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Dynamic Hebbian Cross-Correlation Learning Resolves the Spike Timing Dependent Plasticity Conundrum.

Olde Scheper TV, Meredith RM, Mansvelder HD, van Pelt J, van Ooyen A.

Front Comput Neurosci. 2018 Jan 11;11:119. doi: 10.3389/fncom.2017.00119. eCollection 2017.


Editorial: Anatomy and Plasticity in Large-Scale Brain Models.

Butz M, Schenck W, van Ooyen A.

Front Neuroanat. 2016 Nov 7;10:108. eCollection 2016. No abstract available.


H-Channels Affect Frequency, Power and Amplitude Fluctuations of Neuronal Network Oscillations.

Avella Gonzalez OJ, Mansvelder HD, van Pelt J, van Ooyen A.

Front Comput Neurosci. 2015 Nov 19;9:141. doi: 10.3389/fncom.2015.00141. eCollection 2015.


Homeostatic structural plasticity can account for topology changes following deafferentation and focal stroke.

Butz M, Steenbuck ID, van Ooyen A.

Front Neuroanat. 2014 Oct 16;8:115. doi: 10.3389/fnana.2014.00115. eCollection 2014.


Axonal and dendritic density field estimation from incomplete single-slice neuronal reconstructions.

van Pelt J, van Ooyen A, Uylings HB.

Front Neuroanat. 2014 Jun 25;8:54. doi: 10.3389/fnana.2014.00054. eCollection 2014.


Inter-network interactions: impact of connections between oscillatory neuronal networks on oscillation frequency and pattern.

Avella Gonzalez OJ, van Aerde KI, Mansvelder HD, van Pelt J, van Ooyen A.

PLoS One. 2014 Jul 9;9(7):e100899. doi: 10.1371/journal.pone.0100899. eCollection 2014.


Development of dendritic tonic GABAergic inhibition regulates excitability and plasticity in CA1 pyramidal neurons.

Groen MR, Paulsen O, Pérez-Garci E, Nevian T, Wortel J, Dekker MP, Mansvelder HD, van Ooyen A, Meredith RM.

J Neurophysiol. 2014 Jul 15;112(2):287-99. doi: 10.1152/jn.00066.2014. Epub 2014 Apr 23.


Homeostatic structural plasticity increases the efficiency of small-world networks.

Butz M, Steenbuck ID, van Ooyen A.

Front Synaptic Neurosci. 2014 Apr 1;6:7. doi: 10.3389/fnsyn.2014.00007. eCollection 2014.


Competitive dynamics during resource-driven neurite outgrowth.

Hjorth JJ, van Pelt J, Mansvelder HD, van Ooyen A.

PLoS One. 2014 Feb 3;9(2):e86741. doi: 10.1371/journal.pone.0086741. eCollection 2014.


A morpho-density approach to estimating neural connectivity.

McAssey MP, Bijma F, Tarigan B, van Pelt J, van Ooyen A, de Gunst M.

PLoS One. 2014 Jan 29;9(1):e86526. doi: 10.1371/journal.pone.0086526. eCollection 2014.


Independently outgrowing neurons and geometry-based synapse formation produce networks with realistic synaptic connectivity.

van Ooyen A, Carnell A, de Ridder S, Tarigan B, Mansvelder HD, Bijma F, de Gunst M, van Pelt J.

PLoS One. 2014 Jan 16;9(1):e85858. doi: 10.1371/journal.pone.0085858. eCollection 2014.


Estimating neuronal connectivity from axonal and dendritic density fields.

van Pelt J, van Ooyen A.

Front Comput Neurosci. 2013 Nov 25;7:160. doi: 10.3389/fncom.2013.00160. eCollection 2013.


A simple rule for dendritic spine and axonal bouton formation can account for cortical reorganization after focal retinal lesions.

Butz M, van Ooyen A.

PLoS Comput Biol. 2013;9(10):e1003259. doi: 10.1371/journal.pcbi.1003259. Epub 2013 Oct 10. Erratum in: PLoS Comput Biol. 2013 Oct;9(10). doi:10.1371/annotation/e8b7df48-4639-4ac1-8a98-cb13dea3415b.


Short term depression unmasks the ghost frequency.

Olde Scheper TV, Mansvelder HD, van Ooyen A.

PLoS One. 2012;7(12):e50189. doi: 10.1371/journal.pone.0050189. Epub 2012 Dec 5.


