Publications
Publications
on
Pubmed and
Google Scholar
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Year 2019
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Motta A, Schurr M, Staffler B, Helmstaedter M (2019), Big data in nanoscale connectomics, and the greed for training labels, ScienceDirect
Motta A, Berning M, Boergens K, Staffler B, Beining M, Loomba S, Hennig P, Wissler H, Helmstaedter M (2019) Dense connectomic reconstruction in layer 4 of the somatosensory cortex, Science
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Year 2018
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Drawitsch F, Karimi A, Boergens KM, Helmstaedter M (2018) FluoEM, virtual labeling of axons in 3-dimensional electron microscopy data for long-range connectomics, eLife DOI:10.7554/eLife.38976
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Kubota Y, Sohn J, Hatada S, Schurr M, Straehle J, Gour A, Neujahr R, Miki T, Mikula S, Kawaguchi Y (2018) A carbon nanotube tape for serial-section electron microscopy of brain ultrastructure, Nature Communications 9:437.Pubmed
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Year 2017
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Schmidt H, Gour A, Straehle J, Boergens KM, Brecht M, Helmstaedter M (2017) Axonal synapse sorting in medial entorhinal cortex, Nature 549:469-475.
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Boergens KM, Berning M, Bocklisch T, Braeunlein D, Drawitsch F, Frohnhofen J, Herold T, Otto P, Rzepka N, Werkmeister DW, Werner D, Wiese G, Wissler H, Helmstaedter M (2017) webKnossos: Efficient Online 3D Data Annotation for Connectomics, Nature Methods 14:691-694.
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Staffler B, Berning M, Boergens KM, Gour A, van der Smagt P, Helmstaedter M (2017) SynEM, automated synapse detection for connectomics, eLife, doi: 10.755/eLife.26414.
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Year 2016
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Amit I, Baker D, Barker R, Berger B, Bertozzi C, Bhatia S, Biffi A, Demichelis F, Doudna J, Dowdy SF, Endy D, Helmstaedter M et al. (2016) Voices of Biotech, Nature Biotechnology 34:270-275.
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Year 2015
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Berning M, Boergens KM, Helmstaedter, M (2015) SegEM: Efficient Image Analysis for High-Resolution Connectomics, Neuron 87:1193–1206. (cover article) News
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Borst A, Helmstaedter M (2015) Common Circuit Design in Fly and Mammalian Motion Vision, Nature Neuroscience 18:1067-76.
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Helmstaedter M (2015) The Mutual Inspirations of Machine Learning and Neuroscience, Neuron 86:25-8.
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Hoffmann JH, Meyer HS, Schmitt AC, Straehle J, Weitbrecht T, Sakmann B, Helmstaedter M. (2015) Synaptic Conductance Estimates of the Connection Between Local Inhibitor Interneurons and Pyramidal Neurons in Layer 2/3 of a Cortical Column, Cerebral Cortex 10:4451-29.
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Hua Y, Laserstein P, Helmstaedter M (2015) Large-Volume en-bloc Staining for Electron Microscopy-Based Connectomics, Nature Communications 6:7923.
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Koelbl C, Helmstaedter M, Luebke J, Feldmeyer D (2015) A Barrel-Related Interneuron in Layer 4 of Rat Somatosensory Cortex with a High Intrabarrel Connectivity, Cerebral Cortex 25:713-25.
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Year 2013
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Helmstaedter M, Briggman KL, Turaga SC, Jain V, Seung HS, Denk W (2013) Connectomic Reconstruction of the Inner Plexiform Layer in the Mouse Retina, Nature 500:168-74.
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Helmstaedter M (2013) Cellular-Resolution Connectomics: Challenges of Dense Neural Circuit Reconstruction, Nature Methods 10:501-7.
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Year 2012
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Andres B, Koethe U, Kroeger T, Helmstaedter M, Briggman KL, Denk W, Hamprecht FA (2012) 3D Segmentation of SBFSEM Images of Neuropil by a Graphical Model over Supervoxel Boundaries, Medical Image Analysis 16:796-805.
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Egger R, Narayanan RT, Helmstaedter M, de Kock CP, Oberlaender M (2012) 3D Reconstruction and Standardization of the Rat Vibrissal Cortex for Precise Registration of Single Neuron Morphology, PLOS Computational Biology 8.
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Denk W, Briggman KL, Helmstaedter M (2012) Structural Neurobiology: Missing Link to a Mechanistic Understanding of Neural Computation, Nature Reviews Neuroscience 13:351-358.
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Helmstaedter M, Mitra PP (2012) Computational Methods and Challenges for lLrge-Scale Circuit Mapping, Current Opinion in Neurobiology 22:162-9.Pubmed
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Oberlaender M, de Kock CP, Bruno RM, Ramirez A, Meyer HS, Dercksen VJ, Helmstaedter M, Sakmann B (2012) Cell Type-Specific Three-Dimensional Structure of Thalamocortical Circuits in a Column of Rat Vibrissal Cortex, Cerebral Cortex 22:2375-91.
