Publications of B.

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63 publication entries, 40 of them (printed in bold in the list) acknowledge the project support.
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Paper (reviewed)

Auffarth et al. 2011	Auffarth, B., Kaplan, B. and Lansner, A.	Map formation in the olfactory bulb by axon guidance of olfactory neurons	Front Syst Neurosci (2011) 5:84 doi:10.3389/fnsys.2011.00084	fulltext
Bopp et al. 2014	Bopp, R., Maçarico da Costa, N., Kampa, B.M., Martin, K.A. and Roth M.M.	Pyramidal cells make specific connections onto smooth (GABAergic) neurons in mouse visual cortex	PLoS Biol. (2014) 12(8):e1001932 doi:10.1371/journal.pbio.1001932	abstract, fulltext
Brüderle et al. 2011	Brüderle, D., Petrovici, M. A., Vogginger, B., Ehrlich, M., Pfeil, T., Millner, S., Grübl, A., Wendt, K., Müller, E., Schwartz, M.-O., de Oliveira, D. H., Jeltsch, S., Fieres, J., Schilling, M., Müller, P., Breitwieser, O., Petkov, V., Muller, L., Davison, A. P., Krishnamurthy, P., Kremkow, J., Lundqvist, M., Muller, E., Partzsch, J., Scholze, S., Zühl, L., Mayr, C., Destexhe, A., Diesmann, M., Potjans, T. C., Lansner, A., Schüffny, R., Schemmel, J. and Meier, K.	A comprehensive workflow for general-purpose neural modeling with highly configurable neuromorphic hardware systems	Biological Cybernetics (2011) 104(4-5): 263-296 doi:10.1007/s00422-011-0435-9	abstract, fulltext
Buesing 2011	Buesing, L., Bill, J., Nessler, B. and Maass, W.	Neural Dynamics as Sampling: A Model for Stochastic Computation in Recurrent Networks of Spiking Neurons	PLoS Comput Biol (2011) 7(11): e1002211 doi:10.1371/journal.pcbi.1002211	fulltext
Cessac 2011	Cessac, B.	Statistics of spike trains in conductance-based neural networks: Rigorous results	The Journal of Mathematical Neuroscience (2011) 1:1-42 doi:10.1186/2190-8567-1-8	fulltext, BibTeX
Cessac and Cofre 2013	Cessac, B. and Cofre, R.	Spike train statistics and Gibbs distributions	Journal of Physiology-Paris (2013) 107(5): 360-368 doi:10.1016/j.jphysparis.2013.03.001	fulltext
Cofré and Cessac 2012	Cofré, R. and Cessac, B.	Dynamics and spike trains statistics in conductance-based Integrate-and-Fire neural networks with chemical and electric synapses	Chaos, Solitons & Fractals (2013) 50: 13-31 doi:10.1016/j.chaos.2012.12.006	fulltext
Dagnino et al. 2015	Dagnino, B., Gariel-Mathis, M.-A. and Roelfsema, P. R.	Microstimulation of area V4 has little effect on spatial attention and on the perception of phosphenes evoked in area V1	Journal of Neurophysiology (2015) 113(3): 730-739 doi:10.1152/jn.00645.2014	abstract
DeFelipe et al. 2013	DeFelipe, J., Lopez-Cruz, P.L., Benavides-Piccione, R., Bielza, C., Larranaga, P., Anderson, S., Burkhalter, A., Cauli, B., Fairen, A., Feldmeyer, D., Fishell, G., Fitzpatrick, D., Freund, T.F., Gonzalez-Burgos, G., Hestrin, S., Hill, S., Hof, P.R., Huang, J., Jones, E.G., Kawaguchi, Y., Kisvarday, Z., Kubota, Y., Lewis, D.A., Marin, O., Markram, H., McBain, C.J., Meyer, H.S., Monyer, H., Nelson, S.B., Rockland, K., Rossier, J., Rubenstein, J.L.R., Rudy, B., Scanziani, M., Shepherd, G.M., Sherwood, C.C., Staiger, J.F., Tamas, G., Thomson, A., Wang, Y., Yuste, R. and Ascoli, G.A.	New insights into the classification and nomenclature of cortical GABAergic interneurons	Nature Reviews Neuroscience (2013) 14: 202-216 doi:10.1038/nrn3444	(fulltext)
Dehghani et al. 2012	Dehghani, N., Hatsopoulos, N.G., Haga, Z.D., Parker, R.A., Greger, B., Halgren, E., Cash, S.S., and Destexhe, A.	Avalanche analysis from multielectrode ensemble recordings in cat, monkey, and human cerebral cortex during wakefulness and sleep	Frontiers in Physiology (2012) 3: 302 doi:10.3389/fphys.2012.00302	abstract, fulltext
