Publications

Electronic versions of these papers are provided as a professional courtesy to ensure timely dissemination of academic work for individual, noncommercial purposes. Copyright and all rights therein resides with the respective copyright holders, as stated within each paper. These files may not be reposted without permission.

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PreprintsIn Press202220212020 20192018201720162015 20142013201220112008

Preprints

  • Ito T, Murray JD (2021) Multi-task representations in human cortex transform along a sensory-to-motor hierarchy. bioRxiv 10.1101/2021.11.29.470432 [DOI: 10.1101/2021.11.29.470432]
  • Shinn M, Hu A, Turner L, Noble S, Scheinost D, Anticevic A, Constable RT, Lee D, Bullmore ET†, Murray JD† († denotes co-corresponding) (2021) Spatial and temporal autocorrelation weave human brain networks. bioRxiv 10.1101/2021.06.01.446561 [DOI: 10.1101/2021.06.01.446561] [Code]
  • Pettine WW, Raman DV, Redish AD†, Murray JD† († denotes co-corresponding) (2021) Human latent-state generalization through prototype learning with discriminative attention. PsyArXiv ku4fr [DOI: 10.31234/osf.io/ku4fr]
  • Spiller TR, Duek O, Helmer M, Murray JD, von Känel R, Harpaz-Rotem I (2021) The uncommon is common: structural similarities of symptom heterogeneity across mental disorders. PsyArXiv g4kf8 [DOI: 10.31234/osf.io/g4kf8]
  • Ji JL, Repovs G, Yang GJ, Savic A, Murray JD, Anticevic A (2021) Computational neuroimaging of cognition-emotion interactions: affective and task-similar interference differentially impact working memory. bioRxiv 10.1101/2021.06.03.446811 [DOI: 10.1101/2021.06.03.446811]
  • Gu QL, Lam NH, Wimmer RD, Halassa MM, Murray JD (2021) Computational circuit mechanisms underlying thalamic control of attention. bioRxiv 10.1101/2020.09.16.300749 [DOI: 10.1101/2020.09.16.300749]
  • Helmer H, Warrington SD, Mohammadi-Nejad A, Ji JL, Howell A, Rosand B, Anticevic A, Sotiropoulos SN, Murray JD (2020) On stability of Canonical Correlation Analysis and Partial Least Squares with application to brain-behavior associations. bioRxiv 10.1101/2020.08.25.265546 [DOI: 10.1101/2020.08.25.265546] [Code]

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In Press

  • Gu QL, Murray JD (In Press) Dynamical systems perspective on thalamic circuit computation. Chapter to appear in The Thalamus (ed: Michael Halassa)
  • Ehrlich DB, Murray JD (In Press) Geometry of neural computations unifies working memory and planning. Proceedings of the National Academy of Sciences [DOI: 10.1101/2021.02.01.429156]

