2025
Modeling inter‐reader variability in clinical target volume delineation for soft tissue sarcomas using diffusion model
Dong Y, Marin T, Zhuo Y, Najem E, Beddok A, Rozenblum L, Moteabbed M, Grogg K, Xing F, Woo J, Chen Y, Lim R, Liu X, Ma C, Fakhri G. Modeling inter‐reader variability in clinical target volume delineation for soft tissue sarcomas using diffusion model. Medical Physics 2025 PMID: 40317577, DOI: 10.1002/mp.17865.Peer-Reviewed Original ResearchClinical target volumeGross tumor volumeClinical target volume delineationSoft tissue sarcomasInter-reader variabilityTissue sarcomasClinical target volume contoursMagnetic resonance imagingCTV delineationTarget volume delineationComputed tomographyTreatment of soft tissue sarcomasFluorodeoxyglucose positron emission tomographyCTV contoursTarget volumeVolume delineationT1-weighted magnetic resonance imagingRadiotherapy treatmentEnergy distanceHigh Dice indexPositron emission tomographyTumor volumeMicroscopic spreadFDG-PETTreatment planningOverall Survival Prediction of Brain Tumor Patients with Multimodal MRI using Swin Unetr
Kim G, Xing F, Kong H, Santarnecchi E, Shih H, Bortfeld T, Fakhri G, Liu X, Choi J, Woo J. Overall Survival Prediction of Brain Tumor Patients with Multimodal MRI using Swin Unetr. 2025, 00: 1-5. DOI: 10.1109/isbi60581.2025.10981128.Peer-Reviewed Original ResearchMultimodal magnetic resonance imagingBrain tumor patientsGlioblastoma patient survivalPersonalized treatment plansSurvival prediction performanceMultimodal MRIOverall survival predictionMagnetic resonance imagingHand-crafted featuresState-of-the-artMulti-scale featuresMulti-task frameworkPatient survivalClinical prognosisTumor patientsGlioblastoma patientsSuperior segmentation accuracyTreatment planningResonance imagingSurvival prediction taskPredictive performanceSurvival predictionPrediction taskBraTS datasetSurvivalOptimizing imaging modalities for sarcoma subtypes in radiation therapy: State of the art
Beddok A, Kaur H, Khurana S, Dercle L, El Ayachi R, Jouglar E, Mammar H, Mahe M, Najem E, Rozenblum L, Thariat J, El Fakhri G, Helfre S. Optimizing imaging modalities for sarcoma subtypes in radiation therapy: State of the art. Critical Reviews In Oncology/Hematology 2025, 211: 104708. PMID: 40139581, DOI: 10.1016/j.critrevonc.2025.104708.Peer-Reviewed Original ResearchConceptsMagnetic resonance imagingRadiation therapyComputed tomographyRT planningImaging modalitiesSarcoma managementSarcoma subtypesAssessment of tumor extentIntegration of magnetic resonance imagingAlveolar soft part sarcomaSuperior soft tissue contrastSoft part sarcomaCombination of magnetic resonance imagingContext of radiation therapyIntegration of imaging modalitiesMetabolically active regionsActive regionPositron emission tomographyRT deliveryDose escalationSoft tissue contrastUterine sarcomaTumor extentTumor marginsOsseous involvementGross tumor volume confidence maps prediction for soft tissue sarcomas from multi-modality medical images using a diffusion model
Dong Y, Marin T, Zhuo Y, Najem E, Moteabbed M, Xing F, Beddok A, Lahoud R, Rozenblum L, Ding Z, Liu X, Grogg K, Woo J, Chen Y, Lim R, Ma C, Fakhri G. Gross tumor volume confidence maps prediction for soft tissue sarcomas from multi-modality medical images using a diffusion model. Physics And Imaging In Radiation Oncology 2025, 33: 100734. PMID: 40123775, PMCID: PMC11926426, DOI: 10.1016/j.phro.2025.100734.Peer-Reviewed Original ResearchGross tumor volumeSoft tissue sarcomasTissue sarcomasGross tumor volume delineationManual GTV delineationsMagnetic resonance imagingComputed tomographyFluorodeoxyglucose positron emission tomographyGTV delineationT1-weighted magnetic resonance imagingSingle-modePositron emission tomographyMulti-modal medical imagesTumor volumeIntra-reader variabilityFDG-PETTreatment planningSarcomaEmission tomographyImaging modalitiesResonance imagingDiffusion modelDice indexReader variabilityPatients
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 sclerosis
This site is protected by hCaptcha and its Privacy Policy and Terms of Service apply