Publications

PhD thesis

• Van Ooyen, A. (1995). Activity-Dependent Neurite Outgrowth: Implications for Network Development. University of Amsterdam, The Netherlands, 197 pp.
  [Contents] [Full text: PDF] [Full text per chapter: see contents]

Books edited

• Van Ooyen, A., and Butz-Ostendorf, M., eds. (2017). The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain, San Diego: Academic Press, xviii + 566 pp.
  [Contents] [Full text: see preview at Elsevier Store or Google Books]

• Butz, M., Schenck, W., and Van Ooyen, A., eds. (2016). Anatomy and Plasticity in Large-Scale Brain Models. Frontiers Research Topic Ebook, Frontiers Media SA, 173 pp.
  [Contents] [Full text: see Frontiers Books]

• Van Pelt, J. Kamermans, M., Levelt, C. N., Van Ooyen, A., Ramakers, G. J. A., and Roelfsema, P. R., eds. (2005). Development, Dynamics and Pathology of Neuronal Networks: From Molecules to Functional Circuits, Progress in Brain Research 147. Amsterdam: Elsevier, xv + 385 pp.
  [Contents] [Full text per chapter: see contents]

• Van Ooyen, A., ed. (2003). Modeling Neural Development. Cambridge, MA: MIT Press, xvi + 336 pp.
  [Contents and book reviews] [Full text per chapter: see contents]

Reviews

• Van Ooyen, A. (2011). Using theoretical models to analyse neural development. Nature Reviews Neuroscience 12: 311-326. (invited review)
  [Abstract] [Full text: PDF] [Corrigendum: PDF]

• Roelfsema, P. R., Van Ooyen, A., and Watanabe, T. (2010). Perceptual learning rules based on reinforcers and attention. Trends in Cognitive Sciences 14: 64-71.
  [Abstract] [Full text: PDF]

• Butz, M., Worgotter, F., and Van Ooyen, A. (2009). Activity-dependent structural plasticity. Brain Research Reviews 60: 287-305.
  [Abstract] [Full text: PDF]

• Houweling, A. R., and Van Ooyen, A. (2008). Homeostasis at multiple spatial and temporal scales. In: Squire, L, ed. New Encyclopedia of Neuroscience. Amsterdam: Elsevier Press. (invited review)
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2001). Competition in the development of nerve connections: a review of models. Network: Computation in Neural Systems 12: R1-R47. (invited review)
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (1994). Activity-dependent neural network development. Network: Computation in Neural Systems 5: 401-423. (invited review)
  [Abstract] [Full text: PDF]

Journal articles

• Olde Scheper, T. V., Meredith, R. M., Mansvelder, H. D., Van Pelt, J., and Van Ooyen, A. (2018). Dynamic Hebbian cross-correlation learning resolves the spike timing-dependent plasticity conundrum. Frontiers in Computational Neuroscience doi: 10.3389/fncom.2017.00119.
  [Abstract] [Full text: PDF]

• Butz, M., Schenck, W., and Van Ooyen, A. (2016). Editorial: Anatomy and plasticity in large-scale brain models. Frontiers in Neuroanatomy doi: 10.3389/fnana.2016.00108.
  [Abstract] [Full text: PDF]

• Avella Gonzalez, O. J., Mansvelder, H. D., Van Pelt, J., and Van Ooyen, A. (2015). H-channels affect frequency, power and amplitude fluctuations of neuronal network oscillations. Frontiers in Computational Neuroscience doi: 10.3389/fncom.2015.00141.
  [Abstract] [Full text: PDF] [Supplementary data: PDF]

• Van Ooyen, A., and Van Pelt, J. (2015). NETMORPH. Scholarpedia 10(6): 10213.
  [Full text]

• Butz, M., Steenbuck, I. D., and Van Ooyen, A. (2014). Homeostatic structural plasticity can account for topology changes following deafferentation and focal stroke. Frontiers in Neuroanatomy doi: 10.3389/fnana.2014.00115.
  [Abstract] [Full text: PDF] [Supplementary figure: PDF]

• Van Pelt, J., Van Ooyen, A., and Uylings, H. B. M. (2014). Axonal and dendritic density field estimation from incomplete single-slice neuronal reconstructions. Frontiers in Neuroanatomy doi: 10.3389/fnana.2014.00054.
  [Abstract] [Full text: PDF] [Supplementary figures: PDF]

