2024
Aging-dependent loss of functional connectivity in a mouse model of Alzheimer’s disease and reversal by mGluR5 modulator
Mandino F, Shen X, Desrosiers-Grégoire G, O’Connor D, Mukherjee B, Owens A, Qu A, Onofrey J, Papademetris X, Chakravarty M, Strittmatter S, Lake E. Aging-dependent loss of functional connectivity in a mouse model of Alzheimer’s disease and reversal by mGluR5 modulator. Molecular Psychiatry 2024, 1-16. PMID: 39424929, DOI: 10.1038/s41380-024-02779-z.Peer-Reviewed Original ResearchFunctional connectivity deficitsConnectivity deficitsFunctional connectivityBrain connectivityAllosteric modulators of mGluR5Alzheimer's diseaseDefault-mode networkModulation of mGluR5Loss of functional connectivityResting-state fMRIApplication of fMRIWild-type controlsAged AD miceMouse model of Alzheimer's diseaseAD-related changesAD miceModel of Alzheimer's diseaseAssociated with synaptic damageMGluR5 modulationMonths of ageFMRI measurementsAmyloid accumulationDecreased connectivityBrain networksSilent allosteric modulatorsLessons from Clinical Communications for Explainable AI
Menon A, Omar Z, Nahar N, Papademetris X, Fiellin L, Kästner C. Lessons from Clinical Communications for Explainable AI. Proceedings Of The AAAI/ACM Conference On AI, Ethics, And Society 2024, 7: 958-970. DOI: 10.1609/aies.v7i1.31695.Peer-Reviewed Original ResearchMapping the structure-function relationship along macroscale gradients in the human brain
Collins E, Chishti O, Obaid S, McGrath H, King A, Shen X, Arora J, Papademetris X, Constable R, Spencer D, Zaveri H. Mapping the structure-function relationship along macroscale gradients in the human brain. Nature Communications 2024, 15: 7063. PMID: 39152127, PMCID: PMC11329792, DOI: 10.1038/s41467-024-51395-6.Peer-Reviewed Original ResearchConceptsStructure-function correspondenceBrain regionsMacroscale gradientWhite matter connectivityHuman brain regionsStructure-function couplingNeural network propertiesAssociation cortexCognitive functionBridging neuroscienceFunctional coactivationOrganizational axisCortical thicknessHuman brainMotor cortexLanguage processingBrainCortexMotor functionNatural language processingNetwork propertiesMotorNeuroscienceNatural languageData repositoriesDevelopment Of Ct Quantitative Tools To Assess Collateral Formation In Rabbit Model Of Hind Limb Ischemia: Implications For Evaluation Of Vascular Reserve.
Vermillion B, Jang S, Alashi A, Burns R, Guerrera N, Depino A, Martins S, Papademetris X, Zeiss C, Guo L, Liu C, Thorn S, Sinusas A. Development Of Ct Quantitative Tools To Assess Collateral Formation In Rabbit Model Of Hind Limb Ischemia: Implications For Evaluation Of Vascular Reserve. Journal Of Cardiovascular Computed Tomography 2024, 18: s50-s51. DOI: 10.1016/j.jcct.2024.05.117.Peer-Reviewed Original ResearchComparative study of functional and structural muscle changes in peripheral artery disease: rubidium-82 positron emission tomography and histological correlation
