2025
Training and onboarding initiatives in high energy physics experiments
Hall A, Skidmore N, Benelli G, Carlson B, David C, Davies J, Deconinck W, DeMuth D, Elmer P, Garg R, Hageböck S, Lieret K, Lukashenko V, Malik S, Morris A, Schellman H, Stewart G, Veatch J, Villanueva M. Training and onboarding initiatives in high energy physics experiments. Frontiers In Big Data 2025, 8: 1497622. PMID: 39996123, PMCID: PMC11847898, DOI: 10.3389/fdata.2025.1497622.Peer-Reviewed Original Research
2024
SLAM-Based Breast Reconstruction System for Surgical Guidance Using a Low-Cost Camera
Fu E, Zhou H, de la Lastra Á, Zhang R, Ayyala H, Broyles J, Pomahac B, Jagadeesan J. SLAM-Based Breast Reconstruction System for Surgical Guidance Using a Low-Cost Camera. IEEE Transactions On Medical Robotics And Bionics 2024, 6: 1345-1353. DOI: 10.1109/tmrb.2024.3464739.Peer-Reviewed Original ResearchReconstruction systemSoftware applicationsLow-cost RGB-D cameraRGB-D cameraLow-cost camerasBreast reconstruction surgerySimultaneous localizationAccurate reconstructionReconstruction modelCameraSLAM-basedSoftwareIRB-approved protocolSurface reconstructionPatient-specific 3DMastectomy siteAccuracy errorReconstructed breastAmount of tissueInframammary foldBreast moundSLAMReconstructive surgeryIntraoperative guidanceBreast shapeEstablishing robust governance of clinical artificial intelligence software – Why radiologists should lead
Cavallo J, Davis M. Establishing robust governance of clinical artificial intelligence software – Why radiologists should lead. Clinical Imaging 2024, 110: 110163. PMID: 38678765, DOI: 10.1016/j.clinimag.2024.110163.Peer-Reviewed Original ResearchGPT-4 Performance for Neurologic Localization
Lee J, Choi E, McDougal R, Lytton W. GPT-4 Performance for Neurologic Localization. Neurology Clinical Practice 2024, 14: e200293. PMID: 38596779, PMCID: PMC11003355, DOI: 10.1212/cpj.0000000000200293.Peer-Reviewed Original ResearchGenerative Pretrained TransformerText classificationText datasetsClass labelsPretrained TransformerLanguage modelF1 scorePerformance metricsKnowledge baseMetricsInadequate knowledge baseClassificationReduce health care disparitiesClinical reasoningCapabilityPerformanceTextHealth care disparitiesDatasetSoftwareHRVEST: a novel data solution for using wearable smart technology to measure physiologic stress variables during a randomized clinical trial
Gerwin J, de Oliveira Almeida G, Boyce M, Joseph M, Wong A, Burleson W, Evans L. HRVEST: a novel data solution for using wearable smart technology to measure physiologic stress variables during a randomized clinical trial. Frontiers In Computer Science 2024, 6: 1343139. DOI: 10.3389/fcomp.2024.1343139.Peer-Reviewed Original ResearchWearable smart garmentsSmart garmentsNovel algorithmRaw physiological dataData solutionsElectrocardiogram (ECGData processing algorithmsReal-time feedbackWearable technologyBiometric dataNoise-filteringProprietary softwareProposed solutionsData challengeSmart technologiesRaw dataAlgorithmDataAnalytical softwareSoftwarePhysiological dataTechnologyBreak-takingDecision-makingHeart rate variabilityChemSpaceAL: An Efficient Active Learning Methodology Applied to Protein-Specific Molecular Generation
Kyro G, Morgunov A, Brent R, Batista V. ChemSpaceAL: An Efficient Active Learning Methodology Applied to Protein-Specific Molecular Generation. Journal Of Chemical Information And Modeling 2024, 64: 653-665. PMID: 38287889, DOI: 10.1021/acs.jcim.3c01456.Peer-Reviewed Original ResearchConceptsVastness of chemical spaceMolecular generationDomain of drug discoveryArtificial intelligence modelsChemical spaceIntelligence modelsLearning methodologyPython packageDrug discoverySmall molecule inhibitorsActive learning methodologiesFDA-approved small molecule inhibitorsMoleculesEfficient methodDomainSoftwareC-Abl kinase
2023
ChemSpaceAL: An efficient active learning methodology applied to protein-specific molecular generation
Kyro G, Morgunov A, Brent R, Batista V. ChemSpaceAL: An efficient active learning methodology applied to protein-specific molecular generation. Biophysical Journal 2023, 123: 283a. PMID: 37744464, PMCID: PMC10516108, DOI: 10.1016/j.bpj.2023.11.1763.Peer-Reviewed Original ResearchMolecular generationVastness of chemical spaceLearning methodologyActive learning methodologiesDomain of drug discoveryArtificial intelligence modelsChemical spaceGenerative modelIntelligence modelsPython packageDrug discoverySample spaceSmall molecule inhibitorsFDA-approved small molecule inhibitorsMoleculesEfficient methodDomainSoftwareApplicationsMethodologyC-Abl kinaseImplementationSpaceMethodTransformer-Based Dual-Domain Network for Few-View Dedicated Cardiac SPECT Image Reconstructions