Devor et al. 2013	Devor, A., Bandettini, P., Boas, D., Bower, J., Buxton, R., Cohen, L., Dale, A., Einevoll, G., Fox, P., Franceschini, M., Friston, K., Fujimoto, J., Geyer, M., Greenberg, J., Halgren, E., Hamalainen, M., Helmchen, F., Hyman, B., Jasanoff, A., Jernigan, T., Judd, L., Kim, S.-G., Kleinfeld, D., Kopell, N., Kutas, M., Kwong, K., Larkum, M., Lo, E., Magistretti, P., Mandeville, J., Masliah, E., Mitra, P., Mobley, W., Moskowitz, M., Nimmerjahn, A., Reynolds, J., Rosen, B., Salzberg, B., Schaffer, C., Silva, G., So, P., Spitzer, N., Tootell, R., Essen, D. V., Vanduffel, W., Vinogradov, S., Wald, L., Wang, L., Weber, B. and Yodh, A.	The challenge of connecting the dots in the B.R.A.I.N.	Neuron (2013) 80: 270-274 doi:10.1016/j.neuron.2013.09.008	abstract
Faye et al. 2013	Faye, G., Rankin, J. and Lloyd, D. J. B.	Localized radial bumps of a neural field equation on the Euclidean plane and the Poincaré disk	Nonlinearity (2013) : 26 doi:10.1088/0951-7715/26/2/437	abstract, BibTeX
Indiveri et al. 2011	Indiveri, G., Linares-Barranco, B., Hamilton, T. J., van Schaik, A., Etienne-Cummings, R., Delbruck, T., Liu, S.-C., Dudek, P., Häfliger, P., Renaud, S., Schemmel, J., Cauwenberghs, G., Arthur, J., Hynna, K., Folowosele, F., Saïghi, S., Serrano-Gotarredona, T., Wijekoon, J., Wang, Y. and Boahen, K.	Neuromorphic silicon neuron circuits	Front. Neurosci. (2011) 5:73 doi:10.3389/fnins.2011.00073	fulltext
Kaplan and Lansner 2014	Kaplan, B.A. and Lansner, A.	A spiking neural network model of self-organized pattern recognition in the early mammalian olfactory system	Front. Neural Circuits (2014) 8:5 doi:10.3389/fncir.2014.00005	abstract
Kaplan et al. 2013	Kaplan, B.A., Lansner, A., Masson, G.S. and Perrinet, L.U.	Anisotropic connectivity implements motion-based prediction in a spiking neural network	Front. Comput. Neurosci. (2013) 7:112 doi:10.3389/fncom.2013.00112
Kaplan Khoei et al 2014	Kaplan, B.A., Khoei, M.A., Lansner, A. and Perrinet, L.U.	Signature of an anticipatory response in area V1 as modeled by a probabilistic model and a spiking neural network	International Joint Conference on Neural Networks (IJCNN) (2014) : 3205-3212 doi:10.1109/IJCNN.2014.6889847	abstract
Kappel et al 2014	Kappel, D., Nessler, B. and Maass, W.	STDP installs in winner-take-all circuits an online approximation to hidden Markov model learning	PLOS Computational Biology (2014) 10(3):e1003511 doi:10.1371/journal.pcbi.1003511	abstract, fulltext
Kappel et al. 2013	D. Kappel, B. Nessler, and W. Maass	STDP Installs in Winner-Take-All Circuits an Online Approximation to Hidden Markov Model Learning	PLoS Comput Biol (2014) 10(3): e1003511 doi:10.1371/journal.pcbi.1003511	fulltext
Kriener et al. 2014	Kriener, B., Enger, H., Tetzlaff, T., Plesser, H.E., Gewaltig, M.-O. and Einevoll, G.T.	Dynamics of self-sustained asynchronous-irregular activity in random networks of spiking neurons with strong synapses	Front. Comput. Neurosci. (2014) 8:136 doi:10.3389/fncom.2014.00136	fulltext
Mayrhofer et al. 2013	Mayrhofer, J.M., Skreb, V., von der Behrens, W., Musall, S., Weber, B. and Haiss, F.	Novel two-alternative forced choice paradigm for bilateral vibrotactile whisker frequency discrimination in head-fixed mice and rats	AJP - JN Physiol (2013) 109(1): 273-284 doi:10.1152/jn.00488.2012	abstract, (fulltext)
Muir and Kampa 2015	Muir, D.R. and Kampa, B.M.	FocusStack and StimServer: a new open source MATLAB toolchain for visual stimulation and analysis of two-photon calcium neuronal imaging data	Front Neuroinform. (2015) 8:85. doi:10.3389/fninf.2014.00085	abstract
