Publications

Below is a list of publications from the Pesaran Lab. Each listing includes a PDF copy of the publication, if available.

2021

Abbaspourazad H, Choudhury M, Wong YT, Pesaran B, Shanechi MM. Multiscale low-dimensional motor cortical state dynamics predict naturalistic reach-and-grasp behavior.Nat Commun. 2021 Jan 27;12(1):607. doi: 10.1038/s41467-020-20197-x. PMID: 33504797; PMCID: PMC7840738.

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Yang Y*, Qiao S*, Sani OG, Sedilli JI, Ferrentino B, Pesaran B, Shanechi MM.Modelling and prediction of the dynamic responses of large-scale brain networks during direct electrical stimulation.Nat Biomed Eng 2021. https://doi.org/10.1038/s41551-020-00666-w

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Chen ZS, Pesaran B. Improving scalability in systems neuroscience. Neuron. 2021 Apr 1:S0896-6273(21)00195-1. doi: 10.1016/j.neuron.2021.03.025. PMID: 33831347.

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2020

Choi J, Kumar K, Khazali M, Wingel K, Choudhury M, Charles AS, Pesaran B. Optimal Adaptive Electrode Selection to Maximize Simultaneously Recorded Neuron Yield Advances in Neural Information Processing Systems 33 pre-proceedings (NeurIPS 2020) Edited by: H. Larochelle and M. Ranzato and R. Hadsell and M.F. Balcan and H. Lin. 2020 33:6160-6171.

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Pesaran B, Hagan M, Qiao S, Shewcraft R. Multiregional communication and the channel modulation hypothesis. Curr Opin Neurobiol. 2020 Dec 24:S0959-4388(20)30183-5. doi: 10.1016/j.conb.2020.11.016. PMID: 33358629.

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Trumpis M, Chiang CH, Orsborn AL, Bent B, Li J, Rogers JA, Pesaran B, Cogan G, Viventi J. Sufficient sampling for kriging prediction of cortical potential in rat, monkey, and human µECoG.J Neural Eng. 2020 Dec 16. doi: 10.1088/1741-2552/abd460. Epub ahead of print. PMID: 33326943.

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Sani OG, Abbaspourazad H, Wong YT, Pesaran B, Shanechi MM. Modeling behaviorally relevant neural dynamics enabled by preferential subspace identification. Nat Neurosci. 2020 Nov 9. doi: 10.1038/s41593-020-00733-0. Epub ahead of print. PMID: 33169030.

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Qiao S, Sedillo JI, Brown KA, Ferrentino B, Pesaran B. A Causal Network Analysis of Neuromodulation in the Mood Processing Network. Neuron. 2020 Sep 9;107(5):972-985.e6. doi: 10.1016/j.neuron.2020.06.012. Epub 2020 Jul 8. PMID: 32645299; PMCID: PMC7486259.

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Chiang CH, Won SM, Orsborn AL, Yu KJ, Trumpis M, Bent B, Wang C, Xue Y, Min S, Woods V, Yu C, Kim BH, Kim SB, Huq R, Li J, Seo KJ, Vitale F, Richardson A, Fang H, Huang Y, Shepard K, Pesaran B, Rogers JA, Viventi J. Development of a neural interface for high-definition, long-term recording in rodents and nonhuman primates. Sci Transl Med. 2020 Apr 8;12(538):eaay4682. doi: 10.1126/scitranslmed.aay4682. PMID: 32269166; PMCID: PMC7478122.

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Shewcraft RA, Dean HL, Fabiszak MM, Hagan MA, Wong YT, Pesaran B. Excitatory/Inhibitory Responses Shape Coherent Neuronal Dynamics Driven by Optogenetic Stimulation in the Primate Brain.J Neurosci. 2020 Mar 4;40(10):2056-2068. doi: 10.1523/JNEUROSCI.1949-19.2020. Epub 2020 Jan 21. PMID: 31964718; PMCID: PMC7055136.

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Angjelichinoski M, Choi J, Banerjee T, Pesaran B, Tarokh V. Cross-subject decoding of eye movement goals from local field potentials. J Neural Eng. 2020 Feb 19;17(1):016067. doi: 10.1088/1741-2552/ab6df3. PMID: 31962295.

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2019

Sadras N, Pesaran B, Shanechi MM. A point-process matched filter for event detection and decoding from population spike trains. J Neural Eng. 2019 Oct 25;16(6):066016. doi: 10.1088/1741-2552/ab3dbc. PMID: 31437831.

