Biblio

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2026
Finkelstein A, Daie K, Rozsa M, Darshan R, Svoboda K.  2026.  Connectivity underlying motor cortex activity during goal-directed behaviour.. Nature. 649(8096):416-422.
Lakunina A, Socha KZ, Ladd A, Bowen AJ, Chen S, Colonell J, Doshi A, Karsh B, Krumin M, Kulik P et al..  2026.  Neuropixels Opto: Combining high-resolution electrophysiology and optogenetics. Nat Methods.
2025
Mohar B, Michel G, Wang Y-Z, Hernandez V, Grimm JB, Park J-Y, Patel R, Clarke M, Brown TA, Bergmann C et al..  2025.  DELTA: A method for brain-wide measurement of synaptic protein turnover reveals localized plasticity during learning.. Nat Neurosci.
Aggarwal A, Negrean A, Chen Y, Iyer R, Reep D, Liu A, Palutla A, Xie ME, MacLennan BJ, Hagihara KM et al..  2025.  Glutamate indicators with increased sensitivity and tailored deactivation rates. Nat Methods.
Pereira-Obilinovic U, Daie K, Chen S, Svoboda K, Darshan R.  2025.  Neural dynamics outside task-coding dimensions drive decision trajectories through transient amplification. bioRxiv.
2024
Chen S, Liu Y, Wang ZAiden, Colonell J, Liu LD, Hou H, Tien N-W, Wang T, Harris T, Druckmann S et al..  2024.  Brain-wide neural activity underlying memory-guided movement.. Cell. 187(3):676-691.e16.
Amsalem O, Inagaki H, Yu J, Svoboda K, Darshan R.  2024.  Sub-threshold neuronal activity and the dynamical regime of cerebral cortex.. Nat Commun. 15(1):7958.
2023
Kim CM, Finkelstein A, Chow CC, Svoboda K, Darshan R.  2023.  Distributing task-related neural activity across a cortical network through task-independent connections.. Nature Communications. 14(1):2851.
Zhang Y, Rozsa M, Liang Y, Bushey D, Wei Z, Zheng J, Reep D, Broussard GJoey, Tsang A, Tsegaye G et al..  2023.  Fast and sensitive GCaMP calcium indicators for imaging neural populations.. Nature.
Covert I, Gala R, Wang T, Svoboda K, Sümbül U, Lee S-I.  2023.  Predictive and robust gene selection for spatial transcriptomics.. Nature Communications. 14(1):2091.
Abdelfattah AS, Zheng J, Singh A, Huang Y-C, Reep D, Tsegaye G, Tsang A, Arthur BJ, Rehorova M, Olson CVL et al..  2023.  Sensitivity optimization of a rhodopsin-based fluorescent voltage indicator. Neuron. 111(10):1547-1563.
2022
Inagaki HK, Chen S, Ridder MC, Sah P, Li N, Yang Z, Hasanbegovic H, Gao Z, Gerfen CR, Svoboda K.  2022.  A midbrain-thalamus-cortex circuit reorganizes cortical dynamics to initiate movement.. Cell. 185(8):1065.
Inagaki HK, Chen S, Daie K, Finklestein A, Fontolan L, Romani S, Svoboda K.  2022.  Neural Algorithms and Circuits for Motor Planning.. Annual Reviews Neuroscience.
Inagaki HK, Chen S, Daie K, Finkelstein A, Fontolan L, Romani S, Svoboda K.  2022.  Neural Algorithms and Circuits for Motor Planning.. Annual Review Neuroscience. 45:249-271.
Rubel O, Tritt A, Ly R, Dichter BK, Ghosh S, Niu L, Baker P, Soltesz I, Ng L, Svoboda K et al..  2022.  The Neurodata Without Borders ecosystem for neurophysiological data science.. eLife. 11
2021
Liu LD, Chen S, Economo MN, Li N, Svoboda K.  2021.  Accurate localization of linear probe electrodes across multiple brains.. eNeuro. 8(6):ENEURO.0241-21.2021.
Finkelstein A, Fontolan L, Economo MN, Li N, Romani S, Svoboda K.  2021.  Attractor dynamics gate cortical information flow during decision-making.. Nature Neuroscience. 24(6):843-50.
Wang Y, Eddison M, Fleishman G, Weigert M, Xu S, Wang T, Rokicki K, Goina C, Henry FE, Lemire AL et al..  2021.  EASI-FISH for thick tissue defines lateral hypothalamus spatio-molecular organization.. Cell. 184(26):6361.
Xie ME, Adam Y, Fan LZ, Böhm UL, Kinsella I, Zhou D, Rozsa M, Singh A, Svoboda K, Paninski L et al..  2021.  High-fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo.. Cell Reports. 35(1):108954.
Steinmetz NA, Aydın Ç, Lebedeva A, Okun M, Pachitariu M, Bauza M, Beau M, Bhagat J, Böhm C, Broux M et al..  2021.  Neuropixels 2.0: A miniaturized high-density probe for stable, long-term brain recordings.. Science. 372(6539)
Daie K, Svoboda K, Druckmann S.  2021.  Targeted photostimulation uncovers circuit motifs supporting short-term memory.. Nature Neuroscience. 24(2):259-265.
2020
Wei Z, Lin B-J, Chen T-W, Daie K, Svoboda K, Druckmann S.  2020.  A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology.. PLoS Computational Biology. 16(9):e1008198.
Molina RS, King J, Franklin J, Clack N, McRaven C, Goncharov V, Flickinger D, Svoboda K, Drobizhev M, Hughes TE.  2020.  High throughput instrument to screen fluorescent proteins under two-photon excitation.. Biomedical Optics Express. 11(12):7192-7203.
Abbott LF, Bock DD, Callaway EM, Denk W, Dulac C, Fairhall AL, Fiete I, Harris KM, Helmstaedter M, Jain V et al..  2020.  The mind of a mouse.. Cell. 182(6):1372-1376.
Lu R, Liang Y, Meng G, Zhou P, Svoboda K, Paninski L, Ji N.  2020.  Rapid mesoscale volumetric imaging of neural activity with synaptic resolution.. Nature Methods. 17(3):291-4.