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Sightings of Synapse Web Tools Use and Synapse Web Data in Scientific Communications:

Serial Section Reconstruction Methods Reprints:

• Fiala JC, Harris KM (2001) Extending unbiased stereology of brain ultrastructure to three-dimensional volumes. Journal of the American Medical Informatics Association. 8(1):1-16. (1437K PDF)
• Fiala JC, Harris KM (2001) Cylindrical diameters method for calibrating section thickness in serial electron microscopy. J Microscopy 202(3):468-472. (247K PDF)
• Fiala JC, Harris KM (2002) Computer-based alignment and reconstruction of serial sections. Microscopy and Analysis. USA Edition. 52:5-7. (Preprint 414K PDF)
• Fiala JC (2002) Three-dimensional structure of synapses in the brain and on the web. Proceedings of the 2002 International Joint Conference on Neural Networks, May 12-17, Honolulu, Hawaii, pp. 1-4. (469K PDF)

Scientific Publications Demonstrating Software Use:

	Synaptogenesis via dendritic filopodia in developing hippocampal area CA1. J.C. Fiala, M. Feinberg, V. Popov and K.M. Harris J Neurosci 1998 18(21):8900-8911. (1183K PDF)
	Three-dimensional structure and composition of CA3-->CA1 axons in rat hippocampal slices: implications for presynaptic connectivity and compartmentalization. G.M.G. Shepherd and K.M. Harris J Neurosci 1998 18(20):8300-8310. (964K PDF)
	LTP Promotes Formation of Multiple Spine Synapses Between a Single Axon Terminal and a Dendrite. N. Toni, P.-A. Buchs, I. Nikonenko, C. R. Bron, and D. Muller Nature 1999 402: 421-425. (368K PDF)
	Three-dimensional relationships between hippocampal synapses and astrocytes. R. Ventura and K.M. Harris J Neurosci 1999 19(16):6897-6906. (888K PDF)
	Clathrin-Mediated Endocytosis near Active Zones in Snake Motor Boutons Haibing Teng and Robert S. Wilkinson J Neurosci 2000 20(21):7986-7993. (930K PDF)
	Specialized Synapse-Associated Structures within the Calyx of Held Kevin C. Rowland, Nancy K. Irby, and George A. Spirou J Neurosci 2000 20(24):9135-9144. (1,541K PDF)
	Untangling Dendrites with Quantitative Models. Idan Segev and Michael London Science 2000 290: 744-750. (735K PDF)
	Estrogen increases synaptic connectivity between single presynaptic inputs and multiple postsynaptic CA1 pyramidal cells: A serial electron-microscopic study Maya Yankova, Sharron A. Hart, and Catherine S. Woolley PNAS 2001 98(6): 3525-3530. (703K PDF)
	Remodeling of synaptic membranes after induction of long-term potentiation Nicolas Toni, Pierre-Alain Buchs, Irina Nikonenko, Patrisia Povilaitite, Lorena Parisi, and Dominique Muller J Neurosci 2001 21(16): 6245-6251. (403K PDF)
	Receptors and transduction in taste Bernd Lindemann Nature 2001 413: 219-225. (819K PDF) Reconstruction by Victor I. Popov, Institute of Cell Biophysics, RAS, Pushchino, Russia
	Three-dimensional comparison of ultrastructural characteristics at depressing and facilitating synapses onto cerebellar Purkinje cells. M.A. Xu-Friedman, K.M. Harris and W.G. Regehr J Neurosci 2001 21(17):6666-6672. (2,076K PDF)
	General and variable features of varicosity spacing along unmyelinated axons in the hippocampus and cerebellum Gordan M. G. Shepherd, Morten Raastad, Per Andersen PNAS 2002 99(9): 6340-6345. (315K PDF)
	Endosomal compartments serve multiple hippocampal dendritic spines from a widespread rather than a local store of recycling membrane. J.R. Cooney, J.L. Hurlburt,D.K. Selig, K.M. Harris and J.C. Fiala J Neurosci 2002 22(6):2215-2224. (763K PDF)
	Dendritic spines do not split during hippocampus LTP or maturation. J.C. Fiala, B. Allwardt and K.M. Harris Nat Neurosci 2002 5(4):297-298. (311K PDF)
	Remodeling of hippocampal synaptic networks by a brief anoxia-hypoglycemia Pascal Jourdain, Irina Nikonenko, Stefano Alberi, Dominique Muller J Neurosci 2002 22(8): 3108-3116. (791K PDF)
	Polyribosomes redistribute from dendritic shafts into spines with enlarged synapses during LTP in developing rat hippocampal slices. L.E. Ostroff, J.C. Fiala, B. Allwardt and K.M. Harris Neuron 2002 35(3):535-45. (550K PDF)
	Computerized morphometry and three-dimensional image reconstruction in the evaluation of scalp biopsy from patients with non-cicatricial alopecias. D.T. Shum, H. Lui, M. Martinka, O. Bernardo and J. Shapiro Br J Dermatol 2003 148(2):272-8. (178K PDF)
	Ultrastructural contributions to desensitization at cerebellar mossy fiber to granule cell synapses. M. A. Xu-Friedman and W. G. Regehr J Neurosci 2003 23(6):2182-2192. (673K PDF)
	Rapid reversal of stress induced loss of synapses in CA3 of rat hippocampus following water maze training. C. Sandi, H.A. Davies, M.I. Cordero, J.J. Rodriguez, V.I. Popov, M.G. Stewart Eur J Neurosci 2003 17(11):2447-2456. (518K PDF)
	Timing of neuronal and glial ultrastructure disruption during brain slice preparation and recovery in vitro. J.C. Fiala, S.A. Kirov, M.D. Feinberg, L.J. Petrak, P. George, C.A. Goddard and K.M. Harris J Comp Neurol 2003 465(1):90-103. (1,002K PDF)
	Three-dimentional organization of synapses and astroglia in the hippocampus of rats and ground squirrels: new structural and functional paradigms of the synapse function. V.I. Popov, N.I. Medvedev, V.V. Rogachevskii, D.A. Ignat'ev, M.G. Stewart, E.E. Fesenko Biofizika 2003 48(2):289-308. English translation PDF (4.4Mb)
	Presynaptic remodeling contributes to activity-dependent synaptogenesis. I. Nikonenko, P. Jourdain, D. Muller J Neurosci 2003 23(24):8498-505. (565K PDF)
	Trans-endocytosis via spinules in adult rat hippocampus. J. Spacek, K.M. Harris J Neurosci 2004 24(17):4233-41. (1,228K PDF)
	Axon branch removal at developing synapses by axosome shedding. Bishop DL, Walsh MK, Gan WB, Lichtman JW Neuron 2004 44(4):651-61. (752K PDF)
	Age-associated synapse elimination in mouse parasympathetic ganglia. Coggan J, Grutzendler J, Bishop DL, Cook MR, Gan WB, Heym J, and Lichtman JW Journal of Neurobiology 2004 60(2):214-26. (660K PDF)

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Last Updated: 7/28/2006