Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems

Andreas Raue, Bernhard Steiert, Max Schelker, +17

Bioinformatics

Driving the Model to Its Limit: Profile Likelihood Based Model Reduction

Tim Maiwald, Helge Hass, Bernhard Steiert, +8

PLoS ONE

Parameter EstimationEngineeringModel ComplexityData ScienceBiostatistics +17

Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach

Pablo Meyer, Thomas Cokelaer, Deepak Chandran, +10

BMC Systems Biology

Experimental Design for Parameter Estimation of Gene Regulatory Networks

Bernhard Steiert, Andreas Raue, Jens Timmer, +1

PLoS ONE

BioinformaticsEngineeringBiological NetworkComputational BiologyDream6 Estimation +11

Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models

Jonathan R. Karr, Jeremy Zucker, Andreas Raue, +11

PLoS Computational Biology

Parameter EstimationEngineeringGenomicsTrajectory AnalysisWhole-cell Models +20

Resolving the Combinatorial Complexity of Smad Protein Complex Formation and Its Link to Gene Expression

Philippe Lucarelli, Marcel Schilling, Clemens Kreutz, +18

Cell Systems

Encoding Growth Factor Identity in the Temporal Dynamics of FOXO3 under the Combinatorial Control of ERK and AKT Kinases

Somponnat Sampattavanich, Bernhard Steiert, Bernhard Kramer, +3

Cell Systems

Akt KinasesCombinatorial ControlSignal TransductionSignaling PathwayCell Regulation +11

Models and Machines: How Deep Learning Will Take Clinical Pharmacology to the Next Level

Lucy Hutchinson, Bernhard Steiert, Antoine Soubret, +5

CPT Pharmacometrics & Systems Pharmacology

Identification of Cell Type-Specific Differences in Erythropoietin Receptor Signaling in Primary Erythroid and Lung Cancer Cells

Ruth Merkle, Bernhard Steiert, Florian Salopiata, +15

PLoS Computational Biology

ImmunologyCell DeathCancer BiologyTumor BiologySignaling Pathway +16

Introduction of an artificial neural network–based method for concentration‐time predictions

Dominic Stefan Bräm, Neil Parrott, Lucy Hutchinson, +1

CPT Pharmacometrics & Systems Pharmacology

Forecasting MethodologyEngineeringMachine LearningHealthy SubjectsPhysiologically-based Pharmacokinetic Modeling +18