2005
ALFRED: An Allele Frequency Database for Microevolutionary Studies
Rajeevan H, Cheung K, Gadagkar R, Stein S, Soundararajan U, Kidd J, Pakstis A, Miller P, Kidd K. ALFRED: An Allele Frequency Database for Microevolutionary Studies. Evolutionary Bioinformatics 2005, 1: 117693430500100006. DOI: 10.1177/117693430500100006.Peer-Reviewed Original Research
2000
PathMaster
Mattie M, Staib L, Stratmann E, Tagare H, Duncan J, Miller P. PathMaster. Journal Of The American Medical Informatics Association 2000, 7: 404-415. PMID: 10887168, PMCID: PMC61444, DOI: 10.1136/jamia.2000.0070404.Peer-Reviewed Original ResearchConceptsDigital image databaseText-based descriptionsFeature extraction routineImage databaseIndexing methodSearch enginesFeature extractionCytopathology imagesCross-reference analysisExtraction routinesImagesPrognostic processInformation contentDescriptorsIndividual cell characteristicsDatabaseCell descriptorsRoutinesRecognition trialsEngineIndex dataExtractionMethodDescriptionOlfactory Receptor Database: a sensory chemoreceptor resource
Skoufos E, Marenco L, Nadkarni P, Miller P, Shepherd G. Olfactory Receptor Database: a sensory chemoreceptor resource. Nucleic Acids Research 2000, 28: 341-343. PMID: 10592268, PMCID: PMC102443, DOI: 10.1093/nar/28.1.341.Peer-Reviewed Original Research
1999
Organization of Heterogeneous Scientific Data Using the EAV/CR Representation
Nadkarni P, Marenco L, Chen R, Skoufos E, Shepherd G, Miller P. Organization of Heterogeneous Scientific Data Using the EAV/CR Representation. Journal Of The American Medical Informatics Association 1999, 6: 478-493. PMID: 10579606, PMCID: PMC61391, DOI: 10.1136/jamia.1999.0060478.Peer-Reviewed Original ResearchConceptsEAV/CRHeterogeneous scientific dataPhysical database schemaStorage of dataInterobject relationshipsDatabase schemaHeterogeneous dataMedical domainComplex objectsScientific domainsClinical patient recordsSchemaBiomedical databasesRepresentationScientific dataPatient recordsSuch purposesDatabaseValue representationDomainObjectsParadigmDataOlfactory Receptor Database: a database of the largest eukaryotic gene family
Skoufos E, Healy M, Singer M, Nadkarni P, Miller P, Shepherd G. Olfactory Receptor Database: a database of the largest eukaryotic gene family. Nucleic Acids Research 1999, 27: 343-345. PMID: 9847223, PMCID: PMC148178, DOI: 10.1093/nar/27.1.343.Peer-Reviewed Original ResearchNeuronal database integration: the Senselab EAV data model.
Marenco L, Nadkarni P, Skoufos E, Shepherd G, Miller P. Neuronal database integration: the Senselab EAV data model. AMIA Annual Symposium Proceedings 1999, 102-6. PMID: 10566329, PMCID: PMC2232788.Peer-Reviewed Original Research
1998
The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data
Shepherd G, Mirsky J, Healy M, Singer M, Skoufos E, Hines M, Nadkarni P, Miller P. The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data. Trends In Neurosciences 1998, 21: 460-468. PMID: 9829685, DOI: 10.1016/s0166-2236(98)01300-9.Peer-Reviewed Original ResearchDatabase tools for integrating and searching membrane property data correlated with neuronal morphology
Mirsky J, Nadkarni P, Healy M, Miller P, Shepherd G. Database tools for integrating and searching membrane property data correlated with neuronal morphology. Journal Of Neuroscience Methods 1998, 82: 105-121. PMID: 10223520, DOI: 10.1016/s0165-0270(98)00049-1.Peer-Reviewed Original ResearchConceptsDatabase toolsWeb resourcesSearch toolsCritical problemUsersSequence databasesSimple canonical modelFunctional operationDatabaseToolSearchDifferent neuronsInternetAnnotationEquivalent compartmentsModelersDataProperty dataCanonical modelDifferent typesInformationState of acceptanceResourcesVehiclesProperty space
1997
Using explicitly represented biological relationships for database navigation and searching via the World-Wide Web
