Dean Buonomano

Title(s)Professor, Neurobiology
SchoolMedicine
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    The ability to tell time is among the most important functions the brain performs. Tasks such as, understanding speech, performing the complex movements necessary to catch a prey, and predicting when external events will occur, all rely on the brain’s ability to tell time.

    We have hypothesized that timing and temporal processing is such an important computation, that most neural circuits are capable of telling time on the scale of milliseconds and seconds. Our research suggests that how the brain tells time has little to do with how man-made clocks tell time (by counting the ticks of an oscillator), our hypothesis is that the brain tells time through the intrinsic dynamics of neurons and neural circuits.

    Our research focuses on how neural circuits learn and perform complex computations--such as telling time and temporal processing. Towards this goal our lab uses electrophysiological, optogenetic, computational, and psychophysical techniques.
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    CRCNS: Multiple clocks for the encoding of time in corticostriatal circuits
    NIH R01NS125877Sep 23, 2021 - Aug 31, 2026
    Role: Co-Principal Investigator
    Multiplexing working memory and timing: Encoding retrospective and prospective information in transient neural trajectories.
    NIH R01NS116589Apr 15, 2020 - Mar 31, 2023
    Role: Principal Investigator
    CRCNS: Network mechanisms of the learning and encoding of timed motor responses
    NIH R01NS100050Jul 1, 2016 - Jun 30, 2021
    Role: Principal Investigator
    Abnormal network dynamics and learning in neural circuits from Fmr1-/- mice
    NIH R21MH097093Sep 19, 2012 - Aug 31, 2015
    Role: Principal Investigator
    Learning temporal patterns: computational and experimental studies of timing
    NIH R03NS077340Jul 1, 2012 - Jun 30, 2014
    Role: Principal Investigator
    Computations and Unsupervised Learning in Recurrent Neural Networks
    NIH R03MH076888Jul 3, 2007 - Jun 30, 2010
    Role: Principal Investigator
    TIMING AND LEARNING IN IN VITRO CORTICAL NETWORKS
    NIH R01MH060163Sep 22, 2001 - Aug 31, 2020
    Role: Principal Investigator
    CORTICAL CONDITIONING OF SOMATOTOPIC RECEPTIVE FIELDS
    NIH F32MH010431Jun 23, 1993
    Role: Principal Investigator
    LONG-TERM ASSOCIATIVE NEURAL PLASTICITY IN APLYSIA
    NIH F31MH009895Mar 12, 1990
    Role: Principal Investigator

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    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    1. Time for Memories. J Neurosci. 2023 11 08; 43(45):7565-7574. Buonomano DV, Buzsáki G, Davachi L, Nobre AC. PMID: 37940593; PMCID: PMC10634580.
      View in: PubMed   Mentions:    Fields:    
    2. Improvement of sensory deficits in fragile X mice by increasing cortical interneuron activity after the critical period. Neuron. 2023 09 20; 111(18):2863-2880.e6. Kourdougli N, Suresh A, Liu B, Juarez P, Lin A, Chung DT, Graven Sams A, Gandal MJ, Martínez-Cerdeño V, Buonomano DV, Hall BJ, Mombereau C, Portera-Cailliau C. PMID: 37451263; PMCID: PMC10529373.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    3. Multiplexing working memory and time in the trajectories of neural networks. Nat Hum Behav. 2023 07; 7(7):1170-1184. Zhou S, Seay M, Taxidis J, Golshani P, Buonomano DV. PMID: 37081099; PMCID: PMC10913811.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    4. Creation of Neuronal Ensembles and Cell-Specific Homeostatic Plasticity through Chronic Sparse Optogenetic Stimulation. J Neurosci. 2023 01 04; 43(1):82-92. Liu B, Seay MJ, Buonomano DV. PMID: 36400529; PMCID: PMC9838708.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    5. Paradoxical self-sustained dynamics emerge from orchestrated excitatory and inhibitory homeostatic plasticity rules. Proc Natl Acad Sci U S A. 2022 10 25; 119(43):e2200621119. Soldado-Magraner S, Seay MJ, Laje R, Buonomano DV. PMID: 36251988; PMCID: PMC9618084.
      View in: PubMed   Mentions: 1     Fields:    
    6. Neural population clocks: Encoding time in dynamic patterns of neural activity. Behav Neurosci. 2022 Oct; 136(5):374-382. Zhou S, Buonomano DV. PMID: 35446093; PMCID: PMC9561006.
