Impact of measurement noise, experimental design, and estimation methods on Modular Response Analysis based network reconstruction
Thomaseth C, Fey D, Santra T, Rukhlenko OS, Radde NE, Kholodenko BN. Impact of measurement noise, experimental design, and estimation methods on Modular Response Analysis based network reconstruction. Scientific Reports 2018, 8: 16217. PMID: 30385767, PMCID: PMC6212399, DOI: 10.1038/s41598-018-34353-3.Peer-Reviewed Original ResearchConceptsModular Response AnalysisNetwork reconstructionSteady-state response curvesStatistical conceptsMeasurement noisePropagation of noiseNoise settingsEstimation methodNetwork structureTerms of accuracyLarge perturbationsResponse analysisDifferent replicatesPerturbation dataRegression strategyNoiseReconstructing static and dynamic models of signaling pathways using Modular Response Analysis
Santra T, Rukhlenko O, Zhernovkov V, Kholodenko B. Reconstructing static and dynamic models of signaling pathways using Modular Response Analysis. Current Opinion In Systems Biology 2018, 9: 11-21. DOI: 10.1016/j.coisb.2018.02.003.Peer-Reviewed Original ResearchModular Response AnalysisNetwork reconstruction methodsPhysics-based methodBiochemical pathwaysBiological networksNetwork reconstructionTopological modelDynamic modelResponse analysisNetwork modulesCertain conditionsPathwayReconstruction methodMechanistic modelEntire networkModelCore theoryReformulationPerturbationsTheorySufficient numberNetworkGlobal responseDirection