Panzer S, Cooley L, Miller P. Using explicitly represented biological relationships for database navigation and searching via the World-Wide Web. Bioinformatics 1997, 13: 281-290. PMID: 9183533, DOI: 10.1093/bioinformatics/13.3.281.Peer-Reviewed Original ResearchConceptsWorld Wide WebCGI scriptsDatabase navigationDatabase schemaBiological databasesRetrieval capabilitiesHypertext linksPrototype databaseRelated entitiesDatabase entriesDifferent entitiesPublic useWebWealth of informationDatabaseHyperlinksInformationNavigationBiological relationshipsEntitiesSchemaRequestsScriptsCapabilityNew type
1996
ModelDB: An Environment for Running and Storing Computational Models and Their Results Applied to Neuroscience
Peterson B, Healy M, Nadkarni P, Miller P, Shepherd G. ModelDB: An Environment for Running and Storing Computational Models and Their Results Applied to Neuroscience. Journal Of The American Medical Informatics Association 1996, 3: 389-398. PMID: 8930855, PMCID: PMC116323, DOI: 10.1136/jamia.1996.97084512.Peer-Reviewed Original ResearchConceptsWorld Wide Web interfaceCluster of databasesHuman Brain ProjectWeb interfaceComputational modelIndividual databasesSmall databaseDatabase developmentBrain ProjectComplex informationRelated databasesFormal mannerVast quantitiesSystem functionDiverse sourcesDatabaseInformationWebProjectResearch groupsInitial approachPilot projectIssuesGeneral issuesTechnology
1995
Internet-based Support for Bioscience Research: A Collaborative Genome center for Human Chromosome 12
Miller P, Nadkarni P, Kidd K, Cheung K, Ward D, Banks A, Bray-Ward P, Cupelli L, Herdman V, Marondel I, Montcomery K, Renault B, Yoon S, Krauter K, Kucherlapati R. Internet-based Support for Bioscience Research: A Collaborative Genome center for Human Chromosome 12. Journal Of The American Medical Informatics Association 1995, 2: 351-364. PMID: 8581551, PMCID: PMC116278, DOI: 10.1136/jamia.1995.96157828.Peer-Reviewed Original ResearchMeSH KeywordsChromosome MappingChromosomes, Artificial, YeastChromosomes, Human, Pair 12Computer Communication NetworksConnecticutData DisplayDatabases, FactualGenetic MarkersGenome, HumanHumansInterinstitutional RelationsLocal Area NetworksModels, GeneticNew York CityOrganizational ObjectivesSoftware DesignSystems IntegrationUser-Computer InterfaceConceptsUser-friendly front endInternet-based supportExternal databasesMedical informaticsGenome CenterGenome informaticsDatabase programMapping communityCandidate mapsInformaticsAssembly toolsAreas of bioscienceFront endDatabaseServerSybaseSuch supportCase studySetToolBioscience researchCertain issuesClientsTechnologySupport
1993
Automated Integration of External Databases: A Knowledge-Based Approach to Enhancing Rule-Based Expert Systems
Berman L, Cullen M, Miller P. Automated Integration of External Databases: A Knowledge-Based Approach to Enhancing Rule-Based Expert Systems. Journal Of Biomedical Informatics 1993, 26: 230-241. PMID: 8325003, DOI: 10.1006/cbmr.1993.1016.Peer-Reviewed Original ResearchConceptsExpert system knowledge baseSystem knowledge baseKnowledge baseKnowledge basesPrototype systemLarge knowledge basesSuch knowledge basesExpert system applicationsKnowledge-based methodsDecision support aidRetrieval toolsBiomedical domainExternal databasesExpert systemSupport aidsSystem applicationsOnline databasesDatabaseSystemImplementationIntegrationRulesToolDataApplicationsNetMenu: experience in the implementation of an institutional menu of information sources.
Shifman M, Clyman J, Paton J, Powsner S, Roderer N, Miller P. NetMenu: experience in the implementation of an institutional menu of information sources. AMIA Annual Symposium Proceedings 1993, 554-8. PMID: 8130535, PMCID: PMC2850638.Peer-Reviewed Original ResearchAugmenting GRATEFUL MED with the UMLS Metathesaurus: an initial evaluation.
