Reconstructing gene-regulatory networks from time series, knock-out data, and prior knowledge. - Florian Geier; Jens Timmer; Christian Fleck 001 (BMC Syst. Biol., 2007)

Hybrid optimization method with general switching strategy for parameter estimation. - Eva Balsa-Canto; Martin Peifer; Julio R. Banga; Jens Timmer; Christian Fleck 001 (BMC Syst. Biol., 2008)

Image Analysis of Arabidopsis Trichome Patterning in 4D Confocal Datasets. - Robert Bensch; Olaf Ronneberger; Bettina Greese; Christian Fleck 001; Katja Wester; Martin Hülskamp; Hans Burkhardt (ISBI, 2009)

Unearthing the transition rates between photoreceptor conformers. - Robert W. Smith 003; Britta Helwig; Adrie H. Westphal; Eran Pel; Maximilian Hörner; Hannes M. Beyer; Sophia L. Samodelov; Wilfried Weber; Matias D. Zurbriggen; Jan Willem Borst; Christian Fleck 001 (BMC Syst. Biol., 2016)

DMPy: a Python package for automated mathematical model construction of large-scale metabolic systems. - Robert W. Smith 003; Rik P. van Rosmalen; Vítor A. P. Martins dos Santos; Christian Fleck 001 (BMC Syst. Biol., 2018)

cellular_raza: Cellular Agent-based Modeling from a Clean Slate. - Jonas Pleyer; Christian Fleck 001 (J. Open Source Softw., 2025)