Alashi A, Vermillion B, Callegari S, Burns R, Guo L, Moulton E, Guerrera N, Depino A, Papademetris X, Zeiss C, Thorn S, Liu C, Sinusas A. Comparative study of functional and structural muscle changes in peripheral artery disease: rubidium-82 positron emission tomography and histological correlation. European Heart Journal - Cardiovascular Imaging 2024, 25: jeae142.087. DOI: 10.1093/ehjci/jeae142.087.Peer-Reviewed Original ResearchPeripheral arterial diseaseStandardized uptake valueHindlimb ischemia modelReactive hyperemiaSkeletal muscle perfusionPerfusion reserveCapillary densityPET imagingArtery diseaseNon-ischemicRubidium-82 positron emission tomographyType 2 muscle fibersRelevant pre-clinical modelIndicative of fibrosisManagement of peripheral arterial diseaseCapillary to muscle fiber ratioClinically relevant pre-clinical modelPre-clinical modelsMuscle perfusionFast myosinWeeks post-ligationRb-82 uptakeEvaluate treatment strategiesRabbit hindlimb ischemia modelPositron emission tomographyRegulating Explainability in Machine Learning Applications -- Observations from a Policy Design Experiment
Nahar N, Rowlett J, Bray M, Omar Z, Papademetris X, Menon A, Kästner C. Regulating Explainability in Machine Learning Applications -- Observations from a Policy Design Experiment. 2024, 2101-2112. DOI: 10.1145/3630106.3659028.Peer-Reviewed Original ResearchAI applicationsArtificial intelligenceEU General Data Protection RegulationGeneral Data Protection RegulationMachine learning applicationsData Protection RegulationHuman subject studiesAI-onlyLearning applicationsProtection RegulationExplainabilityExecution orderEU AI ActAI ActContinuous collaborationDesign processEvidence of compliancePrivacyApplicationsSecurityIntelligenceMachineIterationFairnessTeam of researchersBiphasic training for awake imaging using a dual-imaging system reveals neurovascular uncoupling and anesthesia effects in healthy mice
Mandino F, Shen X, Desrosiers-Gregoire G, O'Connor D, Mukherjee B, Ha Y, Qu A, Onofrey J, Papademetris X, Chakravarty M, Strittmatter S, Lake E. Biphasic training for awake imaging using a dual-imaging system reveals neurovascular uncoupling and anesthesia effects in healthy mice. Proceedings Of The International Society For Magnetic Resonance In Medicine ... Scientific Meeting And Exhibition. 2024 DOI: 10.58530/2024/0531.Peer-Reviewed Original ResearchMultimodal measures of spontaneous brain activity reveal both common and divergent patterns of cortical functional organization
Vafaii H, Mandino F, Desrosiers-Grégoire G, O’Connor D, Markicevic M, Shen X, Ge X, Herman P, Hyder F, Papademetris X, Chakravarty M, Crair M, Constable R, Lake E, Pessoa L. Multimodal measures of spontaneous brain activity reveal both common and divergent patterns of cortical functional organization. Nature Communications 2024, 15: 229. PMID: 38172111, PMCID: PMC10764905, DOI: 10.1038/s41467-023-44363-z.Peer-Reviewed Original Research
2023
Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses
Jin D, Neelakantan U, Lacadie C, Chen T, Rooney B, Liu Y, Wu W, Wang Z, Papademetris X, Hoffman E. Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses. STAR Protocols 2023, 4: 102647. PMID: 37897734, PMCID: PMC10641303, DOI: 10.1016/j.xpro.2023.102647.Peer-Reviewed Original ResearchLongitudinal simultaneous fMRI and mesoscale calcium imaging in a mouse model of Alzheimer’s disease
Mandino F, Shen X, Desrosiers-Gregoire G, O'Connor D, Mukherjee B, DeLuca K, Hamodi A, Owens A, Ha Y, Qu A, Onofrey J, Papademetris X, Chakravarty M, Crair M, Strittmatter S, Lake E. Longitudinal simultaneous fMRI and mesoscale calcium imaging in a mouse model of Alzheimer’s disease. Proceedings Of The International Society For Magnetic Resonance In Medicine ... Scientific Meeting And Exhibition. 2023 DOI: 10.58530/2023/3914.Peer-Reviewed Original ResearchMouse model of Alzheimer's diseaseModel of Alzheimer's diseaseMesoscale calcium imagingAlzheimer's diseaseBehavioral deficitsExcitatory neural activityMultimodal neuroimagingBOLD signalSimultaneous fMRINeuroimaging changesNeural activityBOLD fMRIPreliminary evidenceCalcium imagingClinically accessible biomarkersMesoscopic calcium imagingSpontaneous activityFMRINeuroimagingBOLDDeficitsComplex relationshipHigh-throughput functional analysis of autism genes in zebrafish identifies convergence in dopaminergic and neuroimmune pathways