Musall et al. 2014	Musall, S., von der Behrens, W., Mayrhofer, J.M., Weber ,B., Helmchen, F. and Haiss F.	Tactile frequency discrimination is enhanced by circumventing neocortical adaptation	Nature Neuroscience (2014) 17(11): 1567-1573 doi:10.1038/nn.3821	abstract, (fulltext)
Nasser et al. 2012	Nasser, H., Marre, O. and Cessac, B.	Spatio-temporal spike trains analysis for large scale networks using maximum entropy principle and Monte-Carlo method	Journal of Statistical Mechanics (2013) : P03006 doi:10.1088/1742-5468/2013/03/P03006	abstract, fulltext, BibTeX
Naude et al. 2013	Naude, J., Cessac, B., Berry, H. and Delord, B.	Effects of Cellular Homeostatic Intrinsic Plasticity on Dynamical and Computational Properties of Biological Recurrent Neural Networks	The Journal of Neuroscience (2013) 33(38):15032-15043 doi:10.1523/JNEUROSCI.0870-13.2013	fulltext
Nessler et al. 2013	Nessler, B., Pfeiffer, M., Buesing, L. and Maass, W.	Bayesian computation emerges in generic cortical microcircuits through spike-timing-dependent plasticity	PLOS Computational Biology (2013) 9(4):e1003037 doi:10.1371/journal.pcbi.1003037	abstract, fulltext, BibTeX
Petrovici et al. 2014	Petrovici, M. A., Vogginger, B., Müller, P., Breitwieser, O., Lundqvist, M., Muller, L., Ehrlich, M., Destexhe, A., Lansner, A., Schüffny, R., Schemmel, J. and Meier, K.	Characterization and Compensation of Network-Level Anomalies in Mixed-Signal Neuromorphic Modeling Platforms	PLoS ONE (2014) 9(10): e108590 doi:10.1371/journal.pone.0108590	abstract
Rostro-Gonzalez et al. 2011	Rostro-Gonzalez, H., Cessac, B., Girau, B. and Torres-Huitzil, C.	The role of the asymptotic dynamics in the design of FPGA-based hardware implementations of gIF-type neural networks	J. Physiol. Paris, (2011) 105:1-3 doi:10.1016/j.jphysparis.2011.09.004	fulltext, BibTeX
Rostro-Gonzalez et al. 2012	Rostro-Gonzalez, H., Cessac, B. and Viéville, T.	Parameters estimation in spiking neural networks: a reverse-engineering approach	J. Neural. Eng. (2012) 9: 026024 doi:10.1088/1741-2560/9/2/026024	abstract, fulltext, BibTeX
Scholze et al. 2011b	Scholze, S., Schiefer, S., Partzsch, J., Hartmann, S., Mayr, C., Höppner, S., Eisenreich, H., Henker, S., Vogginger, B. and Schüffny, R.	VLSI implementation of a 2.8 Gevent/s packet based AER interface with routing and event sorting functionality	Frontiers in Neuromorphic Engineering (2011) 5:117 doi:10.3389/fnins.2011.00117
van Kerkoerle et al. 2014	van Kerkoerle, T., Self, M.W., Dagnino, B., Gariel-Mathis, M.-A., Poort, J., van der Togt, C. and Roelfsema, P.R.	Alpha and gamma oscillations characterize feedback and feedforward processing in monkey visual cortex	PNAS (2014) 111(40): 14332-14341 doi:10.1073/pnas.1402773111	abstract, fulltext
Vasquez et al. 2012	Vasquez, J.-C., Palacios, A., Marre, O., Berry II, M. J. and Cessac, B.	Gibbs distribution analysis of temporal correlations structure in retina ganglion cells	J. Physiol. Paris (2012) 106(4):120-127 doi:10.1016/j.jphysparis.2011.11.001	(fulltext), BibTeX
Vogginger et al. 2015	Vogginger, B., Schüffny, R., Lansner, A., Cederström, L., Partzsch, J. and Höppner, S.	Reducing the computational footprint for real-time BCPNN learning	Front. Neurosci. (2015) 9:2 doi:10.3389/fnins.2015.00002	abstract, fulltext
Yousaf et al. 2013	M. Yousaf, B. Kriener, J. Wyller, G.T. Einevoll	Generation and annihilation of localized persistent-activity states in a two-population neural-field model	Neural Networks (2013) 46}:75-90 doi:10.1016/j.neunet.2013.04.012	abstract
Ziegler et al. 2015	Ziegler, L., Zenke, F., Kastner, D.B. and Gerstner, W.	Synaptic Consolidation: From Synapses to Behavioral Modeling	The Journal of Neuroscience (2015) 35(3): 1319-1334 doi:10.1523/JNEUROSCI.3989-14.2015	abstract, fulltext

