Featured Publications
Hierarchy of transcriptomic specialization across human cortex captured by structural neuroimaging topography
Burt JB, Demirtaş M, Eckner WJ, Navejar NM, Ji JL, Martin WJ, Bernacchia A, Anticevic A, Murray JD. Hierarchy of transcriptomic specialization across human cortex captured by structural neuroimaging topography. Nature Neuroscience 2018, 21: 1251-1259. PMID: 30082915, PMCID: PMC6119093, DOI: 10.1038/s41593-018-0195-0.Peer-Reviewed Original ResearchHierarchical Heterogeneity across Human Cortex Shapes Large-Scale Neural Dynamics
Demirtaş M, Burt JB, Helmer M, Ji JL, Adkinson BD, Glasser MF, Van Essen DC, Sotiropoulos SN, Anticevic A, Murray JD. Hierarchical Heterogeneity across Human Cortex Shapes Large-Scale Neural Dynamics. Neuron 2019, 101: 1181-1194.e13. PMID: 30744986, PMCID: PMC6447428, DOI: 10.1016/j.neuron.2019.01.017.Peer-Reviewed Original ResearchConceptsResting-state functional connectivityHigh-frequency spectral powerMagnetic resonance imagingLocal synaptic strengthsResting-state magnetoencephalographyCircuit-level mechanismsMicrocircuit propertiesHuman cortical dynamicsCortical areasLocal circuitsResonance imagingSynaptic strengthHuman cortexFunctional MRIFunctional connectivityCortical organizationHierarchical specializationLarge-scale neural dynamicsNeural activityFMRI featuresCortexCortical dynamicsLocal propertiesSpectral powerIntrinsic local propertiesGenerative modeling of brain maps with spatial autocorrelation
Burt JB, Helmer M, Shinn M, Anticevic A, Murray JD. Generative modeling of brain maps with spatial autocorrelation. NeuroImage 2020, 220: 117038. PMID: 32585343, DOI: 10.1016/j.neuroimage.2020.117038.Peer-Reviewed Original ResearchA flexible framework for simulating and fitting generalized drift-diffusion models
Shinn M, Lam NH, Murray JD. A flexible framework for simulating and fitting generalized drift-diffusion models. ELife 2020, 9: e56938. PMID: 32749218, PMCID: PMC7462609, DOI: 10.7554/elife.56938.Peer-Reviewed Original ResearchConceptsDrift-diffusion modelArbitrary user-defined functionsImportant decision-making modelFokker-Planck equationEfficient numerical methodDecision-making mechanismUser-defined functionsDrift diffusion model frameworkFlexible frameworkSoftware packageGDDMHuman datasetsNumerical methodDecision-making modelResponse time distributionsDecision-making taskLatest methodologiesModel formGood accuracyFrameworkMaximum likelihoodModel innovationTime distributionDDM parametersModel frameworkConfluence of Timing and Reward Biases in Perceptual Decision-Making Dynamics
Shinn M, Ehrlich D, Lee D, Murray JD, Seo H. Confluence of Timing and Reward Biases in Perceptual Decision-Making Dynamics. Journal Of Neuroscience 2020, 40: 7326-7342. PMID: 32839233, PMCID: PMC7534922, DOI: 10.1523/jneurosci.0544-20.2020.Peer-Reviewed Original ResearchConceptsDecision-making taskReward biasesDecision-making strategiesPerceptual decision-making taskNovel decision-making taskGeneralized drift-diffusion modelsResponse time patternsTiming mechanismTemporal structureCognitive mechanismsSensory evidenceDecision-making dynamicsUrgency signalAsymmetric rewardsNeural mechanismsStimulus timingDrift-diffusion modelTemporal contextLeaky integrationRewardReward structureTemporal uncertaintyEvidence reliabilityEveryday lifeSuch regularitiesA circuit mechanism for decision-making biases and NMDA receptor hypofunction