External drive to inhibitory cells induces alternating episodes of high- and low-amplitude oscillations.

Avella Gonzalez OJ, van Aerde KI, van Elburg RA, Poil SS, Mansvelder HD, Linkenkaer-Hansen K, van Pelt J, van Ooyen A.

PLoS Comput Biol. 2012;8(8):e1002666. doi: 10.1371/journal.pcbi.1002666. Epub 2012 Aug 30.


Spine calcium transients induced by synaptically-evoked action potentials can predict synapse location and establish synaptic democracy.

Sterratt DC, Groen MR, Meredith RM, van Ooyen A.

PLoS Comput Biol. 2012;8(6):e1002545. doi: 10.1371/journal.pcbi.1002545. Epub 2012 Jun 14.


Novel candidate genes associated with hippocampal oscillations.

Jansen R, Timmerman J, Loos M, Spijker S, van Ooyen A, Brussaard AB, Mansvelder HD; Neuro-Bsik Mouse Phenomics Consortium, Smit AB, de Gunst M, Linkenkaer-Hansen K.

PLoS One. 2011;6(10):e26586. doi: 10.1371/journal.pone.0026586. Epub 2011 Oct 31.


Using theoretical models to analyse neural development.

van Ooyen A.

Nat Rev Neurosci. 2011 Jun;12(6):311-26. doi: 10.1038/nrn3031. Epub 2011 May 18. Review. Erratum in: Nat Rev Neurosci. 2011 Aug;12(8):484.


Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88.

Andersen MR, Salazar MP, Schaap PJ, van de Vondervoort PJ, Culley D, Thykaer J, Frisvad JC, Nielsen KF, Albang R, Albermann K, Berka RM, Braus GH, Braus-Stromeyer SA, Corrochano LM, Dai Z, van Dijck PW, Hofmann G, Lasure LL, Magnuson JK, Menke H, Meijer M, Meijer SL, Nielsen JB, Nielsen ML, van Ooyen AJ, Pel HJ, Poulsen L, Samson RA, Stam H, Tsang A, van den Brink JM, Atkins A, Aerts A, Shapiro H, Pangilinan J, Salamov A, Lou Y, Lindquist E, Lucas S, Grimwood J, Grigoriev IV, Kubicek CP, Martinez D, van Peij NN, Roubos JA, Nielsen J, Baker SE.

Genome Res. 2011 Jun;21(6):885-97. doi: 10.1101/gr.112169.110. Epub 2011 May 4.


Automated analysis of neuronal morphology, synapse number and synaptic recruitment.

Schmitz SK, Hjorth JJ, Joemai RM, Wijntjes R, Eijgenraam S, de Bruijn P, Georgiou C, de Jong AP, van Ooyen A, Verhage M, Cornelisse LN, Toonen RF, Veldkamp WJ.

J Neurosci Methods. 2011 Feb 15;195(2):185-93. doi: 10.1016/j.jneumeth.2010.12.011. Epub 2010 Dec 15. Erratum in: J Neurosci Methods. 2011 Apr 15;197(1):190. Veldkamp, Wouter [corrected to Veldkamp, Wouter J H].


Engineering of geranylgeranyl pyrophosphate synthase levels and physiological conditions for enhanced carotenoid and astaxanthin synthesis in Xanthophyllomyces dendrorhous.

Breitenbach J, Visser H, Verdoes JC, van Ooyen AJ, Sandmann G.

Biotechnol Lett. 2011 Apr;33(4):755-61. doi: 10.1007/s10529-010-0495-2. Epub 2010 Dec 17.


An algorithm for finding candidate synaptic sites in computer generated networks of neurons with realistic morphologies.

van Pelt J, Carnell A, de Ridder S, Mansvelder HD, van Ooyen A.

Front Comput Neurosci. 2010 Nov 29;4:148. doi: 10.3389/fncom.2010.00148. eCollection 2010.


Heterologous carotenoid production in Saccharomyces cerevisiae induces the pleiotropic drug resistance stress response.

Verwaal R, Jiang Y, Wang J, Daran JM, Sandmann G, van den Berg JA, van Ooyen AJ.

Yeast. 2010 Dec;27(12):983-98. doi: 10.1002/yea.1807.


Low density cell culture of locust neurons in closed-channel microfluidic devices.

Göbbels K, Thiebes AL, van Ooyen A, Schnakenberg U, Bräunig P.