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2022

  • Kohler CG, Wolf DH, Abi-Dargham A, Anticevic A, Cho YT, Fonteneau C, Gil R, Girgis RR, Gray DL, Grinband J, Javitch JA, Kantrowitz JT, Krystal JH, Lieberman JA, Murray JD, Ranganathan M, Santamauro N, Van Snellenberg JX, Tamayo Z, TRANSCENDS Group, Gur RC, Gur RE, Calkins ME (2022) Illness phase as a key assessment and intervention window for psychosis. Biological Psychiatry Global Open Science [Epub ahead of print] [DOI: 10.1016/j.bpsgos.2022.05.009]
  • ‘t Hart BM, et al. (2022) Neuromatch Academy: a 3-week, online summer school in computational neuroscience. Journal of Open Source Education 5:118 [DOI: 10.21105/jose.00118] [Pubmed]
  • Cho YT, Moujaes F, Schleifer CH, Starc M, Ji JL, Santamauro N, Adkinson B, Kolobaric A, Flynn M, Krystal JH, Murray JD, Repovs G, Anticevic A (2022) Reward and loss incentives improve spatial working memory by shaping trial-by-trial posterior frontoparietal signals. NeuroImage 254:119139 [DOI: 10.1016/j.neuroimage.2022.119139] [Pubmed]
  • Lam NH, Borduqui T, Hallak J, Roque AC, Anticevic A, Krystal JH, Wang X-J, Murray JD (2022) Effects of altered excitation-inhibition balance on decision making in a cortical circuit model. Journal of Neuroscience 42:1035 [DOI: 10.1523/JNEUROSCI.1371-20.2021] [Pubmed] [Code]
  • Adams RA, Pinotsis D, Tsirlis K, Unruh L, Mahajan A, Montero Horas A, Convertino L, Ji JL, Repovs G, Murray JD, Friston KJ, Hong LE, Anticevic A (2022) Computational modelling of EEG and fMRI paradigms reveals a consistent loss of synaptic gain in schizophrenia. Biological Psychiatry 91:202 [DOI: 10.1016/j.biopsych.2021.07.024]
  • Abi-Dargham A, Javitch JA, Slifstein M, Anticevic A, Calkins ME, Cho YT, Fonteneau C, Gil R, Girgis R, Gur RE, Gur RC, Grinband J, Kantrowitz J, Kohler C, Krystal J, Murray JD, Ranganathan M, Santamauro N, Van Snellenberg J, Tamayo Z, Wolf D, TRANSCENDS Group, Gray D, Lieberman J (2022) Dopamine D1R receptor stimulation as a mechanistic pro-cognitive target for schizophrenia. Schizophrenia Bulletin 48:199 [DOI: 10.1093/schbul/sbab095] [Pubmed]
  • Shinn M, Lee D, Murray JD†, Seo H† († denotes co-corresponding) (2022) Transient neuronal suppression for exploitation of new sensory evidence. Nature Communications 13:23 [DOI: 10.1038/s41467-021-27697-4] [Pubmed]

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2021

  • Kong X, Kong R, Orban C, Peng W, Zhang S, Anderson K, Holmes A, Murray JD, Deco G, van den Heuvel M, Yeo BTT (2021) Sensory-motor cortices shape functional connectivity dynamics in the human brain. Nature Communications 12:6373 [DOI: 10.1038/s41467-021-26704-y] [Pubmed]
  • Li D, Constantinidis C, Murray JD (2021) Trial-to-trial variability of spiking delay activity in prefrontal cortex constrains burst-coding models of working memory. Journal of Neuroscience 41:8928 [DOI: 10.1523/JNEUROSCI.0167-21.2021] [Pubmed]
  • Ji JL, Helmer M, Fonteneau C, Burt JB, Tamayo Z, Demšar J, Adkinson B, Savić A, Preller KH, Moujaes F, Vollenweider FX, Martin WJ, Repovš G, Cho YT, Pittenger C, Murray JD, Anticevic A (2021) Mapping brain-behavior space relationships along the psychosis spectrum. eLife 10:e66968 [DOI: 10.7554/eLife.66968] [Pubmed]
  • Burt JB, Preller KH, Demirtas M, Ji JL, Krystal JH, Vollenweider FX, Anticevic A, Murray JD (2021) Transcriptomics-informed large-scale cortical model captures topography of pharmacological neuroimaging effects of LSD. eLife 10:e69320 [DOI: 10.7554/eLife.69320] [Pubmed] [Code]
  • Pettine WW, Louie K, Murray JD, Wang X-J (2021) Excitatory-inhibitory tone shapes decision strategies in a hierarchical neural network model of multi-attribute choice. PLoS Computational Biology 17:e1008791 [DOI: 10.1101/2020.01.28.923649] [Pubmed]
  • van Viegen T, Akrami A, Bonnen K, DeWitt E, Hyafil A, Ledmyr H, Lindsay GW, Mineault P, Murray JD, Pitkow X, Puce A, Sedigh-Sarvestani M, Stringer C, Achakulvisut T, Alikarami E, Atay MS, Batty E, Erlich JC, Galbraith BV, Guo Y, Juavinett AL, Krause MR, Li S, Pachitariu M, Straley E, Valeriani D, Vaughan E, Vaziri-Pashkam M, Waskom ML, Blohm G, Kording K, Schrater P, Wyble B, Escola S, Peters MAK (2021) Neuromatch Academy: teaching computational neuroscience with global accessibility. Trends in Cognitive Sciences 25:535 [DOI: 10.1016/j.tics.2021.03.018] [Pubmed]
  • Ehrlich DB*, Stone JT*, Brandfonbrener D, Atanasov A, Murray JD (* denotes equal contribution) (2021) PsychRNN: an accessible and flexible Python package for training recurrent neural network models on cognitive tasks. eNeuro 0427-20.2020 [DOI: 10.1523/ENEURO.0427-20.2020] [Pubmed] [Code]
  • Emani PS, Warrell J, Anticevic A, Bekiranov S, Gandal M, McConnell MJ, Sapiro G, Aspuru-Guzik A, Baker JT, Bastiani M, Murray JD, Sotiropoulos SN, Taylor J, Senthil G, Lehner T, Gerstein MB, Harrow AW (2021) Quantum computing at the frontiers of biological sciences. Nature Methods 18:701 [DOI: 10.1038/s41592-020-01004-3] [Pubmed]

