4727-4730.

Song, D., Hendrickson, P., Marmarelis, V.Z., Aguayo, J., He, J., Loeb, G.E., and Berger, T.W. Predicting EMG with generalized Volterra kernel models. Proceedings of the 30th Annual International IEEE EMBS Conference, 2008, pp. 201-204.

Lu, U., Song, D., and Berger, T.W. Nonparametric modeling of single hippocampal neurons. Proceedings of the 30th Annual IEEE EMBS Conference, 2008, pp. 2469-2472.

Zanos, T.P., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Functional connectivity through nonlinear modeling: An application to the rat hippocampus. Proceedings of the 30th Annual IEEE EMBS Conference, 2008, pp. 5522-5525.

Dibazar, A., Yousefi, A., and Berger, T.W. A system for movement-free and real-time monitoring of “readiness”. Proceedings of the 30th Annual IEEE EMBS Conference, 2008, pp. 4879-4882.

Chan, R.H.M., Song, D., and Berger, T.W. Tracking temporal evolution of nonlinear dynamics in hippocampus using time-varying Volterra kernels. Proceedings of the 30th Annual IEEE EMBS Conference, 2008, pp. 4996-4999.

Hsiao, M.-C., Song, D., and Berger, T.W. Control theory-based regulation of hippocampal CA1 nonlinear dynamics. Proceedings of the 30th Annual International IEEE EMBS Conference, 2008, pp. 5535-5538.

Lu, B., Dibazar, A., and Berger, T. W. Perimeter security: On detecting acoustic signatures of approaching vehicles using nonlinear neural computation,” Proceedings of the IEEE International Conference on Technologies for Homeland Security, Waltham, MA, 2008, pp. 51-56.

Allam S. L., Bouteiller J-M., Greget R., Bischoff S., Baudry M., and Berger T.W. EONS synaptic modeling platform: Exploration of mechanisms regulating information processing in the CNS and application to drug discovery. Frontiers in Biomedical Devices, 2008, 2008-2012.

Park, O.P., Dibazar, A., Berger, T.W. Protecting military perimeters from approaching humans and vehicles using biologically realistic dynamic synapse neural networks. Proceedings of the IEEE International Conference on Technologies for Homeland Security, 2008, pp. 73-78.

Yousefi, A., Dibazar, A., Berger, T.W. Intelligent fence Intrusion detection system: Detection of intentional fence breaching and recognition of fence climbing. Proceedings of the IEEE International Conference on Technologies for Homeland Security, 2008, pp. 620-625.

Lu, B., Dibazar, A., and Berger, T. W. Nonlinear Hebbian learning for noise-independent vehicle sound recognition. Proceedings of the IEEE International Joint Conference on Neural Networks, Hong Kong, China, 2008, pp. 1337-1344.

Park, H.O., Dibazar, A.A., and Berger, T.W. Cadence analysis of temporal gait patterns for seismic discrimination between human and quadruped footsteps. Proceedings of the ICASSP, 2009, pp. 1749-1752.

Song, D., Chan, R.H.M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Sparse generalized Laguerre-Volterra model of neural population dynamics. Proceedings of the IEEE EMBS Conference, 2009, pp. 4555-4558.

Chan, R.H.M., Song, D., and Berger, T.W. Nonstationary modeling of neural population dynamics. Proceedings of the IEEE EMBS Conference, 2009, pp. 4559-4562.

Lu, U., Song, D., and Berger, T.W. Nonlinear modeling of single hippocampal neurons with dynamic thresholds. Proceedings of the IEEE EMBS Conference, 2009, pp. 3330-3334.

Hsiao, M., Song, D., and Berger, T.W. Using an open-loop inverse control strategy to regulate CA1 nonlinear dynamics for an in vitro hippocampal prosthesis model. Proceedings of the IEEE EMBS Conference, 2009, pp. 1529-1532.

Park, H.O., Dibazar A.A., and Berger, T.W. Design of a helmet-mounted microphone array for sound localization. Proceedings of the ICASSP Conference, 2010, pp. 1478-1481.

Yousefi, A., Dibazar A.A., and Berger, T.W. Application of non-homogeneous HMM on detecting security fence breaching. Proceedings of the ICASSP Conference, 2010, pp. 1606-1609.

Dibazar, A.A., Park, H.O., and Berger, T.W. Statistical spiking neural model for real world pattern recognition applications. Proceedings of the IJCNN, 2010, pp. 3824-3827.