Xie H, Zhou B, Chen X, Guo X, Thorn S, Liu Y, Wang G, Sinusas A, Liu C. Transformer-Based Dual-Domain Network for Few-View Dedicated Cardiac SPECT Image Reconstructions. Lecture Notes In Computer Science 2023, 14229: 163-172. DOI: 10.1007/978-3-031-43999-5_16.Peer-Reviewed Original ResearchDual-domain networkSPECT image reconstructionImage reconstructionDeep learning methodsPrevious baseline methodsCardiac SPECT imagesHigh-quality imagesReconstruction networkIterative reconstruction processView reconstructionBaseline methodsReconstruction outputLearning methodsClinical softwareReconstruction processImaging problemsProjection dataImage qualityNetworkImagesStationary dataSPECT scannerDiagnosis of CVDLimited amountSoftwareApplication of artificial intelligence centric workflows for evaluation of neuroradiology emergencies
Shakoor D, Al-Dasuqi K, Cavallo J, Ikuta I, Payabvash S, Malhotra A. Application of artificial intelligence centric workflows for evaluation of neuroradiology emergencies. Clinical Imaging 2023, 101: 133-136. PMID: 37331151, DOI: 10.1016/j.clinimag.2023.04.004.Peer-Reviewed Original ResearchAutomated and manual segmentation of the hippocampus in human infants
Fel J, Ellis C, Turk-Browne N. Automated and manual segmentation of the hippocampus in human infants. Developmental Cognitive Neuroscience 2023, 60: 101203. PMID: 36791555, PMCID: PMC9957787, DOI: 10.1016/j.dcn.2023.101203.Peer-Reviewed Original ResearchConceptsManual segmentationHippocampal segmentationInter-rater reliabilityAutomated SegmentationSegmentation methodSegmentationAnatomical MRI scansEarly hippocampal developmentHead motionFreeSurfer softwareSoftwareHippocampal developmentMRI scansHippocampal structureAwake infantsInfantsHippocampusFMRI protocolAnatomical scansGold standardAdult templateHuman infantsScan qualityScansProtocolMagnetic resonance imaging based neurosurgical planning on hololens 2: A feasibility study in a paediatric hospital
Antonelli M, Lucignani M, Parrillo C, Grassi F, Talamanca L, Espagnet M, Gandolfo C, Secinaro A, Pasquini L, De Benedictis A, Placidi E, De Palma L, Marras C, Marasi A, Napolitano A. Magnetic resonance imaging based neurosurgical planning on hololens 2: A feasibility study in a paediatric hospital. Digital Health 2023, 9: 20552076231214066. PMID: 38025111, PMCID: PMC10656794, DOI: 10.1177/20552076231214066.Peer-Reviewed Original ResearchImage dataUser sessionsModels of brain structuresReality applicationsReality environmentHoloLens 2Pre-processingSeamless integrationInteractive featuresNeurosurgery planningBrain magnetic resonance imaging dataRaw dataAppsBiomedical imagingNeuroimaging dataPerformance profilesMoving modelUsersHoloLensPerformanceImagesPerformance dataMicrosoftPaediatric hospitalSoftware
2022
Review and evaluation of imputation methods for multivariate longitudinal data with mixed‐type incomplete variables
Cao Y, Allore H, Vander Wyk B, Gutman R. Review and evaluation of imputation methods for multivariate longitudinal data with mixed‐type incomplete variables. Statistics In Medicine 2022, 41: 5844-5876. PMID: 36220138, PMCID: PMC9771917, DOI: 10.1002/sim.9592.Peer-Reviewed Original ResearchConceptsImputation methodsEfficient imputation methodJoint modelingIntensive computationAccessible softwareData patternsIncomplete longitudinal dataMultivariate longitudinal dataMissing valuesData variablesIncomplete variablesMultivariate distributionsMultiple imputation procedureConditional distributionLinear multilevel modelsHierarchical modelEntire setImputation procedureVariance estimatesMI methodConditional specificationConditional modelSetSoftwareMultiple imputationPotential Impact of SPECT Resolution on Quantification of Left Ventricular Volumes and Ejection Fraction: A Phantom Study
