2018
Patient-derived conditionally reprogrammed cells maintain intra-tumor genetic heterogeneity
Correa BRS, Hu J, Penalva LOF, Schlegel R, Rimm DL, Galante PAF, Agarwal S. Patient-derived conditionally reprogrammed cells maintain intra-tumor genetic heterogeneity. Scientific Reports 2018, 8: 4097. PMID: 29511269, PMCID: PMC5840339, DOI: 10.1038/s41598-018-22427-1.Peer-Reviewed Original ResearchConceptsDrug target identificationNon-small cell lung cancerCancer cell biologyIntra-tumor genetic heterogeneityDrug discovery effortsMutant-allele tumor heterogeneity (MATH) scoreCell biologyWhole-exome sequencingCell heterogeneityNumber variationsPatient-derived cell culturesDiscovery effortsCR cellsCancer cell linesIntra-tumoral heterogeneityGenetic heterogeneityCell linesExome sequencingTarget identificationCell lung cancerLung cancer modelBiologyCell culturesMolecular characteristicsPrimary cultures
2011
Comparative Prognostic Value of Epidermal Growth Factor Quantitative Protein Expression Compared with FISH for Head and Neck Squamous Cell Carcinoma
Pectasides E, Rampias T, Kountourakis P, Sasaki C, Kowalski D, Fountzilas G, Zaramboukas T, Rimm D, Burtness B, Psyrri A. Comparative Prognostic Value of Epidermal Growth Factor Quantitative Protein Expression Compared with FISH for Head and Neck Squamous Cell Carcinoma. Clinical Cancer Research 2011, 17: 2947-2954. PMID: 21355076, DOI: 10.1158/1078-0432.ccr-10-2040.Peer-Reviewed Original ResearchCarcinomaCarcinoma, Squamous CellEpidermal Growth FactorFemaleGene DosageGene Expression Regulation, NeoplasticHead and Neck NeoplasmsHumansIn Situ Hybridization, FluorescenceMaleNeoplasms, Squamous CellPredictive Value of TestsPrognosisProteinsSquamous Cell Carcinoma of Head and NeckSurvival AnalysisTissue Array Analysis
2009
Gab2-Mediated Signaling Promotes Melanoma Metastasis
Horst B, Gruvberger-Saal SK, Hopkins BD, Bordone L, Yang Y, Chernoff KA, Uzoma I, Schwipper V, Liebau J, Nowak NJ, Brunner G, Owens D, Rimm DL, Parsons R, Celebi JT. Gab2-Mediated Signaling Promotes Melanoma Metastasis. American Journal Of Pathology 2009, 174: 1524-1533. PMID: 19342374, PMCID: PMC2671382, DOI: 10.2353/ajpath.2009.080543.Peer-Reviewed Original ResearchMeSH KeywordsAdaptor Proteins, Signal TransducingBiomarkers, TumorBlotting, WesternCell MovementChromosomes, Artificial, BacterialComparative Genomic HybridizationFluorescent Antibody TechniqueGene DosageHumansIn Situ Hybridization, FluorescenceMelanomaNeoplasm InvasivenessNeoplasm MetastasisOligonucleotide Array Sequence AnalysisPolymorphism, Single NucleotideReverse Transcriptase Polymerase Chain ReactionSignal TransductionTissue Array AnalysisConceptsPI3K-Akt pathwayBacterial artificial chromosome array comparative genomic hybridizationInvasive potentialGrowth factor independenceSingle nucleotide polymorphism arrayCritical biological featuresHyperactivation of AKTMelanoma tumor progressionNucleotide polymorphism arrayTumor cell migrationArray comparative genomic hybridizationAdaptor proteinComparative genomic hybridizationRas-ERKFactor independenceMetastatic melanoma samplesMelanoma cell linesGab2Polymorphism arrayCopy numberCell migrationHuman cancersUndefined roleWide searchGenomic hybridization
2005
Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma
Garraway LA, Widlund HR, Rubin MA, Getz G, Berger AJ, Ramaswamy S, Beroukhim R, Milner DA, Granter SR, Du J, Lee C, Wagner SN, Li C, Golub TR, Rimm DL, Meyerson ML, Fisher DE, Sellers WR. Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma. Nature 2005, 436: 117-122. PMID: 16001072, DOI: 10.1038/nature03664.Peer-Reviewed Original ResearchMeSH KeywordsCell Line, TumorCell LineageCell SurvivalChromosomes, Human, Pair 3Disease ProgressionDNA-Binding ProteinsGene AmplificationGene DosageGene Expression Regulation, NeoplasticGenomicsHumansIn Situ Hybridization, FluorescenceMelanomaMicrophthalmia-Associated Transcription FactorOncogenesPolymerase Chain ReactionPolymorphism, Single NucleotideTranscription FactorsConceptsMITF gene expressionDNA amplification eventsIntegrative genomic analysisLineage-survival oncogenePossible drug targetsGenomics effortsGenomic analysisGenetic dataGene expressionMelanoma formationAmplification eventsMelanoma genesDrug targetsCancer cell linesGenetic alterationsCell linesMITFMelanoma cellsHuman melanomaMalignant melanomaGenesMelanomaOncogeneExpressionCells"Lineage Addiction" in Human Cancer: Lessons from Integrated Genomics
GARRAWAY L, WEIR B, ZHAO X, WIDLUND H, BEROUKHIM R, BERGER A, RIMM D, RUBIN M, FISHER D, MEYERSON M, SELLERS W. "Lineage Addiction" in Human Cancer: Lessons from Integrated Genomics. Cold Spring Harbor Symposia On Quantitative Biology 2005, 70: 25-34. PMID: 16869735, DOI: 10.1101/sqb.2005.70.016.Peer-Reviewed Original ResearchMeSH KeywordsChromosomes, Human, Pair 3Cluster AnalysisDNA, NeoplasmGene AmplificationGene DosageGene Expression ProfilingGenomicsHumansIn Situ Hybridization, FluorescenceMelanomaMicrophthalmia-Associated Transcription FactorNeoplasmsOligonucleotide Array Sequence AnalysisOncogenesPolymorphism, Single NucleotideConceptsLineage addictionGenome-scale data setsHigh-density single nucleotide polymorphism arraysNovel cancer genesSingle nucleotide polymorphism arrayDNA microarray platformCell line collectionCell linesAdditional functional studiesTumor survival mechanismsSNP array dataDetailed genomic characterizationGene expression dataDistinct tissue typesIntegrated GenomicCopy number alterationsTissue of originGenome characterizationSurvival mechanismCancer genesGenomic characterizationMelanoma cell linesSurvival pathwaysExpression dataProgression of tumors