Jens Timmer

According to our database, Jens Timmer authored at least 68 papers between 1992 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

Likelihood-ratio test statistic for the finite-sample case in nonlinear ordinary differential equation models.

Christian Tönsing, Bernhard Steiert, Jens Timmer, Clemens Kreutz

PLoS Comput. Biol., 2023

Uncovering specific mechanisms across cell types in dynamical models.

Adrian L. Hauber, Marcus Rosenblatt, Jens Timmer

PLoS Comput. Biol., 2023

Non-Parametric Model-Based Estimation of the Effective Reproduction Number for SARS-CoV-2.

Jacques Hermes, Marcus Rosenblatt, Christian Tönsing, Jens Timmer

Algorithms, 2023

2022

Towards Expected Counter - Using Comprehensible Features to Predict Counterattacks.

Henrik Biermann, Franz-Georg Wieland, Jens Timmer, Daniel Memmert, Ashwin Phatak

Proceedings of the Machine Learning and Data Mining for Sports Analytics, 2022

2021

PEtab - Interoperable specification of parameter estimation problems in systems biology.

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 Stapor, Philipp Städter, Dantong Wang, Franz-Georg Wieland, Julio R. Banga, Jens Timmer, Alejandro F. Villaverde, Sven Sahle, Clemens Kreutz, Jan Hasenauer, Daniel Weindl

PLoS Comput. Biol., 2021

2020

Estimating chain length for time delays in dynamical systems using profile likelihood.

Adrian L. Hauber, Raphael Engesser, Joep Vanlier, Jens Timmer

Bioinform., 2020

2019

Extensions of ℓ 1 regularization increase detection specificity for cell-type specific parameters in dynamic models.

Pascal Dolejsch, Helge Hass, Jens Timmer

BMC Bioinform., 2019

Benchmark problems for dynamic modeling of intracellular processes.

Helge Hass, Carolin Loos, Elba Raimúndez-Álvarez, Jens Timmer, Jan Hasenauer, Clemens Kreutz

Bioinform., 2019

2018

Computational Mechanistic Investigation of Chronotropic Effects on Murine Sinus Node Cells.

Benjamin Winkelmann, Callum M. Zgierski-Johnston, Eike Moritz Wülfers, Jens Timmer, Gunnar Seemann

Proceedings of the Computing in Cardiology, 2018

2016

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

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

PLoS Comput. Biol., 2016

<i>L</i>₁ regularization facilitates detection of cell type-specific parameters in dynamical systems.

Bernhard Steiert, Jens Timmer, Clemens Kreutz

Bioinform., 2016

Fast integration-based prediction bands for ordinary differential equation models.

Helge Hass, Clemens Kreutz, Jens Timmer, Daniel Kaschek

Bioinform., 2016

2015

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

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

PLoS Comput. Biol., 2015

Disentangling the Complexity of HGF Signaling by Combining Qualitative and Quantitative Modeling.

Lorenza Alice D'Alessandro, Regina Samaga, Tim Maiwald, Seong-Hwan Rho, Sandra Bonefas, Andreas Raue, Nao Iwamoto, Alexandra Kienast, Katharina Waldow, Rene Meyer, Marcel Schilling, Jens Timmer, Steffen Klamt, Ursula Klingmüller

PLoS Comput. Biol., 2015

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

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

Bioinform., 2015

2014

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, 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

BMC Syst. Biol., 2014

Comparison of approaches for parameter identifiability analysis of biological systems.

Andreas Raue, Johan Karlsson, Maria Pia Saccomani, Mats Jirstrand, Jens Timmer

Bioinform., 2014

A numerically efficient implementation of the expectation maximization algorithm for state space models.

Wolfgang Mader, Yannick Linke, Malenka Mader, Linda Sommerlade, Jens Timmer, Björn Schelter

Appl. Math. Comput., 2014

2013

iVUN: interactive Visualization of Uncertain biochemical reaction Networks.

