2023
Predictive overfitting in immunological applications: Pitfalls and solutions
Gygi J, Kleinstein S, Guan L. Predictive overfitting in immunological applications: Pitfalls and solutions. Human Vaccines & Immunotherapeutics 2023, 19: 2251830. PMID: 37697867, PMCID: PMC10498807, DOI: 10.1080/21645515.2023.2251830.Peer-Reviewed Original Research
2018
CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata
Bukhari SAC, Martínez-Romero M, O’ Connor M, Egyedi AL, Willrett D, Graybeal J, Musen MA, Cheung KH, Kleinstein SH. CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata. BMC Bioinformatics 2018, 19: 268. PMID: 30012108, PMCID: PMC6048706, DOI: 10.1186/s12859-018-2247-6.Peer-Reviewed Original ResearchConceptsMetadata entriesBrowser extensionWeb formsData repositoryOntology-based metadataWeb page contentBiomedical data repositoriesWeb-based interfacePage contentPublic data repositoriesRelevant ontologiesHTML formatSource datasetIndividual repositoriesNCBO BioPortalCollected metadataExperimental metadataScientific metadataMetadataOndemandPre-defined listOntologyRepositoryInput fieldDatasetCEDAR
Musen M, Sansone S, Cheung K, Kleinstein S, Crafts M, Schürer S, Graybeal J. CEDAR. 2018, 427-428. DOI: 10.1145/3184558.3186200.Peer-Reviewed Original ResearchPublic repositoriesScientific data setsLibrary of templatesData annotationExperimental metadataRelevant datasetsMetadataWeb-based methodsOnline datasetsOwn devicesRepositoryDatasetData setsAuthoringScientific ontologyMajor research projectOntologyRetrievalResearch projectAnnotationLack of standardizationScientific communityTechnologyTemplateSet
2015
The center for expanded data annotation and retrieval
Musen MA, Bean CA, Cheung KH, Dumontier M, Durante KA, Gevaert O, Gonzalez-Beltran A, Khatri P, Kleinstein SH, O’Connor M, Pouliot Y, Rocca-Serra P, Sansone SA, Wiser JA, team A. The center for expanded data annotation and retrieval. Journal Of The American Medical Informatics Association 2015, 22: 1148-1152. PMID: 26112029, PMCID: PMC5009916, DOI: 10.1093/jamia/ocv048.Peer-Reviewed Original ResearchConceptsData annotationBiomedical datasetsData management environmentData discoveryMetadata repositoryMetadata authoringData reuseEnd solutionMetadata templateData repositoryData entryRepositoryMetadataAnnotationDatasetComputational techniquesRetrievalExperimental datasetsProject consortiumStandard templateHuman Immunology Project ConsortiumAuthoringDifferent kindsDevelopersPossible refinements