2017
Performance of objective functions and optimisation procedures for parameter estimation in system biology models
Degasperi A, Fey D, Kholodenko BN. Performance of objective functions and optimisation procedures for parameter estimation in system biology models. Npj Systems Biology And Applications 2017, 3: 20. PMID: 28804640, PMCID: PMC5548920, DOI: 10.1038/s41540-017-0023-2.Peer-Reviewed Original ResearchUnknown parametersObjective functionParameter estimationLarge dynamic modelsSpeed of convergenceMathematical modellingSystems biology modelsSimulation approachParameter spaceDynamic systemsOptimization algorithmOptimization procedureParameter estimatesNumber of directionsBiology modelsDynamic modelConvergenceReasonable amountScaling factorsSimulationsAlgorithmApproach increasesNumerous parametersEstimationParameters
2002
Control Analysis for Autonomously Oscillating Biochemical Networks
Reijenga K, Westerhoff H, Kholodenko B, Snoep J. Control Analysis for Autonomously Oscillating Biochemical Networks. Biophysical Journal 2002, 82: 99-108. PMID: 11751299, PMCID: PMC1302452, DOI: 10.1016/s0006-3495(02)75377-0.Peer-Reviewed Original ResearchConceptsSummation theoremYeast glycolytic oscillationsLimit cycle oscillationsDynamic systemsControl coefficientsBiochemical networksCycle oscillationsOscillatory propertiesControl analysisMetabolic control analysisTheoremGlycolytic oscillationsTime domainOscillationsModel outputDiscrete Fourier transformFrequency domainSteady stateData setsQualitative way
1996
Control of Dynamics and Steady State: Applications to Multidrug Resistance
Westerhoff H, Bier M, Molenaar D, Spoelstra E, Lankelma J, Jongsma A, Jensen P, Richard P, Kholodenko B. Control of Dynamics and Steady State: Applications to Multidrug Resistance. 1996, 25-31. DOI: 10.1007/978-3-322-85017-1_3.Peer-Reviewed Original Research