Review

Crook et al. 2012

Crook, S. M., Bednar, J. A., Berger, S., Cannon, R., Davison, A. P., Djurfeldt, M., Eppler, J., Kriener, B., Furber, S., Graham, B., Plesser, H. E., Schwabe, L., Smith, L., Steuber, V. and van Albada, S.

Creating, documenting and sharing network models

Network: Computation in Neural Systems (2012) 23(4): 131-149 doi:10.3109/0954898X.2012.722743

abstract, fulltext

Book chapter

Cessac and Palacios 2012	Cessac, B. and Palacios, A.	Spike train statistics from empirical facts to theory: the case of the retina	Modeling in Computational Biology and Biomedicine: A Multidisciplinary Endeavor, Springer-Verlag (2012)	fulltext, BibTeX
Davison et al. 2014	Davison, A.P., Mattioni, M., Samarkanov, D. and Telenczuk, B.	Sumatra: A Toolkit for Reproducible Research	In: Implementing Reproducible Research (2014), edited by V. Stodden, F. Leisch and R.D. Peng, Chapman & Hall/CRC: Boca Raton, Florida., pp. 57-79	abstract
Devor et al. 2012	Devor, A., Boas, D.A., Einevoll, G.T., Buxton, R.B. and Dale, A.M.	Neuronal Basis of Non-Invasive Functional Imaging: From Microscopic Neurovascular Dynamics to BOLD fMRI	Advances in Neurobiology (2012) 4: 433-500 doi:10.1007/978-1-4614-1788-0_15	abstract

Conference contribution: talk

Nowke et al. 2013	Nowke, C., Schmidt, M., van Albada, S. J., Eppler, J. M., Bakker, R., Diesmann, M., Hentschel, B. and Kuhlen, T.	VisNEST - Interactive Analysis of Neural Activity Data	BioVis Symposium at the IEEE BioVis 2013, 13-18 Oct. 2013, Atlanta, Georgia, USA
Thanasoulis et al. 2014a	Thanasoulis, V., Vogginger, B., Partzsch, J. and Schüffny, R.	A Pulse Communication Flow Ready for Accelerated Neuromorphic Experiments	ISCAS (2014): 265-268 doi:10.1109/ISCAS.2014.6865116	abstract
Thanasoulis et al. 2014b	Thanasoulis, V., Partzsch, J., Vogginger, B. and Schüffny, R.	Configurable Pulse Routing Architecture for Accelerated Multi-Node Neuromorphic Systems	ICECS (2014): 738-741 doi:10.1109/ICECS.2014.7050091	abstract
Wiebelt2012	Wiebelt, B.	Trivial Parallelization in a Neuroscience Laboratory	BrainScaleS Workshop on "Workflow design for complex analyses of multi-electrode electrophysiological data", Marseille, France, 06/21/2012 - 06/22/2012

