A comparison of manual neuronal reconstruction from biocytin histology or 2-photon imaging: morphometry and computer modeling

Aarts, 2014, A solution to dependency: using multilevel analysis to accommodate nested data, Nat. Neurosci, 17, 491, 10.1038/nn.3648

Acker, 2007, Roles of IA and morphology in action potential propagation in CA1 pyramidal cell dendrites, J. Comput. Neurosci, 23, 201, 10.1007/s10827-007-0028-8

Ascoli, 2006, Mobilizing the base of neuroscience data: the case of neuronal morphologies, Nat. Rev. Neurosci, 7, 318, 10.1038/nrn1885

Ascoli, 2008, Petilla terminology: nomenclature of features of GABAergic interneurons of the cerebral cortex, Nat. Rev. Neurosci, 9, 557, 10.1038/nrn2402

Ascoli, 2007, NeuroMorpho.Org: a central resource for neuronal morphologies, J. Neurosci, 27, 9247, 10.1523/JNEUROSCI.2055-07.2007

Blackman, 2013, Target cell-specific short-term plasticity in local circuits, Front. Syn. Neurosci, 5, 10.3389/fnsyn.2013.00011

Bland, 1986, Statistical methods for assessing agreement between two methods of clinical measurement, Lancet, 1, 307, 10.1016/S0140-6736(86)90837-8

Brette, 2007, Simulation of networks of spiking neurons: a review of tools and strategies, J. Comp. Neurosci, 23, 349, 10.1007/s10827-007-0038-6

Buchanan, 2012, Target-specific expression of presynaptic NMDA receptors in neocortical microcircuits, Neuron, 75, 451, 10.1016/j.neuron.2012.06.017

Cannon, 1999, Dendrites of classes of hippocampal neurons differ in structural complexity and branching patterns, J. Comp. Neurol, 413, 619, 10.1002/(SICI)1096-9861(19991101)413:4<619::AID-CNE10>3.0.CO;2-B

DeFelipe, 2013, New insights into the classification and nomenclature of cortical GABAergic interneurons, Nat. Rev. Neurosci, 14, 202, 10.1038/nrn3444

Denk, 1990, Two-photon laser scanning fluorescence microscopy, Science, 248, 73, 10.1126/science.2321027

Ding, 2009, Supraresolution imaging in brain slices using stimulated-emission depletion two-photon laser scanning microscopy, Neuron, 63, 429, 10.1016/j.neuron.2009.07.011

Douglas, 2004, Neuronal circuits of the neocortex, Annu. Rev. Neurosci, 27, 419, 10.1146/annurev.neuro.27.070203.144152

Dumitriu, 2011, High-throughput, detailed, cell-specific neuroanatomy of dendritic spines using microinjection and confocal microscopy, Nat. Protoc, 6, 1391, 10.1038/nprot.2011.389

Egger, 2008, Subcolumnar dendritic and axonal organization of spiny stellate and star pyramid neurons within a barrel in rat somatosensory cortex, Cereb. Cortex, 18, 876, 10.1093/cercor/bhm126

Evanko, 2009, Primer: fluorescence imaging under the diffraction limit, Nat. Meth, 6, 19, 10.1038/nmeth.f.235

Gidon, 2012, Principles governing the operation of synaptic inhibition in dendrites, Neuron, 75, 330, 10.1016/j.neuron.2012.05.015

Groh, 2010, Cell-type specific properties of pyramidal neurons in neocortex underlying a layout that is modifiable depending on the cortical area, Cereb. Cortex, 20, 826, 10.1093/cercor/bhp152

Halavi, 2012, Digital reconstructions of neuronal morphology: three decades of research trends, Front. Neurosci, 6, 10.3389/fnins.2012.00049

Hell, 2007, Far-field optical nanoscopy, Science, 316, 1153, 10.1126/science.1137395

Helmstaedter, 2013, Cellular-resolution connectomics: challenges of dense neural circuit reconstruction, Nat. Meth, 10, 501, 10.1038/nmeth.2476

Hines, 1997, The NEURON simulation environment, Neural Comput, 9, 1179, 10.1162/neco.1997.9.6.1179

Holmes, 1989, The role of dendritic diameters in maximizing the effectiveness of synaptic inputs, Brain Res, 478, 127, 10.1016/0006-8993(89)91484-4

Jarvis, 1973, On the identification of the convex hull of a finite set of points in the plane, Inf. Process. Lett, 2, 18, 10.1016/0020-0190(73)90020-3

Lichtman, 2011, The big and the small: challenges of imaging the brain's circuits, Science, 334, 618, 10.1126/science.1209168

Losavio, 2008, Live neuron morphology automatically reconstructed from multiphoton and confocal imaging data, J. Neurophysiol, 100, 2422, 10.1152/jn.90627.2008