J Insect Physiol. 2010 Aug;56(8):1003-9. doi: 10.1016/j.jinsphys.2010.05.017. Epub 2010 Jun 3.


Impact of dendritic size and dendritic topology on burst firing in pyramidal cells.

van Elburg RA, van Ooyen A.

PLoS Comput Biol. 2010 May 13;6(5):e1000781. doi: 10.1371/journal.pcbi.1000781.


Note: Characterization of electrode materials for dielectric spectroscopy.

Malleo D, Nevill JT, van Ooyen A, Schnakenberg U, Lee LP, Morgan H.

Rev Sci Instrum. 2010 Jan;81(1):016104. doi: 10.1063/1.3284516.


The brain can eat: establishing the existence of a central pattern generator for feeding in third instar larvae of Drosophila virilis and Drosophila melanogaster.

Schoofs A, Niederegger S, van Ooyen A, Heinzel HG, Spiess R.

J Insect Physiol. 2010 Jul;56(7):695-705. doi: 10.1016/j.jinsphys.2009.12.008. Epub 2010 Jan 19.


Perceptual learning rules based on reinforcers and attention.

Roelfsema PR, van Ooyen A, Watanabe T.

Trends Cogn Sci. 2010 Feb;14(2):64-71. doi: 10.1016/j.tics.2009.11.005. Epub 2010 Jan 8. Review.


Pulse-clamp technique for single neuron stimulation electrode characterization.

van Ooyen A, Zagolla VG, Ulrich C, Schnakenberg U.

Conf Proc IEEE Eng Med Biol Soc. 2009;2009:1635-8. doi: 10.1109/IEMBS.2009.5334236.


Iridium oxide microelectrode arrays for in vitro stimulation of individual rat neurons from dissociated cultures.

Eick S, Wallys J, Hofmann B, van Ooyen A, Schnakenberg U, Ingebrandt S, Offenhäusser A.

Front Neuroeng. 2009 Nov 16;2:16. doi: 10.3389/neuro.16.016.2009. eCollection 2009.


Neuronal cell growth on iridium oxide.

Göbbels K, Kuenzel T, van Ooyen A, Baumgartner W, Schnakenberg U, Bräunig P.

Biomaterials. 2010 Feb;31(6):1055-67. doi: 10.1016/j.biomaterials.2009.10.029. Epub 2009 Oct 25.


Inbred mouse strains differ in multiple hippocampal activity traits.

Jansen R, Linkenkaer-Hansen K, Heistek T, Timmerman J, Mansvelder HD, Brussaard AB, de Gunst M, van Ooyen A.

Eur J Neurosci. 2009 Sep;30(6):1092-100. doi: 10.1111/j.1460-9568.2009.06883.x. Epub 2009 Sep 4.


A model for cortical rewiring following deafferentation and focal stroke.

Butz M, van Ooyen A, Wörgötter F.

Front Comput Neurosci. 2009 Aug 4;3:10. doi: 10.3389/neuro.10.010.2009. eCollection 2009.


NETMORPH: a framework for the stochastic generation of large scale neuronal networks with realistic neuron morphologies.

Koene RA, Tijms B, van Hees P, Postma F, de Ridder A, Ramakers GJ, van Pelt J, van Ooyen A.

Neuroinformatics. 2009 Sep;7(3):195-210. doi: 10.1007/s12021-009-9052-3. Epub 2009 Aug 12.


A simple rule for axon outgrowth and synaptic competition generates realistic connection lengths and filling fractions.

Kaiser M, Hilgetag CC, van Ooyen A.

Cereb Cortex. 2009 Dec;19(12):3001-10. doi: 10.1093/cercor/bhp071. Epub 2009 May 12.


Generalization of the event-based Carnevale-Hines integration scheme for integrate-and-fire models.

van Elburg RA, van Ooyen A.

Neural Comput. 2009 Jul;21(7):1913-30. doi: 10.1162/neco.2009.07-08-815.


Altered temporal correlations in parietal alpha and prefrontal theta oscillations in early-stage Alzheimer disease.

Montez T, Poil SS, Jones BF, Manshanden I, Verbunt JP, van Dijk BW, Brussaard AB, van Ooyen A, Stam CJ, Scheltens P, Linkenkaer-Hansen K.

Proc Natl Acad Sci U S A. 2009 Feb 3;106(5):1614-9. doi: 10.1073/pnas.0811699106. Epub 2009 Jan 21.


