2023
Quantifying velopharyngeal motion variation in speech sound production using an audio-informed dynamic MRI atlas
Xing F, Jin R, Gilbert I, El Fakhri G, Perry J, Sutton B, Woo J. Quantifying velopharyngeal motion variation in speech sound production using an audio-informed dynamic MRI atlas. Proceedings Of SPIE--the International Society For Optical Engineering 2023, 12464: 124642m-124642m-6. PMID: 37621417, PMCID: PMC10448831, DOI: 10.1117/12.2654082.Peer-Reviewed Original ResearchMotion fieldReal-time speechHigh-dimensional datasetsAudio waveformAtlas spaceTemporal alignmentMotion variationsDatasetMagnetic resonance imagingMotion atlasMotion differencesSpeech variationImage acquisitionTaskSpeechMotion characteristicsDynamic magnetic resonance imagingPrincipal componentsImagesChapter 5 Multimodality medical imaging in the diagnosis and evaluation of COVID-19
Wang M, Fakhri G. Chapter 5 Multimodality medical imaging in the diagnosis and evaluation of COVID-19. 2023, 157-158. DOI: 10.1016/b978-0-443-18493-2.00005-x.Peer-Reviewed Original ResearchEvaluation of COVID-19Computed tomographyMagnetic resonance imagingCOVID-19 patientsImaging modalitiesResonance imagingDiagnosis
2022
Brain MR Atlas Construction Using Symmetric Deep Neural Inpainting
Xing F, Liu X, Kuo C, Fakhri G, Woo J. Brain MR Atlas Construction Using Symmetric Deep Neural Inpainting. IEEE Journal Of Biomedical And Health Informatics 2022, 26: 3185-3196. PMID: 35139030, PMCID: PMC9250592, DOI: 10.1109/jbhi.2022.3149754.Peer-Reviewed Original ResearchConceptsImage inpainting methodInpainting methodDeep learning-based image inpainting methodsBrain Tumor Segmentation ChallengeMultimodal Brain Tumor Segmentation ChallengeReduce reconstruction errorAtlas constructionStatistical brain atlasInpainted regionsInpainted dataImage registration methodReconstruction errorTumor regionMutual informationSimilarity scoresSegmentation ChallengeSymmetry constraintsImage dataRegistration methodMagnetic resonance imagingTumor locationStatistical atlasDistribution of lesionsCross-correlationPatient populationSelf-Semantic Contour Adaptation for Cross Modality Brain Tumor Segmentation
Liu X, Xing F, Fakhri G, Woo J. Self-Semantic Contour Adaptation for Cross Modality Brain Tumor Segmentation. 2011 IEEE International Symposium On Biomedical Imaging: From Nano To Macro 2022, 00: 1-5. PMID: 35990931, PMCID: PMC9387767, DOI: 10.1109/isbi52829.2022.9761629.Peer-Reviewed Original ResearchUnsupervised domain adaptationAdaptive networkLow-level edge informationCross-domain alignmentEnhance segmentation performanceMulti-task frameworkCross-modality segmentationSegmentation of brain tumorsAdversarial learningDomain adaptationSemantic segmentationEdge informationSemantic alignmentPrecursor taskSegmentation performanceSpatial informationNetworkSemantic adaptationMagnetic resonance imagingTaskContour adaptationBraTS2018InformationFrameworkAdaptation
2021
Muscle strain analysis from diffusion tractography and dynamic magnetic resonance imaging of the moving tongue
Xing F, Liu X, Reese T, Stone M, Wedeen V, Prince J, Fakhri G, Woo J. Muscle strain analysis from diffusion tractography and dynamic magnetic resonance imaging of the moving tongue. The Journal Of The Acoustical Society Of America 2021, 150: a190-a190. DOI: 10.1121/10.0008082.Peer-Reviewed Original ResearchFiber directionDynamic magnetic resonance imagingMagnetic resonance imagingStrain computationSusceptible to numerical errorsStrain estimationStrain tensorFiber geometryMuscle fiber directionStrain valuesNumerical errorsMotion fieldExtract strainsMuscle activation patternsMotion timeResonance imagingDMRI spaceStrain analysisNeurovascular imaging with QUTE-CE MRI in APOE4 rats reveals early vascular abnormalities
