2018
The CAIRR Pipeline for Submitting Standards-Compliant B and T Cell Receptor Repertoire Sequencing Studies to the National Center for Biotechnology Information Repositories
Bukhari SAC, O’Connor M, Martínez-Romero M, Egyedi AL, Willrett D, Graybeal J, Musen MA, Rubelt F, Cheung KH, Kleinstein SH. The CAIRR Pipeline for Submitting Standards-Compliant B and T Cell Receptor Repertoire Sequencing Studies to the National Center for Biotechnology Information Repositories. Frontiers In Immunology 2018, 9: 1877. PMID: 30166985, PMCID: PMC6105692, DOI: 10.3389/fimmu.2018.01877.Peer-Reviewed Original ResearchConceptsMetadata qualityInformation repositoryAdaptive immune receptor repertoiresLarge-scale dataWeb–based templateSoftware frameworkData annotationData standardsEffective sharingAIRR-seq dataReceptor repertoireData submittersCell receptorSequence filesAdaptive immune responsesRepositoryImmune receptor repertoiresMetadataData setsT cell receptorArchive databaseB cell receptorCEDAR
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