2017
Ensembles of NLP Tools for Data Element Extraction from Clinical Notes.
Kuo T, Rao P, Maehara C, Doan S, Chaparro J, Day M, Farcas C, Ohno-Machado L, Hsu C. Ensembles of NLP Tools for Data Element Extraction from Clinical Notes. AMIA Annual Symposium Proceedings 2017, 2016: 1880-1889. PMID: 28269947, PMCID: PMC5333200.Peer-Reviewed Original ResearchConceptsNatural language processingNLP toolsElectronic health recordsData elementsConcept extractionLanguage processingEnsemble methodDiverse conceptsEvaluation resultsHealth recordsElement extractionClinical notesPlausible solutionToolPipelineExtractionPerformanceEnsembleExtraction performanceConceptNarrative textProcessingText
2016
PRINCESS: Privacy-protecting Rare disease International Network Collaboration via Encryption through Software guard extensionS
Chen F, Wang S, Jiang X, Ding S, Lu Y, Kim J, Sahinalp S, Shimizu C, Burns J, Wright V, Png E, Hibberd M, Lloyd D, Yang H, Telenti A, Bloss C, Fox D, Lauter K, Ohno-Machado L. PRINCESS: Privacy-protecting Rare disease International Network Collaboration via Encryption through Software guard extensionS. Bioinformatics 2016, 33: 871-878. PMID: 28065902, PMCID: PMC5860394, DOI: 10.1093/bioinformatics/btw758.Peer-Reviewed Original ResearchConceptsSoftware Guard ExtensionsHomomorphic encryptionDistributed ComputationCollaboration frameworkTrustworthy computationCollaboration modelSupplementary dataNetwork collaborationEncryptionExperimental resultsHealth informationAlternative solutionComputationInternational collaboration frameworkHardwareAccurate analysisPerformanceBioinformaticsImplementationFrameworkDataExtensionInformationCollaboration
2013
DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling Technique
Li P, Wang S, Kim J, Xiong H, Ohno-Machado L, Jiang X. DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling Technique. PLOS ONE 2013, 8: e80377. PMID: 24282536, PMCID: PMC3840021, DOI: 10.1371/journal.pone.0080377.Peer-Reviewed Original ResearchConceptsReference-free compressionDisk storage capacityCompression algorithmDecompression costData transferringArt algorithmsCompression performanceFile sizeGenome compressionCompression rateBit rateAlgorithmDNA compressionBiomedical researchersPerformance advantagesGenome dataModeling techniquesContextual modelImportant concernResearch purposesCompressionPerformanceStorage capacityBitsReference sequenceEXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learning
Wang S, Jiang X, Wu Y, Cui L, Cheng S, Ohno-Machado L. EXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learning. Journal Of Biomedical Informatics 2013, 46: 480-496. PMID: 23562651, PMCID: PMC3676314, DOI: 10.1016/j.jbi.2013.03.008.Peer-Reviewed Original ResearchConceptsHigh-level guaranteesOnline model learningSensitive informationModel learningEntire dataOnline learningAbsence of participantsMore flexibilitySame performanceExperimental resultsLearningCommunicationServerInformationGuaranteesModel updatingPosterior distributionServicesClientsUpdatingFrameworkFlexibilityModelPerformance
2004
Multivariate selection of genetic markers in diagnostic classification
Weber G, Vinterbo S, Ohno-Machado L. Multivariate selection of genetic markers in diagnostic classification. Artificial Intelligence In Medicine 2004, 31: 155-167. PMID: 15219292, DOI: 10.1016/j.artmed.2004.01.011.Peer-Reviewed Original ResearchConceptsClassification performanceBetter classification performanceLogistic regression algorithmUser-friendly implementationDifferent data setsSophisticated algorithmsRegression algorithmAlgorithmNew algorithmParticular classificationUnivariate algorithmsData setsGene expression dataClassificationNumber of variablesGene selectionSetInternetExpression dataNew setViable choiceMachinePerformanceImplementationSelection
1998
Improving machine learning performance by removing redundant cases in medical data sets.
Ohno-Machado L, Fraser H, Ohrn A. Improving machine learning performance by removing redundant cases in medical data sets. AMIA Annual Symposium Proceedings 1998, 523-7. PMID: 9929274, PMCID: PMC2232167.Peer-Reviewed Original ResearchBuilding manageable rough set classifiers.
Ohrn A, Ohno-Machado L, Rowland T. Building manageable rough set classifiers. AMIA Annual Symposium Proceedings 1998, 543-7. PMID: 9929278, PMCID: PMC2232320.Peer-Reviewed Original ResearchConceptsReal-world medical datasetsRule-based classifierRough set classifierRough set theoryKnowledge discoveryData miningMedical datasetsBoolean reasoningSet classifierSet theoryClassifierBetter performanceSmall modelsMiningAvailable informationDatasetReasoningInteresting aspectsModelCapabilityInformationSetInspectionRulesPerformance