Park, H.O., Dibazar A.A., and Berger, T.W. Discrete synapse recurrent neural network for nonlinear system modeling and its application on seismic signal classification. Proceedings of the IJCNN, 2010, pp. 1631-1637.

Dibazar, A.A., Park, H.O., and Berger, T.W. Nonlinear dynamic modeling of impaired voice. Proceedings of the IEEE EMBS Conference, 2010, pp. 2770-2773.

Dibazar, A.A., Yousefi, A., George, S., Lu, B., Park, H.O., and Berger, T.W. Intelligent acoustic and vibration recognition/alert systems for security breaching detection, close proximity danger identification, and perimeter protection. Proceedings of the IEEE HST Conference, 2010, pp. 351-356. (Recognized as best paper).

Song, D., Wang, H., and Berger, T.W. Estimating sparse Volterra models using group L1-regularization. Proceedings of the IEEE EMBS Conference, 2010, pp. 4128-4131.

Lu, U., Song, D., and Berger, T.W. Nonlinear dynamic analyses of single hippocampal neurons before and after long-term potentiation. Proceedings of the IEEE EMBS Conference, 2010, pp. 2762-2765.

Chan, R.H.M., Song, D., Goonawardena, A.V., Bough, S., Sesay, J., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Changes of hippocampal CA3-CA1 population nonlinear dynamics across different training sessions in rats performing a memory-dependent task. Proceedings of the IEEE EMBS Conference, 2010, pp. 5464-5467.

Bouteiller, J-M. C., Allam, S. L., Greget, R., Ambert, N., Hu, E. Y., Bischoff, S., Baudry, M., and Berger, T. W. Paired-pulse stimulation at glutamatergic synapses: Pre- and postsynaptic components. Proceedings of the IEEE EMBS Conference, 2010, pp. 787-790.

Yousefi, A., Dibazar, A., and Berger, T.W. Supervised learning in a single layer dynamic synapses neural network. Proceedings of the IEEE International Joint Conference on Neural Networks, 2011, pp. 3109-3114.

Park, H.O., Dibazar, A.A., and Berger, T.W. Discrete synapse recurrent neural network with time-varying delays for nonlinear system modeling and its application on seismic signal classification. Proceedings of the IJCNN, 2011, pp. 2250-2257.

Ghaderi, V., Allam, S., Ambert, N., Bouteiller, J-M. C., Choma, J., and Berger, T.W. Modeling neuron-glia interactions: From parametric model to neuromorphic hardware. Proceedings of the IEEE EMBS Conference, 2011, pp. 3581-3584.

Song, D., Chan, R.H.M., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Estimation and statistical validation of event-invariant nonlinear dynamic models of hippocampal CA3-CA1 population activities. Proceedings of the IEEE EMBS Conference, 2011, pp. 3330-3333.

Lu, U., Roach, S., Song, D., and Berger, T.W. A two-stage cascade nonlinear dynamic model of single neurons for the separation and quantification of pre- and post-synaptic mechanisms of synaptic transmission. Proceedings of the IEEE EMBS Conference, 2011, pp. 1427-1430.

Chan, R.H.M., Song, D., Goonawardena, A., Bough, S., Sesay, J., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Tracking the changes in hippocampal population nonlinear dynamics of rats learning a memory-dependent task. Proceedings of the IEEE EMBS Conference, 2011, pp. 3326-3329.

Marmarelis, V.Z., Shin, D., Song, D., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Dynamic nonlinear modeling of interactions between neuronal ensembles using principal dynamic modes. Proceedings of the IEEE EMBS Conference, 2011, pp. 3334-3337.

Hampson, R.E., Song, D., Chan, R.H.M., Sweatt, A., Shin, D., Marmarelis, V.Z., Gerhardt, G., Granacki, J., Berger, T.W., and Deadwyler, S.A. Restorative encoding memory integrative neural device: “REMIND”. Proceedings of the IEEE EMBS Conference, 2011, pp. 3338-3341.

Li, W.X.Y., Chan, R.H.M., Zhang, W., Cheung, R.C.C., Song, D., and Berger, T.W. A hardware-based computational platform for generalized Laguerre-Volterra MIMO modeling of neural activities. Proceedings of the IEEE EMBS Conference, 2011, pp. 7282-7285.

