Dmitri ‘Mitya’ Chklovskii, Ph.D.
Group Leader, Neural Circuits and Algorithms, CCN, Flatiron Institute Email Dmitri ‘Mitya’ Chklovskii
The goal of Mitya Chklovskii’s research is to reverse engineer the brain on the algorithmic level. Informed by anatomical and physiological neuroscience data, his group develops algorithms that model brain computation and solve machine learning tasks.
Chklovskii is also on the faculty of the NYU Medical Center. Before coming to the Simons Foundation in 2014, he was a group leader at Janelia Farm where he initiated and led a collaborative project that assembled the largest-at-the-time connectome, a comprehensive map of neural connections in the brain. Before that, he was an associate professor at Cold Spring Harbor Laboratory in New York, Sloan Fellow at the Salk Institute and Junior Fellow of the Harvard Society of Fellows. He holds a Ph.D. in physics from the Massachusetts Institute of Technology.
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Publications
Electron Microscopy Reconstruction of Brain Structure Using Sparse Representations Over Learned Dictionaries
IEEE Trans Med Imaging, 32(12):2179-88
December 1, 2013Thalamocortical input onto layer 5 pyramidal neurons measured using quantitative large-scale array tomography
J. Rah, D. Chklovskii, K. Svoboda
Frontiers in Neural Circuits, 7: 177
November 12, 2013Machine Learning of Hierarchical Clustering to Segment 2D and 3D Images
J. Iglesias, R. Kennedy, T. Parag, J. Shi, D. Chklovskii
PLoS ONE
August 20, 2013A visual motion detection circuit suggested by Drosophila connectomics
S. Takemura, D. Chklovskii
Nature, 500:175–181
August 7, 2013Vertebrate versus invertebrate neural circuits
P. Katz, S. Grillner, R. Wilson, A. Borst, R. Greenspan, G. Buzsáki, K. Martin, E. Marder, W. Kristan, R. Friedrich, D. Chklovskii
Current Biology, 23;12:504-506
June 1, 2013Tracking Multiple Neurons on Worm Images
T. Parag, V. Butler, D. Chklovskii
SPIE, 86692
2013Neuronal Spike Generation Mechanism as an Oversampling, Noise -shaping A-to-D Converter
D. Chklovskii, D. Soudry
ResearchGate
December 1, 2012Proprioceptive Coupling within Motor Neurons Drives C. elegans Forward Locomotion
Q. Wen, M. Po, E. Hulme, S. Chen, X. Liu, S. Kwok, M. Gershow, A. Leifer, V. Butler, C. Fang-Yen, T. Kawano, W. Schafer, G. Whitesides, M. Wyart, D. Chklovskii, M. Zhen, A. Samuel
Neuron, 76(4):750-61
November 21, 2012Neuronal Circuits Underlying Persistent Representations Despite Time Varying Activity
S. Druckmann, D. Chklovskii
Current Biology, 22:2095-2103
November 20, 2012Online computation of sparse representations of time varying stimuli using a biologically motivated neural network
T. Hu, D. Chklovskii
arXiv:1210.3741
October 13, 2012Sparse LMS via Online Linearized Bregman Iteration
T. Hu, D. Chklovskii
arXiv:1210.0563
October 1, 2012A network of spiking neurons for computing sparse representations in an energy-efficient way
T. Hu, A. Genkin, D. Chklovskii
Neural Computation, 24(11): 2852–2872
August 24, 2012Neuroscience. The mind of a male?
D. Chklovskii, C. Bargmann
Science, 337(6093):416-7
July 27, 2012Wiring economy and volume exclusion determine neuronal placement in the Drosophila brain
M. Alba-Rivera, S. Vitaladevuni, Y. Mishchenko, Z. Lu, S. Takemura, L. Scheffer, I. Meinertzhagen, D. Chklovskii, G. de Polavieja
Current Biology, 21(23):2000-5
January 24, 2012A mechanistic model of early sensory processing based on subtracting sparse representations
S. Druckmann, T. Hu, D. Chklovskii
Advances in Neural Information Processing Systems 25 (NIPS 2012)
2012A lattice filter model of the visual pathway
K. Gregor, D. Chklovskii
Advances in Neural Information Processing Systems, 24:1709-17
2012Large-Scale Automated Histology in the Pursuit of Connectomes
D. Kleinfeld, A. Bharioke, P. Blinder, D. Bock, K. Briggman, D. Chklovskii, W. Denk, M. Helmstaedter, J. Kaufhold, W-C. Allen Lee, H. Meyer, K. Micheva, M. Oberlaender, S. Prohaska, R. Clay Reid, S. Smith, S. Takemura, P. Tsai, B. Sakmann
Journal of Neuroscience, 31 (45) 16125-16138
November 9, 2011Structural Properties of the Caenorhabditis elegans Neuronal Network
L. Varshney, B. Chen, E. Paniagua, D. Hall, D. Chklovskii
PLoS Computational Bioloy
February 3, 2011High Resolution Segmentation of Neuronal Tissues from Low Depth-Resolution EM Imagery
D. Glasner, T. Hu, J. Nunez-Iglesias, L. Scheffer, S. Xu, H. Hess, R. Fetter, D. Chklovskii, R. Basri
International Workshop on Energy Minimization Methods in Computer Vision and Pattern Recognition
2011Semi-automated reconstruction of neural circuits using electron microscopy
D. Chklovskii, S. Vitaladevuni, L. Scheffer
Current Opinion in Neurobiology, 20(5):667-75
October 1, 2010Ultrastructural Analysis of Hippocampal Neuropil from the Connectomics Perspective
Y. Mishchenko, T. Hu, J. Spacek, J. Mendenhall, K. Harris, D. Chklovskii
Neuron, 67(6):1009-20
September 23, 2010Increasing depth resolution of electron microscopy of neural circuits using sparse tomographic reconstruction.
