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Stefan Rotter

Faculty

 

    rotter.jpgProf. Dr. Stefan Rotter
    Professor of Computational Neuroscience
    Director, Bernstein Center Freiburg
    Faculty of Biology
    University of Freiburg
    Hansastr. 9a
    79104 Freiburg, Germany
    Tel.: +49 (0)761 203 9316
    Fax: +49 (0)761 203 9559 
     


 Principal Investigator in

 

 Research Topics

  • computational neuroscience & brain theory
  • relations between structure, dynamics & function in neuronal networks
  • spiking activity dynamics in recurrent networks
  • dynamic ensemble coding in structured networks
     

 Techniques

  • stochastic modeling of neuronal activity (e.g. stochastic point processes)
  • stochastic modeling of neuronal networks (e.g. generalized random graphs)
  • advanced statistical data analysis (e.g. higher-order correlations)
  • large-scale numerical simulations
     

CV

Academic Background

  • 2003: Habilitation in Neurobiology/Biophysics, thesis: Dynamics and Coding in Spiking Networks of the Neocortex - A Computational Neuroscience Approach
  • 1994: PhD (Dr. rer. nat.) in Physics, thesis: Interacting stochastic point processes as a model for neuronal activity in the mammalian neocortex
  • 1989 - 1992: PhD studies in Neuroscience, Max Planck Institute for Biological Cybernetics and University of Tübingen
  • 1989: Diploma (MSc) in Mathematics, University of Hamburg
  • 1982 - 1989: Studies in Mathematics and Physics, University of Regensburg (Germany), Brandeis University Waltham (USA) and University of Hamburg (Germany)
     

 Research Positions

  • since November 2010: Member of the Board of Directors of the Bernstein Center Freiburg
  • since April 2008: Professor for Computational Neuroscience
    Faculty of Biology & Bernstein Center Freiburg, University of Freiburg
  • October 2005: Founding member of the Bernstein Center for Computational Neuroscience Freiburg
  • 2002 – 2008: Staff Scientist for Theoretical and Computational Neuroscience
    Institute for Frontier Areas of Psychology and Mental Health, Freiburg
    Senior Scientist and Lecturer
    Faculty of Biology, University of Freiburg
  • 1996 – 2002: Assistant Professor for Theoretical Neurobiology and Biophysics
    Faculty of Biology, University of Freiburg
  • 1993 – 1996: Research Associate for Neuroscience
    Max Planck Institute for Developmental Biology, Tübingen

Professional Activities

  • 2010 – present: Editor of journal special issues and books in computational neuroscience
  • 2003 – present: Co-organizer and faculty of the annual course “Analysis and Models in Neurophysiology” (sponsored by the German Neuroscience Society, NWG)
  • 2001: Member of the scientific board for the “7th Annual Symposium of the German-American Frontiers of Science (GAFOS)” (Alexander von Humboldt-Stiftung and National Academy of Sciences)
  • 2000 and 2006: Faculty at the “Advanced Course for Computational Neuroscience”
  • 1999 – present: Co-organizer of symposia and conferences in Computational Neuroscience
  • 1998 – present: Coordinator or principal investigator of national and international research grants, funded by German Ministry of Education and Research (BMBF), German Research Foundation (DFG), German-Israeli Project Cooperation (DIP), and German-Israeli Foundation (GIF)
  • 1996 – present: Developing lectures and courses in the graduate program Computational Neuroscience
  • 1993 – present: Ad hoc referee for various journals in systems neuroscience, computational neuroscience, and physics
     

 Research Interests

My Computational Neuroscience Laboratory comprises a team of theoreticians from mathematics, physics, biology and various engineering sciences. We are interested in the relations between structure, dynamics and function of the neuronal networks of the brain, with a specific focus is on the mammalian neocortex. Our work involves modeling and data analysis of (i) multi-scale neuronal network topology, (ii) spiking activity dynamics of recurrent networks, and (iii) biological function of neuronal networks. Mathematical (deterministic and stochastic) as well as computational methods (large-scale numerical simulations) are employed. The goal is to develop a theory of the brain. 