Li, W.X.Y., Chan, R.H.M., Zhang, W., Yu, C., Cheung, R.C.C., Song, D., and Berger, T.W. FPGA architecture of generalized Laguerre-Volterra MIMO model of neural population spiking activities. Proceedings of the 21st International Conference on Field Programmable Logic and Applications (FPL11), 2011, pp. 44-49.

Li, W.X.Y., Chan, R.H.M., Zhang, W., Cheung, R.C.C., Song, D., and Berger, T.W. FPGA architecture of generalized Laguerre-Volterra MIMO model for neural population spiking activities. Proceedings of the 19th IEEE Annual International Symposium on Field- Programmable Custom Computing Machines (FCCM11), 2011, pp. 245-254.

Bouteiller, J-M.C., Allam, S.L., Hu, E.Y., Greget, R., Ambert, N., Keller, A.F., Pernot, F., Bischoff, S., Baudry, M., and Berger, T.W. Modeling of the nervous system: From molecular dynamics and synaptic modulation to neuron spiking activity. Proceedings of the IEEE EMBS Conference, 2011, pp. 445-448.

Dibazar, A., Park, H.O., and Berger, T.W. Optimal placement of ground sensors: Mathematical modeling and field implementation. Proceedings of the IEEE International Conference on Technologies for Homeland Security, 2011.

Yousefi, A., Dibazar, A., and Berger, T.W. Aggregating seismic, acoustic and vibration sensor outputs for enhancing threat detection performance and estimating threat level. Proceedings of the IEEE International Conference on Technologies for Homeland Security, 2011, pp. 202-207.

Hampson, R.E., Opris, I., Song, D., Gerhardt, G.H., Shin, D., Marmarelis, V.Z., Berger, T.W., and Deadwyler, S.A. Neural representation of cognitive processing in the prefrontal cortex of nonhuman primates. Proceedings of the IEEE EMBS Conference, 2012.

Ghaderi, V., Roach, S., Song, D., Marmarelis, V.Z., Choma, J., Jr., and Berger, T.W. Analog low-power hardware implementation of a Laguerre-Volterra model of intracellular subthreshold neuronal activity. Proceedings of the IEEE EMBS Conference, 2012, pp. 767-770.

Yu, G., Robinson, B., Hendrickson, P., Song, D., and Berger, T.W. Implementation of topographically constrained connectivity for a large-scale biological realistic model of the hippocampus. Proceedings of the IEEE EMBS Conference, 2012, pp. 1358-1361.

Yousefi, A., Dibazar, A., and Berger, T.W. Synaptic dynamics: Linear model and adaptation algorithm. Proceedings of the IEEE EMBS Conference, 2012, pp. 1362-1365.

Robinson, B., Yu, G., Hendrickson, P., Song, D., and Berger, T.W. Implementation of activity-dependent synaptic plasticity rules for a large-scale biologically realistic model of the hippocampus. Proceedings of the IEEE EMBS Conference, 2012, pp. 1366-1369.

Allam, S., Bouteiller, J.M.C., Hu, E., Greget, R., Ambert, N., Bischoff, S., Baudry, M., and Berger, T.W. Influence of ionotropic receptor location on their dynamics at glutamatergic synapses. Proceedings of the IEEE EMBS Conference, 2012, pp. 1374-1377.

Song, D., Opris, I., Chan, R.H.M., Marmarelis, V.Z., Hampson, R., Deadwyler, S., and Berger, T.W. Functional connectivity between layer 2/3 and layer 5 neurons in prefrontal cortex of nonhuman primates during a delayed match-to-sample task. Proceedings of the IEEE EMBS Conference, 2012, pp. 2555-2558.

Marmarelis, V.Z., Shin, D., Song, D., Hampson, R., Deadwyler, S., and Berger, T.W. Optimal multi-input multi-train stimulation pattern design for a cognitive neuroprosthesis based on dynamic nonlinear modeling. Proceedings of the IEEE EMBS Conference, 2012.

Li, W.X.Y., Chan, R.H.M., Song, D., Berger, T.W., and Cheung, R.C.C. A dual mode FPGA design for a hippocampal prosthesis. Proceedings of the IEEE EMBS Conference, 2012, pp. 4579-4582.

Hendrickson, P., Yu, G., Robinson, B., Song, D., and Berger, T.W. Biologically realistic model of the hippocampus. Proceedings of the IEEE EMBS Conference, 2012, pp. 4595-4598.

