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Project

Tools for recording high-speed brain dynamics

Copyright

Sputnik Animation, Ed Boyden, and the McGovern Institute for Brain Research at MIT

Sputnik Animation, Ed Boyden, and the McGovern Institute for Brain Research at MIT

Publication

Nucleotide-time alignment for molecular recorders

Cybulski TR, Boyden ES, Church GM, Tyo KEJ, Kording KP (2017) Nucleotide-time alignment for molecular recorders, PLoS Computational Biology 13(5):e1005483.

Publication

High-resolution imaging of cellular dopamine efflux using a fluorescent nanosensor array

Kruss S, Salem DP, Vukovic L, Lima B, Vander Ende E, Boyden ES, Strano MS (2017) High-resolution imaging of cellular dopamine efflux using a fluorescent nanosensor array, Proceedings of the National Academy of Sciences 114(8):1789–1794.

Publication

Integration of autopatching with automated pipette and cell detection in vitro

Wu Q, Kolb I, Callahan BM, Su Z, Stoy W, Kodandaramaiah SB, Neve RL, Zeng H, Boyden ES, Forest CR, Chubykin AA (2016) Integration of autopatching with automated pipette and cell detection in vitro, Journal of Neurophysiology 116(4):1564-1578.

Publication

Multiplexed neural recording along a single optical fiber via optical reflectometry

Rodriques, S.G.*, Marblestone, A.H*, Scholvin, J., Dapello, J., Sarkar, D., Mankin, M., Gao, R., Wood, L., and Boyden, E.S. (2016) Multiplexed neural recording along a single optical fiber via optical reflectometry, Journal of Biomedical Optics 21(5):057003. (*, co-first authors)

Publication

Modulation of nitrogen vacancy charge state and fluorescence in nanodiamonds using electrochemical potential

Karaveli S, Gaathon O, Wolcott A, Sakakibara R, Shemesh OA, Peterka DS, Boyden ES, Owen JS, Yuste R, Englund D (2016) Modulation of nitrogen vacancy charge state and fluorescence in nanodiamonds using electrochemical potential, Proceedings of the National Academy of Sciences 113(15):3938–3943.

Publication

Assembly and operation of the autopatcher for automated intracellular neural recording in vivo

Kodandaramaiah, S.B., Holst, G.L., Wickersham, I.R., Singer, A.C., Talei Franzesi, G., McKinnon, M.L., Forest, C.R., Boyden, E.S. (2016) Assembly and operation of the autopatcher for automated intracellular neural recording in vivo, Nature Protocols 11:634–654.

Publication

A direct-to-drive neural data acquisition system

Kinney, J.P., Bernstein, J.G., Meyer, A.J., Barber, J.B., Bolivar, M., Newbold, B., Scholvin, J., Moore-Kochlacs, C., Wentz, C.T., Kopell, N.J., Boyden, E.S. (2015) A direct-to-drive neural data acquisition system, Frontiers in Neural Circuits 9:46.

Publication

Close-Packed Silicon Microelectrodes for Scalable Spatially Oversampled Neural Recording

Scholvin, J., Kinney, J. P., Bernstein, J. G., Moore-Kochlacs, C., Kopell, N., Fonstad, C.G., Boyden, E. S. (2016) Close-Packed Silicon Microelectrodes for Scalable Spatially Oversampled Neural Recording, IEEE Transactions on Biomedical Engineering, 63(1):120-30.

Publication

Microchip amplifier for in vitro, in vivo, and automated whole-cell patch-clamp recording

Harrison R.R., Kolb I., Kodandaramaiah S.B., Chubykin A.A., Yang A., Bear M.F., Boyden E.S.*, Forest C.* (2014) Microchip amplifier for in vitro, in vivo, and automated whole-cell patch-clamp recording, Journal of Neurophysiology 113(4):1275-82. (*, equal contribution)

Publication

Spatial information in large-scale neural recordings

Cybulski TR, Glaser JI, Marblestone AH, Zamft BM, Boyden ES, Church GM, Kording KP (2015) Spatial information in large-scale neural recordings, Frontiers in Computational Neuroscience 8:172.