Activity-dependent structural plasticity.

Butz M, Wörgötter F, van Ooyen A.

Brain Res Rev. 2009 May;60(2):287-305. doi: 10.1016/j.brainresrev.2008.12.023. Epub 2009 Jan 6. Review.


Genes involved in carotene synthesis and mating in Blakeslea trispora.

Kuzina V, Ramírez-Medina H, Visser H, van Ooyen AJ, Cerdá-Olmedo E, van den Berg JA.

Curr Genet. 2008 Sep;54(3):143-52. doi: 10.1007/s00294-008-0206-x. Epub 2008 Aug 2.


Inverse relationship between adult hippocampal cell proliferation and synaptic rewiring in the dentate gyrus.

Butz M, Teuchert-Noodt G, Grafen K, van Ooyen A.

Hippocampus. 2008;18(9):879-98. doi: 10.1002/hipo.20445.


Avalanche dynamics of human brain oscillations: relation to critical branching processes and temporal correlations.

Poil SS, van Ooyen A, Linkenkaer-Hansen K.

Hum Brain Mapp. 2008 Jul;29(7):770-7. doi: 10.1002/hbm.20590.


Low-frequency stimulation induces stable transitions in stereotypical activity in cortical networks.

Vajda I, van Pelt J, Wolters P, Chiappalone M, Martinoia S, van Someren E, van Ooyen A.

Biophys J. 2008 Jun;94(12):5028-39. doi: 10.1529/biophysj.107.112730. Epub 2008 Mar 13.


Genetic contributions to long-range temporal correlations in ongoing oscillations.

Linkenkaer-Hansen K, Smit DJ, Barkil A, van Beijsterveldt TE, Brussaard AB, Boomsma DI, van Ooyen A, de Geus EJ.

J Neurosci. 2007 Dec 12;27(50):13882-9.


Iridium sputtered at varying pressures and target-substrate-distances evaluated for use as stimulation electrode material.

Wessling B, van Ooyen A, Mokwa W, Schnakenberg U.

Conf Proc IEEE Eng Med Biol Soc. 2006;1:3353-6.


Prediction of visual evoked potentials at any surface location from a set of three recording electrodes.

Mazinani BA, Waberski TD, van Ooyen A, Walter P.

Doc Ophthalmol. 2008 May;116(3):207-16. Epub 2007 Oct 3.


High-level production of beta-carotene in Saccharomyces cerevisiae by successive transformation with carotenogenic genes from Xanthophyllomyces dendrorhous.

Verwaal R, Wang J, Meijnen JP, Visser H, Sandmann G, van den Berg JA, van Ooyen AJ.

Appl Environ Microbiol. 2007 Jul;73(13):4342-50. Epub 2007 May 11.


Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88.

Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R, Albermann K, Andersen MR, Bendtsen JD, Benen JA, van den Berg M, Breestraat S, Caddick MX, Contreras R, Cornell M, Coutinho PM, Danchin EG, Debets AJ, Dekker P, van Dijck PW, van Dijk A, Dijkhuizen L, Driessen AJ, d'Enfert C, Geysens S, Goosen C, Groot GS, de Groot PW, Guillemette T, Henrissat B, Herweijer M, van den Hombergh JP, van den Hondel CA, van der Heijden RT, van der Kaaij RM, Klis FM, Kools HJ, Kubicek CP, van Kuyk PA, Lauber J, Lu X, van der Maarel MJ, Meulenberg R, Menke H, Mortimer MA, Nielsen J, Oliver SG, Olsthoorn M, Pal K, van Peij NN, Ram AF, Rinas U, Roubos JA, Sagt CM, Schmoll M, Sun J, Ussery D, Varga J, Vervecken W, van de Vondervoort PJ, Wedler H, Wösten HA, Zeng AP, van Ooyen AJ, Visser J, Stam H.

Nat Biotechnol. 2007 Feb;25(2):221-31. Epub 2007 Jan 28.


A mathematical framework for modeling axon guidance.

Krottje JK, van Ooyen A.

Bull Math Biol. 2007 Jan;69(1):3-31. Epub 2006 Oct 24.


Generation of time delays: simplified models of intracellular signalling in cerebellar Purkinje cells.

Steuber V, Willshaw D, Van Ooyen A.

Network. 2006 Jun;17(2):173-91. Erratum in: Network. 2006 Sep;17(3):299.


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