Hsiao, M.C., Yu, P.N., Song, D., Liu, C.Y., Heck, C.N., Millet, D., and Berger, T.W. Spatio-temporal inter-ictal activity recorded from human epileptic hippocampal slices. Proceedings of the IEEE EMBS Conference, 2012, pp. 5155-5169.

Park, H.O., Dibazar, A., and Berger, T.W. Nonlinear model for dynamic synapse neural networks. Proceedings of the IEEE EMBS Conference, 2012, pp. 5441-5444.

Roach, S., Lu, U., Song, D., and Berger, T.W. An analysis of the expression locus of long-term potentiation in hippocampal CA1 neurons. Proceedings of the IEEE EMBS Conference, 2012, pp. 5510-5513.

Bouteiller, J-M.C., Legendre, A., Allam, S., Ambert, N., Hu, E., Greget, R., Keller, A.F., Pernot, F., Bischoff, S., Baudry, M., and Berger, T.W. Modeling of the nervous system: From modulation of glutamatergic and gabaergic molecular dynamics to neuron spiking activity. Proceedings of the IEEE EMBS Conference, 2012, pp. 6612-6615.

Park, H.O., Dibazar, A.A., and Berger, T.W. Nonlinear model for dynamic synapse neural networks. Proceedings of the IEEE EMBS Conference, 2012, pp. 5441-5444.

Yousefi, A., Dibazar, A.A., and Berger, T.W. Synaptic dynamics: Linear model and adaptation algorithm. Proceedings of the IEEE EMBS Conference, 2012, pp. 1362-1365.

Antao, U., Dibazar, A.A., Choma, J., and Berger, T.W. Low power, long-life design for smart intelligence, surveillance and reconnaissance (ISR) sensors. Technology for Homeland Security (HST), 2012 IEEE International Conference, 2012, pp. 631-636.

Li, W.X.Y., Cheung, R.C.C., Chan, R.H.M., Song, D., and Berger, T.W. A reconfigurable architecture for real-time prediction of neural activity. IEEE International Symposium on Circuits and Systems, 2013.

Song, D., Wang, H., Marmarelis, V.Z., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Estimation of sparse dynamical model of neural functional connectivity using group Lasso and Laguerre basis functions. Transactions of Japanese Society for Medical and Biological Engineering, 2013.

Robinson, B., Song, D., and Berger, T.W. Laguerre-Volterra identification of spike-timing-dependent plasticity from spiking activity: a simulation study. Proceedings of the IEEE EMBC Conference, 2013, pp. 5578-5581.

Ghaderi, V., Song, D., Bouteiller, J-M.C., Choma, J., and Berger, T.W. A programmable analog subthreshold biomimetic model for bi-directional communication with the brain. Proceedings of the IEEE EMBC Conference, 2013, pp. 787-790.

Hampson, R.E., Fuqua, J., Huettl, P., Opris, I., Song, D., Shin, D., Marmarelis, V.Z., Berger, T.W., Gerhardt, G., and Deadwyler, S.A. Conformal ceramic electrodes that record glutamate release and corresponding neural activity in primate prefrontal cortex. Proceedings of the IEEE EMBC Conference, 2013, pp. 5954-5957.

Yu, G., Hendrickson, P., Robinson, B., Song, D., and Berger, T.W. The role of topography in the transformation of spatiotemporal patterns by a large-scale, biologically realistic model of the rat dentate gyrus. Proceedings of the IEEE EMBC Conference, 2013, pp. 5950-5953.

Hendrickson, P., Yu, G., Robinson, B., Song, D., and Berger, T.W. The contribution of relative activation levels between populations of cells to network activity in a large-scale biologically realistic model of the hippocampus. Proceedings of the IEEE EMBC Conference, 2013, pp. 5962-5965.

Hampson, R., Huettl, P., Opris, I., Song, D., Shin, D., Marmarelis, V., Berger, T., Gerhardt, G., and Deadwyler, S. Conformal multielectrode arrays (MEAs) for recording and stimulating in deep structures of nonhuman primates. Proceedings of the IEEE EMBS Conference, 2013.

