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2025
Makarova AA, Chua NJ, Diakova AV, Desyatirkina IA, Gunn P, Pang S, C Xu S, Hess H, Chklovskii DB, Polilov AA.  2025.  The first complete 3D reconstruction and morphofunctional mapping of an insect eye.
2023
Chua NJ, Makarova AA, Gunn P, Villani S, Cohen B, Thasin M, Wu J, Shefter D, Pang S, C Xu S et al..  2023.  A complete reconstruction of the early visual system of an adult insect.. Current Biology. 33(21):4611-4623.
2019
Giovannucci A, Friedrich J, Gunn P, Kalfon J, Brown BL, Koay SAnn, Taxidis J, Najafi F, Gauthier JL, Zhou P et al..  2019.  CaImAn an open source tool for scalable calcium imaging data analysis. eLife. 8
2017
Takemura S-ya, Nern A, Chklovskii DB, Scheffer LK, Rubin GM, Meinertzhagen IA.  2017.  The comprehensive connectome of a neural substrate for 'ON' motion detection in Drosophila.. eLife. 6
2015
Bharioke A, Chklovskii DB.  2015.  Automatic adaptation to fast input changes in a time-invariant neural circuit.. PLoS Computational Biology. 11(8):e1004315.
Butler VJ, Branicky R, Yemini E, Liewald JF, Gottschalk A, Kerr RA, Chklovskii DB, Schafer WR.  2015.  A consistent muscle activation strategy underlies crawling and swimming in Caenorhabditis elegans.. Journal of the Royal Society Interface. 12(102):20140963.
Takemura S-ya, C Xu S, Lu Z, Rivlin PK, Parag T, Olbris DJ, Plaza S, Zhao T, Katz WT, Umayam L et al..  2015.  Synaptic circuits and their variations within different columns in the visual system of Drosophila.. Proceedings of the National Academy of Sciences of the United States of America. 112(44):13711-6.
2014
Plaza SM, Scheffer LK, Chklovskii DB.  2014.  Toward large-scale connectome reconstructions.. Current Opinion in Neurobiology. 25C:201-10.
Rivera-Alba M, Peng H, de Polavieja GG, Chklovskii DB.  2014.  Wiring economy can account for cell body placement across species and brain areas.. Current biology : CB. 24:R109-10.
2013
Nunez-Iglesias J, Kennedy R, Parag T, Shi J, Chklovskii DB.  2013.  Machine learning of hierarchical clustering to segment 2D and 3D images.. PLoS One. 8:e71715.
Rah J-C, Bas E, Colonell J, Mishchenko Y, Karsh B, Fetter RD, Myers EW, Chklovskii DB, Svoboda K, Harris TD et al..  2013.  Thalamocortical input onto layer 5 pyramidal neurons measured using quantitative large-scale array tomography.. Frontiers in Neural Circuits. 7:177.
Takemura S-ya, Bharioke A, Lu Z, Nern A, Vitaladevuni, iv S, Rivlin PK, Katz WT, Olbris DJ, Plaza SM, Winston P et al..  2013.  A visual motion detection circuit suggested by Drosophila connectomics.. Nature. 500(7461):175–81.
2012
Gregor K, Chklovskii DB.  2012.  A lattice filter model of the visual pathway.. Advances in Neural Information Processing Systems. 24:1709-17.
Hu T, Genkin A, Chklovskii DB.  2012.  A network of spiking neurons for computing sparse representations in an energy-efficient way.. Neural computation. 24:2852-72.
Druckmann S, Chklovskii DB.  2012.  Neuronal circuits underlying persistent representations despite time varying activity.. Current Biology. 22:2095-103.
Chklovskii DB, Soudry D.  2012.  Neuronal spike generation mechanism as an oversampling, noise-shaping A-to-D converter.. Advances in Neural Information Processing Systems. 24:503-11.
Chklovskii DB, Bargmann CI.  2012.  Neuroscience. The mind of a male? Science. 337:416-7.
Wen Q, Po MD, Hulme E, Chen S, Liu X, Kwok SWai, Gershow M, Leifer AM, Butler V, Fang-Yen C et al..  2012.  Proprioceptive coupling within motor neurons drives C. elegans forward locomotion.. Neuron. 76(4):750-61.
2011
Kleinfeld D, Bharioke A, Blinder P, Bock DD, Briggman KL, Chklovskii DB, Denk W, Helmstaedter M, Kaufhold JP, Lee W-CAllen et al..  2011.  Large-scale automated histology in the pursuit of connectomes.. The Journal of Neuroscience: The Official Journal of the Society for Neuroscience. 31(45):16125-38.
Varshney LR, Chen BL, Paniagua E, Hall DH, Chklovskii DB.  2011.  Structural properties of the Caenorhabditis elegans neuronal network.. PLoS Computational Biology. 7(2):e1001066.
2010
Veeraraghavan A, Genkin AV, Vitaladevuni, iv S, Scheffer L, Xu CS, Hess H, Fetter R, Cantoni M, Knott G, Chklovskii DB.  2010.  Increasing depth resolution of electron microscopy of neural circuits using sparse tomographic reconstruction.. Computer Vision and Pattern Recognition (CVPR). :1767-74.
Chklovskii DB, Vitaladevuni, iv S, Scheffer LK.  2010.  Semi-automated reconstruction of neural circuits using electron microscopy.. Current Opinion in Neurobiology. 20:667-75.
Mishchenko Y, Hu T, Spacek J, Mendenhall J, Harris KM, Chklovskii DB.  2010.  Ultrastructural analysis of hippocampal neuropil from the connectomics perspective.. Neuron. 67(6):1009-20.
2009
Wen Q, Stepanyants A, Elston GN, Grosberg AY, Chklovskii DB.  2009.  Maximization of the connectivity repertoire as a statistical principle governing the shapes of dendritic arbors.. Proceedings of the National Academy of Sciences of the United States of America. 106(30):12536-41.
Hu T, Chklovskii DB.  2009.  Reconstruction of sparse circuits using multi-neuronal excitation (RESCUME).. Neural Information Processing Systems. 22:790-8.