Corinna Vehlow, Jan Hasenauer, Andrei Kramer, Andreas Raue, Sabine Hug, Jens Timmer, Nicole Radde, Fabian J. Theis, Daniel Weiskopf

BMC Bioinform., 2013

2012

Network modulation during complex syntactic processing.

Dirk-Bart den Ouden, Dorothee Saur, Wolfgang Mader, Björn Schelter, Sladjana Lukic, Eisha Wali, Jens Timmer, Cynthia K. Thompson

NeuroImage, 2012

EPILEPSIAE - A European epilepsy database.

Matthias Ihle, Hinnerk Feldwisch-Drentrup, César Alexandre Teixeira, Adrien Witon, Björn Schelter, Jens Timmer, Andreas Schulze-Bonhage

Comput. Methods Programs Biomed., 2012

In silico labeling reveals the time-dependent label half-life and transit-time in dynamical systems.

Thomas Maiwald, Julie Blumberg, Andreas Raue, Stefan Hengl, Marcel Schilling, Sherwin K. B. Sy, Verena Becker, Ursula Klingmüller, Jens Timmer

BMC Syst. Biol., 2012

Likelihood based observability analysis and confidence intervals for predictions of dynamic models.

Clemens Kreutz, Andreas Raue, Jens Timmer

BMC Syst. Biol., 2012

A variational approach to parameter estimation in ordinary differential equations.

Daniel Kaschek, Jens Timmer

BMC Syst. Biol., 2012

Comprehensive estimation of input signals and dynamics in biochemical reaction networks.

Max Schelker, Andreas Raue, Jens Timmer, Clemens Kreutz

Bioinform., 2012

TSSi - an R package for transcription start site identification from 5′ mRNA tag data.

Clemens Kreutz, J. S. Gehring, Daniel Lang, Ralf Reski, Jens Timmer, Stefan A. Rensing

Bioinform., 2012

Integration of Boolean models exemplified on hepatocyte signal transduction.

Rebekka Schlatter, Nicole Philippi, Gaby Wangorsch, Robert Pick, Oliver Sawodny, Christoph Borner, Jens Timmer, Michael Ederer, Thomas Dandekar

Briefings Bioinform., 2012

2011

Identification of Preseizure States in Epilepsy: A Data-Driven Approach for Multichannel EEG Recordings.

Hinnerk Feldwisch-Drentrup, Matthäus Staniek, Andreas Schulze-Bonhage, Jens Timmer, Henning Dickten, Christian Erich Elger, Björn Schelter, Klaus Lehnertz

Frontiers Comput. Neurosci., 2011

Multivariate analysis of dynamical processes with applications to the neurosciences.

Björn Schelter, Linda Sommerlade, Bettina Platt, Andrea Plano, Marco Thiel, Jens Timmer

Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

Seizure prediction in epilepsy: From circadian concepts via probabilistic forecasting to statistical evaluation.

Björn Schelter, Hinnerk Feldwisch-Drentrup, Matthias Ihle, Andreas Schulze-Bonhage, Jens Timmer

Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

2010

Combining functional and anatomical connectivity reveals brain networks for auditory language comprehension.

Dorothee Saur, Björn Schelter, Susanne Schnell, David Kratochvil, Hanna Küpper, Philipp Kellmeyer, Dorothee Kümmerer, Stefan Klöppel, Volkmar Glauche, Rüdiger Lange, Wolfgang Mader, David Feess, Jens Timmer, Cornelius Weiller

NeuroImage, 2010

Model-based extension of high-throughput to high-content data.

Andrea C. Pfeifer, Daniel Kaschek, Julie Bachmann, Ursula Klingmüller, Jens Timmer

BMC Syst. Biol., 2010

2009

Estimation of Gene Induction Enables a Relevance-Based Ranking of Gene Sets.

Kilian Bartholomé, Clemens Kreutz, Jens Timmer

J. Comput. Biol., 2009

Effect of Jump Discontinuity for Phase-Randomized Surrogate Data Testing.

