2003
Text mining neuroscience journal articles to populate neuroscience databases
Crasto CJ, Marenco LN, Migliore M, Mao B, Nadkarni PM, Miller P, Shepherd GM. Text mining neuroscience journal articles to populate neuroscience databases. Neuroinformatics 2003, 1: 215-237. PMID: 15046245, DOI: 10.1385/ni:1:3:215.Peer-Reviewed Original ResearchConceptsNeuroscience databasesNatural language textPre-processing stepDatabase architectureLanguage textRetrieval resultsDatabase keywordsSemantic contextBibliography databasesNeuroscience articlesTest setTwo-step approachFirst stepDatabaseExpertsArchitectureSoftwareKnowledgebaseSecond stepNeuroscienceSenseLabKeywordsContinual improvementStepAccuracyIntegrating Query of Relational and Textual Data in Clinical Databases: A Case Study
Fisk JM, Mutalik P, Levin FW, Erdos J, Taylor C, Nadkarni P. Integrating Query of Relational and Textual Data in Clinical Databases: A Case Study. Journal Of The American Medical Informatics Association 2003, 10: 21-38. PMID: 12509355, PMCID: PMC150357, DOI: 10.1197/jamia.m1133.Peer-Reviewed Original ResearchConceptsRelational database management systemInformation retrievalDatabase management systemClinical data martCommodity softwareFuzzy searchingText indexingRelational searchTextual dataData martIR softwareBoolean searchManagement systemMedical textsSoftwareSearchingDocumentsQueriesTextIndexingClinical databaseCase studyIR facilitiesRetrievalVendors
2001
Use of General-purpose Negation Detection to Augment Concept Indexing of Medical Documents
Mutalik P, Deshpande A, Nadkarni P. Use of General-purpose Negation Detection to Augment Concept Indexing of Medical Documents. Journal Of The American Medical Informatics Association 2001, 8: 598-609. PMID: 11687566, PMCID: PMC130070, DOI: 10.1136/jamia.2001.0080598.Peer-Reviewed Original ResearchMeSH KeywordsAbstracting and IndexingInformation Storage and RetrievalMedical RecordsNatural Language ProcessingProgramming LanguagesSoftwareUnified Medical Language SystemConceptsNegation detectionMedical documentsUMLS conceptsProgramming language compilersFinite state machinesLanguage compilerConcept indexingMedical narrativesContext-free grammarsConcept matchingLexical scannerAbsence of negationDifferent test setsFormal languageState machinesRegular expressionsReliability of detectionDiverse training setConcept IDsTraining setParserHuman observationTest setLarge setHuman observersUMLS Concept Indexing for Production Databases
Nadkarni P, Chen R, Brandt C. UMLS Concept Indexing for Production Databases. Journal Of The American Medical Informatics Association 2001, 8: 80-91. PMID: 11141514, PMCID: PMC134593, DOI: 10.1136/jamia.2001.0080080.Peer-Reviewed Original ResearchAbstracting and IndexingAlgorithmsFeasibility StudiesUnified Medical Language SystemVocabulary, Controlled