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Year 2011
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Briggman KL, Helmstaedter M, Denk W (2011) Wiring Specificity in the Direction-Selectivity Circuit of the Retina, Nature 471:183-8.
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Helmstaedter M, Briggman KL, Denk W (2011) High-Accuracy Neurite Reconstruction for High-Throughput Neuroanatomy, Nature Neuroscience 14:1081-88.
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Kleinfeld D, Bharioke A, Blinder P, Bock DD, Briggman KL, Chklovskii DB, Denk W, Helmstaedter M et al. (2011) Large-Scale Automated Histology in the Pursuit of Connectomes, Journal of Neuroscience 31:16125-38.
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Meyer HS, Schwarz D, Wimmer VC, Schmitt AC, Kerr JN, Sakmann B, Helmstaedter M (2011) Inhibitory Interneurons in a Cortical Column form Hot Zones of Inhibition in Layers 2 and 5A, Proceedings of the National Academy of Sciences (PNAS) 108:16807-12.
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Year 2010
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Meyer HS, Wimmer VC, Hemberger M, Bruno RM, de Kock CP, Frick A, Sakmann B, Helmstaedter M (2010) Cell Type-Specific Thalamic Innervation in a Column of Rat Vibrissal Cortex, Cerebral Cortex 20:2287-303 (Cover article).
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Meyer HS, Wimmer VC, Oberlaender M, de Kock CP, Sakmann B, Helmstaedter M (2010) Number and Laminar Distribution of Neurons in a Thalamocortical Projection Column of Rat Vibrissal Cortex, Cerebral Cortex 20:2277-86.
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Turaga SC, Murray JF, Jain V, Roth F, Helmstaedter M, Briggman KL, Denk W, Seung HS (2010) Convolutional Networks Can Learn to Generate Affinity Graphs for Image Segmentation, Neural Computation 22:511-38.
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Year 2009
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Helmstaedter M, Sakmann B, Feldmeyer D (2009) L2/3 Interneuron Groups Defined by Multiparameter Analysis of Axonal Projection, Dendritic Geometry and Electrical Excitability, Cerebral Cortex 19:951-62.
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Helmstaedter M, Sakmann B, Feldmeyer D (2009) The Relation Between Dendritic Geometry, Electrical Excitability and Axonal Projections of L2/3 Interneurons in Rat Barrel Cortex. Cerebral Cortex 19:938-50.Pubmed
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Helmstaedter M, Sakmann B, Feldmeyer D (2009) Neuronal Correlates of Local, Lateral and Translaminar Inhibition with Reference to Cortical Columns, Cerebral Cortex 19:926-37. (Cover article)
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Year 2008
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Helmstaedter M, Briggman KL, Denk W (2008) 3D Structural Imaging of the Brain with Photons and Electrons, Current Opinion in Neurobiology 18(6):633-41.
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Helmstaedter M, Staiger JF, Sakmann B, Feldmeyer D (2008) Efficient Recruitment of Layer 2/3 Interneurons by Layer 4 Input in Single Columns of Rat Somatosensory Cortex, Journal of Neuroscience 28(13):8273-8284.
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Ascoli GA, Alonso-Nanclares L, Anderson SA, Barrionuevo G, Benavides-Piccione R, Burkhalter A, Buzsaki G, Cauli B, Defelipe J, Fairen A, Feldmeyer D, Fishell G, Fregnac Y, Freund TF, Gardner D, Gardner EP, Goldberg JH, Helmstaedter M, Hestrin S, Karube F, Kisvarday ZF, Lambolez B, Lewis DA, Marin O, Markram H, Munoz A, Packer A, Petersen CC, Rockland KS, Rossier J, Rudy B, Somogyi P, Staiger JF, Tamas G, Thomson AM, Toledo-Rodriguez M, Wang Y, West DC, Yuste R (2008) Petilla Terminology: Nomenclature of Features of GABAergic Interneurons of the Cerebral Cortex, Nature Reviews Neuroscience 9(7):557-568.
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Frick A, Feldmeyer D, Helmstaedter M, Sakmann B (2008) Monosynaptic Connections Between Pairs of L5A Pyramidal Neurons in Columns of Juvenile Rat Somatosensory Cortex, Cerebral Cortex 18(2):397-406.
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Year 2007
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Helmstaedter M, de Kock CP, Feldmeyer D, Bruno RM, Sakmann B (2007) Reconstruction of an Average Cortical Column in Silico, Brain Research Reviews 55(2):193-203.
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Schaefer AT*, Helmstaedter M*, Schmitt AC, Bar-Yehuda D, Almog M, Ben-Porat H, Sakmann B, Korngreen A (2007) Dendritic Voltage-Gated K+ Conductance Gradient in Pyramidal Neurones of Neocortical Layer 5B from Rats, Journal of Physiology 579(3):737-52. *equally contributing
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Year 2003
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Schaefer AT, Helmstaedter M, Sakmann B, Korngreen A (2003) Correction of Conductance Measurements in non-space-clamped Structures: 1. Voltage-gated K+ Channels, Biophysical Journal 84(6):3508-528.
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