2021
Privacy-protecting, reliable response data discovery using COVID-19 patient observations
Kim J, Neumann L, Paul P, Day M, Aratow M, Bell D, Doctor J, Hinske L, Jiang X, Kim K, Matheny M, Meeker D, Pletcher M, Schilling L, SooHoo S, Xu H, Zheng K, Ohno-Machado L, Anderson D, Anderson N, Balacha C, Bath T, Baxter S, Becker-Pennrich A, Bernstam E, Carter W, Chau N, Choi Y, Covington S, DuVall S, El-Kareh R, Florian R, Follett R, Geisler B, Ghigi A, Gottlieb A, Hu Z, Ir D, Knight T, Koola J, Kuo T, Lee N, Mansmann U, Mou Z, Murphy R, Neumann L, Nguyen N, Niedermayer S, Park E, Perkins A, Post K, Rieder C, Scherer C, Soares A, Soysal E, Tep B, Toy B, Wang B, Wu Z, Zhou Y, Zucker R. Privacy-protecting, reliable response data discovery using COVID-19 patient observations. Journal Of The American Medical Informatics Association 2021, 28: 1765-1776. PMID: 34051088, PMCID: PMC8194878, DOI: 10.1093/jamia/ocab054.Peer-Reviewed Original Research
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 ResearchMeSH KeywordsData CollectionElectronic Health RecordsHumansInformation Storage and RetrievalNatural Language ProcessingConceptsNatural language processingNLP toolsElectronic health recordsData elementsConcept extractionLanguage processingEnsemble methodDiverse conceptsEvaluation resultsHealth recordsElement extractionClinical notesPlausible solutionToolPipelineExtractionPerformanceEnsembleExtraction performanceConceptNarrative textProcessingText
2016
Building a Natural Language Processing Tool to Identify Patients With High Clinical Suspicion for Kawasaki Disease from Emergency Department Notes
Doan S, Maehara C, Chaparro J, Lu S, Liu R, Graham A, Berry E, Hsu C, Kanegaye J, Lloyd D, Ohno‐Machado L, Burns J, Tremoulet A, Group T. Building a Natural Language Processing Tool to Identify Patients With High Clinical Suspicion for Kawasaki Disease from Emergency Department Notes. Academic Emergency Medicine 2016, 23: 628-636. PMID: 26826020, PMCID: PMC5031359, DOI: 10.1111/acem.12925.Peer-Reviewed Original ResearchMeSH KeywordsChildData MiningElectronic Health RecordsEmergency Service, HospitalHumansMucocutaneous Lymph Node SyndromeNatural Language ProcessingSensitivity and SpecificityConceptsDiagnosis of KDKawasaki diseaseED notesHigh suspicionPediatric ED patientsSerious cardiac complicationsHigh clinical suspicionEmergency department patientsManual chart reviewCardiac complicationsChart reviewClinical suspicionFebrile illnessDepartment patientsED patientsElectronic health record systemsEmergency departmentClinical signsDiagnostic criteriaHealth record systemsPatientsClinical termsSuspicionDiagnosisRecord system
2014
Structuring text and standardizing data for clinical and population health applications
Ohno-Machado L. Structuring text and standardizing data for clinical and population health applications. Journal Of The American Medical Informatics Association 2014, 21: 763-763. PMID: 25117592, PMCID: PMC4147604, DOI: 10.1136/amiajnl-2014-003171.Peer-Reviewed Original ResearchElectronic Health RecordsNatural Language Processing“Big Data” and the Electronic Health Record
Ross M, Wei W, Ohno-Machado L. “Big Data” and the Electronic Health Record. Yearbook Of Medical Informatics 2014, 23: 97-104. PMID: 25123728, PMCID: PMC4287068, DOI: 10.15265/iy-2014-0003.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsMeSH KeywordsComputational BiologyData MiningDecision Support Systems, ClinicalElectronic Health RecordsMedical Records Systems, ComputerizedNatural Language ProcessingPharmacovigilanceSocial MediaConceptsBig dataEHR systemsElectronic health record systemsHealth record systemsData miningElectronic health recordsData applicationsActionable knowledgeMassive numberAdditional keywordsNew keywordsSecondary useInformatics professionalsHealth recordsRecord systemKeywordsLarge amountPrivacyNext stepMiningSecurityEHRSystemImplementationDataNatural Language Processing in Biomedicine: A Unified System Architecture Overview
Doan S, Conway M, Phuong T, Ohno-Machado L. Natural Language Processing in Biomedicine: A Unified System Architecture Overview. Methods In Molecular Biology 2014, 1168: 275-294. PMID: 24870142, DOI: 10.1007/978-1-4939-0847-9_16.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsNatural language processingNLP systemsLanguage processingClinical natural language processingBiomedical natural language processingClinical decision supportImportant data sourceArchitectural viewsStructured data fieldsArchitecture overviewData sharingNLP toolsGeneral architectureDecision supportKnowledge resourcesBackground knowledgeData fieldsCollaborative workSystem evaluationData sourcesCurrent research effortsElectronic medical recordsResearch effortsProcessingQuality assurance
2013
Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature
Ohno-Machado L, Nadkarni P, Johnson K. Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature. Journal Of The American Medical Informatics Association 2013, 20: 805-805. PMID: 23935077, PMCID: PMC3756279, DOI: 10.1136/amiajnl-2013-002214.Commentaries, Editorials and LettersMeSH KeywordsAlgorithmsDatabases, BibliographicElectronic Health RecordsInformation Storage and RetrievalNatural Language Processing
2011
Realizing the full potential of electronic health records: the role of natural language processing
Ohno-Machado L. Realizing the full potential of electronic health records: the role of natural language processing. Journal Of The American Medical Informatics Association 2011, 18: 539-539. PMID: 21846784, PMCID: PMC3168331, DOI: 10.1136/amiajnl-2011-000501.Commentaries, Editorials and LettersNatural language processing: an introduction
Nadkarni PM, Ohno-Machado L, Chapman WW. Natural language processing: an introduction. Journal Of The American Medical Informatics Association 2011, 18: 544-551. PMID: 21846786, PMCID: PMC3168328, DOI: 10.1136/amiajnl-2011-000464.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsMeSH KeywordsHumansInformation ManagementInformation Storage and RetrievalMedical InformaticsModels, TheoreticalNatural Language ProcessingPattern Recognition, AutomatedUser-Computer Interface