• Avella Gonzalez, O. J., Van Aerde, K. I., Mansvelder, H. D., Van Pelt, J., and Van Ooyen, A. (2014). Inter-network interactions: impact of connections between oscillatory neuronal networks on oscillation frequency and pattern. PloS ONE 9(7): e100899. doi:10.1371/journal.pone.0100899.
  [Abstract] [Full text: PDF] [Supporting text: PDF] [Supporting figures: PDF]

• Groen, M. R., Paulsen, O., Perez-Garci, E., Nevian, T., Wortel, J., Dekker, M. P., Mansvelder, H. D., Van Ooyen, A.*, and Meredith, R. M.* (2014) (* joint senior authors). Development of dendritic tonic GABAergic inhibition regulates excitability and plasticity in CA1 pyramidal neurons. J. Neurophysiology 112: 287-299.
  [Abstract] [Full text: PDF]

• Butz, M., Steenbuck, I. D., and Van Ooyen, A. (2014). Homeostatic structural plasticity increases the efficiency of small-world networks. Frontiers in Synaptic Neuroscience doi: 10.3389/fnsyn.2014.00007.
  [Abstract] [Full text: PDF]

• Hjorth, J. J. J., Van Pelt, J., Mansvelder, H. D., and Van Ooyen, A. (2014). Competitive dynamics during resource-driven neurite outgrowth. PloS ONE 9(2): e86741. doi:10.1371/journal.pone.0086741.
  [Abstract] [Full text: PDF]

• McAssey, P. M., Bijma, F., Tarigan, B., Van Pelt, J., Van Ooyen, A.*, and De Gunst, M. A.* (2014) (* joint senior authors). A morpho-density approach to estimating neural connectivity. PloS ONE 9(1): e86526. doi:10.1371/journal.pone.0086526.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Carnell, A., De Ridder, S., Tarigan, B., Mansvelder, H. D., Bijma, F., De Gunst, M., Van Pelt, J. (2014). Independently outgrowing neurons and geometry-based synapse formation produce networks with realistic synaptic connectivity. PloS ONE 9(1): e85858. doi:10.1371/journal.pone.0085858.
  [Abstract] [Full text: PDF]

• Van Pelt, J., and Van Ooyen, A. (2013). Estimating neuronal connectivity from axonal and dendritic density fields. Frontiers in Computational Neuroscience doi: 10.3389/fncom.2013.00160.
  [Abstract] [Full text: PDF] [Supplementary data: PDF]

• Butz, M., and Van Ooyen, A. (2013). A simple rule for dendritic spine and axonal bouton formation can account for cortical reorganization after focal retinal lesions. PloS Computational Biology 9(10): e1003259. doi:10.1371/journal.pcbi.1003259.
  [Abstract] [Full text: PDF] [Supporting figure: PDF] [Corrected figures 8 and 12: PDF] [Science Daily]

• Olde Scheper, T. V., Mansvelder, H. D., and Van Ooyen, A. (2012). Short term depression unmasks the ghost frequency. PloS ONE 7(12): e50189. doi:10.1371/journal.pone.0050189.
  [Abstract] [Full text: PDF]

• Avella Gonzalez, O. J., Van Aerde, K. I., Van Elburg, R. A. J., Poil, S-S., Mansvelder, H. D., Linkenkaer-Hansen, K., Van Pelt, J., and Van Ooyen, A. (2012). External drive to inhibitory cells induces alternating episodes of high- and low-amplitude oscillations. PloS Computational Biology 8(8): e1002666. doi:10.1371/journal.pcbi.1002666.
  [Abstract] [Full text: PDF] [Supporting figures: PDF]

• Sterratt, D. C., Groen, M. R., Meredith, R. M., and Van Ooyen, A. (2012). Spine calcium transients induced by synaptically-evoked action potentials can predict synapse location and establish synaptic democracy. PloS Computational Biology 8(6): e1002545. doi:10.1371/journal.pcbi.1002545.
  [Abstract] [Full text: PDF] [Supporting figures: PDF]

• Van Ooyen, A. (2011). Using theoretical models to analyse neural development. Nature Reviews Neuroscience 12: 311-326. (invited review)
  [Abstract] [Full text: PDF] [Corrigendum: PDF]

• Jansen, R., Timmerman, J., Loos, M., Spijker, S., Van Ooyen, A., Brussaard, A. B., Mansvelder, H. D., The Neuro-Bsik Mouse Phenomics Consortium, Smit, A. B., De Gunst, M., and Linkenkaer-Hansen, K. (2011). Novel candidate genes associated with hippocampal oscillations. PLoS ONE 6(10): e26586. doi:10.1371/journal.pone.0026586.
  [Abstract] [Full text: PDF]