 

Publications

Articles in Journals

2014

  • Yim MY, Kumar A, Aertsen A, Rotter S
    Impact of correlated inputs to neurons: Modeling observations from in vivo intracellular recordings
    Journal of Computational Neuroscience, accepted
  • Sadeh S, Cardanobile S, Rotter S
    Mean-field analysis of orientation selectivity in inhibition-dominated networks of spiking neurons
    arXiv:1401.4668 [q-bio.NC], 2014 (pdf)
  • Kriener B, Helias M, Rotter S, Diesmann M, Einevoll GT
    How pattern formation in ring networks of excitatory and inhibitory spiking neurons depends on the input current regime
    Frontiers in Computational Neuroscience 7: 187, 2014 (pdf)

2013

  • Sadeh S, Rotter S
    Statistics and geometry of orientation selectivity in primary visual cortex
    Biological Cybernetics, published online (pdf | synopsis)
  • Pernice V, Deger M, Cardanobile S, Rotter S
    The relevance of network micro-structure for neural dynamics
    Frontiers in Computational Neuroscience 7: 72, 2013 (pdf | synopsis)
  • Reimer ICG, Staude B, Boucsein C, Rotter S
    A new method to infer higher-order spike correlations from membrane potentials
    Journal of Computational Neuroscience 35(2): 169-186, 2013 (pdf | synopsis)
  • Yim M-Y, Aertsen A, Rotter S
    Impact of intrinsic biophysical diversity on the activity of spiking neurons
    Physical Review E 87: 032710, 2013 (pdf | synopsis)
  • Pernice V, Rotter S
    Reconstruction of sparse connectivity in neural networks from spike train covariances
    Journal of Statistical Mechanics P03008, 2013 (pdf | synopsis)

2012

  • Ambard M, Rotter S
    Support vector machine using synaptic kernels for spike pattern classification
    Frontiers in Computational Neuroscience 6: 78, 2012 (pfd | synopsis)
  • Deger M, Helias M, Rotter S, Diesmann M
    Spike-timing dependence of structural plasticity explains cooperative synapse formation in the neocortex
    PLoS Computational Biology 8(9): e1002689, 2012 (pdf | synopsis)
  • Cardanobile S, Pernice V, Deger M, Rotter S
    Inferring general relations between network characteristics from specific network ensembles
    PLoS ONE 7(6): e37911, 2012 (pdf | synopsis)
  • Reimer I, Staude B, Ehm W, Rotter S
    Modeling and analyzing higher-order correlations in non-Poissonian spike trains
    Journal of Neuroscience Methods 208: 18–33, 2012 (pdf | synopsis)
  • Pernice V, Staude B, Cardanobile S, Rotter S
    Recurrent interactions in spiking networks with arbitrary topology
    Physical Review E 85: 031916, 2012 (pdf | synopsis)
     

2011

  • Deger M, Helias M, Boucsein C, Rotter S
    Statistical properties of superimposed stationary spike trains
    Journal of Computational Neuroscience 32(3): 443-463, 2012; Epub ahead of print, 2011
  • Cardanobile S, Rotter S
    Emergent properties of interacting populations of spiking neurons
    Frontiers in Computational Neuroscience 5: 59, 2011 
  • Kumar A, Cardanobile S, Rotter S, Aertsen A
    The role of inhibition in generating and controlling Parkinson’s disease oscillations in the basal ganglia
    Frontiers in Systems Neuroscience 5: 86, 2011
  • Voges N, Aertsen A, Rotter S
    Structural models of cortical networks with long-range connectivity
    Mathematical Problems in Engineering 484812, 2011
  • Braun DA, Aertsen A, Paz R, Vaadia E, Rotter S, Mehring C
    Online adaptation and over-trial learning in macaque visuomotor control
    Frontiers in Computational Neuroscience 5: 27, 2011
  • Pernice V, Staude B, Cardanobile S, Rotter S
    How Structure Determines Correlations in Neuronal Networks
    PLoS Computational Biology 7(5): e1002059, 2011
  • Helias M, Deger M, Rotter S, Diesmann M
    Finite post synaptic potentials cause a fast neuronal response
    Focused Review, Frontiers in Neuroscience 5: 19, 2011