Jachna J, Powsner S, Miller P. Augmenting GRATEFUL MED with the UMLS Metathesaurus: an initial evaluation. Journal Of The Medical Library Association 1993, 81: 20-8. PMID: 8428185, PMCID: PMC225723.Peer-Reviewed Original ResearchConceptsGrateful MedIntelligent solutionsNovice usersInexperienced usersEffective searchLexical mismatchesUMLS MetathesaurusBibliographic retrievalOnline bibliographic databasesUsersComputer literacyTest setTyping errorsCitation retrievalIndexing termsThesaurusRetrievalSearch strategyOngoing projectSearchBibliographic databasesMetathesaurusToolDatabaseSet
1992
Parallel Computation for Medicine and Biology: Applications of Linda At Yale University
Sittig D, Shifman M, Nadkarni P, Miller P. Parallel Computation for Medicine and Biology: Applications of Linda At Yale University. The International Journal Of High Performance Computing Applications 1992, 6: 147-163. DOI: 10.1177/109434209200600203.Peer-Reviewed Original ResearchComparing machine-independent versus machine-specific parallelization of a software platform for biological sequence comparison
Miller P, Nadkarni P, Pearson W. Comparing machine-independent versus machine-specific parallelization of a software platform for biological sequence comparison. Bioinformatics 1992, 8: 167-175. PMID: 1591612, DOI: 10.1093/bioinformatics/8.2.167.Peer-Reviewed Original ResearchConceptsDatabase of sequencesBiological sequence comparisonParallel computationMachine-independent parallel programming languageParallel programming languageHypercube parallel computerProgramming languageSoftware platformParallel computersParallel machinesExpressive powerBiological sequencesParallelizationPlatform programComputationModest sacrificeBenchmark testsLogicDatabaseCase studyComputerPortabilityMachineLindaRelative advantagesOnline bibliographic information: integration into an emerging IAIMS environment.
Paton J, Belanger A, Cheung K, Grajek S, Branch K, Ikeda N, Sette L, Miller P, Fryer R. Online bibliographic information: integration into an emerging IAIMS environment. AMIA Annual Symposium Proceedings 1992, 605-9. PMID: 1336416, PMCID: PMC2248136.Peer-Reviewed Original ResearchAutomated Online Transition from the Medical Record to the Psychiatric Literature
Powsner S, Miller P. Automated Online Transition from the Medical Record to the Psychiatric Literature. Methods Of Information In Medicine 1992, 31: 169-174. PMID: 1406330, DOI: 10.1055/s-0038-1634873.Peer-Reviewed Original ResearchConceptsKnowledge-based programsLine medical databasesTextual databasesFocused retrievalSearch expressionsRetrieval componentDemonstration modeRetrievalMedical databasesDatabaseRoutine operationKey topicsOnline transitionTopicSystemServicesRelevant databasesTOPIXInformationActivation expressionSearchLinkAutomated integration of external databases: a knowledge-based approach to enhancing rule-based expert systems.
Berman L, Cullen M, Miller P. Automated integration of external databases: a knowledge-based approach to enhancing rule-based expert systems. AMIA Annual Symposium Proceedings 1992, 227-33. PMID: 1482872, PMCID: PMC2247997.Peer-Reviewed Original ResearchConceptsExpert system knowledge baseSystem knowledge baseKnowledge baseKnowledge basesPrototype systemRule-based expert systemLarge knowledge basesSuch knowledge basesExpert system applicationsKnowledge-based approachKnowledge-based methodsDecision support aidRetrieval toolsBiomedical domainExternal databasesExpert systemSupport aidsSystem applicationsLine databasesDatabaseSystemImplementationIntegrationToolDataCHROMINFO: a database for viewing and editing top-level chromosome data.
Nadkarni P, Reeders S, Shifman M, Miller P. CHROMINFO: a database for viewing and editing top-level chromosome data. AMIA Annual Symposium Proceedings 1992, 366-70. PMID: 1482899, PMCID: PMC2248058.Peer-Reviewed Original Research