      View in: PubMed   Mentions: 2     Fields:    
    7. Encoding time in neural dynamic regimes with distinct computational tradeoffs. PLoS Comput Biol. 2022 03; 18(3):e1009271. Zhou S, Masmanidis SC, Buonomano DV. PMID: 35239644; PMCID: PMC8893702.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    8. Differential Excitability of PV and SST Neurons Results in Distinct Functional Roles in Inhibition Stabilization of Up States. J Neurosci. 2021 08 25; 41(34):7182-7196. Romero-Sosa JL, Motanis H, Buonomano DV. PMID: 34253625; PMCID: PMC8387123.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    9. The orbitofrontal cortex in temporal cognition. Behav Neurosci. 2021 Apr; 135(2):154-164. Sosa JLR, Buonomano D, Izquierdo A. PMID: 34060872; PMCID: PMC8171116.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    10. Differential Short-Term Plasticity of PV and SST Neurons Accounts for Adaptation and Facilitation of Cortical Neurons to Auditory Tones. J Neurosci. 2020 11 25; 40(48):9224-9235. Seay MJ, Natan RG, Geffen MN, Buonomano DV. PMID: 33097639; PMCID: PMC7687067.
      View in: PubMed   Mentions: 14     Fields:    Translation:AnimalsCells
    11. Neural Sequences as an Optimal Dynamical Regime for the Readout of Time. Neuron. 2020 11 25; 108(4):651-658.e5. Zhou S, Masmanidis SC, Buonomano DV. PMID: 32946745; PMCID: PMC7825362.
      View in: PubMed   Mentions: 32     Fields:    Translation:AnimalsCells
    12. Decreased reproducibility and abnormal experience-dependent plasticity of network dynamics in Fragile X circuits. Sci Rep. 2020 09 03; 10(1):14535. Motanis H, Buonomano D. PMID: 32884028; PMCID: PMC7471942.
      View in: PubMed   Mentions: 6     Fields:    Translation:Animals
    13. Musical expertise generalizes to superior temporal scaling in a Morse code tapping task. PLoS One. 2020; 15(1):e0221000. Slayton MA, Romero-Sosa JL, Shore K, Buonomano DV, Viskontas IV. PMID: 31905200; PMCID: PMC6944339.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    14. A model of temporal scaling correctly predicts that motor timing improves with speed. Nat Commun. 2018 11 09; 9(1):4732. Hardy NF, Goudar V, Romero-Sosa JL, Buonomano DV. PMID: 30413692; PMCID: PMC6226482.
      View in: PubMed   Mentions: 19     Fields:    Translation:Humans
    15. Short-Term Synaptic Plasticity as a Mechanism for Sensory Timing. Trends Neurosci. 2018 10; 41(10):701-711. Motanis H, Seay MJ, Buonomano DV. PMID: 30274605; PMCID: PMC6171349.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansAnimalsCells
    16. The Neural Basis of Timing: Distributed Mechanisms for Diverse Functions. Neuron. 2018 05 16; 98(4):687-705. Paton JJ, Buonomano DV. PMID: 29772201; PMCID: PMC5962026.
      View in: PubMed   Mentions: 116     Fields:    Translation:HumansAnimalsCells
    17. Encoding sensory and motor patterns as time-invariant trajectories in recurrent neural networks. Elife. 2018 03 14; 7. Goudar V, Buonomano DV. PMID: 29537963; PMCID: PMC5851701.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    18. Encoding Time in Feedforward Trajectories of a Recurrent Neural Network Model. Neural Comput. 2018 02; 30(2):378-396. Hardy NF, Buonomano DV. PMID: 29162002; PMCID: PMC5873300.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    19. Differential Encoding of Time by Prefrontal and Striatal Network Dynamics. J Neurosci. 2017 01 25; 37(4):854-870. Bakhurin KI, Goudar V, Shobe JL, Claar LD, Buonomano DV, Masmanidis SC. PMID: 28123021; PMCID: PMC5296780.
      View in: PubMed   Mentions: 68     Fields:    Translation:Animals
    20. Temporal Interval Learning in Cortical Cultures Is Encoded in Intrinsic Network Dynamics. Neuron. 2016 07 20; 91(2):320-7. Goel A, Buonomano DV. PMID: 27346530; PMCID: PMC4969202.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    21. Neurocomputational Models of Interval and Pattern Timing. Curr Opin Behav Sci. 2016 Apr; 8:250-257. Hardy NF, Buonomano DV. PMID: 27790629; PMCID: PMC5077164.