• Schmitz, S. K., Hjorth, J. J. J., Joemai, R. M. S., Wijntjes, R., Eijgenraam, S., De Bruijn, P., Georgiou, C., De Jong, A. P. H., Van Ooyen, A., Verhage, M., Cornelisse, L. N., Toonen, R. F., and Veldkamp, W. (2011). Automated analysis of neuronal morphology, synapse number and synaptic recruitment. J. Neuroscience Methods 195: 185-193.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Carnell, A., De Ridder, S., Mansvelder, H. D., and Van Ooyen, A. (2010). An algorithm for finding candidate synaptic sites in computer generated networks of neurons with realistic morphologies. Frontiers in Computational Neuroscience doi: 10.3389/fncom.2010.00148.
  [Abstract] [Full text: PDF]

• Van Elburg, R. A. J., and Van Ooyen, A. (2010). Impact of dendritic size and dendritic topology on burst firing in pyramidal cells. PloS Computational Biology 6(5): e1000781. doi:10.1371/journal.pcbi.1000781.
  [Abstract] [Full text: PDF] [Supporting texts: PDF] [Supporting figures: PDF]

• Roelfsema, P. R., Van Ooyen, A., and Watanabe, T. (2010). Perceptual learning rules based on reinforcers and attention. Trends in Cognitive Sciences 14: 64-71.
  [Abstract] [Full text: PDF]

• Butz, M., Van Ooyen, A., and Worgotter (2009). A model for cortical rewiring following deafferentation and focal stroke. Frontiers in Computational Neuroscience doi: 10.3389/neuro.10.010.2009.
  [Abstract] [Full text: PDF]

• Jansen, R., Linkenkaer-Hansen, K., Heistek, T., Timmerman, J., Mansvelder, H. D., Brussaard, A. B., De Gunst, M., and Van Ooyen, A. (2009). Inbred mouse strains differ in multiple hippocampal activity traits. Eur. J. Neuroscience 30: 1092-1100.
  [Abstract] [Full text: PDF]

• Koene, R. A., Tijms, B., Van Hees, P., Postma, F., De Ridder, A., Ramakers, G. J. A, Van Pelt, J., and Van Ooyen, A. (2009). NETMORPH: a framework for the stochastic generation of large scale neuronal networks with realistic neuron morphologies. Neuroinformatics 7: 195-210.
  [Abstract] [Full text: PDF]

• Kaiser, M., Hilgetag, C. C., and Van Ooyen, A. (2009). A simple rule for axon outgrowth and synaptic competition generates realistic connection lengths and filling fractions. Cerebral Cortex 19: 3001-3010.
  [Abstract] [Full text: PDF] [Supplementary data: PDF]

• Van Elburg, R. A. J., and Van Ooyen, A. (2009). Generalization of the event-based Carnevale-Hines integration scheme for integrate-and-fire models. Neural Computation 21: 1913-1930.
  [Abstract] [Full text: PDF] [NEURON news]

• Butz, M., Worgotter, F., and Van Ooyen, A. (2009). Activity-dependent structural plasticity. Brain Research Reviews 60: 287-305.
  [Abstract] [Full text: PDF]

• Montez, T., Poil, S.-S., Jones, B., Manshanden, I., Verbunt, J.P.A., Van Dijk, B. W., Brussaard, A. B., Van Ooyen, A., Stam, C. J., Scheltens, P., and Linkenkaer-Hansen, K. (2009). Altered temporal correlations in parietal alpha and prefrontal theta oscillations in early-stage Alzheimer disease. PNAS 106: 1614-1619.
  [Abstract] [Full text: PDF]

• Butz, M., Teuchert-Noodt, G., Grafen, K., and Van Ooyen, A. (2008). Inverse relationship between adult hippocampal cell proliferation and synaptic rewiring in the dentate gyrus. Hippocampus 18: 879-898.
  [Abstract] [Full text: PDF]

• Poil, S.-S., Van Ooyen, A., and Linkenkaer-Hansen, K. (2008). Avalanche dynamics of human brain oscillations: relation to critical branching processes and temporal correlations. Human Brain Mapping 29: 770-777.
  [Abstract] [Full text: PDF]

• Vajda, I., Van Pelt, J., Wolters, P., Chiappalone, M., Martinoia, S., Van Someren, E., and Van Ooyen, A. (2008). Low-frequency stimulation induces stable transitions in stereotypical activity in cortical networks. Biophysical J. 94: 5028-5039.
  [Abstract] [Full text: PDF]

