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 fieldDataset
2015
Interactive Big Data Resource to Elucidate Human Immune Pathways and Diseases
Gorenshteyn D, Zaslavsky E, Fribourg M, Park CY, Wong AK, Tadych A, Hartmann BM, Albrecht RA, García-Sastre A, Kleinstein SH, Troyanskaya OG, Sealfon SC. Interactive Big Data Resource to Elucidate Human Immune Pathways and Diseases. Immunity 2015, 43: 605-614. PMID: 26362267, PMCID: PMC4753773, DOI: 10.1016/j.immuni.2015.08.014.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsBayes TheoremComputational BiologyGene Regulatory NetworksHost-Pathogen InteractionsHumansImmune SystemImmune System DiseasesInternetProtein Interaction MappingProtein Interaction MapsReproducibility of ResultsSignal TransductionSupport Vector MachineTranscriptomeVirus DiseasesConceptsPublic high-throughput dataGenome-scale experimentsDisease-associated genesHigh-throughput datasetsHigh-throughput dataData-driven hypothesesGenetic studiesImmune pathwaysGenesImmunological diseasesFunctional relationshipBiomedical research effortsImportant interactionsMolecular entitiesImmune systemHuman immune systemProteinExponential growthPathwayData resourcesBayesian integrationRelevant insightsGrowthCompendiumIdentification
2011
Detecting selection in immunoglobulin sequences
Uduman M, Yaari G, Hershberg U, Stern JA, Shlomchik MJ, Kleinstein SH. Detecting selection in immunoglobulin sequences. Nucleic Acids Research 2011, 39: w499-w504. PMID: 21665923, PMCID: PMC3125793, DOI: 10.1093/nar/gkr413.Peer-Reviewed Original Research