Marmarelis, V.Z., Shin, D. C., Song. D., Hampson, R. E., Deadwyler, S. A., and Berger, T.W. Model-based design of optimal neurostimulation in the NHP hippocampus for enhancing behavioral task performance. Proceedings of the IEEE EMBS Neural Engineering Conference, DOI: 10,1109/NER.2013.6695975 2013, pp.476-479.

Dibazar, A., Yousefi, A., and Berger, T. Multilayer spike-in spike-out representation of hippocampus circuitry. Proceedings of the IEEE EMBS Neural Engineering Conference, DOI: 10.1109/NER.2013.6696009 2013, pp. 613-616.

Song, D., Robinson, B., Chan, R.H.M., Marmarelis, V., Hampson, R., Deadwyler, S., and Berger, T. Identification of functional synaptic plasticity from ensemble spiking activities: A nonlinear dynamical modeling approach. Proceedings of the IEEE EMBS Neural Engineering Conference, DOI: 10.1109/NER.2013. 6696010 2013, pp. 617-620.

Sandler, R., Shin, D.C., Song, D., Hampson, R.E., Deadwyler, S.A., Berger, T.W., and Marmarelis, V.Z. Closed-loop modeling of the hippocampus and design of neuro-stimulation patterns for suppressing seizures. Proceedings of the IEEE EMBS Neural Engineering Conference, DOI: 10.1109/NER.2013.6696140 2013, pp.1143-1146.

Opris, I., Song, D., Shin, D., Gerhardt, G., Marmarelis, V., Berger, T., Hampson, R., and Deadwyler, S. Hippocampal CA3-CA1 neural ensembles in nonhuman primates encode spatial and object features relevant for neural prosthetics. Proceedings of the IEEE EMBS Conference, 2013.

Bouteiller, J-M.C., Hu, E., Allam, S., Ghaderi, V., Song, D., and Berger, T.W. Insights on synaptic paired-pulse response using parametric and non-parametric models. Proceedings of the IEEE EMBC Conference, 2013, pp. 1041-1044.

Bouteiller, J-M. C., Allam, S. L., Ambert, N., Greget, N., Hu, E. Y., Bischoff, S., Baudry, M., and Berger, T. W. Influence of ionotropic receptors localization on glutamatergic synaptic response to paired-pulse stimulation protocol. Proceedings of the IEEE EMBS Conference, 2013, pp.1041-1044. DOI:10.1109/EMBC.2013.6609682

Bouteiller, J-M. C., Hu, E. Y., Allam, S. L., Ghaderi, V., Song, D., and Berger, T. W. Insights on synaptic paired-pulse response using parametric and non-parametric models, Proceedings of the IEEE EMBS Conference, 2013, pp.1037-1040. DOI:10.1109/EMBC.2013.6609681

Dibazar, A.A., Yousefi, A.H., and Berger, T.W. Linear time variant model of synapse/neuron and its adaptation method; application on predicting hippocampus CA1 neuron PSPs. Proceedings of the IEEE EMBC Conference, 2013, 07/2013;2013:2192-2195.doi:10.1109/EMBC.2013.6609970

Dibazar, A.A., Yousefi, A.H., Berger, T.W. Multi-layer spike-in, spike-out representation of hippocampus circuitry. Proceedings of the IEEE EMBS Neural Engineering Conference, 2013, pp. 613-616, doi: 10.1109/ NER.2013.6696009

Li, W.X.Y., Xin, Y., Song, D., Berger, T.W., and Cheung, R.C.C. VLSI architecture of a high-performance neural spiking activity simulator based on high-order Volterra kernels. International Symposium on Integrated Circuits (ISIC), 2014, 272-275.

Song, D., Robinson, B., Granacki, J.J., and Berger, T.W. Implementing spiking neuron model and spike-timing-dependent plasticity with generalized Laguerre-Volterra models. Proceedings of the IEEE EMBC Conference, 2014, 714-717.

Robinson, B., Song, D., and Berger, T.W. Generalized Volterra kernel model identification of spike-timing-dependent plasticity from simulated spiking activity. Proceedings of the IEEE EMBC Conference, 2014, 6585-6588.

Xu, H., Hsiao, M.C., Song, D., and Berger, T.W. Recording place cells from multiple sub-regions of the rat hippocampus with a customized micro-electrode array. Proceedings of the IEEE EMBC Conference, 2014, 4876-4879.