Mendes H, Neelakantan U, Liu Y, Fitzpatrick S, Chen T, Wu W, Pruitt A, Jin D, Jamadagni P, Carlson M, Lacadie C, Enriquez K, Li N, Zhao D, Ijaz S, Sakai C, Szi C, Rooney B, Ghosh M, Nwabudike I, Gorodezky A, Chowdhury S, Zaheer M, McLaughlin S, Fernandez J, Wu J, Eilbott J, Vander Wyk B, Rihel J, Papademetris X, Wang Z, Hoffman E. High-throughput functional analysis of autism genes in zebrafish identifies convergence in dopaminergic and neuroimmune pathways. Cell Reports 2023, 42: 112243. PMID: 36933215, PMCID: PMC10277173, DOI: 10.1016/j.celrep.2023.112243.Peer-Reviewed Original ResearchConceptsGene lossFunctional analysisHigh-throughput functional analysisZebrafish mutantsGene discoverySelect mutantsASD genesAutism genesKey pathwaysASD biologyBrain size differencesMutantsGenesSize differencesPathwayGlobal increaseRelevant mechanismsBiologyCentral challengeNeuroimmune dysfunctionRegionFunctionDiscoveryAutism spectrum disorderClustering of KOR PET images separates people with AUD into distinct responses to naltrexone
Hoye J, Key J, de Laat B, Cosgrove K, Krishnan-Sarin S, Papademetris X, Morris E. Clustering of KOR PET images separates people with AUD into distinct responses to naltrexone. Brain Imaging And Behavior 2023, 17: 367-371. PMID: 36695971, DOI: 10.1007/s11682-023-00758-6.Peer-Reviewed Original Research
2022
HALO: A software tool for real‐time head alignment in the MR scanner
Zhao Z, Galiana G, Zillo C, Camarro T, Qiu M, Papademetris X, Hampson M. HALO: A software tool for real‐time head alignment in the MR scanner. Magnetic Resonance In Medicine 2022, 89: 1506-1513. PMID: 36426774, PMCID: PMC10753491, DOI: 10.1002/mrm.29535.Peer-Reviewed Original ResearchHigh-resolution cortical parcellation based on conserved brain landmarks for localization of multimodal data to the nearest centimeter
McGrath H, Zaveri H, Collins E, Jafar T, Chishti O, Obaid S, Ksendzovsky A, Wu K, Papademetris X, Spencer D. High-resolution cortical parcellation based on conserved brain landmarks for localization of multimodal data to the nearest centimeter. Scientific Reports 2022, 12: 18778. PMID: 36335146, PMCID: PMC9637135, DOI: 10.1038/s41598-022-21543-3.Peer-Reviewed Original ResearchConceptsEpilepsy surgery cohortStandardized brain regionsBrain structure-function relationshipsSurgery cohortClinical usefulnessBrain metricsAnatomical locationBrain regionsBrain localizationCortical parcellationOwn unique benefitsIntracranial electroencephalographyAnatomical designationBrain anatomyHuman brain anatomyHuman brainBrain atlasBrain landmarksBrain atlasesParcellationMagnetic resonanceNearest centimeterAnatomical featuresAnatomyCortical localizationFunctional network properties derived from wide-field calcium imaging differ with wakefulness and across cell type
O’Connor D, Mandino F, Shen X, Horien C, Ge X, Herman P, Hyder F, Crair M, Papademetris X, Lake E, Constable. Functional network properties derived from wide-field calcium imaging differ with wakefulness and across cell type. NeuroImage 2022, 264: 119735. PMID: 36347441, PMCID: PMC9808917, DOI: 10.1016/j.neuroimage.2022.119735.Peer-Reviewed Original ResearchIntroduction to Medical Software
