|
Daniel Wagenaar has moved to Caltech. This webpage has moved to: http://www.danielwagenaar.net/pubs.html. Please update your bookmarks. You will be redirected shortly. |
D. L. Fortin, M. R. Banghart, T. W. Dunn, K. Borges, D. A. Wagenaar, Q. Gaudry, M. H. Karakossian, T. S. Otis, W. B. Kristan, D. Trauner, and R. H. Kramer, 2008. Photochemical control of endogenous ion channels and cellular excitability. Nat Methods, doi 10.1038/nmeth.1187. [Abstract] [PubMed] [Preprint (pdf)]
S. M. Baca*, A. Marin-Burgin*, D. A. Wagenaar*, and W. B. Kristan, 2008. Widespread inhibition proportional to excitation controls the gain of a leech behavioral circuit. Neuron 57(2), 276-289. [Abstract] [PubMed] [Preprint (pdf)]
J. D. Rolston, D. A. Wagenaar, and S. M. Potter, 2007. Precisely timed spatiotemporal patterns of neural activity in dissociated cortical cultures. Neuroscience 148(1), 294-303. [Abstract] [PubMed] [GScholar]
D. A. Wagenaar, J. Pine, and S. M. Potter, 2006. Searching for plasticity in dissociated cortical cultures on multi-electrode arrays. J. Negat. Results BioMed. 5, art. no. 16. [Abstract] [PubMed] [Corrected version (pdf)] [Corrigenda]
D. A. Wagenaar, J. Pine, and S. M. Potter, 2006. An extremely rich repertoire of bursting patterns during the development of cortical cultures. BMC Neurosci. 7, art. no. 11. [Abstract] [PubMed] [Preprint (pdf)]
D. A. Wagenaar, Z. Nadasdy, and S. M. Potter, 2006. Persistent dynamic attractors in activity patterns of cultured neuronal networks. Phys. Rev. E 73, art. no. 051907. [Abstract] [PubMed] [Preprint (pdf)]
D. A. Wagenaar, R. Madhavan, J. Pine, and S. M. Potter, 2005. Controlling bursting in cortical cultures with closed-loop multi-electrode stimulation. J. Neurosci. 25(3), 680–688. [Abstract] [PubMed] [Preprint (pdf)]
(The Economist featured this work in this article on February 5, 2005.)
C. Fonck, B. N. Cohen, R. Nashmi, P. Whiteaker, D. A. Wagenaar, N. Rodrigues-Pinguet, P. Deshpande, S. McKinney, S. Kwoh, J. Munoz, C. Labarca, A. C. Collins, M. J. Marks, and H. A. Lester, 2005. Novel seizure phenotype and sleep disruptions in knock-in mice with hypersensitive α4* nicotinic receptors. J. Neurosci. 25(49), 11396–11411. [Abstract] [PubMed] [GScholar]
Z. C. Chow, D. J. Bakkum, D. A. Wagenaar, and S. M. Potter, 2005. Effects of random external background stimulation on network synaptic stability after tetanization: a modeling study. Neuroinformatics 3(3), 263–280. [Abstract] [PubMed] [GScholar]
D. A. Wagenaar and C. Adami, 2004. Influence of chance, history, and adaptation on digital evolution. Artificial Life 10(2), 181–190. [Abstract] [PubMed] [GScholar]
D. A. Wagenaar, J. Pine, and S. M. Potter, 2004. Effective parameters for stimulation of dissociated cultures using multi-electrode arrays. J. Neurosci. Methods 138(1–2), 27–37. [Abstract] [PubMed] [Preprint (pdf)]
D. A. Wagenaar and S. M. Potter, 2004. A versatile all-channel stimulator for electrode arrays, with real-time control. J. Neural Eng. 1, 39–44. [Abstract] [PubMed] [Full text (pdf)] PCB layout and code available on request.
D. A. Wagenaar and S. M. Potter, 2002. Real-time multi-channel stimulus artifact suppression by local curve fitting. J. Neurosci. Methods 120, 113–120. [Abstract] [PubMed] [Preprint (pdf)] Code available on request.