Conference contribution: poster

Bakkeret al 2012	Bakker, R. ; Denker, M. ; Diesmann, M. ; Eppler, J. M. ; Grün, S. ; Grytskyy, D. ; Helias, M. ; Ito, J. ; Maximov, A. ; Schmidt, M. ; Tetzlaff, T. ; Torre, E. ; van Albada, S. ; Wiebelt, B. ; Zehl, L.	Planned activities in Jülich	BrainScales Conference, Jülich, Germany, 03/19/2012
Davison et al. 2013	Davison, A.P., Djurfeldt, M., Eppler, J.M., Gleeson, P., Hull, M. and Muller, E.B.	An integration layer for neural simulation: PyNN in the software forest	Neuroinformatics 2013, Stockholm, Sweden, August (2013). doi:10.3389/conf.fninf.2013.09.00020	abstract
Denker et al. 2014a	Zehl, L., Kilavik, B., Diesmann, M., Brochier, T., Riehle, A. and Grün, S.	Characterizing spatially organized LFP beta oscillations in the macaque motor cortex	AREADNE 2014, Santorini, Greece, 06/25/2014 - 06/29/2014
Eppler et al. 2011b	Eppler, J.M., Enger, H., Heiberg, T., Kriener, B., Plesser, H.E., Diesmann, M. and Djurfeldt, M.	Evaluating the Connection-Set Algebra for the neural simulator NEST	Poster at the 4th INCF Congress of Neuroinformatics, Boston, USA doi:10.3389/conf.fninf.2011.08.00085	abstract
EpplerM et al. 2012	Eppler, J. M. ; Wiebelt, B. ; Zaytsev, Y. ; Diesmann, M.	The NEST software development infrastructure	INM Retreat 2012, Jülich, Germany, 07/03/2012 - 07/04/2012
Gorchetchnikov et al. 2011	Gorchetchnikov, A., Cannon, R., Clewley, R., Cornelis, H., Davison, A., De Schutter, E., Djurfeldt, M., Gleeson, P., Hill, S., Hines, M., Kriener, B., Le Franc, Y., Lo, C.-C., Morrison, A., Muller, E., Plesser, H.E., Raikov, I., Ray, S., Schwabe, L. and Szatmary, B.	NineML: declarative, mathematically-explicit descriptions of spiking neuronal networks	Front. Neuroinform. Conference Abstract: 4th INCF Congress of Neuroinformatics doi:10.3389/conf.fninf.2011.08.00098	abstract
Habenschuss et al. 2012	Habenschuss, S., Bill, J. and Nessler, B.	Homeostatic plasticity in Bayesian spiking networks as Expectation Maximization with posterior constraints	in Advances in Neural Information Processing Systems 25 (2012): 782-790	abstract, fulltext
Heiberg et al 2013a	T. Heiberg, B. Kriener, T. Tetzlaff, G. T. Einevoll, and H. E. Plesser	Firing-rate models for neurons with a broad repertoire of spiking behaviors.	BMC Neuroscience (2013) 14(Suppl 1):P317 doi:10.1186/1471-2202-14-S1-P317	abstract
Kriener et al 2013	B. Kriener, H. Enger, T. Tetzlaff, H. E. Plesser, M.-O. Gewaltig, and G. T. Einevoll.	Dynamics and lifetime of persistent activity states in random networks of spiking neurons with strong synapses.	BMC Neuroscience (2013) 14(Suppl 1):P121	abstract
Krieneret al 2013	Kriener, B. ; Helias, M. ; Rotter, S. ; Diesmann, M. ; Einevoll, G. T.	How pattern formation in ring networks of excitatory and inhibitory spiking neurons depends on the input current regime	Computational Neuroscience Conference, CNS*2013, Paris, France, 07/13/2013 - 07/18/2013
