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Laboratory for Theoretical and Computational Neuroscience Publications

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Spinal Cord / Locomotion [Green]  Brainstem / Respiration [Blue]  Others [Black]


2016

"Central control of interlimb coordination and speed-dependent gait expression in quadrupeds"
Danner, S. M., Wilshin, S. D., Shevtsova N. A., and Rybak, I. A.
J. Physiol., in press (2016)
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"Chemoreception and neuroplasticity in respiratory circuits"
Barnett, W. H., Abdala, A. P., Paton, J. F., Rybak, I. A., Zoccal, D. B., and Molkov, Y. I.
Exp. Neurol., pii: S0014-4886(16)30156-X (2016)
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"Organization of flexor-extensor interactions in the mammalian spinal cord: insights from computational modelling"
Shevtsova N. A., and Rybak, I. A.
J. Physiol., in press. (2016)
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"Perturbations of respiratory rhythm and pattern by disrupting synaptic inhibition within pre-Botzinger and Botzinger complexes"
Marchenko V., Koizumi, H., Mosher, B., Koshiya, N., Tarig, M. F., Bezdudnaya, T. G., Zhang, R., Molkov, Y. I., Rybak, I. A., and Smith J. C.
eNeuro 3(2). pii: ENEURO.0011-16.2016 (2016)
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"Mixed-mode oscillations and population bursting in the pre-Botzinger complex"
Bacak, B. J., Kim, T., Smith, J. C., Rubin, J. E., and Rybak, I. A.
eLife, 5. pii: e13403 (2016)
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"A neuromechanical model of spinal control of locomotion"
Markin, S. N., Klishko, A. N., Shevtsova N. A., Lemay M. A., Prilutsky, B. I., and Rybak, I. A.
In: Neuromechanical Modeling of Posture and Locomotion (Prilutsky, B. I., and Edwards, D. H., eds.). Springer, New York. pp 21-65 (2016)
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"Modeling the organization of spinal cord neural circuits controlling two-joint muscles"
Shevtsova N. A., Hamade, K., Chakrabarty, S., Markin, S. N., Prilutsky, B. I., and Rybak, I. A.
In: Neuromechanical Modeling of Posture and Locomotion (Prilutsky, B. I., and Edwards, D. H., eds.). Springer, New York. pp 121-162 (2016)
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2015

"Organization of the mammalian locomotor CPG: review of computational model and circuit architectures based on genetically identified spinal interneurons"
Rybak, I. A., Dougherty, K. J., and Shevtsova, N. A.
eNeuro 2(5). pii: ENEURO.0069-15.2015 (2015)
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"Mechanisms of left-right coordination in mammalian locomotor pattern generation circuits: a mathematical modeling view"
Molkov, Y. I., Bacak, B. J., Talpalar, A. E., and Rybak, I. A
PLoS Comput. Biol., 11: e1004270 (2015)
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"Organization of left-right coordination of neuronal activity in the mammalian spinal cord: insights from computational modelling"
Shevtsova, N. A., Talpalar, A. E., Markin, S. N., Harris-Warrick, R. M., Kiehn, O., and Rybak, I. A
J. Physiol., 593: 2403-2426 (2015)
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2014