T. B. DeMarse, D. A. Wagenaar, A. W. Blau, and S. M. Potter, 2001. The neurally controlled animat: Biological brains acting with simulated bodies. Auton. Robots 11, 305–310. [Abstract] [GScholar]
* These three authors contributed equally to this work. [back]
S. M. Potter, D. A. Wagenaar, and T. B. DeMarse, 2006. Closing the loop: Stimulation feedback systems for embodied MEA cultures. In: Advances in network electrophysiology using multi-electrode arrays, M. Taketani and M. Baudry, eds., Kluwer, New York. [Preprint (pdf)]
R. Madhavan, Z. C. Chao, D. A. Wagenaar, and S. M. Potter, 2006. Multi-site stimulation quiets network-wide spontaneous bursts and enhances functional plasticity in cultured cortical networks. Conf. Proc. IEEE Eng. Med. Biol. Soc. 1, 1593-1596. [Abstract]
D. A. Wagenaar, T. B. DeMarse, and S. M. Potter, 2005. MEABench: A toolset for multi-electrode data acquisition and on-line analysis. Proc. 2nd Int. IEEE EMBS Conf. Neural Eng., M. Akay, L. J. Wolf, and J. Stock, eds., 518–521. [Abstract] [Preprint (pdf)]
S. M. Potter, T. B. DeMarse, A. W. Blau, and D. A. Wagenaar, 2003. Multi-photon time-lapse microscopy and optical recording to study neural processing and plasticity. Microsc. Microanal. 9(S2), 184–185. [Preprint (pdf)]
D. A. Wagenaar and C. Adami, 2000. Influence of chance, history and adaptation on evolution in Digitalia. Proc. Alife 7, 216–220. [Abstract] [Preprint (pdf)]
D. A. Wagenaar, S. M. Baca, A. Marin-Burgin, and W. B. Kristan. Inhibition helps shape the spatial and temporal profiles of the local bend response of the medicinal leech. 37th Annual Meeting of the Society for Neuroscience, San Diego, CA, 2007. Prog. no. 312.10. [Abstract]
D. A. Wagenaar, S. M. Baca, A. Marin-Burgin, and W. B. Kristan. Role of inhibition in the local bend response of the medicinal leech. Eighth International Congress of Neuroethology, Vancouver, Canada, 2007. Prog. no. PO226. [Abstract]
D. A. Wagenaar, T. Huang, W. B. Kristan, and K. A. French. A snail’s approach to leech reproduction. 36th Annual Meeting of the Society for Neuroscience, Atlanta, GA, 2006. Prog. no. 259.8. [Abstract]
J. D. Rolston, D. A. Wagenaar, and S. M. Potter. Precisely timed spatiotemporal patterns of neural activity in dissociated cortical cultures. 36th Annual Meeting of the Society for Neuroscience, Atlanta, GA, 2006. Prog. no. 432.11. [Abstract]
D. A. Wagenaar, R. Gonzalez, K. A. French, and W. B. Kristan. Alpha-conotoxin Im1 makes leeches swim erratically. 36th Annual Meeting of the Society for Neuroscience, Atlanta, GA, 2006. Prog. no. 253.2. [Abstract]
Z. C. Chao, D. J. Bakkum, D. A. Wagenaar, and S. M. Potter. Network plasticity in simulated and living cortical networks: comparison of the Center of Activity Trajectory (CAT) with other metrics. Substrate-Integrated Micro-Electrode Arrays, Reutlingen, Germany, July 2006. [Abstract]
D. A. Wagenaar, J. Pine, and S. M. Potter. Large database of spontaneous and evoked activity patterns in developing networks. Substrate-Integrated Micro-Electrode Arrays, Reutlingen, Germany, July 2006. [Abstract]
D. A. Wagenaar, J. Pine, and S. M. Potter. Cortical cultures exhibit an extremely rich repertoire of bursting patterns. 35th Annual Meeting of the Society for Neuroscience, Washington, DC, 2005. Prog. no. 249.14. [Abstract]
D. J. Bakkum, Z. C. Chao, D. A. Wagenaar, and S. M. Potter. Self-regulation and electrically evoked precisely timed cortical culture activity as a means to control a hybrot. 35th Annual Meeting of the Society for Neuroscience, Washington, DC, 2005. Prog. no. 276.19. [Abstract]