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Bighamian R, Wong YT, Pesaran B, Shanechi MM. Sparse model-based estimation of functional dependence in high-dimensional field and spike multiscale networks. J Neural Eng. 2019 Sep 10;16(5):056022. doi: 10.1088/1741-2552/ab225b. PMID: 31100751.

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Doelling KB, Assaneo MF, Bevilacqua D, Pesaran B, Poeppel D. An oscillator model better predicts cortical entrainment to music. Proc Natl Acad Sci U S A. 2019 May 14;116(20):10113-10121. doi: 10.1073/pnas.1816414116. Epub 2019 Apr 24. PMID: 31019082; PMCID: PMC6525506.

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Angjelichinoski M, Banerjee T, Choi J, Pesaran B, Tarokh V. Minimax-optimal decoding of movement goals from local field potentials using complex spectral features. J Neural Eng. 2019 Aug;16(4):046001. doi: 10.1088/1741-2552/ab1a1f. Epub 2019 Apr 16. PMID: 30991369.

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Hsieh HL, Wong YT, Pesaran B, Shanechi MM. Multiscale modeling and decoding algorithms for spike-field activity. J Neural Eng. 2019 Feb;16(1):016018. doi: 10.1088/1741-2552/aaeb1a. Epub 2018 Oct 24. PMID: 30523833.

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2018

Choi J, Goncharov V, Kleinbart J, Orsborn A, Pesaran B. Monkey-MIMMS: Towards Automated Cellular Resolution Large- Scale Two-Photon Microscopy In The Awake Macaque Monkey. Annu Int Conf IEEE Eng Med Biol Soc. 2018 Jul;2018:3013-3016. doi: 10.1109/EMBC.2018.8512994. PMID: 30441031; PMCID: PMC7414427.

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Abbaspourazad H, Wong Y, Pesaran B, Shanechi MM. Identifying multiscale hidden states to decode behavior. Annu Int Conf IEEE Eng Med Biol Soc. 2018 Jul;2018:3778-3781. doi: 10.1109/EMBC.2018.8513242. PMID: 30441189.

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Pesaran B, Vinck M, Einevoll GT, Sirota A, Fries P, Siegel M, Truccolo W, Schroeder CE and Srinivasan R. Investigating large-scale brain dynamics using field potential recordings: analysis and interpretation. Nat Neurosci. 2018. doi: 10.1038/s41593-018-0171-8

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Kleinbart JE, Orsborn AL, Choi JS, Wang C, Qiao S, Viventi J, Pesaran B. A Modular Implant System for Multimodal Recording and Manipulation of the Primate Brain. Annu Int Conf IEEE Eng Med Biol Soc. 2018 Jul;2018:3362-3365. doi: 10.1109/EMBC.2018.8512993. PMID: 30441108; PMCID: PMC7401970.

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2017

Han-Lin Hsieh, Wong YT, Pesaran B, Shanechi MM. Multiscale decoding for reliable brain-machine interface performance over time. Annu Int Conf IEEE Eng Med Biol Soc. 2017 Jul;2017:197-200. doi: 10.1109/EMBC.2017.8036796. PMID: 29059844.

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Cogan GB, Iyer A, Melloni L, Thesen T, Friedman D, Doyle W, Devinsky O, Pesaran B. Manipulating stored phonological input during verbal working memory. Nat Neurosci. 2017 Feb;20(2):279-286. doi: 10.1038/nn.4459.

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Vazquez Y, Federici L, Pesaran B. Multiple spatial representations interact to increase reach accuracy when coordinating a saccade with a reach. J Neurophysiol. 2017 Aug 2:jn.00408.2017. doi: 10.1152/jn.00408.2017

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Orsborn AL, Pesaran B. Parsing learning in networks using brain-machine interfaces. Curr Opin Neurobiol. 2017 Oct;46:76-83.

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Hsieh H-L, Wong YT, Pesaran B, Shanechi MM. Multiscale decoding for reliable brain-machine interface performance over time. Conf Proc IEEE Eng Med Biol Soc. 2017 Jul;2017:197-200. doi: 10.1109/EMBC.2017.8036796.

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Blumrosen G, Hawellek D, Pesaran B.Towards Automated Recognition of Facial Expressions in Animal Models. Proc IEEE Conf Computer Vision (ICCV). 2017 pp. 2810-2817

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2016

Wong YT, Fabiszak MF, Novikov Y, Daw ND, Pesaran B. Coherent neuronal ensembles are rapidly recruited when making a look-reach decision Nat Neurosci. 2016 19(2):327-34. doi:10.1038/nn.4210

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Coon WG, Gunduz A, Brunner P, Ritaccio AL, Pesaran B, Schalk G. Oscillatory phase modulates the timing of neuronal activations and resulting behavior. Neuroimage. 2016 Jun;133:294-301. doi: 10.1016/j.neuroimage.2016.02.080.