• Krottje, J. K., and Van Ooyen, A. (2007). A mathematical framework for modelling axon guidance. Bulletin of Mathematical Biology 69: 3-31.
  [Abstract] [Full text: PDF]

• Linkenkaer-Hansen, K., Smit, D. J. A., Barkil, A., Van Beijsterveldt, T. E. M., Brussaard, A. B., Boomsma, D. I., Van Ooyen, A., and De Geus, E. J. C. (2007). Genetic contributions to long-range temporal correlations in ongoing oscillations. J. Neuroscience 27: 13882-13889.
  [Abstract] [Full text: PDF]

• Graham, B. P., and Van Ooyen, A. (2006). Mathematical modelling and numerical simulation of the morphological development of neurons. BMC Neuroscience 7 (Suppl 1): S9.
  [Abstract] [Full text: PDF]

• Janulevicius, A., Van Pelt, J., and Van Ooyen, A. (2006). Compartment volume influences microtubule dynamic instability: a model study. Biophysical J. 90: 788-798.
  [Abstract] [Full text: PDF]

• Steuber, V., Willshaw, D., and Van Ooyen, A. (2006). Generation of time delays: simplified models of intracellular signalling in cerebellar Purkinje cells. Network: Computation in Neural Systems 17: 173-191.
  [Abstract] [Full text: PDF] [Erratum: PDF]

• Roelfsema, P. R., and Van Ooyen, A. (2005). Attention-gated reinforcement learning of internal representations for classification. Neural Computation 17: 2176-2214.
  [Abstract] [Full text: PDF]

• Graham, B. P., and Van Ooyen, A. (2004). Transport limited effects in a model of dendritic branching. J. Theor. Biol. 230: 421-432.
  [Abstract] [Full text: PDF]

• McLean, D. R., Van Ooyen, A., and Graham, B. P. (2004). Continuum model for tubulin-driven neurite elongation. Neurocomputing 58-60: 511-516.
  [Abstract] [Full text: PDF]

• Sterratt, D. C, and Van Ooyen, A. (2004). Does a dendritic democracy need a ruler? Neurocomputing 58-60: 437-442.
  [Abstract] [Full text: PDF]

• Van Elburg, R. A. J., and Van Ooyen, A. (2004). A new measure for bursting. Neurocomputing 58-60: 497-502.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Bosman, L., and Brussaard, A. (2004). Influence of the decay time of the GABAergic postsynaptic current on the spatial spread of network activity. Neurocomputing 58-60: 291-295.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Duijnhouwer, J., Remme, M. W. H., and Van Pelt, J. (2002). The effect of dendritic topology on firing patterns in model neurons. Network: Computation in Neural Systems 13: 311-325.
  [Abstract] [Full text: PDF]

• Duijnhouwer, J., Remme, M. W. H., Van Ooyen, A., and Van Pelt, J. (2001). Influence of dendritic topology on firing patterns in model neurons. Neurocomputing 38-40: 183-189.
  [Abstract] [Full text: PDF] [Errata: PDF]

• Graham, B. P., and Van Ooyen, A. (2001). Compartmental models of growing neurites. Neurocomputing 38-40: 31-36.
  [Abstract] [Full text: PDF]

• Hely, T. A., Graham, B. P., and Van Ooyen, A. (2001). A computational model of dendrite elongation and branching based on MAP2 phosphorylation. J. Theor. Biol. 210: 375-384.
  [Abstract] [Full text: PDF]

• Ramakers, G. J. A., Avci, B., Van Hulten, P., Van Ooyen, A., Van Pelt, J., Pool, C. W., and Lequin, M. B. (2001). The role of calcium signaling in early axonal and dendritic morphogenesis of rat cerebral cortex neurons under non-stimulated growth conditions. Dev. Brain Res. 126: 163-172.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2001). Competition in the development of nerve connections: a review of models. Network: Computation in Neural Systems 12: R1-R47. (invited review)
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Graham, B. P., and Ramakers, G. J. A. (2001). Competition for tubulin between growing neurites during development. Neurocomputing 38-40: 73-78.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Van Ooyen, A., and Uylings, H. B. M. (2001). The need for integrating neuronal morphology databases and computational environments in exploring neuronal structure and function. Anat. Embryol. 204: 255-265.
  [Abstract] [Full text: PDF]

• Eglen, S. J., Van Ooyen, A., and Willshaw, D. J. (2000). Lateral cell movement driven by dendritic interactions is sufficient to form retinal mosaics. Network: Computation in Neural Systems 11: 103-118.
  [Abstract] [Full text: PDF]