"Vertebrate pattern generation: overview"
Rybak I. A.
In: Encyclopedia of Computational Neuroscience (Dieter Jaeger and Ranu Jung eds.). Springer: New York, 1-13 (2014)
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"A closed-loop model of the respiratory system: focus on hypercapnia and active expiration"
Molkov, Y. I., Shevtsova, N. A., Park, C., Ben-Tal, A., Smilth, J. C., Rubin, J. E., and Rybak, I. A.
PLoS One., 9: e109894 (2014)
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"Rhythmic bursting in the pre-Botzinger Complex: Mechanisms and models"
Rybak, I. A., Molkov, Y. I., Jasinski, P. E., Shevtsova, N. A., and Smith, J. C.
Prog. Brain Res., 209: 1-23 (2014)
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"Effects of glycinergic inhibition failure on respiratory rhythm and pattern generation"
Shevtsova, N. A., Busselberg, D., Molkov, Y. I., Bischoff , A. N., Smith, J. C., Richter, D. W., and Rybak, I. A.
Prog. Brain Res., 209: 25-38 (2014)
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"Physiological and pathophysiological interactions between the respiratory central pattern generator and the sympathetic nervous system"
Molkov, Y. I., Zoccal, D. B., Baekey, D. M., Abdala, A. P., Machado, B. H., Dick, T. E., Paton, J. F., and Rybak I. A.
Prog. Brain Res., 212: 1-23 (2014)
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2013

"Modelling genetic reorganizations in the mouse spinal cord affecting left-right coordination during locomotion"
Rybak, I. A., Shevtsova, N. A., and Kiehn, O.
J. Physiol. 591: 5491-5508 (2013)
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"Activity-dependent changes in extracellular Ca2+ and K+ reveal pacemakers in the spinal locomotor-related network"
Brocard, F., Shevtsova, N. A., Bouhadfane, M., Tazerart, S., Heinemann, U., Rybak, I. A., and Vinay, L.
Neuron 77: 1047-1054 (2013)
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"Sodium and calcium mechanisms of rhythmic bursting in excitatory neural networks of the pre-Botzinger complex: a computational modelling study"
Jasinski, P. E., Molkov, Y. I., Shevtsova, N. A., Smith, J. C., and Rybak, I. A.
Eur. J Neurosci. 37: 212-230 (2013)
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"Control of breathing by interacting pontine and pulmonary feedback loops"
Molkov, Y. I., Bacak, B. J., Dick, T. E., and Rybak, I. A.
Front. Neural Circuits 7:16 (2013)
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"Brainstem respiratory networks: building blocks and microcircuits"
Smith, J. C., Abdala, A. P., Borgmann, A., Rybak, I. A., and Paton, J. F.
Trends Neurosci. 36: 152-162 (2013)
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2012

"Neuronal activity in the isolated mouse spinal cord during spontaneous deletions in fictive locomotion: Insights into locomotor CPG organization"
Zhong, G., Shevtsova, N. A., Rybak I. A., and Harris-Warrick, R. M.
J. Physiol. 590: 4735-4759 (2012)
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"Motoneuronal and muscle synergies involved in cat hindlimb control during fictive and real locomotion: a comparison study"
Markin, S. N., Lemay, M. A., Prilutsky, B. I., and Rybak, I. A.
J. Neurophysiol. 107: 2057-2071 (2012)
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"Computational models and emergent properties of respiratory neural networks"
Lindsey, B. G., Rybak, I. A., and Smith, J. C.
Compr. Physiol. 2: 1619-1670 (2012)
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"Modeling the autonomic nervous system"
Rybak, I. A., Molkov, Y. I., Paton, J. F. R., Abdala, A. P. L., and Zoccal, D. B.
In: Primer on the Autonomic Nervous System, 3rd Ed. D. Robertson, I. Biagioni, G. Burnstock, P. A. Lowe and J. F. R. Paton (eds.). Oxford: Academic Press, pp. 681-687 (2012)
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2011

