Clemens Kreutz

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 14

Top Topics

Dynamical Systems

Estimation Problems

Statistical Modeling

Differential Equations

Top Venues

PLoS Comput. Biol.

Publications

Maren Hackenberg, Astrid Pechmann, Clemens Kreutz, Janbernd Kirschner, Harald Binder
A statistical approach to latent dynamic modeling with differential equations. CoRR (2023)
Christian Tönsing, Bernhard Steiert, Jens Timmer, Clemens Kreutz
Likelihood-ratio test statistic for the finite-sample case in nonlinear ordinary differential equation models. PLoS Comput. Biol. 19 (9) (2023)
Janine Egert, Clemens Kreutz
Rcall: An R interface for MATLAB. SoftwareX 21 (2023)
Janine Egert, Clemens Kreutz
Rcall: Calling R from Matlab. CoRR (2021)
Leonard Schmiester, Yannik Schälte, Frank T. Bergmann, Tacio Camba, Erika Dudkin, Janine Egert, Fabian Fröhlich, Lara Fuhrmann, Adrian L. Hauber, Svenja Kemmer, Polina A. Lakrisenko, Carolin Loos, Simon Merkt, Wolfgang Müller, Dilan Pathirana, Elba Raimúndez-Álvarez, Lukas Refisch, Marcus Rosenblatt, Paul L. Stapor, Philipp Städter, Dantong Wang, Franz-Georg Wieland, Julio R. Banga, Jens Timmer, Alejandro F. Villaverde, Sven Sahle, Clemens Kreutz, Jan Hasenauer, Daniel Weindl
PEtab - Interoperable specification of parameter estimation problems in systems biology. PLoS Comput. Biol. 17 (1) (2021)
Clemens Kreutz, Nilay S. Can, Ralf Schulze Bruening, Rabea Meyberg, Zsuzsanna Mérai, Noé Fernández-Pozo, Stefan A. Rensing
A Blind and Independent Benchmark Study for Detecting Differentially Methylated Regions in Plants. Bioinform. 36 (17) (2020)
Maren Hackenberg, Marlon Grodd, Clemens Kreutz, Martina Fischer, Janina Esins, Linus Grabenhenrich, Christian Karagiannidis, Harald Binder
Using Differentiable Programming for Flexible Statistical Modeling. CoRR (2020)
Clemens Kreutz, Nilay S. Can, Ralf Schulze Bruening, Rabea Meyberg, Zsuzsanna Mérai, Noé Fernández-Pozo, Stefan A. Rensing
A blind and independent benchmark study for detecting differentially methylated regions in plants. Bioinform. 36 (11) (2020)
Clemens Kreutz
Guidelines for benchmarking of optimization approaches for fitting mathematical models. CoRR (2019)
Helge Hass, Carolin Loos, Elba Raimúndez-Álvarez, Jens Timmer, Jan Hasenauer, Clemens Kreutz
Benchmark problems for dynamic modeling of intracellular processes. Bioinform. 35 (17) (2019)
Clemens Kreutz
An easy and efficient approach for testing identifiability. Bioinform. 34 (11) (2018)
Ruth Merkle, Bernhard Steiert, Florian Salopiata, Sofia Depner, Andreas Raue, Nao Iwamoto, Max Schelker, Helge Hass, Marvin Wäsch, Martin E. Böhm, Oliver Mücke, Daniel B. Lipka, Christoph Plass, Wolf D. Lehmann, Clemens Kreutz, Jens Timmer, Marcel Schilling, Ursula Klingmüller
Identification of Cell Type-Specific Differences in Erythropoietin Receptor Signaling in Primary Erythroid and Lung Cancer Cells. PLoS Comput. Biol. 12 (8) (2016)
Bernhard Steiert, Jens Timmer, Clemens Kreutz
regularization facilitates detection of cell type-specific parameters in dynamical systems. Bioinform. 32 (17) (2016)
Helge Hass, Clemens Kreutz, Jens Timmer, Daniel Kaschek
Fast integration-based prediction bands for ordinary differential equation models. Bioinform. 32 (8) (2016)
Jonathan R. Karr, Alex H. Williams, Jeremy D. Zucker, Andreas Raue, Bernhard Steiert, Jens Timmer, Clemens Kreutz, Simon Wilkinson, Brandon A. Allgood, Brian M. Bot, Bruce R. Hoff, Michael R. Kellen, Markus W. Covert, Gustavo A. Stolovitzky, Pablo Meyer
Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models. PLoS Comput. Biol. 11 (5) (2015)
Andreas Raue, Bernhard Steiert, Max Schelker, Clemens Kreutz, Tim Maiwald, Helge Hass, Joep Vanlier, Christian Tönsing, Lorenz Adlung, Raphael Engesser, Wolfgang Mader, Tim Heinemann, Jan Hasenauer, Marcel Schilling, Thomas Höfer, Edda Klipp, Fabian J. Theis, Ursula Klingmüller, Birgit Schoeberl, Jens Timmer
Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems. Bioinform. 31 (21) (2015)
Pablo Meyer, Thomas Cokelaer, Deepak Chandran, Kyung Hyuk Kim, Po-Ru Loh, George Tucker, Mark Lipson, Bonnie Berger, Clemens Kreutz, Andreas Raue, Bernhard Steiert, Jens Timmer, Erhan Bilal, Herbert M. Sauro, Gustavo Stolovitzky, Julio Saez-Rodriguez
Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach. BMC Syst. Biol. 8 (2014)
Max Schelker, Andreas Raue, Jens Timmer, Clemens Kreutz
Comprehensive estimation of input signals and dynamics in biochemical reaction networks. Bioinform. 28 (18) (2012)
Clemens Kreutz, J. S. Gehring, Daniel Lang, Ralf Reski, Jens Timmer, Stefan A. Rensing
TSSi - an R package for transcription start site identification from 5′ mRNA tag data. Bioinform. 28 (12) (2012)
Clemens Kreutz, Andreas Raue, Jens Timmer
Likelihood based observability analysis and confidence intervals for predictions of dynamic models. BMC Syst. Biol. 6 (2012)
Andreas Raue, Clemens Kreutz, Thomas Maiwald, Julie Bachmann, Marcel Schilling, Ursula Klingmüller, Jens Timmer
Structural and practical identifiability analysis of partially observed dynamical models by exploiting the profile likelihood. Bioinform. 25 (15) (2009)
Kilian Bartholomé, Clemens Kreutz, Jens Timmer
Estimation of Gene Induction Enables a Relevance-Based Ranking of Gene Sets. J. Comput. Biol. 16 (7) (2009)
Stefan Hengl, Clemens Kreutz, Jens Timmer, Thomas Maiwald
Data-based identifiability analysis of non-linear dynamical models. Bioinform. 23 (19) (2007)
Clemens Kreutz, M. M. Bartolome Rodriguez, Thomas Maiwald, M. Seidl, H. E. Blum, L. Mohr, Jens Timmer
An error model for protein quantification. Bioinform. 23 (20) (2007)
Clemens Kreutz, Josef Honerkamp
Controlling the Continuos Positive Airway Pressure-Device Using Partial Observable Markov Decision Processes. HPSC (2003)