Leaston J, Ferris C, Kulkarni P, Chandramohan D, van de Ven A, Qiao J, Timms L, Sepulcre J, Fakhri G, Ma C, Normandin M, Gharagouzloo C. Neurovascular imaging with QUTE-CE MRI in APOE4 rats reveals early vascular abnormalities. PLOS ONE 2021, 16: e0256749. PMID: 34449808, PMCID: PMC8396782, DOI: 10.1371/journal.pone.0256749.Peer-Reviewed Original ResearchConceptsVascular abnormalitiesAPOE-e4Contrast-enhanced magnetic resonance imagingBlood-brain-barrier leakageNeurovascular dysfunctionSmall vessel abnormalitiesMagnetic resonance imagingTri-synaptic circuitBlood-brain-barrierCross-sectional studyFemale ratsSignificant signal increaseHyper-vascularizationCerebrovascular abnormalitiesVessel abnormalitiesNeurovascular imagingQUTE-CEBrain volumeAnimal modelsPathological causesAbnormalitiesHistological validationImaging modalitiesResonance imagingDual-Cycle Constrained Bijective Vae-Gan For Tagged-To-Cine Magnetic Resonance Image Synthesis
Liu X, Xing F, Prince J, Carass A, Stone M, Fakhri G, Woo J. Dual-Cycle Constrained Bijective Vae-Gan For Tagged-To-Cine Magnetic Resonance Image Synthesis. 2011 IEEE International Symposium On Biomedical Imaging: From Nano To Macro 2021, 00: 1448-1452. PMID: 34707796, PMCID: PMC8547333, DOI: 10.1109/isbi48211.2021.9433852.Peer-Reviewed Original ResearchMR image synthesisAdversarial trainingImage synthesisVAE-GANMR imagingTagged MR imagesCine MR imagingMoving organsSuperior performanceMagnetic resonance imagingAcquisition timeCycle reconstructionHealthy subjectsResonance imagingAnatomical resolutionComparison methodMotion analysisTagged magnetic resonance imagingTissue segmentationImagesScanning sessionGamma‐induction in frontotemporal dementia (GIFTeD) randomized placebo‐controlled trial: Rationale, noninvasive brain stimulation protocol, and study design
Assogna M, Sprugnoli G, Press D, Dickerson B, Macone J, Bonnì S, Borghi I, Connor A, Hoffman M, Grover N, Wong B, Shen C, Martorana A, O'Reilly M, Ruffini G, Fakhri G, Koch G, Santarnecchi E. Gamma‐induction in frontotemporal dementia (GIFTeD) randomized placebo‐controlled trial: Rationale, noninvasive brain stimulation protocol, and study design. Alzheimer's & Dementia: Translational Research & Clinical Interventions 2021, 7: e12219. PMID: 35141396, PMCID: PMC8813035, DOI: 10.1002/trc2.12219.Peer-Reviewed Original ResearchBehavioral variant FTDFrontotemporal dementiaPlacebo-controlled trialDiagnosis of behavioural variant frontotemporal dementiaBehavioral variant frontotemporal dementiaNoninvasive brain stimulation protocolsStructural magnetic resonance imagingBehavioural variant FTD patientsGamma oscillatory activityOscillatory brain activityMagnetic resonance imagingMouse model of frontotemporal dementiaBrain oscillatory patternsNon-invasive brain stimulationBrain glucose hypometabolismInstitutional review boardBrain stimulation protocolsBehavioral alterationsFrequency-specific mannerBrain activityBehavioral assessmentFluorodeoxyglucose (FDG)-positron emission tomographyCognitive functionRandomized placebo-controlled trialNeural activity
2019
Analysis of genioglossus-centered tongue muscle function groups from dynamic magnetic resonance imaging
Xing F, Stone M, Goldsmith T, Prince J, Fakhri G, Woo J. Analysis of genioglossus-centered tongue muscle function groups from dynamic magnetic resonance imaging. The Journal Of The Acoustical Society Of America 2019, 146: 3086-3086. DOI: 10.1121/1.5137722.Peer-Reviewed Original ResearchMuscle functional groupsSpeech motor controlMotor controlInternal tongue musclesMuscle motionInternal musclesTongue muscle functionMuscle functionMuscle locationMotion patternsFunctional groupsMuscleDynamic magnetic resonance imagingFunctional lossDynamic magnetic resonanceMagnetic resonance imagingExtract motionCooperation patternsNormal controlsGenioglossusDigastric muscleUnique groupGroupResonance imagingClinical observationsMulti-Modal Signatures of Tau Pathology, Neuronal Fiber Integrity, and Functional Connectivity in Traumatic Brain Injury
