2022
Protein and miRNA profile of circulating extracellular vesicles in patients with primary sclerosing cholangitis
Povero D, Tameda M, Eguchi A, Ren W, Kim J, Myers R, Goodman Z, Harrison S, Sanyal A, Bosch J, Ohno-Machado L, Feldstein A. Protein and miRNA profile of circulating extracellular vesicles in patients with primary sclerosing cholangitis. Scientific Reports 2022, 12: 3027. PMID: 35194091, PMCID: PMC8863778, DOI: 10.1038/s41598-022-06809-0.Peer-Reviewed Original ResearchConceptsSmall non-coding RNAsExtracellular vesiclesNon-coding RNAsNovel miRNAsControl subjectsFurther molecular characterizationMiRNA sequence analysisLiver-specific markersProtein profilingMiRNA cargoMolecular characterizationHuman diseasesCurrent serum markersNovel surrogate biomarkersPrimary sclerosing cholangitisCholestatic liver diseaseHealthy control subjectsMiRNA profilesProteinCell specificityDifferential centrifugationMiRNAsPSC patientsSclerosing cholangitisLiver disease
2012
Selecting cases for whom additional tests can improve prognostication.
Jiang X, Kim J, Wu Y, Wang S, Ohno-Machado L. Selecting cases for whom additional tests can improve prognostication. AMIA Annual Symposium Proceedings 2012, 2012: 1260-8. PMID: 23304404, PMCID: PMC3540468.Peer-Reviewed Original Research
2010
Effect of data combination on predictive modeling: a study using gene expression data.
Osl M, Dreiseitl S, Kim J, Patel K, Baumgartner C, Ohno-Machado L. Effect of data combination on predictive modeling: a study using gene expression data. AMIA Annual Symposium Proceedings 2010, 2010: 567-71. PMID: 21347042, PMCID: PMC3041313.Peer-Reviewed Original ResearchAssessing the quality of annotations in asthma gene expression experiments
Lacson R, Mbagwu M, Yousif H, Ohno-Machado L. Assessing the quality of annotations in asthma gene expression experiments. BMC Bioinformatics 2010, 11: s8. PMID: 21044366, PMCID: PMC2967749, DOI: 10.1186/1471-2105-11-s9-s8.Peer-Reviewed Original Research
2002
Analysis of matched mRNA measurements from two different microarray technologies
Kuo W, Jenssen T, Butte A, Ohno-Machado L, Kohane I. Analysis of matched mRNA measurements from two different microarray technologies. Bioinformatics 2002, 18: 405-412. PMID: 11934739, DOI: 10.1093/bioinformatics/18.3.405.Peer-Reviewed Original ResearchComparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis.
Ohno-Machado L, Vinterbo S, Dreiseitl S, Jenssen T, Kuo W. Comparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis. AMIA Annual Symposium Proceedings 2002, 572-6. PMID: 12463888, PMCID: PMC2244491.Peer-Reviewed Original ResearchBuilding an asynchronous web-based tool for machine learning classification.
Weber G, Vinterbo S, Ohno-Machado L. Building an asynchronous web-based tool for machine learning classification. AMIA Annual Symposium Proceedings 2002, 869-73. PMID: 12463949, PMCID: PMC2244467.Peer-Reviewed Original ResearchConceptsClassification methodDownloadable software toolsWeb-based applicationSupervised learning methodsSupport vector machineNearest neighbor classifierWeb-based toolWeb-based analysis toolWeb applicationBioinformatics LaboratorySoftware toolsFree softwareLearning methodsSophisticated algorithmsVector machineNeighbor classifierLinear discriminant analysisAnalysis toolsDisease classificationClassification treesLimited budgetShort amountRemote locationsHigh-throughput gene expression dataGene expression dataGene expression levels in different stages of progression in oral squamous cell carcinoma.
Kuo W, Jenssen T, Park P, Lingen M, Hasina R, Ohno-Machado L. Gene expression levels in different stages of progression in oral squamous cell carcinoma. AMIA Annual Symposium Proceedings 2002, 415-9. PMID: 12474876, PMCID: PMC2244435.Peer-Reviewed Original ResearchMeSH KeywordsCarcinoma, Squamous CellDisease ProgressionGene ExpressionHumansMouth NeoplasmsNeoplasm StagingConceptsOral squamous cell carcinomaExpression levelsGene expression studiesGene expression dataGene expression levelsChromosome domainsCancer samplesExpression studiesSquamous cell carcinomaMolecular mechanismsExpression dataGenesMolecular levelProgression of OSCCCell carcinomaGenetic featuresCancer typesCommon cancer typesImportant insightsSignificant differencesSmall panelPatient samplesDifferent stagesProgressionSample types