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2020

  • Cavanagh SE*, Lam NH*, Murray JD†, Hunt LT†, Kennerley SW† (* denotes equal contribution) († denotes co-corresponding) (2020) A circuit mechanism for decision making biases and NMDA receptor hypofunction. eLife 9:e53664 [DOI: 10.7554/eLife.53664] [Pubmed]
  • Shinn M, Ehrlich DB, Lee D, Murray JD†, Seo H† († denotes co-corresponding) (2020) Confluence of timing and reward biases in perceptual decision-making dynamics. Journal of Neuroscience 40:7326 [DOI: 10.1523/JNEUROSCI.0544-20.2020] [Pubmed]
  • Shinn M*, Lam NH*, Murray JD (* denotes equal contribution) (2020) A flexible framework for simulating and fitting generalized drift-diffusion models. eLife 9:e56938 [DOI: 10.7554/eLife.56938] [Pubmed] [Code]
  • Gold JM, Bansal S, Anticevic A, Cho YT, Repovs G, Murray JD, Hahn B, Robinson BM, Luck SJ (2020) Refining the empirical constraints on computational models of spatial working memory in schizophrenia. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging 5:913 [DOI 10.1016/j.bpsc.2020.05.003] [Pubmed]
  • Preller KH, Duerler P, Burt JB, Ji JL, Adkinson BD, Staempfli P, Seifritz E, Repovs G, Krystal JH, Murray JD, Anticevic A, Vollenweider FX (2020) Psilocybin induces time-dependent changes in global functional connectivity. Biological Psychiatry 88:197 [DOI 10.1016/j.biopsych.2019.12.027] [Pubmed]

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2019

  • Ji JL, Diehl C, Schleifer C, Tamminga CA, Keshavan MS, Sweeney JA, Clementz BA, Hill SK, Pearlson G, Yang G, Creatura G, Krystal JH, Repovs G, Murray JD, Winkler A, Anticevic A (2019) Schizophrenia exhibits bi-directional brain-wide alterations in cortico-striato-cerebellar circuits. Cerebral Cortex 29:4463 [DOI: 10.1093/cercor/bhy306] [Pubmed]
  • Spreng RN, DuPre E, Ji JL, Yang GJ, Diehl C, Murray JD, Pearlson GD, Anticevic A (2019) Structural covariance reveals alterations in control and salience network integrity in chronic schizophrenia. Cerebral Cortex 29:5269 [DOI: 10.1093/cercor/bhz064] [Pubmed]
  • Demirtas M, Burt JB*, Helmer M*, Ji JL, Adkinson BD, Glasser MF, Van Essen DC, Sotiropoulos S, Anticevic A, Murray JD (* denotes equal contribution) (2019) Hierarchical heterogeneity across human cortex shapes large-scale neural dynamics. Neuron 101:1181 [DOI: 10.1016/j.neuron.2019.01.017] [Pubmed] [Code]