D. A. Wagenaar, J. Pine, and S. M. Potter. Control of bursting in neuronal ensembles by closed-loop control of tonic firing rates. Dynamical Neuroscience XII (“Closing the loop”), satellite at 34th Annual Meeting of the Society for Neuroscience, San Diego, CA, Oct 21–22, 2004. [Abstract]
D. A. Wagenaar, H. Glidden, S. M. Potter, and J. Pine. Waking up dissociated cultures of cortical neurons by substituting cholinergic afferents. FENS Forum, Lisbon, July 2004. [Abstract]
S. M. Potter, T. B. DeMarse, D. J. Bakkum, M. C. Booth, J. R. Brumfield, Z. C. Chao, R. Madhavan, P. A. Passaro, K. Rambani, A. C. Shkolnik, R. B. Towal, and D. A. Wagenaar. Hybrots: hybrids of living neurons and robots for studying neural computation. Brain Inspired Cognitive Systems, Stirling, UK, Aug 29–Sep 1, 2004. [Abstract] [GScholar]
D. A. Wagenaar, R. Madhavan, J. Pine, and S. M. Potter. Multi-site stimulation for controlling bursting in cortical ensembles. NIH Workshop on Neural Interfaces, Bethesda, MD, Nov 15–17, 2004. [Abstract]
D. A. Wagenaar, S. M. Potter, and J. Pine. Real-time bidirectional communication with neuronal cultures. Substrate-Integrated Micro-Electrode Arrays, Reutlingen, Germany, July 2004. [Abstract]
D. A. Wagenaar, J. Pine, and S. M. Potter. Parameters for voltage- and current-controlled stimulation of cortical cultures through multi-electrode arrays. 33rd Annual Meeting of the Society for Neuroscience, New Orleans, LA, 2003. [Abstract]
S. M. Potter, D. A. Wagenaar, R. Madhavan, and T. B. DeMarse. Long-term bidirectional neuron interfaces for robotic control and in vitro learning studies. 25th Annual International Conference of IEEE EMBS, Cancun, Mexico, 2003. [Abstract]
D. A. Wagenaar, R. Madhavan, and S. M. Potter. Stimulating news for MEA enthusiasts. Substrate-Integrated Micro-Electrode Arrays, Denton, TX, 2003. [Abstract (pdf)]
R. Madhavan, D. A. Wagenaar, Z. C. Chow, and S. M. Potter. Control of bursting in dissociated cortical cultures on multi-electrode arrays. Substrate-Integrated Micro-Electrode Arrays, Denton, TX, 2003. [Abstract (pdf)]
R. Madhavan, D. A. Wagenaar, and S. M. Potter. Multi-site stimulation quiets bursts and enhances plasticity in cultured networks. 33rd Annual Meeting of the Society for Neuroscience, New Orleans, LA, 2003. [Abstract]
Z. Nadasdy, D. A. Wagenaar, and S. M. Potter. Attractor dynamics of superbursts in living neural networks. 33rd Annual Meeting of the Society for Neuroscience, New Orleans, LA, 2003. [Abstract]
D. A. Wagenaar, T. B. DeMarse, J. Pine, and S. M. Potter. Precise timing in early response to electric stimulation in dense cultures of cortical neurons. Proc. Mathematics in Molecular Biology, Santa Fe, NM, 2002. [Abstract]
D. A. Wagenaar, T. B. DeMarse, and S. M. Potter. Response properties of cultured cortical networks as a substrate for the study of learning in vitro. Int. Conf. Cognitive and Neural Systems, Boston University, Boston, MA, 2002. [Abstract]
Z. Nadasdy, R. Quian Quiroga, Y. Ben-Shaul, B. Pesaran, D. A. Wagenaar, and R. Andersen. Comparison of unsupervised algorithms for on-line and off-line spike sorting. 32nd Annual Meeting of the Society for Neuroscience, Orlando, FL, 2002. [Abstract]
T. B. DeMarse, D. A. Wagenaar, and S. M. Potter. The neurally-controlled artificial animal: a neural-computer interface between cultured neural networks and a robotic body. 32nd Annual Meeting of the Society for Neuroscience, Orlando, FL, 2002. [Abstract] [GScholar]
