Guidelines for benchmarking of optimization-based approaches for fitting mathematical models by Clemens Kreutz

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Optimal Experimental Design Based on Two-Dimensional Likelihood Profiles by Tim Litwin, Tim Litwin, Tim Litwin, Jens Timmer, Jens Timmer, Jens Timmer, Clemens Kreutz, Clemens Kreutz, Clemens Kreutz

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Rcall: An R interface for MATLAB by Janine Egert, Clemens Kreutz

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Realistic simulation of time-course measurements in systems biology by Janine Egert, Clemens Kreutz

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Optimal Paths Between Parameter Estimates in Non-linear ODE Systems Using the Nudged Elastic Band Method by Christian Tönsing, Christian Tönsing, Jens Timmer, Jens Timmer, Clemens Kreutz, Clemens Kreutz

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Hepatocyte Ploidy Is a Diversity Factor for Liver Homeostasis by Clemens Kreutz, Clemens Kreutz, Clemens Kreutz, Sabine MacNelly, Marie Follo, Astrid Wäldin, Petra Binninger-Lacour, Jens Timmer, Jens Timmer, Jens Timmer, María M. Bartolomé-Rodríguez

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The performance of deep generative models for learning joint embeddings of single-cell multi-omics data by Eva Brombacher, Eva Brombacher, Eva Brombacher, Eva Brombacher, Eva Brombacher, Maren Hackenberg, Maren Hackenberg, Clemens Kreutz, Clemens Kreutz, Clemens Kreutz, Harald Binder, Harald Binder, Martin Treppner, Martin Treppner

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Likelihood-ratio test statistic for the finite-sample case in nonlinear ordinary differential equation models. by Christian Tönsing, Bernhard Steiert, Jens Timmer, Clemens Kreutz

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Experimental design for parameter estimation of gene regulatory networks. by Bernhard Steiert, Andreas Raue, Jens Timmer, Clemens Kreutz

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Representative Sinusoids for Hepatic Four-Scale Pharmacokinetics Simulations. by Lars Ole Schwen, Arne Schenk, Clemens Kreutz, Jens Timmer, María Matilde Bartolomé Rodríguez, Lars Kuepfer, Tobias Preusser

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Data-driven prediction of COVID-19 cases in Germany for decision making by Lukas Refisch, Fabian Lorenz, Torsten Riedlinger, Hannes Taubenböck, Martina Fischer, Linus Grabenhenrich, Martin Wolkewitz, Harald Binder, Clemens Kreutz

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Changes in Gut Microbiota after a Four-Week Intervention with Vegan vs. Meat-Rich Diets in Healthy Participants: A Randomized Controlled Trial by Eva Kohnert, Clemens Kreutz, Nadine Binder, Luciana Hannibal, Gregor Gorkiewicz, Alexander Müller, Maximilian Andreas Storz, Roman Huber, Ann-Kathrin Lederer

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Quantifying post-transcriptional regulation in the development of Drosophila melanogaster by Kolja Becker, Alina Bluhm, Nuria Casas-Vila, Nadja Dinges, Mario Dejung, Sergi Sayols, Clemens Kreutz, Jean-Yves Roignant, Falk Butter, Stefan Legewie

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Gut Microbiota in Diagnosis, Therapy and Prognosis of Cholangiocarcinoma and Gallbladder Carcinoma—A Scoping Review by Ann-Kathrin Lederer, Hannah Rasel, Eva Kohnert, Clemens Kreutz, Roman Huber, Mohamed Tarek Badr, Patricia K. E. Dellweg, Fabian Bartsch, Hauke Lang

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In Vitro microRNA Expression Profile Alterations under CDK4/6 Therapy in Breast Cancer by Jasmin Asberger, Kai Berner, Anna Bicker, Marius Metz, Markus Jäger, Daniela Weiß, Clemens Kreutz, Ingolf Juhasz-Böss, Sebastian Mayer, Isabell Ge, Thalia Erbes

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Driving the Model to Its Limit: Profile Likelihood Based Model Reduction. by Tim Maiwald, Helge Hass, Bernhard Steiert, Joep Vanlier, Raphael Engesser, Andreas Raue, Friederike Kipkeew, Hans H Bock, Daniel Kaschek, Clemens Kreutz, Jens Timmer

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Mutual repression between JNK/AP-1 and JAK/STAT stratifies senescent and proliferative cell behaviors during tissue regeneration. by Janhvi Jaiswal, Janine Egert, Raphael Engesser, Andrea Armengol Peyrotón, Liyne Nogay, Vanessa Weichselberger, Carlo Crucianelli, Isabelle Grass, Clemens Kreutz, Jens Timmer, Anne-Kathrin Classen

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Benchmarking of analysis strategies for data-independent acquisition proteomics using a large-scale dataset comprising inter-patient heterogeneity by Klemens Fröhlich, Eva Brombacher, Matthias Fahrner, Daniel Vogele, Lucas Kook, Niko Pinter, Peter Bronsert, Sylvia Timme-Bronsert, Alexander Schmidt, Katja Bärenfaller, Clemens Kreutz, Oliver Schilling

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A Thymic Epithelial Stem Cell Pool Persists throughout Ontogeny and Is Modulated by TGF-β by Olga Ucar, Kaiyong Li, Dmytro Dvornikov, Clemens Kreutz, Jens Timmer, Sonja Matt, Lukas Brenner, Catherine Smedley, Mark A. Travis, Thomas G. Hofmann, Ursula Klingmüller, Bruno Kyewski

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Longitudinal dynamics of gut bacteriome and mycobiome interactions pre- and post-visceral surgery in Crohn’s disease by Simon Wetzel, Alexander Müller, Eva Kohnert, Negin Mehrbarzin, Roman Huber, Georg Häcker, Georg Häcker, Clemens Kreutz, Ann-Kathrin Lederer, Ann-Kathrin Lederer, Mohamed Tarek Badr, Mohamed Tarek Badr

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