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Zimmermann J, Vazquez Y, Glimcher PW, Pesaran B, Louie K. Oculomatic: High speed, reliable, and accurate open-source eye tracking for humans and non-human primates. J Neurosci Methods. 2016 Jun 23;270:138-146. doi:10.1016/j.jneumeth.2016.06.016.

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Hawellek DJ, Wong YT, Pesaran B.Temporal coding of reward-guided choice in the posterior parietal cortex. Proc Natl Acad Sci U S A. 2016 Nov 7. pii:201606479.

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Pesaran B, Freedman DJ. Where Are Perceptual Decisions Made in the Brain? Trends Neurosci. 2016 Oct;39(10):642-644. doi: 10.1016/j.tins.2016.08.008.

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Qiao S, Brown KA, Orsborn AL, Ferrentino B, Pesaran B. Development of semi-chronic microdrive system for large-scale circuit mapping in macaque mesolimbic and basal ganglia systems. Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:5825-5828. doi: 10.1109/EMBC.2016.7592052.

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Gunduz A, Brunner P, Sharma M, Leuthardt EC, Ritaccio AL, Pesaran B, Schalk G. Differential roles of high gamma and local motor potentials for movement preparation and execution. Brain-Computer Interfaces. 2016. 3:2, 88-102, doi: 10.1080/2326263X.2016.1179087

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2015

Orsborn AL, Wang C, Chiang K, Maharbiz MM, Viventi J, Pesaran B Semi-chronic chamber system for simultaneous subdural electrocorticography, local field potentials, and spike recordings IEEE EMBS Conf Neural Eng 2015:398-401.

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Markowitz DA, Curtis CE, Pesaran B. Multiple Component Networks Support Working Memory in Prefrontal Cortex Proc Natl Acad Sci U S A. 2015 Aug 17; doi: 10.1073/pnas.1504172112.

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Putrino D, Wong YT, Weiss A, Pesaran B. A training platform for many-dimensional prosthetic devices using a virtual reality environment. J Neurosci Methods. 2015 Apr 13. pii: S0165-0270(14)00098-3. doi:10.1016/j.jneumeth.2014.03.010.

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2014

Cogan GB, Thesen T, Carlson C, Doyle W, Devinsky O, Pesaran B. Sensory-motor transformations for speech occur bilaterally. Nature. 2014 Mar 6;507(7490):94-8.

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2013

Madlon-Kay S, Pesaran B, Daw ND. Action selection in multi-effector decision making. Neuroimage. 2013. 70C:66-79.

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Wong YT, Putrino D, Weiss A, Pesaran B. Utilizing movement synergies to improve decoding performance for a brain machine interface. Conf Proc IEEE Eng Med Biol Soc. 2013;2013:289-292.

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2012

Banerjee A, Dean HL, Pesaran B. Parametric models to relate spike train and LFP dynamics with neural information processing. Front Comput Neurosci. 2012. 6:51.

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Dean HL, Hagan MA, Pesaran B. Only coherent spiking in posterior parietal cortex coordinates looking and reaching. Neuron. 2012. 73(4):829-841

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Putrino D, Wong YT, Vigeral M, Pesaran B. Development of a closed-loop feedback system for real-time control of a high-dimensional Brain Machine Interface. Conf Proc IEEE Eng Med Biol Soc. 2012;2012:4567-70.

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Hagan MA, Dean HL, Pesaran B. Spike-field activity in parietal area LIP during coordinated reach and saccade movements. J Neurophysiol. 2012. 105(5): 1275-90.

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Wong YT, Vigeral M, Putrino D, Pfau D, Merel J, Paninski L, Pesaran B. Decoding arm and hand movements across layers of the macaque frontal cortices. Conf Proc IEEE Eng Med Biol Soc. 2012;2012:1757-60.