D. A. Wagenaar, T. B. DeMarse, J. Pine, and S. M. Potter. Development of complex activity patterns in cortical networks cultured on multi-electrode arrays. 31st Annual Meeting of the Society for Neuroscience, San Diego, CA, 2001. [Abstract]
D. A. Wagenaar, T. B. DeMarse, and S. M. Potter. A toolset for realtime analysis of network dynamics in dense cultures of cortical neurons. 7th Joint Symposium on Neural Computation, University of California at San Diego, La Jolla, CA, 2001. [Abstract]
T. B. DeMarse, D. A. Wagenaar, A. W. Blau, and S. M. Potter. Interfacing neuronal cultures to a computer generated virtual world. 6th Joint Symposium on Neural Computation, University of Southern California, Los Angeles, CA, 2000. [Abstract] [GScholar]
T. B. DeMarse, D. A. Wagenaar, A. W. Blau, and S. M. Potter. Neurally controlled computer-simulated animals: a new tool for studying learning and memory in vitro. 30th Annual Meeting of the Society for Neuroscience, New Orleans, LA, 2000. Prog. No. 467.20. [Abstract]
Development and control of epileptiform bursting in dissociated cortical cultures. California Institute of Technology, defended June 21st, 2005. [Abstract] [Full text (pdf)] [Supplemental movie]
Training Kanter’s bit generator by natural gradient descent. Dept. of Mathematics, King's College London, 1998. [Abstract] [Full text (pdf)]
Particles in string theory. Dept. of Physics, University of Amsterdam, 1997. [Abstract] [Full text (pdf)]
Cortical stimulation for the evocation of visual perception. Term paper for CNS247: Cerebral cortex, class by R. Andersen, Caltech, 2004. [Full text (pdf)]
Review of prototype of new MEAs from MultiChannel Systems. Email to “MEA users” group, February 2003. [Full text]
Can patterned external input carve out patterned functional neuronal networks in vitro? Research proposal, Caltech, 2002.
Navigating a 2D world using a 1D compound eye. Term project for CNS186: Vision, class by C. Koch, P. Perona, and S. Shimojo, Caltech, 2002. [Full text (pdf)]
Sensitivity of cortical cells to precisely timed paired pulse stimulation in culture. Research proposal, Caltech, 2002.
Information routing by visual attention in striate and extrastriate cortex. Term project for CNS 120: Neural basis of consciousness, class by C. Koch, Caltech, 2001. [Full text (pdf)]
Use of information theory in studies of efficiency of cortical coding of natural stimuli. Term project for Ph/Bi 103b: Introduction to neuroscience for physicists and engineers, class by J. Pine, Caltech, 2000. [Full text (pdf)]
FSMEM for MoG. Term project for CS/CNS/EE 156b: Learning systems, class by P. Perona and M. Welling, Caltech, 2000. [Full text (pdf)]
Information geometry for neural networks. Term paper for reading course with A. C. C. Coolen, King’s College London, 1998. [Abstract] [Full text (pdf)]
D. Bourilkov and D. A. Wagenaar. The resolution of the L3 TEC after the calibration using the SMD. L3 technical note 1871, CERN, Geneva, 1995. [Abstract] [Full text (pdf)]
– Preprints match the text of published articles, but not the journal's mark-up.
– In many cases, the PubMed links provide access to authoritive versions of the full text.
– Links to Google Scholar results are provided for some articles for which I cannot provide a full-text preprint on this site.
– If you cannot obtain a copy of an article through PubMed, please feel free to email me to request a reprint.