Publication

All-optical electrophysiology in mammalian neurons using engineered microbial rhodopsins

Hochbaum, D.R.*, Zhao, Y.*, Farhi, S.L., Klapoetke, N.C., Werley, C.A., Kapoor, V., Zou, P., Kralj, J.M., Maclaurin, D., Smedemark-Margulies, N., Saulnier, J., Boulting, G.L., Straub, C., Cho, Y., Melkonian, M., Wong, G.K.-S., Harrison, D. J., Murthy, V.N., Sabatini, B., Boyden, E.S.**, Campbell, R.E.**, Cohen, A.E. (2014) All-optical electrophysiology in mammalian neurons using engineered micr...

Publication

Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy

Prevedel, R.**, Yoon, Y.-G.**, Hoffman, M., Pak, N., Wetzstein, G., Kato, S., Schrodel, T., Raskar, R., Zimmer, M., Boyden, E. S.*, Vaziri, A. * (2014) Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy, Nature Methods 11:727-730. (** equal contribution, * co-corresponding authors)

Publication

Fully-automated, in-vivo, single cell electrophysiology

J. Go, A. Fan, C. Lu, S.B. Kodandaramaiah, G.L. Holst, W. Stoy, I. Kolb, E.S. Boyden, C.R. Forest (2013) Fully-automated, in-vivo, single cell electrophysiology, Proceedings of the 28th Annual Meeting of the American Society for Precision Engineering, Saint Paul, MN, Oct 20-25, 2013.

Publication

Physical principles for scalable neural recording

Marblestone, A. H.**+, Zamft, B. M.+, Maguire, Y. G., Shapiro, M. G., Cybulski, T. R., Glaser, J. I., Amodei, D., Stranges, P. B., Kalhor, R., Dalrymple, D. A., Seo, D., Alon, E., Maharbiz, M. M., Carmena, J. M., Rabaey, J. M., Boyden, E. S.*, Church, G. M. *, Kording, K. P. * (2013) Physical Principles for Scalable Neural Recording, Frontiers in Computational Neuroscience, 7:137. (** correspon...

Publication

Statistical analysis of molecular signal recording

Glaser J.I.**, Zamft B.M.*, Marblestone A.H.*, Moffitt J.R., Tyo K., Boyden E.S., Church G., Kording K.P. (2013) Statistical analysis of molecular signal recording, PLoS Computational Biology 9(7):e1003145. (** corresponding author, * equal contribution)

Publication

Automated, in-vivo, whole-cell electrophysiology

I. Kolb, G. Holst, B. Goldstein, S.B. Kodandaramaiah, E.S. Boyden, E. Culurciello, C.R. Forest (2013) Automated, in-vivo, whole-cell electrophysiology using an integrated patch-clamp amplifier, Proceedings of the 22nd Annual Computational Neuroscience Meeting (CNS 2013), Paris, France, July 13-18, 2013.

Publication

In vivo robotics: the automation of neuroscience and other intact-system biological fields

Kodandaramaiah, S. B., Boyden, E. S.*, Forest, C. F.* (2013) In vivo robotics: the automation of neuroscience and other intact-system biological fields, Annals of the New York Academy of Sciences, 1305(1):63-71. (* co-corresponding authors)

Publication

Nanotools for Neuroscience and Brain Activity Mapping

Alivisatos, A., Andrews, A., Boyden, E. S., Chun, M., Church, G., Deisseroth, K., Donoghue, J., Fraser, S., Lippincott-Schwartz, J., Looger, L., Masmanidis, S., McEuen, P., Nurmikko, A., Park, H., Peterka, D., Reid, C., Roukes, M., Scherer, A., Schnitzer, M., Sejnowski, T., Shepard, K., Tsao, D., Turrigiano, G., Weiss, P., Xu, C., Yuste, R., Zhuang, X. (2013) Nanotools for Neuroscience and Brai...

