Selected Publications



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

2017

  • Kim, T, Hamade, K. C., Todorov, D., Barnett, W. H., Capps, R. A., Latash, E. M., Markin, S. N., Rybak, I. A., and Molkov, Y. I. (2017) Reward based motor adaptation mediated by basal ganglia. Front. Comput. Neurosci. 11:19. [PDF]
  • Teka, W. W., Hamade, K. C., Barnett, W. H., Kim, T., Markin S. N., Rybak, I. A., and Molkov, Y. I. (2017) From the motor cortex to the movement and back again. PLoS One. 12(6): e0179288. [PDF]
  • Molkov, Y. I., Rubin, J. E., Rybak, I. A., and Smith, J.C. (2017) Computational models of the neural control of breathing. WIREs Syst. Biolol. Med., 9 (2), e1371 [PDF]
  • Barnett, W. H., Abdala, A. P., Paton, J. F., Rybak, I. A., Zoccal, D. B., and Molkov, Y. I.(2017). Chemoreception and neuroplasticity in respiratory circuits. Exp. Neurol., 287: 153-154. [PDF]

2016

  • Danner, S. M., Wilshin, S. D., Shevtsova, N. A., and Rybak, I. A. (2016). Central control of interlimb coordination and speed-dependent gait expression in quadrupeds. J. Physiol., 594: 6947-6967. [PDF]
  • Shevtsova N. A., and Rybak, I. A. (2016) Organization of flexor-extensor interactions in the mammalian spinal cord: insights from computational modelling. J. Physiol., 594: 6117-6131. [PDF]
  • 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. (2016). Perturbations of respiratory rhythm and pattern by disrupting synaptic inhibition within pre-Botzinger and Botzinger complexes. eNeuro 3(2). pii: ENEURO.0011-16.2016. [PDF]
  • Bacak, B. J., Kim, T., Smith, J. C., Rubin, J. E., and Rybak, I. A. (2016) Mixed-mode oscillations and population bursting in the pre-Botzinger complex. eLife, 5. pii: e13403 [PDF]
  • Markin, S. N., Klishko, A. N., Shevtsova N. A., Lemay M. A., Prilutsky, B. I., and Rybak, I. A. (2016) A neuromechanical model of spinal control of locomotion. In: Neuromechanical Modeling of Posture and Locomotion (Prilutsky, B. I., and Edwards, D. H., eds.). Springer, New York. pp 21-65 [PDF]
  • Shevtsova N. A., Hamade, K., Chakrabarty, S., Markin, S. N., Prilutsky, B. I., and Rybak, I. A. (2016) Modeling the organization of spinal cord neural circuits controlling two-joint muscles. In: Neuromechanical Modeling of Posture and Locomotion (Prilutsky, B. I., and Edwards, D. H., eds.). Springer, New York. pp 121-162 [PDF]

2015

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

2014

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

2013

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

2012

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

2011

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

2010

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

2009

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

2008

  • McCrea, D. A., and Rybak I. A. (2008) Organization of mammalian locomotor rhythm and pattern generation. Brain Res. Reviews 57: 134-146 [PDF]
  • 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. (2008) Reconfiguration of the pontomedullary respiratory network: a computational modeling study with coordinated in vivo experiments. J. Neurophysiol. 100: 1770-1791 [PDF]