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2018

  • Preller KH, Burt JB, Ji JL, Schleifer C, Adkinson B, Stampfli P, Repovs G, Krystal JH, Murray JD, Vollenweider FX, Anticevic A (2018) Changes in global and thalamic brain connectivity in LSD-induced altered states are attributable to the 5-HT2A receptor. eLife 7:e35082 [DOI: 10.7554/eLife.35082] [Pubmed]
  • Cho YT, Lam NH, Starc M, Santamauro N, Savic A, Diehl C, Schleifer CH, Repovs G, Murray JD, Anticevic A (2018) Effects of reward on spatial working memory in schizophrenia. Journal of Abnormal Psychology 127:695 [DOI:10.1037/abn0000369] [Pubmed]
  • Burt JB, Demirtas M, Eckner WJ, Navejar N, Ji JL, Martin WJ, Bernacchia A, Anticevic A, Murray JD (2018) Hierarchy of transcriptomic specialization across human cortex captured by structural neuroimaging topography. Nature Neuroscience 21:1251 [DOI: 10.1038/s41593-018-0195-0] [Pubmed]
  • Murray JD, Demirtas M, Anticevic A (2018) Biophysical modeling of large-scale brain dynamics and applications for computational psychiatry. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging 3:777 [DOI: 10.1016/j.bpsc.2018.07.004] [Pubmed]
  • Murray JD, Wang X-J (2018) Cortical circuit models in psychiatry: linking disrupted excitation-inhibition balance to cognitive deficits associated with schizophrenia. In: Anticevic A, Murray JD, eds., Computational Psychiatry: Mathematical Modeling of Mental Illness. San Diego: Academic Press. [DOI: 10.1016/B978-0-12-809825-7.00001-8] [PDF]

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2017

  • Yang GJ, Murray JD, Glasser M, Pearlson GD, Krystal JH, Schleifer C, Repovs G, Anticevic A (2017) Altered global signal topography in schizophrenia. Cerebral Cortex 27:5156 [DOI: 10.1093/cercor/bhw297] [PubMed] [PDF]
  • Anticevic A, Murray JD (2017) Rebalancing altered computations: considering the role of neural excitation and inhibition balance across the psychiatric spectrum. (Commentary) Biological Psychiatry 81:816 [DOI: 10.1016/j.biopsych.2017.03.019] [Pubmed] [PDF]
  • Foss-Feig JH, Adkinson BD, Ji JL, Yang GJ, Srihari VH, McPartland JC, Krystal JH, Murray, JD, Anticevic A (2017) Searching for cross-diagnostic convergence: neural mechanisms governing excitation and inhibition balance in schizophrenia and autism spectrum disorders. Biological Psychiatry 81:848 [DOI: 10.1016/j.biopsych.2017.03.005] [Pubmed] [PDF]
  • Krystal JH, Anticevic A, Yang GJ, Dragoi G, Driesen NR, Wang X-J, Murray JD (2017) Impaired tuning of neural ensembles and the pathophysiology of schizophrenia: a translational and computational neuroscience perspective. Biological Psychiatry 81:874 [DOI: 10.1016/j.biopsych.2017.01.004] [Pubmed] [PDF]
  • Krystal JH, Murray JD, Chekroud A, Corlett PR, Yang GJ, Wang X-J, Anticevic A (2017) Computational psychiatry and the challenge of schizophrenia. (Commentary) Schizophrenia Bulletin 43:473 [DOI: 10.1093/schbul/sbx025] [Pubmed] [PDF]
  • Murray JD, Anticevic A (2017) Computational modeling approaches to psychiatry. In: Kaplan and Sadock’s Comprehensive Textbook of Psychiatry, 10th ed. [PDF]
  • Starc M*, Murray JD*, Santamauro N, Savic A, Diehl C, Cho YT, Srihari V, Morgan PT, Krystal JH, Wang X-J, Repovs G, Anticevic A (* denotes equal contribution) (2017) Schizophrenia is associated with a pattern of spatial working memory deficits consistent with cortical disinhibition. Schizophrenia Research 181:107 [DOI: 10.1016/j.schres.2016.10.011] [PubMed] [PDF]
  • Murray JD, Bernacchia A, Roy NA, Constantinidis C, Romo R, Wang X-J (2017) Stable population coding for working memory coexists with heterogeneous neural dynamics in prefrontal cortex. Proceedings of the National Academy of Sciences 114:394 [DOI: 10.1073/pnas.1619449114] [Pubmed] [PDF]

