2016
A long journey to short abbreviations: developing an open-source framework for clinical abbreviation recognition and disambiguation (CARD)
Wu Y, Denny J, Rosenbloom S, Miller R, Giuse D, Wang L, Blanquicett C, Soysal E, Xu J, Xu H. A long journey to short abbreviations: developing an open-source framework for clinical abbreviation recognition and disambiguation (CARD). Journal Of The American Medical Informatics Association 2016, 24: e79-e86. PMID: 27539197, PMCID: PMC7651947, DOI: 10.1093/jamia/ocw109.Peer-Reviewed Original ResearchMeSH KeywordsAbbreviations as TopicElectronic Health RecordsHumansMachine LearningNatural Language ProcessingPatient DischargeConceptsClinical NLP systemsOpen-source frameworkNLP systemsClinical corpusClinical abbreviationsClinic visit notesSense inventoryKnowledge Extraction SystemAbbreviation recognitionWord sense disambiguation methodDischarge summariesF1 scoreExternal corpusClinical narrativesSense disambiguation methodSystem capabilitiesVanderbilt University Medical CenterWrapperFrequent abbreviationsDisambiguation methodMetaMapAbbreviation identificationCardsVisit notesDisambiguation
2015
A Preliminary Study of Clinical Abbreviation Disambiguation in Real Time
Wu Y, Denny J, Rosenbloom S, Miller R, Giuse D, Song M, Xu H. A Preliminary Study of Clinical Abbreviation Disambiguation in Real Time. Applied Clinical Informatics 2015, 06: 364-374. PMID: 26171081, PMCID: PMC4493336, DOI: 10.4338/aci-2014-10-ra-0088.Peer-Reviewed Original ResearchMeSH KeywordsAbbreviations as TopicDocumentationHealth PersonnelNatural Language ProcessingTime FactorsUser-Computer InterfaceConceptsElectronic health record systemsUser studyClinical documentation systemNatural language processing systemsClinical NLP systemsPreliminary user studyAbbreviation recognitionExtra time costLanguage processing systemWSD methodHealth record systemsDocumentation systemPrototype applicationWord sense disambiguation methodNLP systemsCorrect sensesNote generationPrototype systemClinical sentencesCost of timeClinical documentsDocument entryDisambiguation moduleSense disambiguation methodHealthcare records
2013
Word Sense Disambiguation of clinical abbreviations with hyperdimensional computing.
Moon S, Berster B, Xu H, Cohen T. Word Sense Disambiguation of clinical abbreviations with hyperdimensional computing. AMIA Annual Symposium Proceedings 2013, 2013: 1007-16. PMID: 24551390, PMCID: PMC3900125.Peer-Reviewed Original ResearchMeSH KeywordsAbbreviations as TopicAlgorithmsBayes TheoremNatural Language ProcessingSupport Vector MachineConceptsWord sense disambiguationAverage accuracySense disambiguationWord sense disambiguation algorithmSupport vector machineHyperdimensional ComputingNaïve BayesCommon machineClinical documentsVector machineDisambiguation algorithmClinical abbreviationsMedical informationAccurate extractionAlgorithmDisambiguationMachineSuch approachesClinical notesPresent new approachVector transformationNew approachAmbiguous termsComputingAccuracy
2012
A comparative study of current Clinical Natural Language Processing systems on handling abbreviations in discharge summaries.
Wu Y, Denny J, Rosenbloom S, Miller R, Giuse D, Xu H. A comparative study of current Clinical Natural Language Processing systems on handling abbreviations in discharge summaries. AMIA Annual Symposium Proceedings 2012, 2012: 997-1003. PMID: 23304375, PMCID: PMC3540461.Peer-Reviewed Original ResearchCombining corpus-derived sense profiles with estimated frequency information to disambiguate clinical abbreviations.
Xu H, Stetson P, Friedman C. Combining corpus-derived sense profiles with estimated frequency information to disambiguate clinical abbreviations. AMIA Annual Symposium Proceedings 2012, 2012: 1004-13. PMID: 23304376, PMCID: PMC3540457.Peer-Reviewed Original ResearchAbbreviations as TopicElectronic Health RecordsHumansNatural Language ProcessingPattern Recognition, AutomatedA new clustering method for detecting rare senses of abbreviations in clinical notes
Xu H, Wu Y, Elhadad N, Stetson P, Friedman C. A new clustering method for detecting rare senses of abbreviations in clinical notes. Journal Of Biomedical Informatics 2012, 45: 1075-1083. PMID: 22742938, PMCID: PMC3729222, DOI: 10.1016/j.jbi.2012.06.003.Peer-Reviewed Original Research
2011
Detecting abbreviations in discharge summaries using machine learning methods.
Wu Y, Rosenbloom S, Denny J, Miller R, Mani S, Giuse D, Xu H. Detecting abbreviations in discharge summaries using machine learning methods. AMIA Annual Symposium Proceedings 2011, 2011: 1541-9. PMID: 22195219, PMCID: PMC3243185.Peer-Reviewed Original ResearchConceptsNatural language processingMachine learning methodsHighest F-measureF-measureClinical natural language processingLexical resourcesClinical abbreviationsTraining setPre-defined featuresRandom forest classifierDomain expertsML algorithmsML classifiersLanguage processingVoting schemeLearning methodsDischarge summariesForest classifierTest setClassifierCorpus-based methodSetResourcesAlgorithmAbbreviations
2008
Methods for building sense inventories of abbreviations in clinical notes.
Xu H, Stetson P, Friedman C. Methods for building sense inventories of abbreviations in clinical notes. AMIA Annual Symposium Proceedings 2008, 2008: 819. PMID: 18999007, PMCID: PMC2656023.Peer-Reviewed Original ResearchMethods for Building Sense Inventories of Abbreviations in Clinical Notes
Xu H, Stetson P, Friedman C. Methods for Building Sense Inventories of Abbreviations in Clinical Notes. Journal Of The American Medical Informatics Association 2008, 16: 103-108. PMID: 18952935, PMCID: PMC2605589, DOI: 10.1197/jamia.m2927.Peer-Reviewed Original Research
2007
A study of abbreviations in clinical notes.
Xu H, Stetson P, Friedman C. A study of abbreviations in clinical notes. AMIA Annual Symposium Proceedings 2007, 2007: 821-5. PMID: 18693951, PMCID: PMC2655910.Peer-Reviewed Original ResearchMeSH KeywordsAbbreviations as TopicDecision TreesHumansMEDLINENatural Language ProcessingUnified Medical Language SystemConceptsUnified Medical Language SystemNatural language processing systemsLanguage processing systemNarrative clinical notesDetection methodClinical notesDifferent knowledge sourcesSense inventoryDomain expertsNLP systemsCorrect sensesDecision supportText corporaKnowledge sourcesError detectionProcessing systemBiomedical literatureStudy of abbreviationsLanguage systemPatient informationAmbiguity rateBetter detection methodsDatabaseAnnotationAbbreviations