Wooten D, Ortiz-Terán L, Zubcevik N, Zhang X, Huang C, Sepulcre J, Atassi N, Johnson K, Zafonte R, Fakhri G. Multi-Modal Signatures of Tau Pathology, Neuronal Fiber Integrity, and Functional Connectivity in Traumatic Brain Injury. Journal Of Neurotrauma 2019, 36: 3233-3243. PMID: 31210098, PMCID: PMC6857466, DOI: 10.1089/neu.2018.6178.Peer-Reviewed Original ResearchConceptsTraumatic brain injuryTraumatic brain injury subjectsDistribution volume ratioWhite matter integrityFunctional connectivityDiffusion tensor imagingPositron emission tomographyTBI subjectsResting-state functional magnetic resonance imagingResting state functional connectivityFunctional magnetic resonance imagingFractional anisotropyDecreased white matter integrityGroup of TBI subjectsIncreased functional connectivityFunctional MRI resultsGraph theory metricsBrain injuryLiving human brainMagnetic resonance imagingNoninvasive neuroimaging techniquesBrain regionsFunctional MRINeuroimaging techniquesDiffusion tractography imagingAtlas-Based Tongue Muscle Correlation Analysis From Tagged and High-Resolution Magnetic Resonance Imaging.
Xing F, Stone M, Goldsmith T, Prince J, El Fakhri G, Woo J. Atlas-Based Tongue Muscle Correlation Analysis From Tagged and High-Resolution Magnetic Resonance Imaging. Journal Of Speech Language And Hearing Research 2019, 62: 2258-2269. PMID: 31265364, PMCID: PMC6808360, DOI: 10.1044/2019_jslhr-s-18-0495.Peer-Reviewed Original ResearchConceptsInternal tongue musclesFloor of mouthMagnetic resonance imagingHigh-resolution magnetic resonance imagingMuscle pairsTongue musclesRehabilitation strategiesSpeech sound productionResonance imagingCoordination patternsSpeech motor controlMuscle locationDisease populationMotion of muscleMotor controlIntersubjective behaviorsManually labeled masksMuscleGlossectomy patientsExtrinsic tongue musclesControl subjectsBloc movementFunctional lossPatientsMotion patternsFree-Breathing Three-Dimensional T1 Mapping of the Heart Using Subspace-Based Data Acquisition and Image Reconstruction
Han P, Horng D, Marin T, Petibon Y, Ouyang J, Fakhri G, Ma C. Free-Breathing Three-Dimensional T1 Mapping of the Heart Using Subspace-Based Data Acquisition and Image Reconstruction. Annual International Conference Of The IEEE Engineering In Medicine And Biology Society (EMBC) 2019, 00: 4008-4011. PMID: 31946750, DOI: 10.1109/embc.2019.8856511.Peer-Reviewed Original ResearchConceptsRespiratory motionRespiratory gatingLongitudinal relaxation timeSubspace-based methodsLow-rank tensorMagnetic resonance imagingRelaxation timeT1 mappingT)-spaceSubspace-basedSparsity constraintDynamic MR imagingReconstructed mapsSpatiotemporal correlationThree-dimensionalCardiac MRHealthy subjectsIn vivo dataMagnetizationResonance imagingImage functionMR imagingData acquisitionClinical applicationTensorVisual cognition in non-amnestic Alzheimer's disease: Relations to tau, amyloid, and cortical atrophy