      View in: PubMed   Mentions: 18  
    22. Time in Cortical Circuits. J Neurosci. 2015 Oct 14; 35(41):13912-6. Finnerty GT, Shadlen MN, Jazayeri M, Nobre AC, Buonomano DV. PMID: 26468192; PMCID: PMC4604229.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimals
    23. Delayed in vitro development of Up states but normal network plasticity in Fragile X circuits. Eur J Neurosci. 2015 Sep; 42(6):2312-21. Motanis H, Buonomano D. PMID: 26138886; PMCID: PMC5873292.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    24. Neural coding: time contraction and dilation in the striatum. Curr Biol. 2015 May 04; 25(9):R374-6. Motanis H, Buonomano DV. PMID: 25942552.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
    25. Multifocal fluorescence microscope for fast optical recordings of neuronal action potentials. Biophys J. 2015 Feb 03; 108(3):520-9. Shtrahman M, Aharoni DB, Hardy NF, Buonomano DV, Arisaka K, Otis TS. PMID: 25650920; PMCID: PMC4317551.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    26. A model of order-selectivity based on dynamic changes in the balance of excitation and inhibition produced by short-term synaptic plasticity. J Neurophysiol. 2015 Jan 15; 113(2):509-23. Goudar V, Buonomano DV. PMID: 25339707; PMCID: PMC4297794.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    27. Useful dynamic regimes emerge in recurrent networks. Nat Neurosci. 2014 Apr; 17(4):487-9. Goudar V, Buonomano DV. PMID: 24671063.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    28. Timing as an intrinsic property of neural networks: evidence from in vivo and in vitro experiments. Philos Trans R Soc Lond B Biol Sci. 2014 Mar 05; 369(1637):20120460. Goel A, Buonomano DV. PMID: 24446494; PMCID: PMC3895985.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    29. Neural dynamics based timing in the subsecond to seconds range. Adv Exp Med Biol. 2014; 829:101-17. Buonomano DV. PMID: 25358707.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimals
    30. Neuroscience: Brain projects need stronger foundation. Nature. 2013 Sep 05; 501(7465):33. Buonomano D. PMID: 24005405.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    31. Robust timing and motor patterns by taming chaos in recurrent neural networks. Nat Neurosci. 2013 Jul; 16(7):925-33. Laje R, Buonomano DV. PMID: 23708144; PMCID: PMC3753043.
      View in: PubMed   Mentions: 160     Fields:    Translation:HumansAnimalsCells
    32. Chronic electrical stimulation homeostatically decreases spontaneous activity, but paradoxically increases evoked network activity. J Neurophysiol. 2013 Apr; 109(7):1824-36. Goel A, Buonomano DV. PMID: 23324317; PMCID: PMC3628006.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCells
    33. Unsupervised formation of vocalization-sensitive neurons: a cortical model based on short-term and homeostatic plasticity. Neural Comput. 2012 Oct; 24(10):2579-603. Lee TP, Buonomano DV. PMID: 22845822.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    34. Developmental shift of short-term synaptic plasticity in cortical organotypic slices. Neuroscience. 2012 Jun 28; 213:38-46. Chen WX, Buonomano DV. PMID: 22521823; PMCID: PMC3367122.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    35. Learning of temporal motor patterns: an analysis of continuous versus reset timing. Front Integr Neurosci. 2011; 5:61. Laje R, Cheng K, Buonomano DV. PMID: 22016724; PMCID: PMC3192320.
      View in: PubMed   Mentions: 15  
    36. A novel learning rule for long-term plasticity of short-term synaptic plasticity enhances temporal processing. Front Integr Neurosci. 2011; 5:20. Carvalho TP, Buonomano DV. PMID: 21660100; PMCID: PMC3105243.
      View in: PubMed   Mentions: 21  
    37. Population clocks: motor timing with neural dynamics. Trends Cogn Sci. 2010 Dec; 14(12):520-7. Buonomano DV, Laje R. PMID: 20889368; PMCID: PMC2991437.
      View in: PubMed   Mentions: 69     Fields:    Translation:Humans
    38. Neural dynamics of in vitro cortical networks reflects experienced temporal patterns. Nat Neurosci. 2010 Aug; 13(8):917-9. Johnson HA, Goel A, Buonomano DV. PMID: 20543842; PMCID: PMC2910842.
      View in: PubMed   Mentions: 38     Fields:    Translation:Animals
    39. Embedding multiple trajectories in simulated recurrent neural networks in a self-organizing manner. J Neurosci. 2009 Oct 21; 29(42):13172-81. Liu JK, Buonomano DV. PMID: 19846705; PMCID: PMC6665184.