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2016

  • Krystal JH, Anticevic A, Murray JD, Glahn DC, Driesen NR, Yang GJ, Wang X-J (2016) Clinical heterogeneity arising from categorical and dimensional features of the neurobiology of psychiatric diagnoses: insights from neuroimaging and computational neuroscience. In: Computational Psychiatry: New Perspectives on Mental Illness, edited by A. D. Redish and J. A. Gordon. Strüngmann Forum Reports, vol. 20, J. Lupp, series editor. Cambridge, MA: MIT Press [PDF]
  • Mejias JF, Murray JD, Kennedy H, Wang X-J (2016) Feedforward and feedback frequency-dependent interactions in a large-scale laminar network of the primate cortex. Science Advances 2:e1601335 [DOI: 10.1126/sciadv.1601335] [Pubmed] [PDF]
  • Arnsten AFT, Murray JD, Seo H, Lee D (2016) Ketamine’s antidepressant actions: potential mechanisms in the primate medial prefrontal circuits that represent aversive experience. (Commentary) Biological Psychiatry 79:713 [DOI: 10.1016/j.biopsych.2016.02.014] [PubMed] [PDF]
  • Yang GJ, Murray JD, Repovs G, Cole MW, Wang X-J, Glahn DC, Krystal JH, Pearlson GD, Anticevic A (2016) Functional hierarchy underlies preferential connectivity disturbances in schizophrenia. Proceedings of the National Academy of Sciences 113:E219 [DOI: 10.1073/pnas.1508436113] [PubMed] [PDF]

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2015

  • Anticevic A, Haut K, Murray JD, Repovs G, Yang GJ, Cole MW, McEwen SC, Bearden CD, Addington J, Goodyear B, Cadenhead KS, Mirzakhanian H, Cornblatt BA, Olvet D, Mathalon DH, McGlashan TH, Perkins DO, Belger A, Seidman LJ, Thermenos H, Tsuang MT, van Erp TGM, Walker EF, Hamann S, Woods SW, Qiu M, Cannon TD (2015) Association of thalamic dysconnectivity and conversion to psychosis in youth and young adults at elevated clinical risk. JAMA Psychiatry 72:882 [DOI: 10.1001/jamapsychiatry.2015.0566] [PubMed] [PDF]
  • Anticevic A*, Murray JD*, Barch DM (2015) (* equal contribution) Bridging levels of understanding in schizophrenia through computational modeling. Clinical Psychological Science 3:433 [DOI: 10.1177/2167702614562041] [PubMed] [PDF]
  • Anticevic A, Corlett PR, Cole MW, Savic A, Gancsos M, Tang Y, Repovs G, Murray JD, Driesen NR, Morgan PT, Xu K, Wang F, Krystal JH (2015) N-methyl-D-aspartate receptor antagonist effects on prefrontal cortical connectivity better model early than chronic schizophrenia. Biological Psychiatry 77:569 [DOI: 10.1016/j.biopsych.2014.07.022] [PubMed] [PDF]
  • Anticevic A, Hu X, Deng W, Hu J, Xiao Y, Li F, Bi F, Cole MW, Savic A, Yang GJ, Repovs G, Murray JD, Wang X-J, Huang X, Lui S, Krystal JH, Qiyong G (2015) Early-course unmedicated schizophrenia patients exhibit elevated prefrontal connectivity associated with longitudinal change. Journal of Neuroscience 35:267 [DOI:10.1523/jneurosci.2310-14.2015] [PubMed] [PDF]