"A dynamical systems analysis of afferent control in a neuromechanical model oflocomotion: I. Rhythm generation"
Spardy, L. E, Markin, S. N, Shevtsova, N. A, Prilutsky, B. I., Rybak, I. A., and Rubin, J. E.
J. Neural Eng. 8: 065003 (16 pp) (2011)
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"A dynamical systems analysis of afferent control in a neuromechanical model oflocomotion: II. Phase asymmetry"
Spardy, L. E, Markin, S. N, Shevtsova, N. A, Prilutsky, B. I., Rybak, I. A., and Rubin, J. E.
J. Neural Eng. 8: 065004 (19 pp) (2011)
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"Computational modelling of 5-HT receptor-mediated reorganization of the brainstem respiratory network"
Shevtsova, N. A., Manzke, T., Molkov, Y. I., Bischoff, A., Smith, J. C., Rybak. I. A., and Richter, D. W.
Eur. J. Neurosci. 34:1276-1291 (2011)
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"Intermittent hypoxia-induced sensitization of central chemoreceptors contributes to sympathetic nerve activity during late expiration in rats"
Molkov, Y. I., Zoccal, D. B., Moraes, D. J., Paton, J. F., Machado, B. H., and Rybak, I. A.
J. Neurophysiol. 105: 3080-3091 (2011)
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"Interacting oscillations in neural control of breathing: modeling and qualitative analysis"
Rubin, J. E., Bacak, B. J., Molkov, Y. I., Shevtsova, N. A., Smith J. C., and Rybak, I. A.
J. Comput. Neurosci. 30: 607-6322 (2011)
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"Vagal-dependent nonlinear variability in the respiratory pattern of anesthetized, spontaneously breathing rats"
Dhingra, R. R., Jacono, F. J., Fishman, M., Loparo, K. A., Rybak, I. A., Dick, T. E.
J. Appl. Physiol. 111:272-284 (2011)
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2010

"Afferent control of locomotor CPG: Insights from a simple neuro-mechanical model"
Markin S. N., Klishko, A. N., Shevtsova, N. A., Lemay, M. A., Prilutsky, B. I., and Rybak, I. A.
Ann. NY Acad. Sci. 1198: 21-34 (2010)
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"Late-expiratory activity: emergence and interactions with the respiratory CPG"
Molkov, Y.I., Abdala, A. P., Bacak, B. J., Smith, J. C., Paton J. F. R., and Rybak, I. A.
J. Neurophysiol. 104: 2713-2729 (2010)
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"Effect of baroreceptor stimulation on the respiratory pattern: Insights into respiratory-sympathetic interactions"
Baekey, D. M., Molkov, Y.I., Paton J. F., Rybak, I. A., and Dick, T. E.
Respir. Physiol Neurobiol. 174: 135-145 (2010)
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2009

"Control of oscillation periods and phase durations in half-center central pattern generators: a comparative mechanistic analysis"
Daun, S., Rubin, J. E., and Rybak, I. A.
J. Comput. Neurosci. 27: 3-36 (2009)
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"Computational modeling of the respiratory network"
Rybak, I. A., and Smith, J. C.
In: Encyclopedia of Neuroscience (Eds. Binder MD, Hirokawa N, Windhorst U, Hirsch MC et al.). Springer-Verlag: Berlin, Heidelberg, pp. 824-832 (2009)
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"Multiple rhythmic states in a model of the respiratory CPG"
Rubin, J. E., Shevtsova, N. A., Ermentrout, G. B., Smith, J. C., and Rybak, I. A.
J. Neurophysiol. 101: 2146-2165 (2009)
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"Abdominal expiratory activity in the rat brainstem-spinal cord in situ: patterns, origins, and implications for respiratory rhythm generation"
Abdala, A. P. L., Rybak, I. A., Smith, J. C., and Paton, J. F. R.
J. Physiol., 587: 3539-3559 (2009)
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"Multiple pontomedullary mechanisms of respiratory rhythmogenesis"
Abdala, A. P. L., Rybak, I. A., Smith, J. C., Zoccal, D. B., Machado, B. H., St-John, W. M., and Paton, J. F. R.
Respir. Physiol. Neurobiol. 168:19-25 (2009)
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"Structural and functional architecture of respiratory networks in the mammalian brainstem"
Smith, J. C., Abdala, A. P. L., Rybak, I. A., and Paton, J. F. R.
Phil. Trans. Royal Soc. B 364: 2577-2587 (2009)
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"Learning to breathe: A shift in the control of the inspiratory-expiratory phase transition from sensory- to centrally-dominated mechanisms during postnatal development in rats"
Dutschmann, M., Morschel, M., Rybak, I. A., and Dick, T. E.
J. Physiol. 587: 4931-4948 (2009)