      View in: PubMed   Mentions: 46     Fields:    Translation:HumansCells
    40. Harnessing chaos in recurrent neural networks. Neuron. 2009 Aug 27; 63(4):423-5. Buonomano DV. PMID: 19709625; PMCID: PMC5466426.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimals
    41. Influence of the interstimulus interval on temporal processing and learning: testing the state-dependent network model. Philos Trans R Soc Lond B Biol Sci. 2009 Jul 12; 364(1525):1865-73. Buonomano DV, Bramen J, Khodadadifar M. PMID: 19487189; PMCID: PMC2685819.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansAnimals
    42. Differential effects of excitatory and inhibitory plasticity on synaptically driven neuronal input-output functions. Neuron. 2009 Mar 12; 61(5):774-85. Carvalho TP, Buonomano DV. PMID: 19285473; PMCID: PMC2676350.
      View in: PubMed   Mentions: 56     Fields:    Translation:AnimalsCells
    43. State-dependent computations: spatiotemporal processing in cortical networks. Nat Rev Neurosci. 2009 Feb; 10(2):113-25. Buonomano DV, Maass W. PMID: 19145235.
      View in: PubMed   Mentions: 335     Fields:    Translation:HumansAnimals
    44. A method for chronic stimulation of cortical organotypic cultures using implanted electrodes. J Neurosci Methods. 2009 Jan 30; 176(2):136-43. Johnson HA, Buonomano DV. PMID: 18835297.
      View in: PubMed   Mentions: 8     Fields:    Translation:Animals
    45. Distortions of subjective time perception within and across senses. PLoS One. 2008 Jan 16; 3(1):e1437. van Wassenhove V, Buonomano DV, Shimojo S, Shams L. PMID: 18197248; PMCID: PMC2174530.
      View in: PubMed   Mentions: 71     Fields:    Translation:Humans
    46. The biology of time across different scales. Nat Chem Biol. 2007 Oct; 3(10):594-7. Buonomano DV. PMID: 17876310.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansAnimals
    47. Development and plasticity of spontaneous activity and Up states in cortical organotypic slices. J Neurosci. 2007 May 30; 27(22):5915-25. Johnson HA, Buonomano DV. PMID: 17537962; PMCID: PMC6672255.
      View in: PubMed   Mentions: 42     Fields:    Translation:AnimalsCells
    48. Timing in the absence of clocks: encoding time in neural network states. Neuron. 2007 Feb 01; 53(3):427-38. Karmarkar UR, Buonomano DV. PMID: 17270738; PMCID: PMC1857310.
      View in: PubMed   Mentions: 199     Fields:    Translation:Humans
    49. Different forms of homeostatic plasticity are engaged with distinct temporal profiles. Eur J Neurosci. 2006 Mar; 23(6):1575-84. Karmarkar UR, Buonomano DV. PMID: 16553621.
      View in: PubMed   Mentions: 57     Fields:    Translation:Animals
    50. Time and the brain: how subjective time relates to neural time. J Neurosci. 2005 Nov 09; 25(45):10369-71. Eagleman DM, Tse PU, Buonomano D, Janssen P, Nobre AC, Holcombe AO. PMID: 16280574; PMCID: PMC6725822.
      View in: PubMed   Mentions: 51     Fields:    Translation:HumansAnimals
    51. A learning rule for the emergence of stable dynamics and timing in recurrent networks. J Neurophysiol. 2005 Oct; 94(4):2275-83. Buonomano DV. PMID: 16160088.
      View in: PubMed   Mentions: 41     Fields:    Translation:AnimalsCells
    52. A technique for repeated recordings in cortical organotypic slices. J Neurosci Methods. 2005 Jul 15; 146(1):69-75. Dong HW, Buonomano DV. PMID: 15935222.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    53. Timing and balance of inhibition enhance the effect of long-term potentiation on cell firing. J Neurosci. 2004 Oct 06; 24(40):8873-84. Marder CP, Buonomano DV. PMID: 15470154; PMCID: PMC6729972.
      View in: PubMed   Mentions: 27     Fields:    Translation:AnimalsCells
    54. The neural basis of temporal processing. Annu Rev Neurosci. 2004; 27:307-40. Mauk MD, Buonomano DV. PMID: 15217335.
      View in: PubMed   Mentions: 351     Fields:    Translation:HumansAnimals
    55. Timing of neural responses in cortical organotypic slices. Proc Natl Acad Sci U S A. 2003 Apr 15; 100(8):4897-902. Buonomano DV. PMID: 12668762; PMCID: PMC153652.
      View in: PubMed   Mentions: 40     Fields:    Translation:Animals
    56. Temporal specificity of perceptual learning in an auditory discrimination task. Learn Mem. 2003 Mar-Apr; 10(2):141-7. Karmarkar UR, Buonomano DV. PMID: 12663752; PMCID: PMC196662.