• Hentschel, H. G. E., and Van Ooyen, A. (2000). Dynamic mechanisms for bundling and guidance during neural network formation. Physica A 288: 369-379.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Willshaw, D. J. (2000). Development of nerve connections under the control of neurotrophic factors: parallels with consumer-resource systems in population biology. J. Theor. Biol. 206: 195-210.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Willshaw, D. J., and Ramakers, G. J. A. (2000). Influence of dendritic morphology on axonal competition. Neurocomputing 32-33: 255-260.
  [Abstract] [Full text: PDF]

• Hentschel, H. G. E., and Van Ooyen, A. (1999). Models of axon guidance and bundling during development. Proc. R. Soc. Lond. B. 266: 2231-2238.
  [Abstract] [Full text: PDF] [Appendices: PDF]

• Van Ooyen, A., and Willshaw, D. J. (1999). Competition for neurotrophic factor in the development of nerve connections. Proc. R. Soc. Lond. B. 266: 883-892.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. , and Willshaw, D. J. (1999). Poly-and mononeuronal innervation in a model for the development of neuromuscular connections. J. Theor. Biol. 196: 495-511.
  [Abstract] [Full text: PDF]

• Van Oss, C., and Van Ooyen, A. (1997). Effects of inhibition on neural network development through activity-dependent neurite outgrowth. J. Theor. Biol. 185: 263-280.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Pakdaman, K., Houweling, A. R., Van Pelt, J., and Vibert, J.-F. (1996). Network connectivity changes through activity-dependent neurite outgrowth. Neural Processing Letters 3: 123-130.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1996). Complex periodic behaviour in a neural network model with activity-dependent neurite outgrowth. J. Theor. Biol. 179: 229-242.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Van Pelt, J., and Corner, M. A. (1995). Implications of activity-dependent neurite outgrowth for neuronal morphology and network development. J. Theor. Biol. 172: 63-82.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (1994). Activity-dependent neural network development. Network: Computation in Neural Systems 5: 401-423. (invited review)
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1994). Activity-dependent outgrowth of neurons and overshoot phenomena in developing neural networks. J. Theor. Biol. 167: 27-43.
  [Abstract] [Full text: PDF]

• Dijkshoorn, L., Van Dalen, R., Van Ooyen, A., Bijl, D., Tjernberg, I., Michel, M. F., and Horrevorts, A. M. (1993). Endemic acinetobacter in intensive care units: epidemiology and clinical impact. J. Clin. Pathol. 46: 533-536.
  [Abstract] [Full text: PDF]

• 't Hart, H., Sandbrink, J. M., Csikos, I., Van Ooyen, A., and Van Brederode, J. (1993). The allopolyploid origin of Sedum rupestre subsp. rupestre (Crassulaceae). Pl. Syst. Evol. 184: 195-206.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Nienhuis, B. (1993). Pattern recognition in the neocognitron is improved by neuronal adaptation. Biol. Cybern. 70: 47-53.
  [Abstract] [Full text: PDF]

• Rademakers, L. H. P. M., Schuurman, H.-J., De Frankrijker, J. F., and Van Ooyen, A. (1992). Cellular composition of germinal centers in lymph nodes after HIV-1 infection: evidence for an inadequate support of germinal center B lymphocytes by follicular dendritic cells. Clinical Immunology and Immunopathology. 62: 148-159.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Nienhuis, B. (1992). Improving the convergence of the back-propagation algorithm. Neural Networks 5: 465-471.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Van Pelt, J., Corner, M. A., and Lopes da Silva, F. H. (1992). The emergence of long-lasting transients of activity in simple neural networks. Biol. Cybern. 67: 269-277.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Van Pelt, J., Corner, M. A., and Lopes da Silva, F. H. (1992). Long-lasting transients of activation in neural networks. Neurocomputing 4: 75-87.
  [Abstract] [Full text: PDF]

• Dijkshoorn, L., Van Ooyen, A., Hop, W. C. J., Theuns, M., and Michel, M. F. (1990). Comparison of clinical acinetobacter strains using a carbon source growth assay. Epidemiol. Infect. 104: 443-453.
  [Abstract] [Full text: PDF]

• Rademakers, L. H. P. M., Schuurman, H.-J., De Frankrijker, J. F., and Van Ooyen, A. (1990). Ultrastructural analysis of germinal centres in lymph nodes after HIV-1 infection. Micron and Microscopica Acta 21: 267-268.
  [Full text: PDF]

