Featured Publications
Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator.
He H, Fu S, Wang L, Wen A, Liu S, Moon S, Miller K, Liu H. Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator. AMIA Annual Symposium Proceedings 2023, 2022: 532-541. PMID: 37128369, PMCID: PMC10148300.Peer-Reviewed Original ResearchConceptsAnnotation toolWeb-based annotation toolNatural language processing systemsCorpus developmentUser-centered interfacesData security concernsLanguage processing systemTarget end usersAnnotation taskClinical NLPAnnotation processEnd usersSecurity concernsLightweight solutionPowerful featuresAdvanced featuresProcessing systemCore taskTool developmentTaskCorpusAnnotatorsToolNLPUsers
2023
An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C)
Liu S, Wen A, Wang L, He H, Fu S, Miller R, Williams A, Harris D, Kavuluru R, Liu M, Abu-el-Rub N, Schutte D, Zhang R, Rouhizadeh M, Osborne J, He Y, Topaloglu U, Hong S, Saltz J, Schaffter T, Pfaff E, Chute C, Duong T, Haendel M, Fuentes R, Szolovits P, Xu H, Liu H. An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). Journal Of The American Medical Informatics Association 2023, 30: 2036-2040. PMID: 37555837, PMCID: PMC10654844, DOI: 10.1093/jamia/ocad134.Peer-Reviewed Original ResearchConceptsNatural language processingNLP modelsClinical natural language processingNatural language processing frameworkEHR-based clinical researchMulti-site settingSymptom extractionProcessing frameworkNLP frameworkLanguage processingNLP solutionMulti-site dataAlgorithm robustnessMethodology advancementsResearch communityTranslational research communityNational COVID Cohort CollaborativeCase demonstrationProcess heterogeneityFrameworkAnnotationCOVID cohort
2022
Recommended practices and ethical considerations for natural language processing‐assisted observational research: A scoping review
Fu S, Wang L, Moon S, Zong N, He H, Pejaver V, Relevo R, Walden A, Haendel M, Chute C, Liu H. Recommended practices and ethical considerations for natural language processing‐assisted observational research: A scoping review. Clinical And Translational Science 2022, 16: 398-411. PMID: 36478394, PMCID: PMC10014687, DOI: 10.1111/cts.13463.Peer-Reviewed Original ResearchMeSH KeywordsArtificial IntelligenceElectronic Health RecordsHumansNatural Language ProcessingObservational Studies as TopicReproducibility of ResultsConceptsWorld Health OrganizationElectronic health recordsNatural language processingObservational clinical studyReporting guidelinesObservational researchStandardized reporting guidelinesClinical studiesObservational studyClinical informationNLP methodologyClinical researchHealth OrganizationHealth recordsAssessment of Electronic Health Record for Cancer Research and Patient Care Through a Scoping Review of Cancer Natural Language Processing
Wang L, Fu S, Wen A, Ruan X, He H, Liu S, Moon S, Mai M, Riaz I, Wang N, Yang P, Xu H, Warner J, Liu H. Assessment of Electronic Health Record for Cancer Research and Patient Care Through a Scoping Review of Cancer Natural Language Processing. JCO Clinical Cancer Informatics 2022, 6: e2200006. PMID: 35917480, PMCID: PMC9470142, DOI: 10.1200/cci.22.00006.Peer-Reviewed Original Research
2020
Clinical concept extraction: A methodology review
Fu S, Chen D, He H, Liu S, Moon S, Peterson K, Shen F, Wang L, Wang Y, Wen A, Zhao Y, Sohn S, Liu H. Clinical concept extraction: A methodology review. Journal Of Biomedical Informatics 2020, 109: 103526. PMID: 32768446, PMCID: PMC7746475, DOI: 10.1016/j.jbi.2020.103526.Peer-Reviewed Original ResearchMeSH KeywordsBibliometricsInformation Storage and RetrievalNatural Language ProcessingResearch DesignConceptsNatural language processingConcept extractionClinical concept extractionACM Digital LibraryExtraction applicationsClinical decision supportDigital librariesExtracting conceptsLanguage processingDecision supportDevelopment processApplicationsMethodology reviewExtractionWebEnglishTextPublicationsProcessingAvailable methodsInformationLibraryQuality improvementSearchTool