      View in: PubMed   Mentions: 49     Fields:    Translation:Humans
    57. Differential effects of short- and long-term potentiation on cell firing in the CA1 region of the hippocampus. J Neurosci. 2003 Jan 01; 23(1):112-21. Marder CP, Buonomano DV. PMID: 12514207; PMCID: PMC6742129.
      View in: PubMed   Mentions: 23     Fields:    Translation:AnimalsCells
    58. A model of spike-timing dependent plasticity: one or two coincidence detectors? J Neurophysiol. 2002 Jul; 88(1):507-13. Karmarkar UR, Buonomano DV. PMID: 12091572.
      View in: PubMed   Mentions: 57     Fields:    Translation:HumansAnimals
    59. Decoding temporal information: A model based on short-term synaptic plasticity. J Neurosci. 2000 Feb 01; 20(3):1129-41. Buonomano DV. PMID: 10648718; PMCID: PMC6774169.
      View in: PubMed   Mentions: 100     Fields:    Translation:Cells
    60. Distinct functional types of associative long-term potentiation in neocortical and hippocampal pyramidal neurons. J Neurosci. 1999 Aug 15; 19(16):6748-54. Buonomano DV. PMID: 10436032; PMCID: PMC6782844.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    61. A neural network model of temporal code generation and position-invariant pattern recognition. Neural Comput. 1999 Jan 01; 11(1):103-16. Buonomano DV, Merzenich M. PMID: 9950725.
      View in: PubMed   Mentions: 8     Fields:    
    62. Net interaction between different forms of short-term synaptic plasticity and slow-IPSPs in the hippocampus and auditory cortex. J Neurophysiol. 1998 Oct; 80(4):1765-74. Buonomano DV, Merzenich MM. PMID: 9772237.
      View in: PubMed   Mentions: 25     Fields:    Translation:AnimalsCells
    63. Cortical plasticity: from synapses to maps. Annu Rev Neurosci. 1998; 21:149-86. Buonomano DV, Merzenich MM. PMID: 9530495.
      View in: PubMed   Mentions: 550     Fields:    Translation:AnimalsCells
    64. Context-sensitive synaptic plasticity and temporal-to-spatial transformations in hippocampal slices. Proc Natl Acad Sci U S A. 1997 Sep 16; 94(19):10403-8. Buonomano DV, Hickmott PW, Merzenich MM. PMID: 9294223; PMCID: PMC23375.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    65. Learning and generalization of auditory temporal-interval discrimination in humans. J Neurosci. 1997 May 15; 17(10):3956-63. Wright BA, Buonomano DV, Mahncke HW, Merzenich MM. PMID: 9133413; PMCID: PMC6573705.
      View in: PubMed   Mentions: 94     Fields:    Translation:Humans
    66. Associative synaptic plasticity in hippocampal CA1 neurons is not sensitive to unpaired presynaptic activity. J Neurophysiol. 1996 Jul; 76(1):631-6. Buonomano DV, Merzenich MM. PMID: 8836251.
      View in: PubMed   Mentions: 10     Fields:    Translation:AnimalsCells
    67. Temporal information transformed into a spatial code by a neural network with realistic properties. Science. 1995 Feb 17; 267(5200):1028-30. Buonomano DV, Merzenich MM. PMID: 7863330.
      View in: PubMed   Mentions: 140     Fields:    Translation:Cells
    68. Inhibitory neuron produces heterosynaptic inhibition of the sensory-to-motor neuron synapse in Aplysia. Brain Res. 1992 Apr 10; 577(1):147-50. Buonomano DV, Cleary LJ, Byrne JH. PMID: 1521140.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    69. Neural and molecular bases of nonassociative and associative learning in Aplysia. Ann N Y Acad Sci. 1991; 627:124-49. Byrne JH, Baxter DA, Buonomano DV, Cleary LJ, Eskin A, Goldsmith JR, McClendon E, Nazif FA, Noel F, Scholz KP. PMID: 1679307.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    70. Long-term synaptic changes produced by a cellular analog of classical conditioning in Aplysia. Science. 1990 Jul 27; 249(4967):420-3. Buonomano DV, Byrne JH. PMID: 2165631.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCells
    71. Neuronal and network determinants of simple and higher-order features of associative learning: experimental and modeling approaches. Cold Spring Harb Symp Quant Biol. 1990; 55:175-86. Byrne JH, Baxter DA, Buonomano DV, Raymond JL. PMID: 1983443.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
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