2010

  • Helias M, Deger M, Rotter S, Diesmann M
    Instantaneous non-linear processing by pulse-coupled threshold units
    PLoS Computational Biology 6(9): e10000929, 2010
  • Kumar A, Rotter S, Aertsen A
    Spiking activity propagation in neuronal networks - Reconciling different perspectives on neural coding
    Nature Reviews Neuroscience 11(9): 615-627, 2010
  • Deger M, Helias M, Cardanobile S, Atay F, Rotter S
    Nonequilibrium dynamics of stochastic point processes with refractoriness
    Physical Review E 82(2): 021129, 2010
  • Voges N, Schüz A, Aertsen A, Rotter S
    A modeler's view on the spatial structure of intrinsic horizontal connectivity in the neocortex
    Progress in Neurobiology 92(3): 277-292, 2010
  • Staude B, Grün S, Rotter S
    Higher-order correlations in non-stationary parallel spike trains: statistical modeling and inference
    Frontiers in Computational Neuroscience 4: 16, 2010
  • Jarvis S, Rotter S, Egert U
    Extending stability through hierarchical clusters in Echo State Networks
    Frontiers in Neuroinformatics 4: 11, 2010
  • Cardanobile S, Rotter S
    Multiplicatively interacting point processes and applications to neural modeling
    Journal of Computational Neuroscience 28(2): 267-284, 2010
  • Voges N, Guijarro C, Aertsen A, Rotter S
    Models of cortical networks with long-range patchy projections
    Journal of Computational Neuroscience 28(1): 137-154, 2010
  • Helias M, Deger M, Diesmann M, Rotter S
    Equilibrium and response properties of the integrate-and-fire neuron in discrete time
    Frontiers in Computational Neuroscience 3: 29, 2010

2009

  • Gürel T, Rotter S, Egert U
    Functional identification of biological neural networks using reservoir adaptation for point processes
    Journal of Computational Neuroscience 29(1-2): 279-299, 2010; Epub ahead of print, 2009
  • Staude B, Rotter S, Grün S
    CuBIC: cumulant based inference of higher-order correlations in massively parallel spike trains
    Journal of Computational Neuroscience 29(1-2): 327-350, 2010; Epub ahead of print, 2009
  • Grah G, Rotter S
    Von Neuronen zu Netzwerken. Mathematische Gehirnmodelle
    Biologie in unserer Zeit 39(6): 418-425, 2009
  • Rickert J, Riehle A, Aertsen A, Rotter S, Nawrot MP
    Dynamic encoding of movement direction in motor cortical neurons
    The Journal of Neuroscience 29(44): 13870-13882, 2009
  • Kriener B, Helias M, Aertsen A, Rotter S
    Correlations in spiking neuronal networks with distance dependent connections
    Journal of Computational Neuroscience 27(2): 177-200, 2009

2008

  • Helias M, Rotter S, Gewaltig M-O, Diesmann M
    Structural plasticity controlled by calcium based correlation detection
    Frontiers in Computational Neuroscience 2: 7, 2008
  • Atmanspacher H, Rotter S
    Interpreting neurodynamics: concepts and facts
    Cognitive Neurodynamics 2(4): 297-318, 2008
  • Kumar A, Rotter S, Aertsen A
    Conditions for propagating synchronous spiking and asynchronous firing rates in a cortical network model
    The Journal of Neuroscience 28(20): 5268-5280, 2008
  • Kriener B, Tetzlaff T, Aertsen A, Diesmann M, Rotter S
    Correlations and population dynamics in cortical networks
    Neural Computation 20: 2185-2226,  2008
  • Staude B, Rotter S, Grün S
    Can spike coordination be differentiated from rate covariation?
    Neural Computation 20: 1973-1999, 2008
  • Tetzlaff T, Rotter S, Stark E, Abeles M, Aertsen A, Diesmann M
    Dependence of neuronal correlations on filter characteristics and marginal spike-train statistics
    Neural Computation 20: 2133-2184, 2008
  • Nawrot MP, Boucsein C, Rodriguez Molina V, Riehle A, Aertsen A, Rotter S
    Measurement of variability dynamics in cortical spike trains
    Journal of Neuroscience Methods 169: 374-390, 2008
  • Kumar A, Schrader S, Aertsen A, Rotter S
    The high-conductance state of cortical networks
    Neural Computation 20(1): 1-43, 2008

