2022
The Immune Signatures data resource, a compendium of systems vaccinology datasets
Diray-Arce J, Miller HER, Henrich E, Gerritsen B, Mulè MP, Fourati S, Gygi J, Hagan T, Tomalin L, Rychkov D, Kazmin D, Chawla DG, Meng H, Dunn P, Campbell J, Sarwal M, Tsang J, Levy O, Pulendran B, Sekaly R, Floratos A, Gottardo R, Kleinstein S, Suárez-Fariñas M. The Immune Signatures data resource, a compendium of systems vaccinology datasets. Scientific Data 2022, 9: 635. PMID: 36266291, PMCID: PMC9584267, DOI: 10.1038/s41597-022-01714-7.Peer-Reviewed Original ResearchConceptsHuman Immunology Project ConsortiumDifferent vaccinesCost-effective public health interventionsGene Expression OmnibusInfection-induced morbiditySystems immunology approachPublic health interventionsMultiple relevant studiesVaccine responsesHealth interventionsVaccineRelevant studiesVaccine discoveryUnderstanding of mechanismsMolecular signaturesImmPortSystems immunologyImmunologyStudy dataTraditional immunologyMorbidityCohortImmunogenicityMortalityRelease
2017
Multicohort analysis reveals baseline transcriptional predictors of influenza vaccination responses
Avey S, Cheung F, Fermin D, Frelinger J, Gaujoux R, Gottardo R, Khatri P, Kleinstein S, Kotliarov Y, Meng H, Sauteraud R, Shen-Orr S, Tsang J, Vallania F, Anguiano E, Baisch J, Baldwin N, Belshe R, Blevins T, Chaussabel D, Davis M, Fikrig E, Grill D, Hafler D, Henrich E, Joshi S, Kaech S, Kennedy R, Mohanty S, Montgomery R, Oberg A, Obermoser G, Ovsyannikova I, Palucka A, Pascual V, Poland G, Pulendran B, Reinherz E, Shaw A, Siconolfi B, Stuart K, Tsang S, Ueda I, Wilson J, Zapata H. Multicohort analysis reveals baseline transcriptional predictors of influenza vaccination responses. Science Immunology 2017, 2 PMID: 28842433, PMCID: PMC5800877, DOI: 10.1126/sciimmunol.aal4656.Peer-Reviewed Original ResearchAntibody responseInfluenza vaccination responsesVaccination responseHuman Immunology Project ConsortiumInfluenza vaccinationMulticohort analysisOlder individualsLower vaccine responsesSuccessful vaccination responseAnnual influenza vaccinationYoung individualsSubstantial antibody responseInflammatory gene signatureLarge independent studiesIndividuals 6 monthsGood antibody responsePublic health successImmune profiling studiesVaccination cohortVaccine responsesCell subsetsSmall cohortWorse responseVaccinationHealth success
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
2014
Computational resources for high-dimensional immune analysis from the Human Immunology Project Consortium
Brusic V, Gottardo R, Kleinstein SH, Davis MM. Computational resources for high-dimensional immune analysis from the Human Immunology Project Consortium. Nature Biotechnology 2014, 32: 146-148. PMID: 24441472, PMCID: PMC4294529, DOI: 10.1038/nbt.2777.Peer-Reviewed Original Research