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Bioinformatics (Oxford, England)|July 27, 2019
Efficient parameterization of large-scale dynamic models based on relative measurementsLeonard Schmiester, Yannik Schälte, Fabian Fröhlich, et al.
Briefings in Bioinformatics|July 6, 2019
Closing the gap between formats for storing layout information in systems biologyDavid Hoksza, Piotr Gawron, Marek Ostaszewski, et al.
Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences|April 2, 2025
Assessment of uncertainty quantification in universal differential equationsNina Schmid, David Fernandes Del Pozo, Willem Waegeman, et al.
Bioinformatics (Oxford, England)|January 2, 2017
Parameter estimation for dynamical systems with discrete events and logical operationsFabian Fröhlich, Fabian J Theis, Joachim O Rädler, et al.
Bioinformatics (Oxford, England)|March 6, 2026
PEtab-GUI: A graphical user interface to create, edit and inspect PEtab parameter estimation problemsPaul J Jost, Frank T Bergmann, Daniel Weindl, et al.
Cell Systems|May 7, 2018
A Hierarchical, Data-Driven Approach to Modeling Single-Cell Populations Predicts Latent Causes of Cell-To-Cell VariabilityCarolin Loos, Katharina Moeller, Fabian Fröhlich, et al.
IEEE/ACM Transactions on Computational Biology and Bioinformatics|October 12, 2022
Assessment of Prediction Uncertainty Quantification Methods in Systems BiologyAlejandro F Villaverde, Elba Raimundez, Jan Hasenauer, et al.
Plos One|July 13, 2026
Assessment of simulation-based inference methods for stochastic compartmental models in epidemiological researchVincent Wieland, Nils Waßmuth, Lorenzo Contento, et al.
BMC Systems Biology|August 24, 2016
Tailored parameter optimization methods for ordinary differential equation models with steady-state constraintsAnna Fiedler, Sebastian Raeth, Fabian J Theis, et al.
NPJ Systems Biology and Applications|March 2, 2025
Loss formulations for assumption-free neural inference of SDE coefficient functionsMarc Vaisband, Valentin von Bornhaupt, Nina Schmid, et al.
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