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2008

"Organization of mammalian locomotor rhythm and pattern generation"
McCrea, D. A., and Rybak I. A.
Brain Res. Reviews, 57: 134-146 (2008)
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"Reconfiguration of the pontomedullary respiratory network: a computational modeling study with coordinated in vivo experiments"
Rybak, I. A., OConnor, R., Ross, A., Shevtsova, N. A., Nuding, S. C., Segers, L. S., Shannon, R., Dick, T. E., Dunin-Barkowski, W. L., Orem J. M., Solomon, I. C., Morris, K. F., and Lindsey, B. G.
J. Neurophysiol. 100: 1770-1791 (2008)
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2007

"Modeling the mammalian locomotor CPG: insights from mistakes and perturbations"
McCrea, D. A., and Rybak, I. A.
Prog. Brain Res. 165: 235-253 (2007)
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"Spatial and functional architecture of the mammalian brainstem respiratory network: a hierarchy of three oscillatory mechanisms"
Smith, J. C., Abdala, A. P. L., Koizumi, H., Rybak, I. A., and Paton, J. F. R.
J. Neurophysiol. 98: 3370-3387 (2007)
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"Spatial organization and state-dependent mechanisms for respiratory rhythm and pattern generation"
Rybak, I. A., Abdala, A. P. L., Markin, S. N., Paton, J. F. R., and Smith, J. C.
Prog. Brain Res. 165: 201-220 (2007)
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2006

"Modelling spinal circuitry involved in locomotor pattern generation: insights from deletions during fictive locomotion"
Rybak, I. A., Shevtsova, N. A., Lafreniere-Roula, M., and McCrea, D. A.
J. Physiol. 577: 617-639 (2006)
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"Modelling spinal circuitry involved in locomotor pattern generation: insights from the effects of afferent stimulation"
Rybak, I. A., Stecina, K., Shevtsova, N. A., and McCrea, D. A.
J. Physiol. 577: 641-658 (2006)
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1997-2005

"Attention-guided recognition based on what and where representations: A behavioral model"
Rybak, I. A., Gusakova, V. I., Golovan, A. V., Podladchikova, L. N., and Shevtsova, N. A.
In: Neurobiology of Attention (Eds. Itti, L., Rees, G. and Tsotsos, J.). Elsevier Acad. Press, pp. 663-670 (2005)
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"Respiratory rhythm entrainment by somatic afferent stimulation"
Potts, J. T., Rybak, I. A., and Paton, J. F. R.
J. Neurosci. 25: 1965-1978 (2005)
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"Modeling the ponto-medullary respiratory network"
Rybak, I. A., Shevtsova, N. A., Paton, J. F. R., Dick, T. E., St-John, W. M., Morschel, M., and Dutschmann, M.
Respir. Physiol. Neurobiol. 143: 307-319 (2004)
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"Intrinsic bursting activity in the pre-Botzinger Complex: Role of persistent sodium and potassium currents"
Rybak, I. A., Shevtsova, N. A., Ptak, K., and McCrimmon D. R.
Biol. Cybern. 90: 59-74 (2004)
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"Modeling the spinal cord neural circuitry controlling cat hindlimb movement during locomotion" [available upon request]
Ivashko, D. G., Prilutsky, B. I., Markin, S. N., Chapin, J. K., and Rybak, I. A.
Neurocomputing 52-54: 621-629 (2003)

