2021
Ultrafast homomorphic encryption models enable secure outsourcing of genotype imputation
Kim M, Harmanci A, Bossuat J, Carpov S, Cheon J, Chillotti I, Cho W, Froelicher D, Gama N, Georgieva M, Hong S, Hubaux J, Kim D, Lauter K, Ma Y, Ohno-Machado L, Sofia H, Son Y, Song Y, Troncoso-Pastoriza J, Jiang X. Ultrafast homomorphic encryption models enable secure outsourcing of genotype imputation. Cell Systems 2021, 12: 1108-1120.e4. PMID: 34464590, PMCID: PMC9898842, DOI: 10.1016/j.cels.2021.07.010.Peer-Reviewed Original ResearchConceptsHomomorphic encryption techniqueResource-intensive computationsSecure outsourcingGenomic data analysisData securityEncryption modelEncryption techniquePrivacy concernsSource codeMemory requirementsGenetic data analysisData analysisComparable accuracyFundamental stepGenotype imputationImputationDownloadSecurityOutsourcingComputationCodeServicesRequirementsAccuracyMethod
2014
MAGI: a Node.js web service for fast microRNA-Seq analysis in a GPU infrastructure
Kim J, Levy E, Ferbrache A, Stepanowsky P, Farcas C, Wang S, Brunner S, Bath T, Wu Y, Ohno-Machado L. MAGI: a Node.js web service for fast microRNA-Seq analysis in a GPU infrastructure. Bioinformatics 2014, 30: 2826-2827. PMID: 24907367, PMCID: PMC4173015, DOI: 10.1093/bioinformatics/btu377.Peer-Reviewed Original ResearchConceptsWeb servicesWeb reportsLarge input filesNovel feature extractionEnd performance improvementsExploration of resultsGPU infrastructureInteractive visualizationJavaScript frameworkParallel computingGPU devicesHypertext PreprocessorCUDA CFeature extractionDrop operationInput filesPlot generationSalient featuresPerformance improvementInfrastructureNodesServicesData analysisComputingBrowser
2013
WebGLORE: a Web service for Grid LOgistic REgression
Jiang W, Li P, Wang S, Wu Y, Xue M, Ohno-Machado L, Jiang X. WebGLORE: a Web service for Grid LOgistic REgression. Bioinformatics 2013, 29: 3238-3240. PMID: 24072732, PMCID: PMC3842761, DOI: 10.1093/bioinformatics/btt559.Peer-Reviewed Original ResearchConceptsWeb servicesHypertext Transfer Protocol SecurePrivacy-preserving constructionFree Software FoundationGNU General Public LicenseUse web serviceFree web serviceGeneral Public LicenseDistributed datasetsTrusted serverProtocol SecureSoftware FoundationPublic LicensePHP technologyInformation exchangeBiomedical researchersLocal statisticsServicesServletsServerSecureAjaxGlobal logistic regression modelDatasetGlobal modelEXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learning
Wang S, Jiang X, Wu Y, Cui L, Cheng S, Ohno-Machado L. EXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learning. Journal Of Biomedical Informatics 2013, 46: 480-496. PMID: 23562651, PMCID: PMC3676314, DOI: 10.1016/j.jbi.2013.03.008.Peer-Reviewed Original ResearchConceptsHigh-level guaranteesOnline model learningSensitive informationModel learningEntire dataOnline learningAbsence of participantsMore flexibilitySame performanceExperimental resultsLearningCommunicationServerInformationGuaranteesModel updatingPosterior distributionServicesClientsUpdatingFrameworkFlexibilityModelPerformance