2018
The number of titrated microRNA species dictates ceRNA regulation
Chiu H, Martínez M, Komissarova E, Llobet-Navas D, Bansal M, Paull E, Silva J, Yang X, Sumazin P, Califano A. The number of titrated microRNA species dictates ceRNA regulation. Nucleic Acids Research 2018, 46: gky286-. PMID: 29684207, PMCID: PMC5961349, DOI: 10.1093/nar/gky286.Peer-Reviewed Original ResearchConceptsCo-regulationPrediction of gene expressionMiRNA speciesTumor suppressor PTENCeRNA regulationGene expressionCeRNA interactionsMicroRNA speciesBiochemical assaysMultiple miRNAsSpeciesOncogene CCND1Non-tumour contextsRegulating microRNAsMiRNAsInteraction kineticsEndogenous RNAIndependent tumorsCeRNA networkHIF1AInteractomeCeRNAGenesRNAOncogene
2017
High-throughput validation of ceRNA regulatory networks
Chiu H, Martínez M, Bansal M, Subramanian A, Golub T, Yang X, Sumazin P, Califano A. High-throughput validation of ceRNA regulatory networks. BMC Genomics 2017, 18: 418. PMID: 28558729, PMCID: PMC5450082, DOI: 10.1186/s12864-017-3790-7.Peer-Reviewed Original ResearchConceptsCeRNA interactionsMiRNA targetsCancer genesCompetitive endogenous RNAHigh-throughput validationIndirect regulatory influencesCellular contextMiRNA activityTumor contextMCF7 cellsTarget abundanceGenesPhysiological relevanceExperimental assaysCompetitive endogenous RNA networkAbundanceConclusionsOur resultsPredicted targetsTCGA profileMiRNAsRegulatory influenceEndogenous RNAResultsToRNABackgroundMicroRNAs
2010
Messenger RNA fluctuations and regulatory RNAs shape the dynamics of a negative feedback loop
Martínez M, Soriano J, Tlusty T, Pilpel Y, Furman I. Messenger RNA fluctuations and regulatory RNAs shape the dynamics of a negative feedback loop. Physical Review E 2010, 81: 031924. PMID: 20365787, DOI: 10.1103/physreve.81.031924.Peer-Reviewed Original ResearchConceptsSingle-cell levelRegulatory RNAsGene expression variabilityIndividual cellsPost-transcriptional regulationNoncoding regulatory RNAsCell population levelNegative feedback loopSingle-cell experimentsRegulatory networksRNA transcriptsRepress translationRegulatory transcriptsPost-transcriptionallyExpression variabilityRNAStochastic eventsMessenger RNATranscriptionProtein expressionMessengerCell populationsPopulation levelCellsFeedback loop