Enno Mammen, Swagata Nandi, Thomas Maiwald, Jens Timmer

Int. J. Bifurc. Chaos, 2009

Modeling system states in liver cells: Survival, apoptosis and their modifications in response to viral infection.

Nicole Philippi, Dorothee Walter, Rebekka Schlatter, Karine Ferreira, Michael Ederer, Oliver Sawodny, Jens Timmer, Christoph Borner, Thomas Dandekar

BMC Syst. Biol., 2009

Structural and practical identifiability analysis of partially observed dynamical models by exploiting the profile likelihood.

Andreas Raue, Clemens Kreutz, Thomas Maiwald, Julie Bachmann, Marcel Schilling, Ursula Klingmüller, Jens Timmer

Bioinform., 2009

2008

On the Detection of Direct Directed Information Flow in fMRI.

Wolfgang Mader, David Feess, Rüdiger Lange, Dorothee Saur, Volkmar Glauche, Cornelius Weiller, Jens Timmer, Björn Schelter

IEEE J. Sel. Top. Signal Process., 2008

A systems biology approach to analyse amplification in the JAK2-STAT5 signalling pathway.

Julio Vera, Julie Bachmann, Andrea C. Pfeifer, Verena Becker, Jose A. Hormiga, Néstor Torres Darias, Jens Timmer, Ursula Klingmüller, Olaf Wolkenhauer

BMC Syst. Biol., 2008

Hybrid optimization method with general switching strategy for parameter estimation.

Eva Balsa-Canto, Martin Peifer, Julio R. Banga, Jens Timmer, Christian Fleck

BMC Syst. Biol., 2008

Dynamical modeling and multi-experiment fitting with PottersWheel.

Thomas Maiwald, Jens Timmer

Bioinform., 2008

Regulatorische Prinzipien und Systemanalyse der bakteriellen Chemotaxis (Regulatory Principles and Systems Analysis of Bacterial Chemotaxis).

Kilian Bartholomé, Jens Timmer

Autom., 2008

2007

Detecting Coupling Directions in Multivariate Oscillatory Systems.

Matthias Winterhalder, Björn Schelter, Jens Timmer

Int. J. Bifurc. Chaos, 2007

Phase Synchronization and Coherence Analysis: Sensitivity and specificity.

Björn Schelter, Matthias Winterhalder, Jens Timmer, Jürgen Kurths

Int. J. Bifurc. Chaos, 2007

Reconstructing gene-regulatory networks from time series, knock-out data, and prior knowledge.

Florian Geier, Jens Timmer, Christian Fleck

BMC Syst. Biol., 2007

An error model for protein quantification.

Clemens Kreutz, M. M. Bartolome Rodriguez, Thomas Maiwald, Maxmilian Seidl, H. E. Blum, L. Mohr, Jens Timmer

Bioinform., 2007

Data-based identifiability analysis of non-linear dynamical models.

Stefan Hengl, Clemens Kreutz, Jens Timmer, Thomas Maiwald

Bioinform., 2007

2006

Bistability and Self-oscillations in Cell Cycle Control.

Valko Petrov, Martin Peifer, Jens Timmer

Int. J. Bifurc. Chaos, 2006

2005

Comparison of linear signal processing techniques to infer directed interactions in multivariate neural systems.

Matthias Winterhalder, Björn Schelter, Wolfram Hesse, Karin Schwab, Lutz Leistritz, Daniel Klan, Reinhard Bauer, Jens Timmer, Herbert Witte

Signal Process., 2005

2004

An Open Source Protein Gel Documentation System for Proteome Analyses.

Daniel Faller, Thomas Reinheckel, Daniel Wenzler, Sascha Hagemann, Ke Xiao, Josef Honerkamp, Christoph Peters, Thomas Dandekar, Jens Timmer

J. Chem. Inf. Model., 2004

Nonlinear Dynamical System Identification from Uncertain and Indirect Measurements.

