2016
Chapter 5 Software for Patient Care Versus Software for Clinical Research Support: Similarities and Differences
Nadkarni P. Chapter 5 Software for Patient Care Versus Software for Clinical Research Support: Similarities and Differences. 2016, 115-128. DOI: 10.1016/b978-0-12-803130-8.00005-1.Peer-Reviewed Original ResearchElectronic health record systemsClinical study data management systemsData management systemHealth record systemsData capture systemKind of systemData modelRedundant effortsClinical research supportManagement systemRecord systemSingle institutionStudy protocolCapture systemSoftwareMultiple institutionsSubject recruitmentStudy configurationSystemTransactionsDifferencesHuman population
2014
Chapter 2 Data Integration: An Overview
Nadkarni P, Marenco L. Chapter 2 Data Integration: An Overview. 2014, 15-47. DOI: 10.1016/b978-0-12-401678-1.00002-6.Peer-Reviewed Original ResearchIntegration effortsIntermediary softwareSeamless accessData integration strategyPhysical integrationVirtual integrationData integrationTypes of dataData elementsLogical integrationSource systemSingle large organizationLarge organizationsSingle resourceUsersMultiple sourcesIntegration strategyIntegrationFormal sequenceQueriesMetadataSoftwareStorage technologiesRedundancySystem
2005
Metadata-driven Delphi rating on the Internet
Deshpande AM, Shiffman RN, Nadkarni PM. Metadata-driven Delphi rating on the Internet. Computer Methods And Programs In Biomedicine 2005, 77: 49-56. PMID: 15639709, DOI: 10.1016/j.cmpb.2004.05.006.Peer-Reviewed Original ResearchConceptsDelphi ratingPaper-based data collectionTraditional paper-based methodsReusable softwarePaper-based methodsProgramming codeData entrySoftwareAnalysis toolsMetadataComputerized techniqueData collectionValues schemaInternetSchemaFive-level Likert scaleWebCodeDisagreement indexGuideline StandardizationExpertsToolMethodCostCollection
2004
VitaPad: visualization tools for the analysis of pathway data
Holford M, Li N, Nadkarni P, Zhao H. VitaPad: visualization tools for the analysis of pathway data. Bioinformatics 2004, 21: 1596-1602. PMID: 15564306, DOI: 10.1093/bioinformatics/bti153.Peer-Reviewed Original ResearchConceptsCross-platform applicationHigh-resolution graphicsGraph layout algorithmsBiological pathway diagramsPathway diagramsXML formatUser interfaceLayout algorithmVisualization toolsIntuitive controlEasy extensionPathway dataGraphicsUsersMicroarray dataAlgorithmSoftwareToolFormatDataHongyuInterfaceIntegrationPackageApplicationsManaging Complex Change in Clinical Study Metadata
Brandt CA, Gadagkar R, Rodriguez C, Nadkarni PM. Managing Complex Change in Clinical Study Metadata. Journal Of The American Medical Informatics Association 2004, 11: 380-391. PMID: 15187070, PMCID: PMC516245, DOI: 10.1197/jamia.m1511.Peer-Reviewed Original ResearchConceptsMetadata managementClinical study data management systemsHigh-level specificationData management systemProduction rule systemMiddleware enginesUse casesMetadata modificationCentralized informationStudy metadataManagement systemMetadataInformationSubschemaSystemSoftwareSpecificationEngineCapabilitySpecific typesManagement
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 improvementStepAccuracyTrialDB: A web-based Clinical Study Data Management System.
Brandt CA, Deshpande AM, Lu C, Ananth G, Sun K, Gadagkar R, Morse R, Rodriguez C, Miller PL, Nadkarni PM. TrialDB: A web-based Clinical Study Data Management System. AMIA Annual Symposium Proceedings 2003, 2003: 794. PMID: 14728299, PMCID: PMC1480035.Peer-Reviewed Original ResearchConceptsClinical study data management systemsData management systemClass of softwareManagement systemPre-existing softwareWeb-based technologiesOpen source formDatabase engineClinical domainsSuch softwareData managementCentralized managementDifferent clinical domainsChallenging taskSuch systemsValue modelingSoftwareRequisite functionalityIntranetInternetDiverse typesSystemTaskDomainEngineIntegrating 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
2000
Integration of a hematopoietic progenitor cell program using the ACT/DB database system
Perrotta P, Nadkarni P. Integration of a hematopoietic progenitor cell program using the ACT/DB database system. Computer Methods And Programs In Biomedicine 2000, 61: 195-207. PMID: 10710182, DOI: 10.1016/s0169-2607(99)00038-3.Peer-Reviewed Original ResearchConceptsClient-server databaseComprehensive software systemSQL Server databaseDiverse data requirementsWeb-based technologiesData entry formsSoftware systemsServer databaseDatabase systemsInformation technologyMicrosoft AccessControl functionalityEntry formData requirementsTechnologyInternetDatabaseQuality assuranceOracleDeploymentSoftwareSystemFunctionalityRequirementsProcessing