2006
Characterizing disease states from topological properties of transcriptional regulatory networks
Tuck DP, Kluger HM, Kluger Y. Characterizing disease states from topological properties of transcriptional regulatory networks. BMC Bioinformatics 2006, 7: 236. PMID: 16670008, PMCID: PMC1482723, DOI: 10.1186/1471-2105-7-236.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsBiomarkers, TumorComputer SimulationDiagnosis, Computer-AssistedGene Expression ProfilingGene Expression Regulation, NeoplasticHumansModels, GeneticNeoplasmsOligonucleotide Array Sequence AnalysisSignal TransductionTranscription FactorsConceptsTranscriptional regulatory networksRegulatory networksTranscription factorsTranscriptional networksRegulated genesGene deregulationExpression profilesDiseased statesGene regulatory networksCentrality of genesGene expression experimentsGene expression profilesGene expression studiesGene centralityRegulatory linkExpression experimentsExpression studiesGene linksGenesCell typesExpression datasetsGene subsetsDifferential activityNormal cellsRemarkable degree
2003
Spectral Biclustering of Microarray Data: Coclustering Genes and Conditions
Kluger Y, Basri R, Chang JT, Gerstein M. Spectral Biclustering of Microarray Data: Coclustering Genes and Conditions. Genome Research 2003, 13: 703-716. PMID: 12671006, PMCID: PMC430175, DOI: 10.1101/gr.648603.Peer-Reviewed Original ResearchBreast NeoplasmsCentral Nervous System NeoplasmsCerebellar NeoplasmsDatabases, GeneticGene Expression ProfilingGene Expression Regulation, NeoplasticGenes, NeoplasmGliomaHumansLeukemia, Lymphocytic, Chronic, B-CellLymphoma, B-CellLymphoma, FollicularLymphoma, Large B-Cell, DiffuseMedulloblastomaNeoplasms, Germ Cell and EmbryonalOligonucleotide Array Sequence AnalysisPhenotypeReference ValuesTumor Cells, Cultured
2001
Genomic and proteomic analysis of the myeloid differentiation program
Lian Z, Wang L, Yamaga S, Bonds W, Beazer-Barclay Y, Kluger Y, Gerstein M, Newburger P, Berliner N, Weissman S. Genomic and proteomic analysis of the myeloid differentiation program. Blood 2001, 98: 513-524. PMID: 11468144, DOI: 10.1182/blood.v98.3.513.Peer-Reviewed Original ResearchConceptsNew transcription factorMammalian cell typesMurine bone marrow cellsGene expression patternsDominant-negative retinoic acid receptorGene expression changesTranscription regulatory factorsMyeloid differentiation programRetinoic acid receptorsTranscription factorsProteomic analysisDifferentiation programArray hybridizationDifferential displayExpression patternsExpression changesPromyelocytic cell lineRegulatory factorsMyeloid differentiationLevels of mRNACell typesMolecular levelExtensive catalogueMicroM retinoic acidBone marrow cells