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2014

  • Murray JD, Bernacchia A, Freedman DJ, Romo R, Wallis JD, Cai X, Padoa-Schioppa C, Pasternak T, Seo H, Lee D, Wang X-J (2014) A hierarchy of intrinsic timescales across primate cortex. Nature Neuroscience 17:1661 [DOI: 10.1038/nn.3862] [PubMed] [PDF]
  • Anticevic A, Cole MW, Repovs G, Murray JD, Brumbaugh MS, Winkler AM, Savic A, Krystal JH, Pearlson GD, Glahn DC (2014) Characterizing thalamo-cortical disturbances in schizophrenia and bipolar illness. Cerebral Cortex 24:3116 [DOI: 10.1093/cercor/bht165] [PubMed] [PDF]
  • Anticevic A, Yang GJ, Savic A, Murray JD, Cole MW, Repovs G, Pearlson GD, Glahn DC (2014) Mediodorsal and visual thalamic connectivity differ in schizophrenia and bipolar disorder with and without psychosis history. Schizophrenia Bulletin 40:1227 [DOI: 10.1093/schbul/sbu100] [PubMed] [PDF]
  • Yang GJ*, Murray JD*, Repovs G, Cole MW, Savic A, Glasser MF, Krystal JH, Wang X-J, Pearlson GD, Glahn DC, Anticevic A (* denotes equal contribution) (2014) Altered global brain signal in schizophrenia. Proceedings of the National Academy of Sciences 111:7438 [DOI: 10.1073/pnas.1405289111] [PubMed] [PDF]
  • Murray JD, Anticevic A, Gancsos M, Ichinose M, Corlett PR, Krystal JH, Wang X-J (2014) Linking microcircuit dysfunction to cognitive impairment: effects of disinhibition associated with schizophrenia in a cortical working memory model. Cerebral Cortex 24:859 [DOI: 10.1093/cercor/bhs370] [PubMed] [PDF]

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2013

  • Anticevic A, Cole M, Repovs G, Savic A, Driesen NR, Yang G, Cho YT, Murray JD, Glahn DC, Wang X-J, Krystal JH (2013) Connectivity, pharmacology and computation: towards a mechanistic understanding of neural system dysfunction in schizophrenia. Frontiers in Psychiatry 4:169 [DOI: 10.3389/fpsyt.2013.00169] [PubMed] [PDF]

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2012

  • Anticevic A, Cole MW, Murray JD, Corlett PR, Wang X-J, Krystal JH (2012) The role of default network deactivation in cognition and disease. Trends in Cognitive Sciences 16:584-592 [DOI: 10.1016/j.tics.2012.10.008] [PubMed] [PDF]
  • Anticevic A, Gancsos M, Murray JD, Repovs G, Driesen NR, Ennis DJ, Niciu MJ, Morgan PT, Smith M, Wang X-J, Krystal JH, Corlett PR (2012) NMDA receptor function in large-scale anticorrelated neural systems with implications for cognition and schizophrenia. Proceedings of the National Academy of Sciences 109:16720 [DOI: 10.1073/pnas.1208494109] [PubMed] [PDF]

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2011

  • Murray JD, Ardid S (2011) What can tracking the activity of dozens of sensory neurons tell about the source of attention? (Commentary) Frontiers in Systems Neuroscience 5:35 [DOI: 10.3389/fnsys.2011.00035] [PubMed] [PDF]

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2008

  • Jacques V, Murray JD, Marquier F, Chauvat D, Grosshans F, Treussart F, Roch J-F (2008) Enhancing single-molecule photostability by optical feedback from quantum jump detection. Applied Physics Letters 93:203307 [DOI: 10.1063/1.3013843] [PDF]
  • Li D, Dong Y, Ramos RG, Murray JD, Dementyev AE, Barrett SE (2008) Intrinsic origin of spin echoes in dipolar solids generated by strong pi-pulses. Physical Review B 77:214306 [DOI: 10.1103/PhysRevB.77.214306] [PDF]

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