Hu, E, Bouteiller, J-M.C., Huang, M., Song, D., and Berger, T.W. A comparison between direct and indirect measurements of neurotransmitter vesicle release dynamics: A computational study. Proceedings of the IEEE EMBC Conference, 2014, 1155-1158.

Hsiao, M.C., Yu, P-N., Song, D., Liu, C.Y., Heck, C.N., Millett, D., and Berger, T.W. A testbed to explore the optimal electrical stimulation parameters for suppressing inter-ictal spikes in human hippocampal slices. Proceedings of the IEEE EMBC Conference, 2014, 5792-5795.

Yu, P-N., Hsiao, M.C., Song, D., Liu, C.Y., Heck, C.N., Millett, D., and Berger, T.W. Unstable periodic orbits in human epileptic hippocampal slice. Proceedings of the IEEE EMBC Conference, 2014, 5800-5803.

Li, W.X.Y., Xin, Y., Chan, R.H.M., Song, D., Berger, T.W., and Cheung, R.C.C. Laguerre-Volterra model and architecture for MIMO system identification and output prediction. Proceedings of the IEEE EMBC Conference, 2014, 4539-4542.

Yu, G., Song, D., and Berger, T.W. Implementation of the excitatory entorhinal-dentate-CA3 topography in a large-scale computational model of the rat hippocampus. Proceedings of the IEEE EMBC Conference, 2014, 6581-6584.

Dibazar, A.A., Yousefi, A.H., and Berger, T.W. Large-scale parameter estimation for nonlinear dynamic systems: Application on spike-in, spike-out neural models. Proceedings of the International Joint Conference on Neural Networks (IJCNN), 2014, pp.2422-2427, DOI: 10.1109/ IJCNN.2014. 6889921.

Bouteiller J.-M. C., Berger T.W. (2014), Tri-Partite Synapse (Neuron-Astrocyte Interactions), Conductance Models, Encyclopedia of Computational Neuroscience. DOI: 10.1007/978-1-4614-7320-6363-1.
Eric Y. Hu, Jean-Marie C. Bouteiller, Dong Song, Michel Baudry, Theodore W. Berger, Volterra representation enables modeling of complex synaptic nonlinear dynamics in large-scale simulations. Front Comput Neurosci. 2015; 9: 112. DOI: 10.3389/fncom.2015.00112.
Song, D., Hampson, R.E., Robinson, B.S., Opris, I., Marmarelis, V.Z., Deadwyler, S.A., and Berger, T.W. Nonlinear dynamical modeling of human hippocampal CA3-CA1 functional connectivity for memory prostheses. Proceedings of the IEEE EMBS Neural Engineering Conference, Montpellier, France, 2015, 316-319.

Bouteiller, J.-M. C., Feng, Z., Onopa, A., Huang, M., Hu, E.Y., Somogyi, E., Baudry, M., Bischoff, S., and Berger, T.W. Maximizing predictability of a bottom-up complex multi-scale model through systematic validation and multi-objective multi-level optimization. Proceedings of the IEEE EMBS Conference on Neural Engineering, Montpellier, France, 2015.

Cline, J., Bingham, C., Loizos, K., Yu, G., Hendrickson, P., Bouteiller, J-M., Berger, T.W., and Lazzi, G. Estimation of initiated local field potential by neurons in heterogeneous tissue environment using admittance method, Proceedings of the IEEE International Symposium on Antennas and Propagation and North American Radio Science Meeting, Vancouver, Canada, 2015.

Song, D., Robinson, B.S., Hampson, R.E., Marmarelis, V.Z., Deadwyler, S.A., Berger, T.W. Sparse generalized Volterra model of human hippocampal spike train transformation for memory prostheses. Proceedings of the IEEE EMBC Conference, 2015, 3961 – 3964.

Robinson, B.S., Song, D., and Berger, T.W. Estimation of a large-scale generalized Volterra model for neural ensembles with group lasso and local coordinate descent. Proceedings of the IEEE EMBC Conference, 2015, 2526 – 2529.

Xu, H., Hsiao, M.C., Meng, E., Berger, T.W., and Song, D. Design of a flexible parylene-based multi-electrode array for multi-region recording from the rat hippocampus. Proceedings of the IEEE EMBC Conference, 2015, 7139 – 7142.

Yu, G., Hendrickson, P., Song, D., and Berger, T.W. Topography-dependent spatio-temporal correlations in the entorhinal-dentate-CA3 circuit in a large-scale computational model of the rat hippocampus. Proceedings of the IEEE EMBC Conference, 2015, 3965 – 3968.