Henning U. Voss, Jens Timmer, Jürgen Kurths

Int. J. Bifurc. Chaos, 2004

Modeling the Nonlinear Dynamics of Cellular Signal Transduction.

Jens Timmer, T. G. Müller, I. Swameye, O. Sandra, Ursula Klingmüller

Int. J. Bifurc. Chaos, 2004

Surrogate-Based Hypothesis Test without Surrogates.

Marco Thiel, M. Carmen Romano, Udo Schwarz, Jürgen Kurths, Jens Timmer

Int. J. Bifurc. Chaos, 2004

Parameter Identification Techniques for Partial Differential Equations.

T. G. Müller, Jens Timmer

Int. J. Bifurc. Chaos, 2004

Identification of Rate Constants and nonobservable Absorption Spectra in Nonlinear Biochemical Reaction Dynamics.

Douglas Maraun, Werner Horbelt, Henning W. Rust, Jens Timmer, H. P. Happersberger, F. Drepper

Int. J. Bifurc. Chaos, 2004

2003

Simulation Methods for Optimal Experimental Design in Systems Biology.

Daniel Faller, Ursula Klingmüller, Jens Timmer

Simul., 2003

Normalization of DNA-Microarray Data by Nonlinear Correlation Maximization.

Daniel Faller, Henning U. Voss, Jens Timmer, Uwe Hobohm

J. Comput. Biol., 2003

2000

A new approximate likelihood estimator for ARMA-filtered hidden Markov models.

Steffen Michalek, Mirko Wagner, Jens Timmer

IEEE Trans. Signal Process., 2000

Cross-spectral Analysis of tremor Time Series.

Jens Timmer, Michael Lauk, S. Häußler, V. Radt, B. Köster, B. Hellwig, B. Guschlbauer, C. H. Lücking, M. Eichler, Günther Deuschl

Int. J. Bifurc. Chaos, 2000

Detection and Classification of Sleep-Disordered Breathing Using Acoustic Respiratory Input Impedance and Nasal Pressure.

Holger Steltner, Richard Staats, Michael Vogel, Christian Virchow, Heinrich Matthys, Josef Guttmann, Jens Timmer

Proceedings of the Medical Data Analysis, First International Symposium, 2000

Classification of Electro-encephalographic Spatial Patterns.

Thorsten Müller, T. Ball, R. Kristeva-Feige, Thomas Mergner, Jens Timmer

Proceedings of the Medical Data Analysis, First International Symposium, 2000

Analysis of Nonlinear Differential Equations: Parameter Estimation and Model Selection.

Werner Horbelt, Thorsten Müller, Jens Timmer, Werner Melzer, Karl Winkler

Proceedings of the Medical Data Analysis, First International Symposium, 2000

1999

Estimating rate constants in hidden Markov models by the EM algorithm.

Steffen Michalek, Jens Timmer

IEEE Trans. Signal Process., 1999

Early detection of upper airway obstructions by analysis of acoustical respiratory input impedance.

S. Reisch, Holger Steltner, Jens Timmer, Christine Renotte, Josef Guttmann

Biol. Cybern., 1999

1998

Cross-spectral analysis of physiological tremor and muscle activity.

Jens Timmer, M. Lauk, W. Pfleger, Günther Deuschl

Biol. Cybern., 1998

Detecting multimodality in saccadic reaction time distributions in gap and overlap tasks.

Stefan Gezeck, Jens Timmer

Biol. Cybern., 1998

1997

Modeling Volatility Using State Space Models.

Jens Timmer, Andreas S. Weigend

Int. J. Neural Syst., 1997

1993

Characteristics of hand tremor time series.

Jens Timmer, C. Gantert, Günther Deuschl, Josef Honerkamp

Biol. Cybern., 1993

1992

Analyzing the dynamics of hand tremor time series.

C. Gantert, Josef Honerkamp, Jens Timmer

Biol. Cybern., 1992