Morrison et al. 2011	Morrison, A., Denker, M., Wiebelt, B., Fliegner, D. and Diesmann, M.	New possibilities for advanced analysis methods in neuroscience through modern approaches to trivial parallel data processing	Poster at the Ninth Göttingen Meeting of the German Neuroscience Society 2011: T27-11B	abstract
Ness et al. 2012	Ness, T.B., Hagen, E., Negwer, M., Bakker, R., Schubert, D. and Einevoll, G.T.	Modeling extracellular spikes and local field potentials recorded in MEAs	Proceedings of the 8th international meeting on Multielectrode Arrays, Reutlingen (2012)
Nowke et al. 2012b	Nowke, C., Hentschel, B., Kuhlen, T., Eppler, J.M., van Albada, S., Bakker, R., Diesmann, M., Schmidt, M.	VisNEST - Interactive analysis of neural activity data	IEEE VisWeek 2012	abstract
Nowke et al. 2013b	Nowke, C., Schmidt, M., van Albada, S., Eppler, J., Bakker, R., Diesmann, M., Hentschel, B. and Kuhlen, T.	Interactive visualization of brain-scale spiking activity	Annual CNS Meeting 2013, BMC Neuroscience 2013, 14(Suppl 1):P110
Nowkeet al 2013	Nowke, C. ; Hentschel, B. ; Kuhlen, T. ; Schmidt, M. ; van Albada, S. ; Eppler, J. M. ; Bakker, R. ; Diesmann, M.	Interactive visualization of brain-scale spiking activity	Twenty Second Annual Computational Neuroscience Meeting, CNS 2013, Paris, France, 07/13/2013 - 07/18/2013
Partzsch et al. 2013	Partzsch, J., Mayr, C., Vogginger, B., Schueffny, R., Rast, A., Plana, L., Furber, S.	Live Demonstration: Ethernet Communication Linking Two Large-Scale Neuromorphic Systems	European Conference on Circuit Theory and Design (2013) doi:10.1109/ECCTD.2013.6662196
Raikov et al. 2011	Raikov, I., Cannon, R., Clewley, R., Cornelis, H., Davison, A., De Schutter, E., Djurfeldt, M., Gleeson, P., Gorchetchnikov, A., Plesser, H.E., Hill, S., Hines, M., Kriener, B., Le Franc, Y., Lo, C.-C., Morrison, A., Muller, E., Ray, S., Schwabe, L. and Szatmary, B.	NineML: the network interchange for neuroscience modeling language	BMC Neuroscience 2011, 12(Suppl 1):P330 doi:10.1186/1471-2202-12-S1-P330	abstract
Zehl et al. 2014c	Zehl, L., Denker, M., Adrian, S., Florent, J., Thomas, B., Alexa, R., Thomas, W. and Grün, S.	Handling complex metadata of neurophysiological experiments	INCF Neuroinformatics 2014, Leiden, Netherlands, 08/25/2014 - 08/27/2014 doi:10.3389/conf.fninf.2014.18.00029	abstract

Web publication

Nowke et al. 2013c	Nowke, C., Schmidt, M., van Albada, S., Eppler, J., Bakker, R., Diesmann, M., Hentschel, B. and Kuhlen, T.	VisNEST - Interactive analysis of neural activity data	Video posted on vimeo: http://vimeo.com/82512745	fulltext
van Albada et al. 2014b	Van Albada, S., Diesmann, M., Eppler, J.M., Hentschel, B., Kuhlen, T.. Nowke, C., Reske, M. and Schmidt, M.	Modellierung und 3D-Visualisierung neuronaler Netzwerke in der Grössenordnung des Gehirns	RWTH Themen (2014) 2: 52-57	fulltext

Other

Denker et al. 2014d

Denker, M., Zehl, L., Kilavik, B., Diesmann, M., Brochier, T., Riehle, A. and Grün, S.

Characterizing Spatially Organized LFP Beta Oscillations in Motor Cortex

INM Retreat 2014, Jülich, Germany, 07/01/2014 - 07/02/2014