Simulation Methods for Optimal Experimental Design in Systems Biology. - Daniel Faller; Ursula Klingmüller; Jens Timmer (Simul., 2003)

Modeling the Nonlinear Dynamics of Cellular Signal Transduction. - Jens Timmer; T. G. Müller; I. Swameye; O. Sandra; Ursula Klingmüller (Int. J. Bifurc. Chaos, 2004)

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)

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)

Knowledge-based matrix factorization temporally resolves the cellular responses to IL-6 stimulation. - Andreas Kowarsch; Florian Blöchl; Sebastian Bohl; Maria Saile; Norbert Gretz; Ursula Klingmüller; Fabian J. Theis (BMC Bioinform., 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)

Quantification of frap experiments in live cell image sequences by combining segmentation and registration. - Il-Han Kim; Catharina Cadmus; Andrea C. Pfeifer; Ursula Klingmüller; Roland Eils; Karl Rohr (ISBI, 2011)

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)

Excemplify: A Flexible Template Based Solution, Parsing and Managing Data in Spreadsheets for Experimentalists. - Lei Shi; Lenneke Jong; Ulrike Wittig; Philippe Lucarelli; Markus Stepath; Stephanie Müller; Lorenza Alice D'Alessandro; Ursula Klingmüller; Wolfgang Müller 001 (J. Integr. Bioinform., 2013)

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 002; Tim Heinemann; et al. (Bioinform., 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; et al. (PLoS Comput. Biol., 2015)

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; et al. (PLoS Comput. Biol., 2016)

TTCA: an R package for the identification of differentially expressed genes in time course microarray data. - Marco Albrecht; Damian Stichel; Benedikt Müller 001; Ruth Merkle; Carsten Sticht; Norbert Gretz; Ursula Klingmüller; Kai Breuhahn; Franziska Matthäus (BMC Bioinform., 2017)

Correlated receptor transport processes buffer single-cell heterogeneity. - Stefan M. Kallenberger; Anne L. Unger; Stefan Legewie; Konstantinos Lymperopoulos; Ursula Klingmüller; Roland Eils; Dirk-Peter Herten (PLoS Comput. Biol., 2017)