Papademetris X, Quraishi A, Licholai G. Introduction to Medical Software. 2022 DOI: 10.1017/9781009091725.BooksMedical softwareJunior software engineersSoftware lifecycle processesReal-world case studySoftware engineeringSoftware processSoftware engineersSoftware designDigital health entrepreneursHardware devicesMachine learningData scienceComputer scienceLifecycle processManagement systemSoftwareOnline resourcesIndustry standardsEssential topicHealth entrepreneursRisk management systemElectrical engineeringSuccinct coverageCybersecurityEngineeringCineCT platform for in vivo and ex vivo measurement of 3D high resolution Lagrangian strains in the left ventricle following myocardial infarction and intramyocardial delivery of theranostic hydrogel
Midgett D, Thorn S, Ahn S, Uman S, Avendano R, Melvinsdottir I, Lysyy T, Kim J, Duncan J, Humphrey J, Papademetris X, Burdick J, Sinusas A. CineCT platform for in vivo and ex vivo measurement of 3D high resolution Lagrangian strains in the left ventricle following myocardial infarction and intramyocardial delivery of theranostic hydrogel. Journal Of Molecular And Cellular Cardiology 2022, 166: 74-90. PMID: 35227737, PMCID: PMC9035115, DOI: 10.1016/j.yjmcc.2022.02.004.Peer-Reviewed Original Research
2021
Multiple-Shooting Adjoint Method for Whole-Brain Dynamic Causal Modeling
Zhuang J, Dvornek N, Tatikonda S, Papademetris X, Ventola P, Duncan J. Multiple-Shooting Adjoint Method for Whole-Brain Dynamic Causal Modeling. Lecture Notes In Computer Science 2021, 12729: 58-70. DOI: 10.1007/978-3-030-78191-0_5.Peer-Reviewed Original ResearchOrdinary differential equationsAdjoint methodNoisy observationsMultiple shooting methodNon-linear systemsLarge scale continuous systemsLarge-scale systemsParameter value estimationDifferential equationsAccurate gradient estimationExpectation-maximization algorithmNon-linear modelParameter estimationBayesian frameworkGradient estimationContinuous systemToy exampleLarge systemsReal fMRI dataEstimationValue estimationAlgorithmGood accuracyCausal modelingModel changes
2018
Deep-learned placental vessel segmentation for intraoperative video enhancement in fetoscopic surgery
Sadda P, Imamoglu M, Dombrowski M, Papademetris X, Bahtiyar MO, Onofrey J. Deep-learned placental vessel segmentation for intraoperative video enhancement in fetoscopic surgery. International Journal Of Computer Assisted Radiology And Surgery 2018, 14: 227-235. PMID: 30484115, PMCID: PMC6438174, DOI: 10.1007/s11548-018-1886-4.Peer-Reviewed Original ResearchDeep Learning Retinal Vessel Segmentation from a Single Annotated Example: An Application of Cyclic Generative Adversarial Neural Networks
Sadda P, Onofrey J, Papademetris X. Deep Learning Retinal Vessel Segmentation from a Single Annotated Example: An Application of Cyclic Generative Adversarial Neural Networks. Lecture Notes In Computer Science 2018, 11043: 82-91. DOI: 10.1007/978-3-030-01364-6_10.Peer-Reviewed Original ResearchGenerative adversarial neural networksAdversarial neural networkGround truth segmentationNeural networkTruth segmentationMedical image segmentation tasksImage segmentation tasksConvolutional neural networkDeep learning methodsRetinal vessel segmentationConvolutional networkSegmentation taskTraining examplesAnnotated examplesTraining dataLearning methodsVessel segmentationSegmentationSynthetic examplesNetworkLarge amountDatasetTaskExampleAccuracy