2008
Issues in the Design of a Pilot Concept-Based Query Interface for the Neuroinformatics Information Framework
Marenco L, Li Y, Martone ME, Sternberg PW, Shepherd GM, Miller PL. Issues in the Design of a Pilot Concept-Based Query Interface for the Neuroinformatics Information Framework. Neuroinformatics 2008, 6: 229-239. PMID: 18953674, PMCID: PMC2664632, DOI: 10.1007/s12021-008-9035-9.Peer-Reviewed Original ResearchConceptsNeuroscience Information FrameworkQuery interfaceBiomedical information retrievalInformation frameworkInformation retrievalResource registryDocument archivesBiomedical vocabulariesSingle interfaceStandardized vocabularyCurrent versionDetailed exampleInterfaceResourcesFrameworkOntologyPilot conceptVocabularyRetrievalIssuesCertain lessonsBackground issuesSearchArchivesPrimary resources
2000
An integrated web interface for large-scale characterization of sequence data
Cheung K, Kumar A, Snyder M, Miller P. An integrated web interface for large-scale characterization of sequence data. Functional & Integrative Genomics 2000, 1: 70-75. PMID: 11793223, DOI: 10.1007/s101420000004.Peer-Reviewed Original ResearchMeSH KeywordsClinical Laboratory Information SystemsComputational BiologyDatabases, GeneticDatabases, ProteinDNA Transposable ElementsDNA, FungalGene Expression ProfilingGenomeGenome, FungalInternetMutagenesis, InsertionalOpen Reading FramesSaccharomyces cerevisiaeSequence Analysis, DNASequence Homology, Nucleic AcidSoftwareUser-Computer InterfaceConceptsWeb interfaceWeb front endGenomic data processingData filesLarge-scale genome projectsIndependent software programsSet of programsMultiple directoriesData directoryData processingRaw dataTransposon insertion eventsSoftware programFilesFront endDirectoryEfficient protocolLarge amountInterfaceLarge numberGeneral approachUsersSetDownloadNavigationOlfactory 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 ResearchMeSH KeywordsBase SequenceChemoreceptor CellsDatabases, FactualMolecular Sequence DataOlfactory MucosaUser-Computer Interface
1999
Olfactory 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 Research
1998
Managing Attribute–Value Clinical Trials Data Using the ACT/DB Client–Server Database System
Nadkarni P, Brandt C, Frawley S, Sayward F, Einbinder R, Zelterman D, Schacter L, Miller P. Managing Attribute–Value Clinical Trials Data Using the ACT/DB Client–Server Database System. Journal Of The American Medical Informatics Association 1998, 5: 139-151. PMID: 9524347, PMCID: PMC61285, DOI: 10.1136/jamia.1998.0050139.Peer-Reviewed Original ResearchMeSH KeywordsClinical Trials as TopicDatabase Management SystemsHumansMedical Records Systems, ComputerizedSoftware DesignUser-Computer InterfaceConceptsClient-server database systemsReuse of parametersData entryOracle serverDatabase applicationsDatabase systemsObject dataUNIX platformsDictionary searchData typesInitial deploymentLogical groupingPurposes of displaySuch dataStandard reportPilot useServerIndexingAnalysis programMachineDeploymentPlatformReuseClients
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 ResearchMeSH KeywordsAnimalsBiologyComputer Communication NetworksCytoskeletal ProteinsCytoskeletonDatabases, FactualGenesUser-Computer InterfaceConceptsWorld 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 issuesTechnologyPhenoDB: An Integrated Client/Server Database for Linkage and Population Genetics
Cheung K, Nadkarni P, Silverstein S, Kidd J, Pakstis A, Miller P, Kidd K. PhenoDB: An Integrated Client/Server Database for Linkage and Population Genetics. Journal Of Biomedical Informatics 1996, 29: 327-337. PMID: 8812078, DOI: 10.1006/cbmr.1996.0024.Peer-Reviewed Original ResearchMeSH KeywordsAllelesComputer Communication NetworksComputer GraphicsComputer SystemsData Interpretation, StatisticalDatabase Management SystemsGene FrequencyGenetic LinkageGenetic MarkersGenetics, PopulationHumansInformation Storage and RetrievalInformation SystemsPedigreePhenotypeUser-Computer InterfaceConceptsClient/server databaseClient/server architectureData management tasksData analysis tasksUse graphical interfaceServer architectureDatabase applicationsComplex adServer databaseInteractive validationAnalysis tasksGraphical interfaceFile formatManagement tasksLarge datasetsPhenoDBMultipoint linkageGeneric formatHardy-Weinberg ratiosData entryEfficient managementProject managementGenetic marker dataPopulation geneticsTaskDNA Workbench: A Database Package to Manage Regional Physical Mapping
Nadkarni P, Cheung K, Castiglione C, Miller P, Kidd K. DNA Workbench: A Database Package to Manage Regional Physical Mapping. Journal Of Computational Biology 1996, 3: 319-329. PMID: 8811490, DOI: 10.1089/cmb.1996.3.319.Peer-Reviewed Original Research
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
Using a network menu and the UMLS Information Sources Map to facilitate access to online reference materials.