Hendrickson, P., Yu, G., Robinson, Song, D., and Berger, T.W. A million-plus neuron model of the hippocampal dentate gyrus: Dependency of spatio-temporal network dynamics on topography. Proceedings of the IEEE EMBC Conference, 2015, 4713-4716.

Hu, E, Bouteiller, J-M.C., Song, D., and Berger, T.W. The Volterra functional series is a viable alternative to kinetic models for synaptic modeling – calibration and benchmarking. Proceedings of the IEEE EMBC Conference, 2015, 3291 – 3294
Robinson, B.S., Berger, T.W., and Song, D. Monte Carlo validation of spike-time ing-dependent plasticity identification from spiking activity. Proceedings of the IEEE BC EMBC Conference, 2016, 1624-1627.

Song, D., Hampson, R.E., Robinson, B.S., Marmarelis, V.Z., Deadwyler, S.A., Berger, T.W. Decoding memory features from hippocampal spiking activities using sparse classification models. Proceedings of the IEEE EMBC Conference, 2016, 1620-1623.

Xu, H., Hsiao, M.C., Meng, E., Berger, T.W., and Song, D. A flexible parylene probe for in vivo recordings from multiple sub-regions of the rat hippocampus. Proceedings of the IEEE EMBC Conference, 2016, 2806-2809.

Hendrickson, P., Bingham, C., Song, D., and Berger, T.W. A bi-directional neuron communication paradigm between parallel NEURON and an external non process. Proceedings of the IEEE EMBC Conference, 2016, 1413-1416.

Hu, E, Bouteiller, J-M.C., Song, D., and Berger, T.W. The development of a detailed model of calcium dynamics at the postsynaptic spine of an excitatory synapse. Proceedings of the IEEE EMBC Conference, 2016, 6102-6105.

Bingham, C., Loizos, K., Yu, G., Gilbert, A., Bouteiller, J-M.C., Song, D., Gianluca, L., and Berger, T.W. A large-scale detailed neuronal model of electrical stimulation of the dentate gyrus and perforant path as a platform for electrode design and optimization. Proceedings of the IEEE EMBC Conference, 2016, 2794-2797.

Gilbert, A., Loizos, K., RamRakhyani, A.K., Lazzi, G., Berger, T. W. (2016). A 3-D admittance-level computational model of a rat hippocampus for improving prosthetic design. In 2016 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) (pp. 2295 – 2298). IEEE. .http://doi.org/10.1109/EMBC.2016.7318851

Bingham, C.S., Loizos, K., Bouteiller, J.-M., Song, D., Lazzi, G., Berger, T. W. (2017). Predicting evoked potentials via a dual admittance-compartmental model of the dentate gyrus. Proceedings of the IEEE EMBC Conference, 2016.

Yu, G., Song, D., and Berger, T.W. Place field detection using grid-based clustering in a large-scale computational model of the rat dentate gyrus. Proceedings of the IEEE EMBC Conference, 2016, 1405-1408.

Yu, P-N., Naiini, S., Heck, C.N., Liu, C.Y., Song, D., and Berger, T.W. A sparse Laguerre-Volterra autoregressive model for seizure prediction in temporal lobe epilepsy. Proceedings of the IEEE EMBC Conference, 2016, 1664-1667.

Weltman, A., Xu, H., Scholten, K., Berger, T.W., Song, D., and Meng, E. Deep brain targeting strategy for bare parylene neural probe arrays. Hilton Head Conference, 2016.

Song, D., She, X., Hampson, R.E., Deadwyler, S.A., and Berger, T.W. Multi-resolution multi-trial sparse classification model for decoding visual memories from hippocampal spiking activities. Proceedings of the IEEE EMBC Conference, 2017, 1046-1049.

Xu, H., Weltman, A., Scholten, K., Meng, E., Berger, T.W., and Song, D. Chronic multi-region recording from the rat hippocampus in vivo with a flexible Parylene-based multi-electrode array. Proceedings of the IEEE EMBC Conference, 2017, 1716-1719.

Elyahoodayan, S., Berger, T.W., and Song, D. A multi-channel asynchronous neurostimulator to mimic neural code for cognitive prosthesis. Proceedings of the IEEE EMBC Conference, 2017, 1716-1719.