2018
Reconstructing differentiation networks and their regulation from time series single-cell expression data
Ding J, Aronow BJ, Kaminski N, Kitzmiller J, Whitsett JA, Bar-Joseph Z. Reconstructing differentiation networks and their regulation from time series single-cell expression data. Genome Research 2018, 28: 383-395. PMID: 29317474, PMCID: PMC5848617, DOI: 10.1101/gr.225979.117.Peer-Reviewed Original ResearchTranscription factorsSingle-cell expression dataSingle-cell RNA-seq dataRNA-seq dataDiverse cell populationsGene expression levelsDifferent cell typesStages of organogenesisCell fateDescendant cellsDifferentiation networkExpression similarityKey regulatorRegulatory informationExpression dataCell typesProgenitor cellsCell trajectoriesExpression levelsCell populationsDevelopmental dataCellsLineagesOrganogenesisRegulator
2007
Chromosomal aberrations and gene expression profiles in non-small cell lung cancer
Dehan E, Ben-Dor A, Liao W, Lipson D, Frimer H, Rienstein S, Simansky D, Krupsky M, Yaron P, Friedman E, Rechavi G, Perlman M, Aviram-Goldring A, Izraeli S, Bittner M, Yakhini Z, Kaminski N. Chromosomal aberrations and gene expression profiles in non-small cell lung cancer. Lung Cancer 2007, 56: 175-184. PMID: 17258348, DOI: 10.1016/j.lungcan.2006.12.010.Peer-Reviewed Original ResearchConceptsDNA replicationCopy numberWnt/beta-catenin pathwaySet of genesGene Ontology annotationsFunctional enrichment analysisExpression levelsAmplification of 3qGene expression profilesBeta-catenin pathwayGene expression analysisGene expression profilingArray CGHMatrix metalloproteasesGene expression levelsConcordant changesCopy number changesDNA copy numberActing genesArray comparative genomic hybridizationOntology annotationsComparative genomic hybridizationGenomic contentReal-time quantitative PCRExpression analysis