Publication

Measuring Cation Dependent DNA Polymerase Fidelity Landscapes by Deep Sequencing

Zamft, B. M.*, Marblestone, A. H.*, Kording, K., Schmidt, D., Martin-Alarcon, D., Tyo, K., Boyden, E. S., Church, G. (2012) Measuring Cation Dependent DNA Polymerase Fidelity Landscapes by Deep Sequencing, PLoS ONE 7(8): e43876. (* co-first authors)

Publication

Automated whole-cell patch clamp electrophysiology of neurons in vivo

Kodandaramaiah, S., Talei Franzesi, G., Chow, B., Boyden, E. S.*, Forest, C.* (2012) Automated whole-cell patch clamp electrophysiology of neurons in vivo, Nature Methods 9:585–587. (* co-corresponding authors)

Publication

Minimal Size of Cell Assemblies Coordinated by Gamma Oscillations

Börgers C., Talei Franzesi G., LeBeau F. E. N. , Boyden E. S., Kopell N.J. (2012) Minimal Size of Cell Assemblies Coordinated by Gamma Oscillations, PLoS Computational Biology 8(2):e1002362.

Publication

Face-selective electrostatic control of hydrothermal zinc oxide nanowire synthesis

Joo, J., Chow, B. Y., Prakash, M., Boyden, E. S., Jacobson, J. M. (2011) Face-selective electrostatic control of hydrothermal zinc oxide nanowire synthesis, Nature Materials 10(8):596-601.

Publication

Mapping Brain Networks in Awake Mice Using Combined Optical Neural Control and fMRI

Desai M., Kahn I., Knoblich U., Bernstein J., Atallah H., Yang A., Kopell, N., Buckner R.L., Graybiel A. M., Moore C. I.*, and Boyden E. S.* (2011) Mapping Brain Networks in Awake Mice Using Combined Optical Neural Control and fMRI, Journal of Neurophysiology 105(3):1393-405. (* co-corresponding authors)

Publication

Characterization of translation of fused silica micropipettes in non-rectilinear trajectories

Kodandaramaiah, S., Krijnen, M., Go, J., Malik, S., Sondej, N., Khatait, J. P., Boyden, E. S., Aarts, R. G. K. M., Brouwer, D. M., Forest, C. F. (2011) Characterization of translation of fused silica micropipettes in non-rectilinear trajectories, Proceedings of the 26th Annual Meeting of the American Society for Precision Engineering, Denver, CO.

Publication

Brain Coprocessors

Boyden, E. S., Allen, B. D., Fritz, D. (2010) "Brain Coprocessors." Column, Technology Review. 9/23/2010.

Publication

Millisecond-Timescale Optical Control of Neural Dynamics in the Nonhuman Primate Brain

Han, X.*, Qian, X., Bernstein, J.G., Zhou, H.-H., Talei Franzesi, G., Stern, P., Bronson, R.T., Graybiel, A.M., Desimone, R., and Boyden, E.S.* (2009) Millisecond-Timescale Optical Control of Neural Dynamics in the Nonhuman Primate Brain, Neuron 62(2):191-198. (* co-corresponding authors)

Publication

New Techniques for Investigating Brain Rhythms: Optical Neural Control and Multielectrode Recording

Boyden, E. S., Han, X., Talei Franzesi, G., Chan, S., Bernstein, J., Qian, X., Li, M. (2009) "New Techniques for Investigating Brain Rhythms: Optical Neural Control and Multielectrode Recording," In: Rhythms of the Neocortex: Where Do They Come From and What Are They Good For? (Kopell N., ed.) pp. 65-75. Washington, DC: Society for Neuroscience.

Publication

New Techniques for Investigating Brain Rhythms

Boyden, E. S., Han, X., Talei Franzesi, G., Chan, S., Bernstein, J., Qian, X., Li, M. (2009) "New Techniques for Investigating Brain Rhythms: Optical Neural Control and Multielectrode Recording," In: Rhythms of the Neocortex: Where Do They Come From and What Are They Good For? (Kopell N., ed.) pp. 65-75. Washington, DC: Society for Neuroscience.