Putcha D, Brickhouse M, Touroutoglou A, Collins J, Quimby M, Wong B, Eldaief M, Schultz A, Fakhri G, Johnson K, Dickerson B, McGinnis S. Visual cognition in non-amnestic Alzheimer's disease: Relations to tau, amyloid, and cortical atrophy. NeuroImage Clinical 2019, 23: 101889. PMID: 31200149, PMCID: PMC6562373, DOI: 10.1016/j.nicl.2019.101889.Peer-Reviewed Original ResearchConceptsVisual cognitive testsNeuropsychological batteryAssociated with tauVariant of ADCortical atrophyCognitive testsLogopenic variant primary progressive aphasiaVariant primary progressive aphasiaMagnetic resonance imagingPrimary progressive aphasiaStructural magnetic resonance imagingVentral occipitotemporal cortexSuperior parietal cortexCognitive test performanceVisual cognitive dysfunctionCognitive task performanceNon-amnestic variantsSpatial patterns of tauAlzheimer's diseasePosterior cortical dysfunctionVisual cortical regionsOccipital association corticesAmyloid PETAmyloid-positive patientsPosterior cortical atrophyDifferentiating post-cancer from healthy tongue muscle coordination patterns during speech using deep learning
Woo J, Xing F, Prince J, Stone M, Green J, Goldsmith T, Reese T, Wedeen V, Fakhri G. Differentiating post-cancer from healthy tongue muscle coordination patterns during speech using deep learning. The Journal Of The Acoustical Society Of America 2019, 145: el423-el429. PMID: 31153323, PMCID: PMC6530633, DOI: 10.1121/1.5103191.Peer-Reviewed Original Research
2018
Real‐Time Imaging of Brain Tumor for Image‐Guided Surgery
Hu S, Kang H, Baek Y, Fakhri G, Kuang A, Choi H. Real‐Time Imaging of Brain Tumor for Image‐Guided Surgery. Advanced Healthcare Materials 2018, 7: e1800066. PMID: 29719137, PMCID: PMC6105507, DOI: 10.1002/adhm.201800066.Peer-Reviewed Original ResearchConceptsNormal tissuesBrain tumorsCompleteness of surgical resectionDifferentiate cancerous lesionsIncomplete tumor resectionReal-time image guidanceRemoval of normal tissueDecrease surgical complicationsOptical fluorescence imagingMalignant brain tumorsBrain tumor treatmentIntraoperative guidance techniquesImage-guided surgeryMagnetic resonance imagingResidual tumorResection marginsSurgical resectionPrognostic factorsTumor resectionOncologic surgeonsSurgical complicationsResection completenessImage guidanceImage-guidedAdjacent normal tissuesMagnetic resonance imaging based anatomical assessment of tongue impairment due to amyotrophic lateral sclerosis: A preliminary study
Lee E, Xing F, Ahn S, Reese T, Wang R, Green J, Atassi N, Wedeen V, Fakhri G, Woo J. Magnetic resonance imaging based anatomical assessment of tongue impairment due to amyotrophic lateral sclerosis: A preliminary study. The Journal Of The Acoustical Society Of America 2018, 143: el248-el254. PMID: 29716267, PMCID: PMC5895467, DOI: 10.1121/1.5030134.Peer-Reviewed Original ResearchConceptsDiffusion tensor imagingHigh-resolution magnetic resonance imagingMagnetic resonance imagingResonance imagingEffects of amyotrophic lateral sclerosisAmyotrophic lateral sclerosisTensor imagingAmyotrophic lateral sclerosis patientsFiber connectionsSpeechNeurological disordersLateral sclerosisStrain map of the tongue in normal and ALS speech patterns from tagged and diffusion MRI
Xing F, Prince J, Stone M, Reese T, Atassi N, Wedeen V, El Fakhri G, Woo J. Strain map of the tongue in normal and ALS speech patterns from tagged and diffusion MRI. Proceedings Of SPIE--the International Society For Optical Engineering 2018, 10574: 1057411. PMID: 29706684, PMCID: PMC5922778, DOI: 10.1117/12.2293028.Peer-Reviewed Original ResearchDiffusion tensor imagingAmyotrophic lateral sclerosis subjectsAmyotrophic lateral sclerosisNormal subjectsMagnetic resonance (MR) techniquesAmyotrophic lateral sclerosis patientsTagged magnetic resonance imagingMagnetic resonance imagingMR imaging techniquesMotion sequencesDeath of neuronsMotion fieldDiffusion tensor imaging dataSwallowing functionLines of actionTongue tissueResonance imagingFiber directionTongue musclesTongue motionSpeech patternsMotion atlasActive regionTensor imaging
2017
Guest Editorial Low-Dose CT: What Has Been Done, and What Challenges Remain?