A. Veeraraghavan, A. Genkin, S. Naga Prasad Vitaladevuni, L. Scheffer, S. Xu, H. Hess, R. Fetter, M. Cantoni, G. Knott, D. Chklovskii
IEEE
June 13, 2010Over-complete representations on recurrent neural networks can support persistent percepts
S. Druckmann, D. Chklovskii
Advances in Neural Information Processing Systems 23 (NIPS 2010)
2010Maximization of the connectivity repertoire as a statistical principle governing the shapes of dendritic arbors
Q. Wen, A. Stepanyants, G. Elston, A. Grosberg, D. Chklovskii
Proceedings of the National Academy of Sciences, 106(30): 12536–12541
July 21, 2009Reconstruction of Sparse Circuits Using Multi-neuronal Excitation (RESCUME)
T. Hu, A. Leonardo, D. Chklovskii
NIPS Proceedings
January 9, 2009Using neuroinformatics tools to investigate and share high-resolution full volume reconstructions of brain neuropil
K. Harris, B. Shi, J. Spacek, J. Mendenhall, Y. Mishchenko, D. Chklovskii
Front. Neuroinform. Conference Abstract: Neuroinformatics
September 9, 2008A cost-benefit analysis of neuronal morphology
Q. Wen, D. Chklovskii
Journal of Neurophysiology, 99(5):2320-8
May 1, 2008Local potential connectivity in cat primary visual cortex
A. Stepanyants, J. Hirsch, L. Martinez, Z. Kisvárday, A. Ferecskó, D. Chklovskii
Cerebral Cortex, 18(1):13-28
2008Optimal information storage in noisy synapses under resource constraints
L. Varshney, P. Sjöström, D. Chklovskii
Neuron, 52(3):409-23
November 9, 2006Wiring optimization can relate neuronal structure and function
B. Chen, D. Hall, D. Chklovskii
Proceedings of the National Academy of Sciences, 103 (12) 4723-4728
March 21, 2006Correction: Highly Nonrandom Features of Synaptic Connectivity in Local Cortical Circuits
S. Song, P. Sjöström, M. Reigl, S. Nelson, D. Chklovskii
PLoS Biology, 3(10): e350
October 11, 2005Highly Nonrandom Features of Synaptic Connectivity in Local Cortical Circuits
S. Song, P. Sjöström, M. Reigl, S. Nelson, D. Chklovskii
PLoS Biology
March 1, 2005Neurogeometry and potential synaptic connectivity
A. Stepanyants, D. Chklovskii
Trends in Neuroscience, 28(7):387-94
July 1, 2005Geometric and functional organization of cortical circuits
G. Shepherd, A. Stepanyants, I. Bureau, D. Chklovskii, K. Svoboda
Nature Neuroscience, Vol. 8, pp. 782 – 790
May 8, 2005Highly Nonrandom Features of Synaptic Connectivity in Local Cortical Circuits
S. Song, P. Sjöström, M. Reigl, S. Nelson, D. Chklovskii
PLoS Biology
March 1, 2005Cortical rewiring and information storage
D. Chklovskii, B. Mei, K. Svoboda
Nature, Vol. 431, pp. 782-788
October 14, 2004Exact solution for the optimal neuronal layout problem
D. Chklovskii
Neural Computation, 16(10):2067-78
October 2004Synaptic Connectivity and Neuronal Morphology: Two Sides of the Same Coin
D. Chklovskii
Neuron, Vol. 43, pp. 609-617
September 2, 2004Class-Specific Features of Neuronal Wiring
A. Stepanyants, G. Tamas, D. Chklovskii
Neuron, 43(2):251-9
July 22, 2004Are spatial positions of dendritic and axonal branches correlated or independent?
