2024
Heteroscedastic Uncertainty Estimation Framework for Unsupervised Registration
Zhang X, Pak D, Ahn S, Li X, You C, Staib L, Sinusas A, Wong A, Duncan J. Heteroscedastic Uncertainty Estimation Framework for Unsupervised Registration. Lecture Notes In Computer Science 2024, 15002: 651-661. DOI: 10.1007/978-3-031-72069-7_61.Peer-Reviewed Original ResearchUnsupervised registrationReal-world medical imagesCollaborative training strategyMedical image datasetsDeep learning methodsAccurate displacement estimationSignal-to-noise ratioImage datasetsRegistration architectureLearning methodsMedical imagesTraining strategyNoise distributionUncertainty estimationWeighting schemeRegistration performanceSpatial domainEstimation frameworkInput-dependentUncertainty estimation frameworkUniform noise levelsDisplacement estimationFrameworkNoise levelUnsupervised
2022
Atlas-Based Semantic Segmentation of Prostate Zones
Zhang J, Venkataraman R, Staib L, Onofrey J. Atlas-Based Semantic Segmentation of Prostate Zones. Lecture Notes In Computer Science 2022, 13435: 570-579. PMID: 38084296, PMCID: PMC10711803, DOI: 10.1007/978-3-031-16443-9_55.Peer-Reviewed Original ResearchSegmentation resultsSemantic segmentation frameworkSemantic segmentation resultsDice similarity coefficient valuesSemantic segmentationInference stageSegmentation frameworkSegmentation performanceExternal test datasetTest datasetRegion of interestSegmentationAnatomical atlasHyperparametersSimilarity coefficient valuesAnatomical informationGitHubUsersDatasetProstate zonesCodeFrameworkInformation
2011
Unified Framework for Development, Deployment and Robust Testing of Neuroimaging Algorithms
Joshi A, Scheinost D, Okuda H, Belhachemi D, Murphy I, Staib LH, Papademetris X. Unified Framework for Development, Deployment and Robust Testing of Neuroimaging Algorithms. Neuroinformatics 2011, 9: 69-84. PMID: 21249532, PMCID: PMC3066099, DOI: 10.1007/s12021-010-9092-8.Peer-Reviewed Original ResearchConceptsUser interface controlsUser interfaceNovel object-oriented frameworkCommand-line user interfaceGraphical user interface controlsMedical image analysisObject-oriented frameworkComplex image analysisImage analysisPlatform interoperabilitySoftware objectsReusable componentsInterface controlSource codeSuch algorithmsFramework idealMultiple platformsUnified frameworkAlgorithmRapid developmentDeploymentThorough testingPublic useFrameworkPlatform
2009
Unified framework for development, deployment and testing of image analysis algorithms
Joshi A, Scheinost D, Okuda H, Murphy I, Staib L, Papademetris X. Unified framework for development, deployment and testing of image analysis algorithms. The MIDAS Journal 2009 DOI: 10.54294/pq6gf6.Peer-Reviewed Original ResearchImage analysis algorithmsUser interface controlsUser interfaceAnalysis algorithmCommand-line user interfaceGraphical user interface controlsPlatform interoperabilityInterface controlSource codeComplex algorithmsSuch algorithmsNovel frameworkFramework idealMultiple platformsUnified frameworkAlgorithmRapid developmentDeploymentCustom pipelineImage analysisUsersPublic useFrameworkInteroperabilityDevelopers
2008
Physical-Space Refraction-Corrected Transmission Ultrasound Computed Tomography Made Computationally Practical
Li S, Mueller K, Jackowski M, Dione D, Staib L. Physical-Space Refraction-Corrected Transmission Ultrasound Computed Tomography Made Computationally Practical. Lecture Notes In Computer Science 2008, 11: 280-288. PMID: 18982616, DOI: 10.1007/978-3-540-85990-1_34.Peer-Reviewed Original ResearchConceptsUltrasound Computed TomographyHigh-quality image reconstructionIterative reconstruction frameworkReconstruction frameworkReconstruction qualityComputational platformInteractive demandsTracking approachImage reconstructionConsiderable computational expenseComputational expenseCT frameworkImaged tissueFrameworkEikonal solverArchitectureTrackingPlatformProper modelingSolverComputationallyWave-front trackingCapabilityEikonal equation
2003
Computing 3D Non-rigid Brain Registration Using Extended Robust Point Matching for Composite Multisubject fMRI Analysis
Papademetris X, Jackowski A, Schultz R, Staib L, Duncan J. Computing 3D Non-rigid Brain Registration Using Extended Robust Point Matching for Composite Multisubject fMRI Analysis. Lecture Notes In Computer Science 2003, 2879: 788-795. DOI: 10.1007/978-3-540-39903-2_96.Peer-Reviewed Original ResearchRobust Point MatchingIntensity-based registrationLarge point setsPoint matchingGreater computational efficiencyComputational efficiencyRobust pointSuperior performancePoint setsMagnetic resonance imagesBrain registrationActivation mapsFunctional magnetic resonance imagesSuccessful applicationRegistrationResonance imagesAlgorithmMatchingSpecificationMethodologyImagesRobustnessFrameworkSpecific areasSetEntropy-Based Dual-Portal-to-3-DCT Registration Incorporating Pixel Correlation
Bansal R, Staib LH, Chen Z, Rangarajan A, Knisely J, Nath R, Duncan JS. Entropy-Based Dual-Portal-to-3-DCT Registration Incorporating Pixel Correlation. IEEE Transactions On Medical Imaging 2003, 22: 29. PMID: 12703758, DOI: 10.1109/tmi.2002.806430.Peer-Reviewed Original ResearchConceptsRegistration frameworkImage dataMutual information-based registration algorithmRegistration parametersPortal imagesUltrasound image dataReal patient dataTomography image dataImage pixelsPixel correlationRegistration algorithmPatient setup verificationSegmentationPixel intensityMarkov random processInitial versionTransformation parametersAppropriate entropyImagesAlgorithmPatient dataFrameworkCT imagesLine processSetup verificationNeighbor-Constrained Segmentation with 3D Deformable Models
Yang J, Staib LH, Duncan JS. Neighbor-Constrained Segmentation with 3D Deformable Models. Lecture Notes In Computer Science 2003, 18: 198-209. PMID: 15344458, DOI: 10.1007/978-3-540-45087-0_17.Peer-Reviewed Original ResearchConceptsImage gray level informationGray level informationNeighbor objectsMedical imagesTraining imagesMedical imageryMultiple objectsDeformable modelSynthetic dataLevel informationSegmentationMap shapeEstimation frameworkPrior informationLevel set functionObjectsJoint probability distributionSet functionInformationImagesNovel methodMaximum AJoint density functionProbability distributionFramework
1999
Entropy-Based, Multiple-Portal-to-3DCT Registration for Prostate Radiotherapy Using Iteratively Estimated Segmentation
Bansal R, Staib L, Chen Z, Rangarajan A, Knisely J, Nath R, Duncan J. Entropy-Based, Multiple-Portal-to-3DCT Registration for Prostate Radiotherapy Using Iteratively Estimated Segmentation. Lecture Notes In Computer Science 1999, 1679: 567-578. DOI: 10.1007/10704282_61.Peer-Reviewed Original ResearchPatient setup verificationPortal imagesReal patient dataSingle portal imagePose parametersCT data setsRegistration frameworkRegistration parametersSetup verificationDifferent initializationsAlgorithmMultiple portalsIterative fashionData setsTransformation parametersAppropriate entropyImagesCT dataPatient dataVerificationNoise conditionsFrameworkSegmentationAccurate estimationInitialization