• Van Ooyen, A., and Hogeweg, P. (1990). Iterative character weighting based on mutation frequency: a new method for constructing phyletic trees. J. Mol. Evol. 31: 330-342.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (1988). De eerste, de beste? Fenologische waarnemingen in Zeist. De Kruisbek 31(3): 81-89.
  [Abstract] [Full text: PDF]

Conference papers

• Rombouts, J. O., Van Ooyen, A., Roelfsema, P. R., and Bohte, S. M. (2012). Biologically plausible multi-dimensional reinforcement learning in neural networks. In: Villa, A. E., et al., eds. Artificial Neural Networks - ICANN 2012, Lausanne, Switzerland, September 2012, Vol. 7552 of Lecture Notes in Computer Science, pp. 443-450.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Roelfsema, P. R. (2003). A biologically plausible implementation of error-backpropagation for classification tasks. In: Kaynak, O., Alpaydin, E., Oja, E., and Xu, L., eds. Supplementary Proceedings of the International Conference on Artificial Neural Networks - ICANN/ICONIP 2003, Istanbul, Turkey, June 2003, pp. 442-444.
  [Abstract] [Full text: PDF]

• Sterratt, D. C., and Van Ooyen, A. (2002). Does morphology influence temporal plasticity? In: Dorronsoro, J. R., ed. Artificial Neural Networks - ICANN 2002, International Conference on Artificial Neural Networks, Vol. 2415 of Lecture Notes in Computer Science. Berlin: Springer, pp. 186-191.
  [Abstract] [Full text: PDF]

• Eglen, S. J., and Van Ooyen, A. (1999). Modelling retinal mosaic development with dendritic outgrowth and lateral cell movement. In: Artificial Neural Networks - ICANN 1999, 9th International Conference on Artificial Neural Networks, Edinburgh, UK, September 1999, pp. 377-382.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Willshaw, D. J. (1999). Influence of dendritic morphology on axonal competition. In: Artificial Neural Networks - ICANN 1999, 9th International Conference on Artificial Neural Networks, Edinburgh, UK, September 1999, pp. 1000-1005.
  [Abstract] [Full text: PDF]

• Hely, T. A., Van Ooyen, A., and Willshaw, D. J. (1997). A simulation of growth cone filopodia dynamics based on Turing morphogenesis patterns. In: Paton, R. C., and Holcombe, M., eds. Information Processing in Cells and Tissues, International Workshop on Information Processing in Cells and Tissues, September 1997. New York: Plenum.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Willshaw, D. J. (1997). Competition amongst neurons for neurotrophins. In: Gerstner, W., Germond, A., Hasler, M., and Nicoud, J.-D., eds. Artificial Neural Networks - ICANN 1997, 7th International Conference on Artificial Neural Networks, Lausanne, Switzerland, October 1997. Berlin: Springer, pp. 139-144.
  [Abstract] [Full text: PDF]

• Van Oss, C., and Van Ooyen, A. (1995). Activity-dependent neurite outgrowth in a simple neural network model including excitation and inhibition. In: Proceedings ESANN 1995, European Symposium on Artificial Neural Networks, Brussel, Belgium, April 1995, pp. 87-92.
  [Abstract] [Full text: PDF]

• Pakdaman, K., Van Ooyen, A., Houweling, A. R., and Vibert, J.-F. (1994). Hysteresis in a two-neuron network: basic characteristics and physiological implications. In: Marinaro, M., and Morasso, P. G., eds. Artificial Neural Networks - ICANN 1994, 4th International Conference on Artificial Neural Networks, Sorrento, Italy, pp. 162-165.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1994). Complex patterns of oscillations in a neural network model with activity-dependent outgrowth. In: Marinaro, M., and Morasso, P. G., eds. Artificial Neural Networks - ICANN 1994, 4th International Conference on Artificial Neural Networks, Sorrento, Italy, pp. 146-149.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1993). Implications of activity-dependent neurite outgrowth for developing neural networks. In: Gielen, S., and Kappen, B., eds. Artificial Neural Networks - ICANN 1993, 3rd International Conference on Artificial Neural Networks, Amsterdam, The Netherlands, pp. 177-182.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1992). Phase transitions, hysteresis and overshoot in developing neural networks. In: Aleksander, I., and Taylor, J., eds. Artificial Neural Networks 2 - ICANN 1992, 2nd International Conference on Artificial Neural Networks, Brighton, UK, pp. 907-910.
  [Abstract] [Full text: PDF]