2007

  • Gürel T, Egert U, Kandler S, De Raedt L, Rotter S
    Predicting spike activity in neuronal cultures
    In: Si J, Sun R (eds), Proceedings of the IEEE International Joint Conference on Neural Networks, Orlando, FL, 2007
  • Ehm W, Staude B, Rotter S
    Decomposition of neuronal assembly activity via empirical de-Poissonization
    Electronic Journal of Statistics 1: 473-495, 2007
  • Gürel T, De Raedt L, Rotter S
    Mining structure-activity relations in biological neural networks using NeuronRank
    Hammer B, Hitzler P (eds), Perspectives of Neural-Symbolic Integration,
    Springer-Series in Computational Intelligence, volume 77, chapter 3, 47-63, 2007
  • Shin S-L, Rotter S, Aertsen A, De Schutter E
    Stochastic description of complex and simple spike firing in cerebellar Purkinje cells
    European Journal of Neuroscience 25(3): 785-794, 2007
  • Nawrot MP, Boucsein C, Rodriguez Molina V, Aertsen A, Grün S, Rotter S
    Serial interval statistics of spontaneous activity in cortical neurons
    Neurocomputing 70: 1717-1722, 2007
  • Voges N, Aertsen A, Rotter S
    Statistical analysis of spatially embedded networks: From grid to random node positions
    Neurocomputing 70: 1833-1837, 2007
  • Gürel T, De Raedt L, Rotter S
    Ranking the neurons for mining structure-activity relations in biological neural networks: NeuronRank
    Neurocomputing 70: 1897-1901, 2007
  • Kremkow J, Kumar A, Rotter S, Aertsen A
    Emergence of population synchrony in a layered network model of the cat visual cortex
    Neurocomputing 70: 2069-2073, 2007