Cavanagh SE, Lam NH, Murray JD, Hunt LT, Kennerley SW. A circuit mechanism for decision-making biases and NMDA receptor hypofunction. ELife 2020, 9: e53664. PMID: 32988455, PMCID: PMC7524553, DOI: 10.7554/elife.53664.Peer-Reviewed Original ResearchConceptsNMDA-R hypofunctionCortical excitation/inhibition balanceExcitation/inhibition balanceNMDA receptor hypofunctionNMDA receptor antagonismNMDA-R antagonist ketamineCircuit-level mechanismsPotential neural mechanismsNeuropsychiatric symptomsReceptor hypofunctionReceptor antagonismInhibition balanceExcitatory neuronsInhibitory neuronsPharmacological modelPharmacological manipulationNeuropsychiatric disordersCircuit mechanismsHypofunctionVariable evidenceNeural mechanismsKetamineNeuronsBehavioral psychophysicsPossible effectsPsychRNN: An Accessible and Flexible Python Package for Training Recurrent Neural Network Models on Cognitive Tasks
Ehrlich DB, Stone JT, Brandfonbrener D, Atanasov A, Murray JD. PsychRNN: An Accessible and Flexible Python Package for Training Recurrent Neural Network Models on Cognitive Tasks. ENeuro 2020, 8: eneuro.0427-20.2020. PMID: 33328247, PMCID: PMC7814477, DOI: 10.1523/eneuro.0427-20.2020.Peer-Reviewed Original ResearchConceptsRecurrent neural networkCognitive tasksCognitive neurosciencePython packageTraining of animalsTraining recurrent neural networksNetwork modelArtificial recurrent neural networkDeep learning softwareDeep-learning methodsRecurrent neural network modelNeural network modelNeural representationCognitive computationsNeuroscience researchNeural networkRNN modelCurriculum learningNeuroscienceCircuit mechanismsAdditional customizationConnectivity patternsTaskSoftware packageComputational modeling frameworkTranscriptomics-informed large-scale cortical model captures topography of pharmacological neuroimaging effects of LSD
Burt JB, Preller KH, Demirtas M, Ji JL, Krystal JH, Vollenweider FX, Anticevic A, Murray JD. Transcriptomics-informed large-scale cortical model captures topography of pharmacological neuroimaging effects of LSD. ELife 2021, 10: e69320. PMID: 34313217, PMCID: PMC8315798, DOI: 10.7554/elife.69320.Peer-Reviewed Original ResearchConceptsLysergic acid diethylamideEffects of LSDSerotonin 2A receptorPharmacological neuroimagingNeuromodulatory effectsPharmacological responseFunctional alterationsBrain physiologyCircuit mechanismsFunctional connectivityNeural functionBrain structuresPsychoactive drugsAcid diethylamideFunctional topographyPrecision medicineNeural differencesNeuroimagingAltered statesReceptorsTrial-to-Trial Variability of Spiking Delay Activity in Prefrontal Cortex Constrains Burst-Coding Models of Working Memory
Li D, Constantinidis C, Murray JD. Trial-to-Trial Variability of Spiking Delay Activity in Prefrontal Cortex Constrains Burst-Coding Models of Working Memory. Journal Of Neuroscience 2021, 41: 8928-8945. PMID: 34551937, PMCID: PMC8549532, DOI: 10.1523/jneurosci.0167-21.2021.Peer-Reviewed Original ResearchEffects of Altered Excitation-Inhibition Balance on Decision Making in a Cortical Circuit Model
Lam NH, Borduqui T, Hallak J, Roque A, Anticevic A, Krystal JH, Wang XJ, Murray JD. Effects of Altered Excitation-Inhibition Balance on Decision Making in a Cortical Circuit Model. Journal Of Neuroscience 2021, 42: 1035-1053. PMID: 34887320, PMCID: PMC8824494, DOI: 10.1523/jneurosci.1371-20.2021.Peer-Reviewed Original ResearchConceptsCortical circuitsCognitive deficitsCortical circuit modelAltered excitation-inhibition balanceExcitatory pyramidal neuronsNMDA receptor hypofunctionCerebral cortical circuitsExcitation-inhibition balancePyramidal neuronsReceptor hypofunctionDistinct time coursesSynaptic excitationInhibitory interneuronsMultiple neuropsychiatric disordersBehavioral deficitsSynaptic balanceSynaptic levelLatest evidenceNeuropsychiatric disordersCognitive functionCircuit mechanismsBehavioral effectsPsychometric performanceBehavioral levelTask paradigmTransient neuronal suppression for exploitation of new sensory evidence