2007

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

2006

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

1997-2005

  • Rybak, I. A., Gusakova, V. I., Golovan, A. V., Podladchikova, L. N., and Shevtsova, N. A. (2005) Attention-guided recognition based on what and where representations: A behavioral model. In: Neurobiology of Attention (Eds. Itti, L., Rees, G. and Tsotsos, J.). Elsevier Acad. Press, pp. 663-670 [PDF]
  • Potts, J. T., Rybak, I. A., and Paton, J. F. R. (2005) Respiratory rhythm entrainment by somatic afferent stimulation. J. Neurosci. 25: 1965-1978 [PDF]
  • Rybak, I. A., Shevtsova, N. A., Paton, J. F. R., Dick, T. E., St-John, W. M., Morschel, M., and Dutschmann, M. (2004) Modeling the ponto-medullary respiratory network. Respir. Physiol. Neurobiol. 143: 307-319 [PDF]
  • Rybak, I. A., Shevtsova, N. A., Ptak, K., and McCrimmon D. R. (2004) Intrinsic bursting activity in the pre-Botzinger Complex: Role of persistent sodium and potassium currents. Biol. Cybern. 90: 59-74 [PDF]
  • Ivashko, D. G., Prilutsky, B. I., Markin, S. N., Chapin, J. K., and Rybak, I. A. (2003) Modeling the spinal cord neural circuitry controlling cat hindlimb movement during locomotion. Neurocomputing 52-54: 621-629 [PDF]
  • Shevtsova, N. A., Ptak, K., McCrimmon, D. R., and Rybak, I. A. (2003) Computational modeling of bursting pacemaker neurons in the pre-Botzinger complex. Neurocomputing 52-54: 933-942 [PDF]
  • Rybak, I. A., Ptak, K., Shevtsova, N. A., and McCrimmon, D. R. (2003) Sodium currents in neurons from the rostroventrolateral medulla of the rat. J. Neurophysiol. 90: 1635-1642 [PDF]
  • Rybak, I. A., Shevtsova, N. A., St.-John, W. M., Paton, J. F.R., and Pierrefiche, O. (2003) Endogenous rhythm generation in the pre-Botzinger complex and ionic currents: Modelling and in vitro studies. Eur. J. Neurosci. 18: 239-257 [PDF]
  • Rybak, I. A., Ivashko, D. G., Prilutsky, B. I., Lewis, M. A., and Chapin J. K. (2002) Modeling neural control of locomotion: Integration of reflex circuits with CPG. In: Artificial Neural Networks. Lect. Notes Comp. Sci. 2415 (Ed. Dorronsoro, J. R.). Springer, pp. 99-104 [PDF]
  • St.-John, W. M., Rybak, I. A., and Paton, J. F. R. (2002) Potential switch from eupnea to fictive gasping after blockade of inhibitory transmission and potassium channels. Am. J. Physiol. (Regul Integr Comp Physiol) 283: R721-R731 [PDF]
  • St.-John, W. M., and Rybak, I. A. (2002) Influence of carbon dioxide and oxygen upon gasping in perfused rat preparation. Respir. Physiol. 129:279-287.
  • Rybak, I. A., Paton, J. F. R., Rogers, R. F., and St. John, W. M. (2002) Generation of the respiratory rhythm: state-dependency and switching. Neurocomputing 44-46: 603-612.
  • Giszter, S. F., Moxon, K. A., Rybak, I. A., and Chapin, J. K. (2001) Neurobiological and neurorobotic approaches to control architectures for a humanoid motor system. Robotics and Autonomous Systems 37: 219-235
  • Giszter, S. F., Moxon, K. A., Rybak, I. A., and Chapin, J. K. (2000) A neurobiological perspective on humanoid robot design. IEEE Intelligent Systems 15: 64-69
  • Rogers, R. F., Rybak, I. A., and Schwaber, J. S. (2000) Computational modeling of the baroreflex arc: nucleus tractus solitarius. Brain Res. Bull. 51: 139-150 [PDF]
  • Rybak, I. A., Gusakova, V. I., Golovan, A. V., Podladchikova, L. N., and Shevtsova, N. A. (1998) A model of attention-guided visual perception and recognition. Vision Research 38: 2387-2400 [PDF]
  • Rybak, I. A., Paton, J. F. R., and Schwaber, J. S. (1997) Modeling neural mechanisms for genesis of respiratory rhythm and pattern: I. Models of respiratory neurons. J. Neurophysiol. 77: 1994-2006 [PDF]
  • Rybak, I. A., Paton, J. F. R., and Schwaber, J. S. (1997) Modeling neural mechanisms for genesis of respiratory rhythm and pattern: II. Network models of the central respiratory pattern generator. J. Neurophysiol. 77: 2007-2026 [PDF]
  • Rybak, I. A., Paton, J. F. R., and Schwaber, J. S. (1997) Modeling neural mechanisms for genesis of respiratory rhythm and pattern: III. Comparison of model performances during afferent nerve stimulation. J. Neurophysiol. 77: 2027-2039 [PDF]
  • Doyle III, F. J., Henson, M. A., Ogunnaike, B. A., Schwaber, J. S., and Rybak, I. A. (1997) Neuronal modeling of the baroreceptor vagal reflex with applications in process modeling and control. In: Neural Systems for Control (Eds. Omidvar, O. and Elliott, D. L.). Academic Press, pp. 87-127
  • Kwatra, H. S., Doyle III, F. J., Rybak, I. A., and Schwaber, J. S. (1997) A neuro-mimetic dynamic scheduling algorithm for control: analysis and applications. Neural Comput. 9: 479-502