2006 and earlier

  • Rickert J, Cardoso de Oliveira S, Vaadia E, Aertsen A, Rotter S, Mehring C
    Encoding of movement direction in different frequency ranges of motor cortical local field potentials
    The Journal of Neuroscience
    25(39): 8815-8824, 2005
  • Boucsein C, Nawrot MP, Rotter S, Aertsen A, Heck D
    Controlling synaptic input patterns in vitro by dynamic photo stimulation
    Journal of Neurophysiology
    94(4): 2948-2958, 2005
  • Kuhn A, Aertsen A, Rotter S
    Neuronal integration of synaptic input in the fluctuation-driven regime
    The Journal of Neuroscience 24(10): 2345-2356, 2004
  • Mehring C, Rickert J, Vaadia E, Cardoso de Oliveira S, Aertsen A, Rotter S
    Inference of hand movements from local field potentials in monkey motor cortex
    Nature Neuroscience 6(12): 1253-1254, 2003
  • Gütig R, Aharonov R, Rotter S, Sompolinsky H
    Learning input correlations through nonlinear temporally asymmetric Hebbian plasticity
    The Journal of Neuroscience 23(9): 3697-3714, 2003
  • Nawrot MP, Aertsen A, Rotter S
    Elimination of response latency variability in neuronal spike trains
    Biological Cybernetics 88(5): 321-334, 2003
  • Gütig R, Aertsen A, Rotter S
    Analysis of higher-order neuronal interactions based on conditional inference
    Biological Cybernetics 88(5): 352-359, 2003
  • Mehring C, Rickert J, Cardoso de Oliveira S, Vaadia E, Aertsen A, Rotter S
    Hints for a topographic map of tuning properties in primate motor cortex
    1st International IEEE EMBS Conference on Neural Engineering 28-31, 2003
  • Kuhn A, Aertsen A, Rotter S
    Higher-order statistics of input ensembles and the response of simple model neurons
    Neural Computation 15(1): 67-101, 2003
  • Egert U, Knott T, Schwarz C, Nawrot M, Brandt A, Rotter S, Diesmann M
    MEA-Tools: an open source toolbox for the analysis of multi-electrode data with Matlab
    Journal of Neuroscience Methods 117(1): 33-42, 2002
  • Kuhn A, Rotter S, Aertsen A
    Correlated input spike trains and their effects on the response of the leaky integrate-and-fire neuron
    Neurocomputing 44-46: 121-126, 2002
  • Gütig R, Aertsen A, Rotter S
    Statistical significance of coincident spikes: Count-based versus rate-based statistics
    Neural Computation 14(1): 121-153, 2002
  • Diesmann M, Gewaltig M-O, Rotter S, Aertsen A
    State space analysis of synchronous spiking in cortical networks
    Neurocomputing 38-40: 565-571, 2001
  • Nawrot M, Aertsen A, Rotter S
    Single-trial estimation of neuronal firing rates - From single neuron spike trains to population activity
    Journal of Neuroscience Methods 94(1): 81-92, 1999
  • Rotter S, Diesmann M
    Exact digital simulation of time-invariant linear systems with applications to neuronal modeling
    Biological Cybernetics 81(5/6): 381-402, 1999
  • Reimann S, Fuster JM, Gierer A, Mayer-Kress G, Neumann T, Roelfsema P, Rotter S, Schöner G, Stephan A, Vaadia E, Walter H
    Emergent properties of natural and artificial systems
    Zeitschrift für Naturforschung 53c(7/8): 770-774, 1998
  • Rotter S, Aertsen A
    Accurate spike synchronization in cortex
    Zeitschrift für Naturforschung 53c(7/8): 686-690, 1998
  • Baier H, Rotter S, Korsching S
    Connectional topography in the zebrafish olfactory system: Random positions but regular spacing of sensory neurons projecting to an individual glomerulus
    Proceedings of the National Academy of Sciences (USA) 91: 11646-11650, 1994
  • Aertsen A, Vaadia E, Abeles M, Ahissar E, Bergman H, Karmon B, Lavner Y, Margalit E, Nelken I, Rotter S
    Dynamics of coherence in cortical neural activity: Experimental observations and functional interpretations
    International Journal of Neural Systems (Suppl.) 105-114, 1992
  • Aertsen A, Vaadia E, Abeles M, Ahissar E, Bergman H, Karmon B, Lavner Y, Margalit E, Nelken I, Rotter S
    Neural interactions in the frontal cortex of a behaving monkey: Signs of dependence on stimulus context and behavioral state
    Journal für Hirnforschung 32: 735-743, 1991
     

Books

  • Grün S, Rotter S (eds)
    Analysis of Parallel Spike Trains
    Springer Series in Computational Neuroscience, Volume 7, 2010
    ISBN 978-1-4419-5674-3
  • Rotter S
    Wechselwirkende stochastische Punktprozesse als Modell für neuronale Aktivität in Neocortex der Säugetiere
    Reihe Physik, Bd. 21
    Verlag Harri Deutsch, Thun, Frankfurt am Main, 1994
    ISBN 3-8171-1375-7

 

Book Chapters, Editorials, etc.