Shinn M, Lee D, Murray JD, Seo H. Transient neuronal suppression for exploitation of new sensory evidence. Nature Communications 2022, 13: 23. PMID: 35013222, PMCID: PMC8748884, DOI: 10.1038/s41467-021-27697-4.Peer-Reviewed Original ResearchConceptsSensory evidenceNeural activityNew sensory evidenceGeneralized drift-diffusion modelsBehavioral responsesFrontal eye fieldConsistency of behaviorMultiple brain areasPerceptual decisionsEvidence accumulationStimulus onsetAnimal's behavioral responseMotor preparationDrift-diffusion modelEye fieldMomentary arrestTemporal integrationBehavioral studiesBrain areasCorresponding dipMotor outputBrief suppressionNeuronal suppressionVariable delayStimulus strengthGeometry of neural computation unifies working memory and planning
Ehrlich DB, Murray JD. Geometry of neural computation unifies working memory and planning. Proceedings Of The National Academy Of Sciences Of The United States Of America 2022, 119: e2115610119. PMID: 36067286, PMCID: PMC9478653, DOI: 10.1073/pnas.2115610119.Peer-Reviewed Original ResearchConceptsNeural dataPossible circuit mechanismReal-world tasksMemory taskUpcoming eventsSensory modelPrefrontal cortexCognitive functionRecurrent neural networkHuman behaviorNeurophysiological observationsMemoryCircuit mechanismsFalsifiable predictionsFuture behaviorTaskModular processRepresentational strategiesRepresentationNeural networkCortexBehaviorDistinct typesBrainFindingsMultitask representations in the human cortex transform along a sensory-to-motor hierarchy
Ito T, Murray J. Multitask representations in the human cortex transform along a sensory-to-motor hierarchy. Nature Neuroscience 2022, 26: 306-315. PMID: 36536240, DOI: 10.1038/s41593-022-01224-0.Peer-Reviewed Original ResearchConceptsComputational principlesFunctional magnetic resonanceHuman cortexRepresentational similarityCognitive tasksHuman cognitionNeural processesMotor hierarchyMotor representationsMultilayer neural network modelNeural network modelCortex transformFunctional architectureTraining regimesOptimized representationCognitionCortical patternsNetwork modelTaskCortexRepresentationSame individualArchitectureIndividualsCompressionFunctional brain networks reflect spatial and temporal autocorrelation
Shinn M, Hu A, Turner L, Noble S, Preller K, Ji J, Moujaes F, Achard S, Scheinost D, Constable R, Krystal J, Vollenweider F, Lee D, Anticevic A, Bullmore E, Murray J. Functional brain networks reflect spatial and temporal autocorrelation. Nature Neuroscience 2023, 26: 867-878. PMID: 37095399, DOI: 10.1038/s41593-023-01299-3.Peer-Reviewed Original ResearchHuman generalization of internal representations through prototype learning with goal-directed attention
Pettine W, Raman D, Redish A, Murray J. Human generalization of internal representations through prototype learning with goal-directed attention. Nature Human Behaviour 2023, 7: 442-463. PMID: 36894642, DOI: 10.1038/s41562-023-01543-7.Peer-Reviewed Original ResearchConceptsInternal representationGoal-directed attentionHuman generalizationIndividual exemplarsExemplar representationsMinority of participantsLearning taskExternal worldLatent causesDiscriminative featuresPrototype representationMajority of participantsParticipantsRepresentationTheoretical modelAttentionTaskExemplarsDecision boundariesPeopleExperienceGeneralizationFeedbackSituationBehavior
2024
The impact of functional correlations on task information coding
Ito T, Murray J. The impact of functional correlations on task information coding. Network Neuroscience 2024, 1-24. DOI: 10.1162/netn_a_00402.Peer-Reviewed Original ResearchNoise correlationsTrial-to-trialBrain networksFunctional brain networksFunctional correlatesFMRI networksSignal correlationNeural correlatesBrain regionsInformation codingTask selectionFMRI datasetsTask informationNeural unitsCorrelated changesCoding frameworkBrainInvestigate relationshipsNetworkFMRINoiseHuman brain state dynamics are highly reproducible and associated with neural and behavioral features
