2010
DSGeo: Software tools for cross-platform analysis of gene expression data in GEO
Lacson R, Pitzer E, Kim J, Galante P, Hinske C, Ohno-Machado L. DSGeo: Software tools for cross-platform analysis of gene expression data in GEO. Journal Of Biomedical Informatics 2010, 43: 709-715. PMID: 20435161, PMCID: PMC2934864, DOI: 10.1016/j.jbi.2010.04.007.Peer-Reviewed Original ResearchConceptsAggregation of dataData loaderRelational databaseGene expression dataUser preferencesData browserData browsingCross-platform dataSoftware toolsSeamless integrationCross-platform analysisGroups of dataQueriesExpression dataPublic gene expression dataSpecific sample characteristicsLarge resourcesBrowserToolBrowsingAnnotatingUsersRetrievalApplicationsPlatform
2002
Visualization and evaluation of clusters for exploratory analysis of gene expression data
Kim J, Kohane I, Ohno-Machado L. Visualization and evaluation of clusters for exploratory analysis of gene expression data. Journal Of Biomedical Informatics 2002, 35: 25-36. PMID: 12415724, DOI: 10.1016/s1532-0464(02)00001-1.Peer-Reviewed Original ResearchConceptsClustering algorithmDifferent clustering algorithmsPopular clustering algorithmNew clustering algorithmComprehensive data visualizationGene expression data analysisData visualization strategiesExpression data analysisEvaluation of clustersData visualizationSoftware toolsCluster qualityCluster consistencyAlgorithmActual implementationData setsGene expression dataQuality measuresVisualizationPromising resultsFrameworkData analysisObjective evaluationUsersExpression dataBuilding an asynchronous web-based tool for machine learning classification.
Weber G, Vinterbo S, Ohno-Machado L. Building an asynchronous web-based tool for machine learning classification. AMIA Annual Symposium Proceedings 2002, 869-73. PMID: 12463949, PMCID: PMC2244467.Peer-Reviewed Original ResearchConceptsClassification methodDownloadable software toolsWeb-based applicationSupervised learning methodsSupport vector machineNearest neighbor classifierWeb-based toolWeb-based analysis toolWeb applicationBioinformatics LaboratorySoftware toolsFree softwareLearning methodsSophisticated algorithmsVector machineNeighbor classifierLinear discriminant analysisAnalysis toolsDisease classificationClassification treesLimited budgetShort amountRemote locationsHigh-throughput gene expression dataGene expression data
1999
A framework and tools for authoring, editing, documenting, sharing, searching, navigating, and executing computer-based clinical guidelines.
Greenes R, Boxwala A, Sloan W, Ohno-Machado L, Deibel S. A framework and tools for authoring, editing, documenting, sharing, searching, navigating, and executing computer-based clinical guidelines. AMIA Annual Symposium Proceedings 1999, 261-5. PMID: 10566361, PMCID: PMC2232593.Peer-Reviewed Original ResearchConceptsComputer-based clinical guidelineInterMed CollaboratoryAutomatic executionSoftware toolsGuideline representationDelivery networkInternet distributionSharingSpecificationXMLFrameworkGLIFNavigationExecutionCollaboratoryToolNetworkImplementationRepresentationSuiteEditingEligibility determinationDocumenting