2014
Dynamic expression profiling of type I and type III interferon‐stimulated hepatocytes reveals a stable hierarchy of gene expression
Bolen CR, Ding S, Robek MD, Kleinstein SH. Dynamic expression profiling of type I and type III interferon‐stimulated hepatocytes reveals a stable hierarchy of gene expression. Hepatology 2014, 59: 1262-1272. PMID: 23929627, PMCID: PMC3938553, DOI: 10.1002/hep.26657.Peer-Reviewed Original ResearchConceptsGene expressionExpression profilingIndividual interferonMicroarray-based gene expression profilingDynamic expression profilingGene expression profilingSimilar signaling cascadesPotential specific rolesPromoter analysisTranscriptional responseHuh7 hepatoma cellsGene inductionExpression hierarchySignaling cascadesIFN-α signalingAntiviral stateNegative feedback mechanismType IPrimary human hepatocytesHepatoma cellsISG inductionSpecific roleGenesInterferon-stimulated gene inductionSuperior clinical activity
2013
Reconstruction of regulatory networks through temporal enrichment profiling and its application to H1N1 influenza viral infection
Zaslavsky E, Nudelman G, Marquez S, Hershberg U, Hartmann BM, Thakar J, Sealfon SC, Kleinstein SH. Reconstruction of regulatory networks through temporal enrichment profiling and its application to H1N1 influenza viral infection. BMC Bioinformatics 2013, 14: s1. PMID: 23734902, PMCID: PMC3633009, DOI: 10.1186/1471-2105-14-s6-s1.Peer-Reviewed Original ResearchConceptsRegulatory networksTranscription factorsExtensive genetic reprogrammingUnderlying transcriptional networksGene expression patternsAntiviral responseGene expression changesNovel antiviral factorTranscriptional cascadeTranscriptional networksDendritic cellsPromoter analysisRegulatory connectionsGenetic reprogrammingTranscriptional programsExpression patternsNetwork reconstruction methodsExpression changesCellular responsesExpression kineticsMonocyte-derived human dendritic cellsAntiviral stateHuman monocyte-derived dendritic cellsSuch virus infectionsImmune antagonists