Ballnus, B. et al. Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems. BMC Syst. Biol. 11:63 (2017) Fiedler, A. ; Raeth, S.* ; Theis, F.J. ; Hausser, A.* & Hasenauer, J. Tailored parameter optimization methods for ordinary differential equation models with steady-state constraints. BMC Syst. Biol. 10:80 (2016) Kavšček, M.* ; Bhutada, G.* ; Madl, T. & Natter, K.* Optimization of lipid production with a genome-scale model of Yarrowia lipolytica. BMC Syst. Biol. 9:72 (2015) Strasser, M. ; Feigelman, J. ; Theis, F.J. & Marr, C. Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy. BMC Syst. Biol. 9:61 (2015) Goebels, F.* & Frishman, D. Prediction of protein interaction types based on sequence and network features. BMC Syst. Biol. 7:S5 (2013) Hock, S. et al. Sharpening of expression domains induced by transcription and microRNA regulation within a spatio-temporal model of mid-hindbrain boundary formation. BMC Syst. Biol. 7:48 (2013) Kreutz, C.* ; Raue, A. & Timmer, J.* Likelihood based observability analysis and confidence intervals for predictions of dynamic models. BMC Syst. Biol. 6:120 (2012) Schmidl, D. ; Hug, S. ; Li, W.B. ; Greiter, M. & Theis, F.J. Bayesian model selection validates a biokinetic model for zirconium processing in humans. BMC Syst. Biol. 6:95 (2012) Krumsiek, J. ; Suhre, K. ; Illig, T. ; Adamski, J. & Theis, F.J. Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data. BMC Syst. Biol. 5:21 (2011) Sass, S. et al. MicroRNAs coordinately regulate protein complexes. BMC Syst. Biol. 5:136 (2011) Radrich, K. et al. Integration of metabolic databases for the reconstruction of genome-scale metabolic networks. BMC Syst. Biol. 4:114 (2010) Trümbach, D. et al. Deducing corticotropin-releasing hormone receptor type 1 signaling networks from gene expression data by usage of genetic algorithms and graphical Gaussian models. BMC Syst. Biol. 4:159 (2010) Wittmann, D.M. et al. Transforming Boolean models to continuous models: Methodology and application to T-cell receptor signaling. BMC Syst. Biol. 3, 98:98 (2009) Marr, C. ; Geertz, M.* ; Hütt, M.-T.* & Muskhelisvili, G.* Dissecting the logical types of network control in gene expression profiles. BMC Syst. Biol. 2:18 (2008)