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Gunduz A, Brunner P, Daitch A, Leuthardt EC, Ritaccio AL, Pesaran B, Schalk G. Decoding covert spatial attention using electrocorticographic (ECoG) signals in humans. Neuroimage. 2012. 60(4):2285-93

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2011

Markowitz DA, Wong YT, Gray CM, Pesaran B. Optimizing the decoding of movement goals from local field potentials in Macaque cortex. J Neurosci. 2011. 31(50):18412-22

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Markowitz DA, Wong YT, Shewcraft RA, Pesaran B.  Competition for visual selection in the oculomotor system. J Neurosci. 2011. 31(25):9298-306

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Dean HL, Marti D, Tsui E, Rinzel JL, Pesaran B. Reaction time correlations during eye-hand coordination: Behavior and modeling. J Neurosci. 2011 31(7):2399-412

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Lee B, Pesaran B, Andersen RA. Area MSTd neurons compensate for visual stimuli in eye coordinates during fixation and pursuit. J Neurophysiol. 2011, 105(1):60-8

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Gunduz A, Brunner P, Daitch A, Leuthardt EC, Ritaccio AL, Pesaran B, Schalk G. Neural correlates of visual-spatial attention in electrocorticographic signals in humans. Front Hum Neurosci. 2011 Sep 24;5:89

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2010

Banerjee A, Dean HL, Pesaran B.  A likelihood method for computing selection times in spiking and local field potential activity. J Neurophysiol. 2010. 104(6):3705-20

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Pesaran B, Nelson MJ, Andersen RA. A relative position code for saccades in dorsal premotor cortex. J Neurosci. 2010 30(19):6527-37

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Pesaran B. Neural correlations, decisions, and actions. Curr Opin Neurobiol. 2010 Apr;20(2):166-71

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2009

Gershman S, Pesaran B, Daw N. Human reinforcement learning subdivides structured action spaces by learning effector-specific values. J Neurosci. 2009 29(43):13524-31

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Pesaran B Uncovering the mysterious origins of local field potentials Neuron 2009 Jan 15;61(1):1-2.

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Pesaran B. Uncovering the mysterious origins of local field potentials. Neuron. 2009 Jan 15;61(1):1-2

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2008

Pesaran B, Nelson MJ, Andersen RA. Free choice activates a decision circuit between frontal and parietal cortex. Nature. 2008. 453(7103):406-409

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2007

Lee B, Pesaran B, Andersen RA.  Translation speed compensation in MSTd. J Neurosci. 2007. 27(10):2582-91

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2006

Pesaran B, Nelson MJ, Andersen RA. Dorsal premotor cortex encodes the relative position of the hand, eye and goal before reaches. Neuron. 2006. 51:125-134

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Bokil H, Pesaran B, Andersen RA, Mitra PP.  A framework for the detection and classification of events in neural activity. IEEE Trans Biomed Eng. 2006 53(8):1678-1688

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2004

Andersen RA, Musallam S, Pesaran B. Selecting the signals for a brain-machine interface. Curr Opin Neurobiol. 2004 Dec;14(6):720-6.

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Andersen RA, Burdick JW, Musallam S, Pesaran B, Cham JG. Cognitive neural prosthetics. Trends Cogn Sci. 2004 Nov;8(11):486-93.

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2003

Scherberger H, Fineman I, Musallam S, Dubowitz DJ, Bernheim KA, Pesaran B, Corneil BD, Gillikan B, Andersen RA. Magnetic resonance image-guided implantation of chronic recording electrodes in the macaque intraparietal sulcus. J Neurosci Methods. 2003 Nov 30;130(1):1-8..

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Shenoy KV, Meeker D, Cao S, Kureishi S, Pesaran B, Buneo C, Batista AP, Mitra PP, Burdick JW, Andersen RA. Neural prosthetic control signals from plan activity. Neuroreport. 2003 14:591-596

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2002

Pesaran B, Pezaris J, Sahani M, Mitra PP, Andersen RA. Temporal structure in neuronal activity during working memory in macaque parietal cortex. Nat Neurosci. 2002 Aug;5(8):805-811

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2000

Tchernikovski O, Nottebohm F, Ho CE, Pesaran B, Mitra PP.  A procedure for an automated measurement of song similarity. Animal Behaviour. 2000. 59:1167-1176

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1999

Mitra PP, Pesaran B. Analysis of dynamic brain imaging data. Biophys J. 1999; 76:691-708

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1998

Fee MS, Shraiman B, Pesaran B, Mitra PP. The role of nonlinear dynamics of the syrinx in the vocalizations of a songbird. Nature. 1998; 395:67-71

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1997

Prechtl JC, Cohen LB, Pesaran B, Mitra PP, Kleinfeld D. Visual stimuli induce waves of electrical activity in turtle cortex. Proc Natl Acad Sci U S A. 1997 Jul 8;94(14):7621-6

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