Markram, 2013, Seven challenges for neuroscience, Funct. Neurol, 28, 145, 10.11138/FNeur/2013.28.3.144

Markram, 2004, Interneurons of the neocortical inhibitory system, Nat. Rev. Neurosci, 5, 793, 10.1038/nrn1519

Marx, 2012, Improved biocytin labeling and neuronal 3D reconstruction, Nat. Protoc, 7, 394, 10.1038/nprot.2011.449

Myatt, 2012, Neuromantic - from semi-manual to semi-automatic reconstruction of neuron morphology, Front. Neuroinform, 6, 10.3389/fninf.2012.00004

Osten, 2013, Mapping brain circuitry with a light microscope, Nat. Meth, 10, 515, 10.1038/nmeth.2477

Pologruto, 2003, ScanImage: flexible software for operating laser scanning microscopes, Biomed. Eng. Online, 2, 13, 10.1186/1475-925X-2-13

Pressler, 2006, Blanes cells mediate persistent feedforward inhibition onto granule cells in the olfactory bulb, Neuron, 49, 889, 10.1016/j.neuron.2006.02.019

Ragan, 2012, Serial two-photon tomography for automated ex vivo mouse brain imaging, Nat. Meth, 9, 255, 10.1038/nmeth.1854

Ramón y Cajal, 1911, Histologie du Système Nerveux de l'Homme et des Vertebrés

Sarid, 2007, Modeling a layer 4-to-layer 2/3 module of a single column in rat neocortex: Interweaving in vitro and in vivo experimental observations, Proc. Natl. Acad. Sci. U.S.A, 104, 16353, 10.1073/pnas.0707853104

Sarid, 2013, Contribution of intracolumnar layer 2/3-to-layer 2/3 excitatory connections in shaping the response to whisker deflection in rat barrel cortex, Cereb. Cortex, 10.1093/cercor/bht268

Schaefer, 2003, Coincidence detection in pyramidal neurons is tuned by their dendritic branching pattern, J. Neurophysiol, 89, 3143, 10.1152/jn.00046.2003

Scorcioni, 2008, L-Measure: a web-accessible tool for the analysis, comparison and search of digital reconstructions of neuronal morphologies, Nat. Protoc, 3, 866, 10.1038/nprot.2008.51

Segev, 1998, Cable and compartmental models of dendritic trees, The Book of Genesis, 51, 10.1007/978-1-4612-1634-6_5

Segev, 1995, The Theoretical Foundation of Dendritic Function

Senft, 2011, A brief history of neuronal reconstruction, Neuroinformatics, 9, 119, 10.1007/s12021-011-9107-0

Sholl, 1953, Dendritic organization in the neurons of the visual and motor cortices of the cat, J. Anat, 87, 387

Sjöström, 2001, Rate, timing, and cooperativity jointly determine cortical synaptic plasticity, Neuron, 32, 1149, 10.1016/S0896-6273(01)00542-6

Stuart, 2001, Dendritic coincidence detection of EPSPs and action potentials, Nat. Neurosci, 4, 63, 10.1038/82910

Stuart, 1998, Determinants of voltage attenuation in neocortical pyramidal neuron dendrites, J. Neurosci, 18, 3501, 10.1523/JNEUROSCI.18-10-03501.1998

Svoboda, 2011, The past, present, and future of single neuron reconstruction, Neuroinformatics, 9, 97, 10.1007/s12021-011-9097-y

Thomson, 2011, Biocytin-labelling and its impact on late 20th century studies of cortical circuitry, Brain Res. Rev, 66, 43, 10.1016/j.brainresrev.2010.04.004

Toledo-Rodriguez, 2005, Neuropeptide and calcium-binding protein gene expression profiles predict neuronal anatomical type in the juvenile rat, J. Physiol, 567, 401, 10.1113/jphysiol.2005.089250

Tsay, 2002, Role of dendritic spines in action potential backpropagation: a numerical simulation study, J. Neurophysiol, 88, 2834, 10.1152/jn.00781.2001

Tsiola, 2003, Quantitative morphologic classification of layer 5 neurons from mouse primary visual cortex, J. Comp. Neurol, 461, 415, 10.1002/cne.10628

Vetter, 2001, Propagation of action potentials in dendrites depends on dendritic morphology, J. Neurophysiol, 85, 926, 10.1152/jn.2001.85.2.926

Wang, 2004, Anatomical, physiological and molecular properties of Martinotti cells in the somatosensory cortex of the juvenile rat, J. Physiol, 561, 65, 10.1113/jphysiol.2004.073353

Williams, 2007, Semilunar granule cells: glutamatergic neurons in the rat dentate gyrus with axon collaterals in the inner molecular layer, J. Neurosci, 27, 13756, 10.1523/JNEUROSCI.4053-07.2007