Liu H, Aslan M, Sandoval V, Liu Y. Potential Impact of SPECT Resolution on Quantification of Left Ventricular Volumes and Ejection Fraction: A Phantom Study. Journal Of Medical And Biological Engineering 2022, 42: 734-743. DOI: 10.1007/s40846-022-00747-y.Peer-Reviewed Original ResearchImage resolutionCurrent software toolsDifferent image resolutionsLow resolutionSoftware toolsEmory Cardiac ToolboxPartial volume effectsSoftwareQuantitative softwarePhantom volumeImagesAttenuation correctionSPECT resolutionDedicated cardiac SPECT cameraDual-head SPECTCameraHigh resolutionCardiac phantomQuantification softwareUse of artificial intelligence in emergency radiology: An overview of current applications, challenges, and opportunities
Al-Dasuqi K, Johnson MH, Cavallo JJ. Use of artificial intelligence in emergency radiology: An overview of current applications, challenges, and opportunities. Clinical Imaging 2022, 89: 61-67. PMID: 35716432, DOI: 10.1016/j.clinimag.2022.05.010.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 coverageCybersecurityEngineeringA connectivity model of the anatomic substrates underlying Gerstmann syndrome
Shahab Q, Young I, Dadario N, Tanglay O, Nicholas P, Lin Y, Fonseka R, Yeung J, Bai M, Teo C, Doyen S, Sughrue M. A connectivity model of the anatomic substrates underlying Gerstmann syndrome. Brain Communications 2022, 4: fcac140. PMID: 35706977, PMCID: PMC9189613, DOI: 10.1093/braincomms/fcac140.Peer-Reviewed Original ResearchHuman Connectome ProjectNeural networkHigher-order functionsNetworkCortical modelConnectivity modelConnectome ProjectComplex cognitive domainsRelevant regionsHCP databaseEstimation mapsCortical parcellation schemeConnectivityDomainSoftwareComputational modellingSchemeModelDatabaseInformationAnatomic informationParcellation schemesSearchAdvancementInteractive software for visualization of nontargeted mass spectrometry data—FluoroMatch visualizer
Koelmel J, Stelben P, Godri D, Qi J, McDonough C, Dukes D, Aristizabal-Henao J, Bowden J, Sternberg S, Rennie E, Pollitt K. Interactive software for visualization of nontargeted mass spectrometry data—FluoroMatch visualizer. Exposome 2022, 2: osac006. DOI: 10.1093/exposome/osac006.Peer-Reviewed Original ResearchData processingOpen source free softwareData visualization toolsInteractive visualizationInteractive softwareVisualization toolsFeatures of interestFree softwareFiltering optionsVisualizerAnnotationManual reviewSoftwareVisualizationAnnotation confidenceInteractive formatExtensive manual reviewAssignment confidenceMetadataProcessingUsersNontargeted mass spectrometryDatasetGraphTableSensible regulation and clinical implementation of clinical decision support software as a medical device
Mori M, Jarrin R, Lu Y, Kadakia K, Huang C, Ross JS, Krumholz HM. Sensible regulation and clinical implementation of clinical decision support software as a medical device. The BMJ 2022, 376: o525. PMID: 35228206, DOI: 10.1136/bmj.o525.Commentaries, Editorials and LettersCertificateChain: decentralized healthcare training certificate management system using blockchain and smart contracts
Tellew J, Kuo T. CertificateChain: decentralized healthcare training certificate management system using blockchain and smart contracts. JAMIA Open 2022, 5: ooac019. PMID: 35571362, PMCID: PMC9097703, DOI: 10.1093/jamiaopen/ooac019.Peer-Reviewed Original ResearchCertificate management systemSingle-point-of-failureManagement systemAutomated smart contractsPublic Ethereum networkBlockchain networkEthereum networkOff-chainOn-chainSmart contractsBlockchain technologyConsensus protocolBlockchainWeb appDecentralized alternativeCentralized systemNetworkCentral databaseTrainingAlgorithmSystemTraining certificationDatabaseCertificationSoftware
2021
Supervised machine learning in the mass spectrometry laboratory: A tutorial
Lee ES, Durant TJS. Supervised machine learning in the mass spectrometry laboratory: A tutorial. Journal Of Mass Spectrometry And Advances In The Clinical Lab 2021, 23: 1-6. PMID: 34984411, PMCID: PMC8692990, DOI: 10.1016/j.jmsacl.2021.12.001.Peer-Reviewed Educational MaterialsCapabilities of MLMachine learning methodsHigh-dimensional datasetsClassification problemSupervised machineSupervised MLComputer scienceDiscrete data elementsLearning methodsResult qualityData elementsML practicesDatasetSoftwareScientist communityInherent relationshipTutorialMass spectrometry dataPromising synergyMS datasetsData analysisMass spectrometry laboratoriesDistant natureRecent yearsWorkflow
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