A. Stepanyants, G. Tamas, D. Chklovskii
Neurocomputing, Vol. 58–60, pp. 477-485
June 1, 2004Biophysical constraints on neuronal branching
O. Shefia, A. Harel, D. Chklovskii, E. Ben-Jacob, A. Ayali
Neurocomputing, Vol. 58–60, pp. 487-495
June 1, 2004Evolution as the blind engineer: wiring minimization in the brain.
D. Chklovskii
Conference: The Sixth International Workshop on System-Level Interconnect Prediction
January 2004Maps in the brain: what can we learn from them?
A. Koulakov, D. Chklovskii
Annu Rev Neurosciecne, 27:369-92
2004Search for computational modules in the C. elegans brain
M. Reigl, U. Alon, D. Chklovskii
BMC Biology, 2:25
2004Power-law for axon diameters at branch point
D. Chklovskii, A. Stepanyants
BMC Neuroscience, 4:18
August 28, 2003Branching Law for Axons
Dmitri B. Chklovskii, Armen Stepanyants
arXiv:physics/0302039
February 12, 2003Theoretical Neuroscience: State of the Art
D. Chklovskii
Neuron, Vol. 34, pp. 863-864
June 13, 2002Direction of motion maps in the visual cortex: a wire length minimization approach
A. Koulakov, D. Chklovskii
Neurocomputing, Vol. 44–46, pp. 489-494
June 1, 2002Information storage capacity of synaptic connectivity patterns
A. Stepanyants, P. Hof, D. Chklovskii
Neurocomputing, Vol. 44–46, pp. 661-665
June 1, 2002Wiring Optimization in Cortical Circuits
D. Chklovskii, T. Schikorski, C. Stevens
Neuron, Vol. 34, pp. 341-347
April 25, 2002Geometry and Structural Plasticity of Synaptic Connectivity
A. Stepanyants, P. Hof, D. Chklovskii
Neuron, 34(2):275-88
April 11, 2002Orientation Preference Patterns in Mammalian Visual Cortex
A. Koulakov, D. Chklovskii
Neuron, (2):519-27
February 1, 2001A wire length minimization approach to ocular dominance patterns in mammalian visual cortex
D. Chklovskii, A. Koulakov
Physica A: Statistical Mechanics and its Applications, Volume 284, pp. 318-334
September 1, 2000Optimal Sizes of Dendritic and Axonal Arbors in a Topographic Projection
D. Chklovskii
Journal of Neurophysiology
April 1, 2000Binocular disparity can explain the orientation of ocular dominance stripes in primate primary visual area (V1)
D B Chklovskii
Vision Research
2000Wiring optimization in the brain
D. Chklovskii
NIPS Proceedings
1999New universal properties of resonant tunneling in the quantized Hall regime
D B Chklovskii
ResearchGate
March 1, 1997Theory of photoluminescence of the ν=1 quantum Hall state:Excitons, spin waves, and spin textures
N. R. Cooper, D. B. Chklovskii
Phys. Rev. B 55, 2436
January 15, 1997Consequences of a possible adiabatic transition between ν= 1/3 and ν= 1 quantum Hall states in a narrow wire
Dmitri B. Chklovskii, Bertrand I. Halperin
arXiv:cond-mat/9612127
December 13, 1996Comment on “New Class of Resonances at the Edge of the Two-Dimensional Electron Gas.”
Dmitri B. Chklovskii
arXiv:cond-mat/9609023v1
September 3, 1996Understanding the dynamics of fractional edge states with composite fermions
Dmitri B. Chklovskii, Bertrand I. Halperin
Surface Science
Volumes 361–362, Pages 79-82
July 20, 1996Structure of fractional edge states: A composite-fermion approach
Dmitri B. Chklovskii
Phys. Rev. B 51, 9895
April 15, 1995Transport properties of the quantum Hall state
Dmitri Chklovskii
Massachusetts Institute of Technology
January 1, 1994Transport properties between quantum Hall plateaus
Dmitri B. Chklovskii, Patrick A. Lee
Phys. Rev. B 48, 18060
December 15, 1993Ballistic conductance of interacting electrons in the quantum Hall regime
D. B. Chklovskii, K. A. Matveev, and B. I. Shklovskii
Phys. Rev. B 47, 12605
May 15, 1993Electrostatics of edge channels
D. B. Chklovskii, B. I. Shklovskii, and L. I. Glazman
Phys. Rev. B 46, 4026
August 15, 1992;
Erratum Phys. Rev. B 46, 15606 (1992)Relaxation of nuclear spin in atomic hydrogen due to long-range orbital currents in metal walls
Dmitri B. Chklovskii and Patrick A. Lee
Phys. Rev. B 45, 5240
March 1, 1992