Clyman J, Powsner S, Paton J, Miller P. Using a network menu and the UMLS Information Sources Map to facilitate access to online reference materials. Journal Of The Medical Library Association 1993, 81: 207-16. PMID: 8472006, PMCID: PMC225763.Peer-Reviewed Original ResearchMeSH KeywordsComputer Communication NetworksHumansMEDLINEOnline SystemsSoftwareUnified Medical Language SystemUser-Computer InterfaceConceptsInformation Sources MapUnified Medical Language System (UMLS) projectMedicine's Unified Medical Language System (UMLS) projectInformation systemsHigh-speed computer networksBibliographic retrieval systemOnline information systemOnline information sourcesOnline reference materialRetrieval systemNetwork workstationsComputer networksLocal prototypeComputer technologyInformation servicesSystem projectSource mapsUsersInformation sourcesComputer workstationWorkstationsBiomedical researchersOrder entryNetworkNational LibraryAn information sources map for Occupational and Environmental Medicine: guidance to network-based information through domain-specific indexing.
Silverstein S, Miller P, Cullen M. An information sources map for Occupational and Environmental Medicine: guidance to network-based information through domain-specific indexing. AMIA Annual Symposium Proceedings 1993, 616-20. PMID: 8130548, PMCID: PMC2850650.Peer-Reviewed Original ResearchNetMenu: 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 Research
1992
Online 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 Research
1991
SENEX: a computer-based representation of cellular signal transduction processes in the central nervous system
Ball S, Mah V, Miller P. SENEX: a computer-based representation of cellular signal transduction processes in the central nervous system. Bioinformatics 1991, 7: 175-187. PMID: 2059842, DOI: 10.1093/bioinformatics/7.2.175.Peer-Reviewed Original ResearchConceptsCellular signal transduction processesSignal transduction processesTransduction processesSerine/threonine kinasePossible signal transduction pathwaysSignal transduction pathwaysMammalian central nervous systemThreonine kinaseTransduction pathwaysMultisubunit proteinProtein kinaseTyrosine kinaseKinaseCentral nervous systemNervous systemSenexEnzymeInheritance of attributesEnzymatic reactionsSubunitsProteinSpecific retrievalInheritancePathwayFunction
1990
PATHMASTER: Modelling differential diagnosis as “dynamic competition” between systematic analysis and disease-directed deduction
Frohlich M, Miller P, Morrow J. PATHMASTER: Modelling differential diagnosis as “dynamic competition” between systematic analysis and disease-directed deduction. Journal Of Biomedical Informatics 1990, 23: 499-513. PMID: 2276261, DOI: 10.1016/0010-4809(90)90037-d.Peer-Reviewed Original ResearchKnowledge-based radiologic image retrieval using axes of clinical relevance
Cohn A, Miller P, Fisher P, Mutalik P, Swett H. Knowledge-based radiologic image retrieval using axes of clinical relevance. Journal Of Biomedical Informatics 1990, 23: 199-221. PMID: 2350958, DOI: 10.1016/0010-4809(90)90017-7.Peer-Reviewed Original ResearchMeSH KeywordsExpert SystemsHospital Information SystemsRadiology Information SystemsSoftware DesignSubject HeadingsUser-Computer InterfaceConceptsPrototype knowledge-based systemKnowledge-based systemIntelligent retrievalImage retrievalDomain knowledgeSearch spaceSearch processUser groupsSearch constraintsHeuristicsRetrievalSearch strategyImagesClinicians' needsRadiographic imagesSearchProbable relevanceSystemDomainConstraintsSpecific caseAttributesPreliminary testsKnowledgeNeedThe evaluation of clinical decision support systems: what is necessary versus what is interesting
Miller P, Sittig D. The evaluation of clinical decision support systems: what is necessary versus what is interesting. Informatics For Health And Social Care 1990, 15: 185-190. PMID: 2232954, DOI: 10.3109/14639239009025266.Peer-Reviewed Original ResearchMeSH KeywordsDecision Making, Computer-AssistedEquipment SafetyExpert SystemsSoftware ValidationUser-Computer InterfaceConceptsClinical decision support systemDecision support systemSupport systemMedical computingAssurance of safetySystem knowledgeSystem adviceNumber of purposesVaried fieldsComputingClinical environmentImportant partAssuranceSystemMajor stagesComprehensive validationOverall fieldSafetyAdvicePeriod of useKnowledgeEnvironmentEvaluation