Book chapters

• Van Ooyen, A., and Butz-Ostendorf, M. (2019). Homeostatic structural plasticity can build critical networks. In: Tomen, N., Herrmann, J. M., and Ernst, U., eds. The Functional Role of Critical Dynamics in Neural Systems. Springer, pp. 117-137.
  [Abstract] [Full text: PDF]

• Butz-Ostendorf, M., and Van Ooyen, A. (2017). Is lesion-induced synaptic rewiring driven by activity homeostasis? In: Van Ooyen, A., and Butz-Ostendorf, M., eds. The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain. San Diego: Academic Press, pp. 71-92.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2017). Network formation through activity-dependent neurite outgrowth: a review of a simple model of homeostatic structural plasticity. In: Van Ooyen, A., and Butz-Ostendorf, M., eds. The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain. San Diego: Academic Press, pp. 95-121.
  [Abstract] [Full text: PDF]

• Butz-Ostendorf, M., and Van Ooyen, A. (2017). A detailed model of homeostatic structural plasticity based on dendritic spine and axonal bouton dynamics. In: Van Ooyen, A., and Butz-Ostendorf, M., eds. The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain. San Diego: Academic Press, pp. 155-176.
  [Abstract]

• Van Ooyen, A., Teuchert-Noodt, G., Grafen, K., and Butz-Ostendorf, M. (2017). Adult neurogenesis and synaptic rewiring in the hippocampal dentate gyrus. In: Van Ooyen, A., and Butz-Ostendorf, M., eds. The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain. San Diego: Academic Press, pp. 389-408.
  [Abstract]

• Van Ooyen, A., and Van Elburg, R. A. J. (2014). Dendritic size and topology influence burst firing in pyramidal cells. In: Cuntz, H., Remme, M. W. H., and Torben-Nielsen, B., eds. The Computing Dendrite. New York: Springer, pp. 381-395.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Uylings, H. B. M., and Van Ooyen, A. (2014). Neuronal arborizations, spatial innervation, and emergent network connectivity. In: Cuntz, H., Remme, M. W. H., and Torben-Nielsen, B., eds. The Computing Dendrite. New York: Springer, pp. 61-78.
  [Abstract] [Full text: PDF]

• Van der Heiden, L., Vajda, I., Van Pelt, J., and Van Ooyen, A. (2011). Stimulation induced transitions in spontaneous firing rates in cultured neuronal networks also occur in the presence of synaptic plasticity blocker KN93. In: Wang, R., and Gu, F., eds. Advances in Cognitive Neurodynamics (II). Springer, pp. 151-155.
  [Abstract] [Full text: PDF]

• Houweling, A. R., and Van Ooyen, A. (2008). Homeostasis at multiple spatial and temporal scales. In: Squire, L., ed. New Encyclopedia of Neuroscience. Amsterdam: Elsevier Press. (invited review)
  [Abstract] [Full text: PDF]

• Van Pelt, and Van Ooyen, A. (2008). Neuroinformatics in the Netherlands. In: Wang, R., Gu, F., and Shen, E., eds. Advances in Cognitive Neurodynamics. Springer, pp. 673-677.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Vajda, I., Wolters, P. S., Ramakers, G., and Van Ooyen, A. (2008). Effect of low-frequency stimulation on spontaneous firing in cultured neuronal networks. In: Wang, R., Gu, F., and Shen, E., eds. Advances in Cognitive Neurodynamics. Springer, pp. 53-57.
  [Abstract] [Full text: PDF]

• Bosman, L., Lodder, J. C., Van Ooyen, A., and Brussaard, A. B. (2005). Role of synaptic inhibition in spatiotemporal patterning of cortical activity. In: Van Pelt, J. Kamermans, M., Levelt, C. N., Van Ooyen, A., Ramakers, G. J. A., and Roelfsema, P. R., eds. Development, Dynamics and Pathology of Neuronal Networks: From Molecules to Functional Circuits, Progress in Brain Research 147. Amsterdam: Elsevier, pp. 201-204.
  [Abstract] [Full text: PDF]