Liang J, La Riviere P, Fakhri G, Glick S, Siewerdsen J. Guest Editorial Low-Dose CT: What Has Been Done, and What Challenges Remain? IEEE Transactions On Medical Imaging 2017, 36: 2409-2416. DOI: 10.1109/tmi.2017.2768978.Peer-Reviewed Original ResearchCone-beam CTMulti-detector row CTDiscovery of X-raysIntroduction of computed tomographyMonitoring of therapeutic responseMulti-detector-rowImage-guided interventionsProjection dataMagnetic resonance imagingPositron emission tomographyTherapeutic responseEmergency examinationTreatment planningVolumetric imagesDiagnostic imagingEmission tomographyImaging modalitiesResonance imagingX-rayMedical imaging modalitiesCTTomographyTomographic imagesPositron
2016
Localizing Sources of Brain Disease Progression with Network Diffusion Model
Hu C, Hua X, Ying J, Thompson P, Fakhri G, Li Q. Localizing Sources of Brain Disease Progression with Network Diffusion Model. IEEE Journal Of Selected Topics In Signal Processing 2016, 10: 1214-1225. PMID: 28503250, PMCID: PMC5423678, DOI: 10.1109/jstsp.2016.2601695.Peer-Reviewed Original ResearchMild cognitive impairmentEfficient gradient descent methodGradient descent methodAlzheimer's Disease Neuroimaging InitiativeBrain connectivity networksDescent methodOrigin of dementiaDementia sourcesOrigin of Alzheimer's diseaseAlzheimer's diseaseEffective treatment of neurodegenerative diseasesDementiaMagnetic resonance imagingBrain atrophy patternsProgression of brain atrophyCognitive impairmentInverse problemNetworkSource of dementiaConnectivity networksTreatment of neurodegenerative diseasesAtrophy patterns
2015
Synergistic role of simultaneous PET/MRI-MRS in soft tissue sarcoma metabolism imaging
Zhang X, Chen Y, Lim R, Huang C, Chebib I, Fakhri G. Synergistic role of simultaneous PET/MRI-MRS in soft tissue sarcoma metabolism imaging. Magnetic Resonance Imaging 2015, 34: 276-279. PMID: 26523656, PMCID: PMC4761342, DOI: 10.1016/j.mri.2015.10.027.Peer-Reviewed Original ResearchConceptsSoft tissue sarcomasMagnetic resonance imagingHigh (18)F-FDG uptakeT2 hyperintense massMagnetic resonance spectroscopyNeoadjuvant radiotherapyPathological resultsTumor marginsTissue sarcomasImaging findingsPET/MRI scansPET scansRight thighRadiotherapyNormal tissuesEmission tomographyResonance imagingMetabolite profilesSarcomaPET/MRIChemoRTChemoradiationSynergistic rolePETSurgery