2022
Natural Language Processing
Xu H, Roberts K. Natural Language Processing. Cognitive Informatics In Biomedicine And Healthcare 2022, 213-234. DOI: 10.1007/978-3-031-09108-7_7.Peer-Reviewed Original ResearchNatural language processingLanguage processingElectronic health recordsBiomedical domainBiomedical natural language processingCommon NLP tasksNarrative textNLP tasksBiomedical articlesClinical documentsNLP fieldTextHealth recordsLarge amountBasic conceptsBibliographic databasesProcessingTaskArticleDocumentsDomainChapterDatabaseInformationAttention
2017
CATTLE (CAncer treatment treasury with linked evidence): An integrated knowledge base for personalized oncology research and practice
Soysal E, Lee H, Zhang Y, Huang L, Chen X, Wei Q, Zheng W, Chang J, Cohen T, Sun J, Xu H. CATTLE (CAncer treatment treasury with linked evidence): An integrated knowledge base for personalized oncology research and practice. CPT Pharmacometrics & Systems Pharmacology 2017, 6: 188-196. PMID: 28296354, PMCID: PMC5351410, DOI: 10.1002/psp4.12174.Peer-Reviewed Original Research
2014
PhenDisco: phenotype discovery system for the database of genotypes and phenotypes
Doan S, Lin K, Conway M, Ohno-Machado L, Hsieh A, Feupe S, Garland A, Ross M, Jiang X, Farzaneh S, Walker R, Alipanah N, Zhang J, Xu H, Kim H. PhenDisco: phenotype discovery system for the database of genotypes and phenotypes. Journal Of The American Medical Informatics Association 2014, 21: 31-36. PMID: 23989082, PMCID: PMC3912702, DOI: 10.1136/amiajnl-2013-001882.Peer-Reviewed Original ResearchConceptsNew information retrieval systemInformation retrieval systemsInformation retrieval toolsDatabase of GenotypesText processing toolsRetrieval systemSearch scenariosDiscovery systemRetrieval toolsAuthorized usersNon-standardized wayCross-study validationSearch comparisonProcessing toolsPromising performanceUsersPhenotype informationDatabaseInformationBiotechnology InformationQueriesMetadataEntrezResourcesSystem
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 ResearchConceptsUnified 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
2006
A natural language processing (NLP) tool to assist in the curation of the laboratory Mouse Tumor Biology Database.
Xu H, Krupke D, Blake J, Friedman C. A natural language processing (NLP) tool to assist in the curation of the laboratory Mouse Tumor Biology Database. AMIA Annual Symposium Proceedings 2006, 2006: 1150. PMID: 17238769, PMCID: PMC1839428.Peer-Reviewed Original ResearchConceptsMouse Genome Informatics groupNatural language processing toolsModel organism databaseMouse Tumor Biology DatabaseLanguage processing toolsBiology databasesOrganism databasesGenomic informationBiological communitiesProcessing toolsSpecific organismsInformatics GroupOrganismsKey informationDatabaseInformationSubstantial effortCurationTool