• Kiddie, G., McLean, D., Van Ooyen, A., and Graham, B. (2005). Biologically plausible models of neurite outgrowth. In: Van Pelt, J. Kamermans, M., Levelt, C. N., Van Ooyen, A., Ramakers, G. J. A., and Roelfsema, P. R., eds. Development, Dynamics and Pathology of Neuronal Networks: From Molecules to Functional Circuits, Progress in Brain Research 147. Amsterdam: Elsevier, pp. 67-80.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2005). Competition in neurite outgrowth and the development of nerve connections. In: Van Pelt, J. Kamermans, M., Levelt, C. N., Van Ooyen, A., Ramakers, G. J. A., and Roelfsema, P. R., eds. Development, Dynamics and Pathology of Neuronal Networks: From Molecules to Functional Circuits, Progress in Brain Research 147. Amsterdam: Elsevier, pp. 81-99.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Ribchester, R. R. (2003). Competition in the development of nerve connections. In: Van Ooyen, A., ed. Modeling Neural Development. Cambridge, MA: MIT Press, pp. 183-211.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., Van Pelt, J., Corner, M. A., and Kater, S. B. (2003). Activity-dependent neurite outgrowth: implications for network development and neuronal morphology. In: Van Ooyen, A., ed. Modeling Neural Development. Cambridge, MA: MIT Press, pp. 111-132.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (2002). Competition in neuronal morphogenesis and the development of nerve connections. In: Ascoli, G., ed. Computational Neuroanatomy: Principles and Methods. Totowa, NJ: Humana Press Inc., pp. 219-244.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2001). Theoretical aspects of pattern analysis. In: Dijkshoorn, L., Towner, K. J., and Struelens, M., eds. New Approaches for the Generation and Analysis of Microbial Typing Data. Amsterdam: Elsevier, pp. 31-45.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Van Ooyen, A., and Uylings, H. B. M. (2001). Modeling dendritic geometry and the development of nerve connections. In: De Schutter, E., ed. Computational Neuroscience: Realistic Modeling for Experimentalists. Boca Raton: CRC Press, pp. 179-208.
  [Abstract] [Full text: PDF]

• Van Pelt, J., Van Ooyen, A., and Corner, M. A. (1996). Growth cone dynamics and activity-dependent processes in neuronal network development. In: Mize, R. R., and Erzurumlu, R. S., eds. Neural Development and Plasticity, Progress in Brain Research 108. Amsterdam: Elsevier, pp. 333-346.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., and Van Pelt, J. (1994). Activity-dependent neurite outgrowth and neural network development. In: Van Pelt, J., Corner, M. A., Uylings, H. B. M., and Lopes da Silva, F. H., eds. The Self-Organizing Brain: From Growth Cones to Functional Networks, Progress in Brain Research 102. Amsterdam: Elsevier, pp. 245-259.
  [Abstract]

Miscellaneous

• Van Ooyen, A., and Roelfsema, P. R. (2006). Envisioning the reward. (Preview of M. G. Shuler and M. F. Bear, 2006, Reward timing in the primary visual cortex, Science 311: 1606-1609.) Neuron 50: 188-190.
  [Abstract] [Full text: PDF]

• Van Ooyen, A. (2000). Book review of Methods in Neuronal Modeling (C. Koch and I. Segev, eds., 1998, Cambridge, MA: MIT Press). International Journal of Neural Systems 10: 331-332.
  [Full text: PDF]

• Van der Putten, H. C. N., Van Bemmelen, C. E., en Van Ooyen, A. (1986). De natuurlijke kwaliteit van de terreinen Vijverhof en Binnenhof. Stichting voor Toegepaste Landschapsekologie. Rapport nr. 23, 14 pp.
  [Abstract] [Full text: PDF]

• Van Ooyen, A., en Wever, H. (1984). Broedvogelinventarisatie van het landgoed Vollenhoven, met vergelijking tussen de jaren 1976, 1979, 1980 en 1984. Rapport, 15 pp. (Productie en verspreiding van het rapport kwam tot stand met medewerking van Staatsbosbeheer.)
  [Abstract] [Full text: PDF]

• Vorst, O., en Van Ooyen, A. (1983). Flora & fauna van de Kuil van de Krakeling. Rapport, 22 pp.
  [Abstract] [Full text: PDF]

• Vorst, O., en Van Ooyen, A. (1980). Flora, vegetatie & fauna van het landgoed Vollenhoven. Rapport, 76 pp.
  [Abstract] [Full text: PDF]

• Als vogelteller meegewerkt aan de volgende boeken/rapporten:
  Broedvogels in Nederland 2010 t'm Broedvogels in Nederland 2020. SOVON rapporten.
  Vogels van Schiermonnikoog. Uitgeverij Uniepers 2005.
  Vogeltrek over Nederland 1976-1993. LWVT/SOVON 2002, Schuyt & Co, Haarlem.
  Atlas van de Nederlandse Vogels. SOVON 1987.