"Computational modeling of bursting pacemaker neurons in the pre-Botzinger complex"
Shevtsova, N. A., Ptak, K., McCrimmon, D. R., and Rybak, I. A.
Neurocomputing 52-54: 933-942 (2003)
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"Sodium currents in neurons from the rostroventrolateral medulla of the rat"
Rybak, I. A., Ptak, K., Shevtsova, N. A., and McCrimmon, D. R.
J. Neurophysiol. 90: 1635-1642 (2003)
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"Endogenous rhythm generation in the pre-Botzinger complex and ionic currents: Modelling and in vitro studies"
Rybak, I. A., Shevtsova, N. A., St.-John, W. M., Paton, J. F.R., and Pierrefiche, O.
Eur. J. Neurosci. 18: 239-257 (2003)
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"Modeling neural control of locomotion: Integration of reflex circuits with CPG"
Rybak, I. A., Ivashko, D. G., Prilutsky, B. I., Lewis, M. A., and Chapin J. K.
In: Artificial Neural Networks. Lect. Notes Comp. Sci. 2415 (Ed. Dorronsoro, J. R.). Springer, pp. 99-104 (2002)
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"Potential switch from eupnea to fictive gasping after blockade of inhibitory transmission and potassium channels"
St.-John, W. M., Rybak, I. A., and Paton, J. F. R.
Am. J. Physiol. (Regul Integr Comp Physiol) 283: R721-R731 (2002)
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"Influence of carbon dioxide and oxygen upon gasping in perfused rat preparation"
St.-John, W. M., and Rybak, I. A.
Respir. Physiol. 129:279-287 (2002)

"Generation of the respiratory rhythm: state-dependency and switching"
Rybak, I. A., Paton, J. F. R., Rogers, R. F., and St. John, W. M.
Neurocomputing 44-46: 603-612 (2002)

"Neurobiological and neurorobotic approaches to control architectures for a humanoid motor system"
Giszter, S. F., Moxon, K. A., Rybak, I. A., and Chapin, J. K.
Robotics and Autonomous Systems 37: 219-235 (2001)

"A neurobiological perspective on humanoid robot design"
Giszter, S. F., Moxon, K. A., Rybak, I. A., and Chapin, J. K.
IEEE Intelligent Systems 15: 64-69 (2000)

"Computational modeling of the baroreflex arc: nucleus tractus solitarius"
Rogers, R. F., Rybak, I. A., and Schwaber, J. S.
Brain Res. Bull. 51: 139-150 (2000)
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"A model of attention-guided visual perception and recognition"
Rybak, I. A., Gusakova, V. I., Golovan, A. V., Podladchikova, L. N., and Shevtsova, N. A.
Vision Research 38: 2387-2400 (1998)
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"Modeling neural mechanisms for genesis of respiratory rhythm and pattern: I. Models of respiratory neurons"
Rybak, I. A., Paton, J. F. R., and Schwaber, J. S.
J. Neurophysiol. 77: 1994-2006 (1997)
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"Modeling neural mechanisms for genesis of respiratory rhythm and pattern: II. Network models of the central respiratory pattern generator"
Rybak, I. A., Paton, J. F. R., and Schwaber, J. S.
J. Neurophysiol. 77: 2007-2026 (1997)
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"Modeling neural mechanisms for genesis of respiratory rhythm and pattern: III. Comparison of model performances during afferent nerve stimulation"
Rybak, I. A., Paton, J. F. R., and Schwaber, J. S.
J. Neurophysiol. 77: 2027-2039 (1997)
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"Neuronal modeling of the baroreceptor vagal reflex with applications in process modeling and control"
Doyle III, F. J., Henson, M. A., Ogunnaike, B. A., Schwaber, J. S., and Rybak, I. A.
In: Neural Systems for Control (Eds. Omidvar, O. and Elliott, D. L.). Academic Press, pp. 87-127 (1997)

"A neuro-mimetic dynamic scheduling algorithm for control: analysis and applications"
Kwatra, H. S., Doyle III, F. J., Rybak, I. A., and Schwaber, J. S.
Neural Comput. 9: 479-502 (1997)

 
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theoretical and computational neuroscience research