Lee K, Ji J, Fonteneau C, Berkovitch L, Rahmati M, Pan L, Repovš G, Krystal J, Murray J, Anticevic A. Human brain state dynamics are highly reproducible and associated with neural and behavioral features. PLOS Biology 2024, 22: e3002808. PMID: 39316635, PMCID: PMC11421804, DOI: 10.1371/journal.pbio.3002808.Peer-Reviewed Original ResearchConceptsCo-activation patternsResting-state functional magnetic resonance imagingFunctional magnetic resonance imagingBehavioral featuresNeural variationsMoment-to-moment changesSingle-subject levelBrain state dynamicsEmotion regulationHealthy young adultsBehavioral phenotypesCognitive functionSubstance useNeural activityNeuroimaging markersNeural featuresYoung adultsMagnetic resonance imagingCo-activationResonance imagingCo-variationNeuroimagingIndividualsEmotionsFunctional outcomesIndividual differences in spatial working memory strategies differentially reflected in the engagement of control and default brain networks
Suljič N, Kraljič A, Rahmati M, Cho Y, Ozimič A, Murray J, Anticevic A, Repovš G. Individual differences in spatial working memory strategies differentially reflected in the engagement of control and default brain networks. Cerebral Cortex 2024, 34: bhae350. PMID: 39214852, PMCID: PMC11364466, DOI: 10.1093/cercor/bhae350.Peer-Reviewed Original ResearchConceptsCategorical representationsWorking memoryBrain activityFunctional magnetic resonance imaging studySpatial working memory strategySpatial working memory taskFrontoparietal network activitySpatial working memoryWorking memory taskEngagement of controlAssociated with distinct patternsWorking memory strategiesMagnetic resonance imaging studiesNetwork activityMemory taskBrain systemsAttentional resourcesTask trialsBrain networksMemory strategiesStimulus informationStronger deactivationTiming of stimuliHealthy participantsSpatial representationKetamine induces multiple individually distinct whole-brain functional connectivity signatures
Moujaes F, Ji J, Rahmati M, Burt J, Schleifer C, Adkinson B, Savic A, Santamauro N, Tamayo Z, Diehl C, Kolobaric A, Flynn M, Rieser N, Fonteneau C, Camarro T, Xu J, Cho Y, Repovs G, Fineberg S, Morgan P, Seifritz E, Vollenweider F, Krystal J, Murray J, Preller K, Anticevic A. Ketamine induces multiple individually distinct whole-brain functional connectivity signatures. ELife 2024, 13: e84173. PMID: 38629811, PMCID: PMC11023699, DOI: 10.7554/elife.84173.Peer-Reviewed Original ResearchConceptsResponse to ketamineAcute ketamineBehavioral effectsQuantified resting-state functional connectivityEffects of acute ketamineSymptom variationResting-state functional connectivityTreatment-resistant depressionFunctional connectivity signaturesGlobal brain connectivitySingle-subject levelInter-individual variabilityPlacebo-controlled studyFunctional connectivityConnectivity signaturesBrain connectivityHealthy participantsSingle-blind placebo-controlled studyNeural variationsTreatment conditionsKetamineGene expression targetsPharmacological biomarkersPilot awardParvalbuminOn the stability of canonical correlation analysis and partial least squares with application to brain-behavior associations
Helmer M, Warrington S, Mohammadi-Nejad A, Ji J, Howell A, Rosand B, Anticevic A, Sotiropoulos S, Murray J. On the stability of canonical correlation analysis and partial least squares with application to brain-behavior associations. Communications Biology 2024, 7: 217. PMID: 38383808, PMCID: PMC11245620, DOI: 10.1038/s42003-024-05869-4.Peer-Reviewed Original Research