  • Jarvis S, Rotter S, Egert U
    Increased robustness and intermittent dynamics in structured Reservoir Networks with feedback
    European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning,
    ESANN 2011 proceedings
    , 111-116, 2011
  • Atmanspacher H, Rotter S
    On determinacy or its absence in the brain
    In: Swinburne R (ed)
    Free Will and Modern Science, 84-101
    Oxford University Press, 2011
  • Staude B, Grün S, Rotter S
    Higher-order correlations and cumulants
    In: Grün S, Rotter S (eds)
    Analysis of Parallel Spike Trains
    Springer Series in Computational Neuroscience, Volume 7, 2010
  • Cardanobile S, Rotter S
    Simulation of stochastic point processes with defined properties
    In: Grün S, Rotter S (eds)
    Analysis of Parallel Spike Trains
    Springer Series in Computational Neuroscience, Volume 7, 2010
  • Fukai T, Ikegaya Y, Rotter S
    Analysis and modeling of massively parallel neural signals
    Neural Networks, Special Issue 23(6): 667-668, 2010
  • Aertsen A, Diesmann M, Gewaltig M-O, Grün S, Rotter S
    Neural Dynamics in Cortical Networks – Precision of Joint-Spiking Events
    In: Complexity in Biological Information Processing, 193-207
    Wiley, Chichester, 2001
  • Rotter S, Aertsen A
    Cortical Dynamics – Experiments and Models
    Lehnertz K, Arnhold J, Grassberger P, Elger CE (eds) Chaos in Brain? 3-12
    World Scientific, Singapore, 2000
  • Grün S, Rotter S
    Concepts of Neuronal Cooperativity in the Cortex
    In: Elsner N, Eysel U (eds) From Molecular Neurobiology to Clinical Neuroscience, 358-363
    Thieme, Stuttgart, 1999
  • Aertsen A, Diesman M, Gewaltig M-O, Heck D, Rotter S
    Dynamische Organisation von Hirnaktivität – Mechanismen und Funktion
    In: Experimentelle und theoretische Hirnforschung: II. Sinneswahrnehmung, sensomotorische Koordination, neuronale Informationsverarbeitung
    Freiburger Universitätsblätter 135: 93-115
    Rombach, Freiburg, 1997
  • Rotter S
    Biophysical Aspects of Cortical Networks
    In: Torre V, Conti F (eds) Proceedings of the NATO ASI: Neurobiology – Ionic Channels, Neurons, and the Brain, 355-369
    Plenum, New York, 1996
  • Rotter S, Heck D, Aertsen A
    Spatio-temporal patterns of activity in cortical networks
    In: Bower JM (ed) Computational Neuroscience – Trends in Research 1995, 261-266
    Academic Press, San Diego, 1996
  • Rotter S, Aertsen A
    A point process approach to cortical networks
    In: Kappen B, Gielen S (eds) Neural Networks: Artificial Intelligence and Industrial Applications, 59-62
    Springer, Berlin, Heidelberg, New York, 1995
  • Rotter S, Aertsen A, Vaadia E
    Neuronal interaction in the cortex – quantitative characterization by cross-interval statistics
    In: Aertsen A (ed) Brain Theory: Spatio-Temporal Aspects of Brain Function, 231-239
    Elsevier, Amsterdam, 1993
  • Heck D, Rotter S, Aertsen A
    Spike generation in cortical neurons: Probabilistic threshold function shows intrinsic and long-lasting dynamics
    In: Aertsen A (ed) Brain Theory: Spatio-Temporal Aspects of Brain Function, 241-249
    Elsevier, Amsterdam, 1993
  • Hellwig B, Rotter S
    On the relation between cyto- and myeloarchitectonics in the human cerebral cortex
    In: Aertsen A (ed) Brain Theory: Spatio-Temporal Aspects of Brain Function, 281-289
    Elsevier, Amsterdam, 1993

Patents

  • Aertsen A, Boucsein C, Heck D, Nawrot M, Rotter S
    Dynamic Simultaneous Multisite Photostimulation (DSMP)
    Patent No. ZEE20050629 with German Patent and Trade Mark Office (GPTO)
    Patent No. 05.019878.7 with European Patent Office (EPO)

 

 

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