Publications of Systems Biology (SBI)

Huard, J.; Mueller, S.; Gilles, E. D.; Klingmüller, U.; Klamt, S.: An integrative model links multiple inputs and signaling pathways to the onset of DNA synthesis in hepatocytes. FEBS Journal 279 (18), pp. 3290 - 3313 (2012)

Schenkendorf, R.; Kremling, A.; Mangold, M.: Influence of non-linearity to the optimal experimental design demonstrated by a biological system. Mathematical and Computer Modelling of Dynamical Systems 18 (4), pp. 413 - 426 (2012)

Carius, A. B.; Henkel, M.; Grammel, H.: Glutathione Redox Effect on Photosynthetic Membrane Expression in Rhodospirillum rubrum. Journal of Bacteriology 193 (8), pp. 1893 - 1900 (2011)

Ederer, M.; Gilles, E. D.; Sawodny, O.: The Glansdorff-Prigogine stability criterion for biochemical reaction networks. Automatica 47 (6), pp. 1097 - 1104 (2011)

Cheviakov, A. F.; Ward, M. J.; Straube, R.: An Asymptotic Analysis of the Mean First Passage Time for Narrow Escape Problems: Part II: The Sphere. SIAM Multiscale Modeling and Simulation 8 (3), pp. 836 - 870 (2010)

Janke, R.; Genzel, Y.; Freund, S.; Wolff, M. W.; Grammel, H.; Rühmkorf, C.; Seidemann, J.; Wahl, A.; Reichl, U.: Expression, purification, and characterization of a His6-tagged glycerokinase from Pichia farinosa for enzymatic cycling assays in mammalian cells. Journal of Biotechnology 150 (3), pp. 396 - 403 (2010)

Straube, R.; Nicola, E. M.: Diffusive coupling can discriminate between similar reaction mechanisms in an allosteric enzyme system. BMC Systems Biology 4, 165 (2010)

Straube, R.; Vermeer, S.; Nicola, E. M.; Mair, T.: Inward Rotating Spiral Waves in Glycolysis. Biophysical Journal 99 (1), pp. L4 - L6 (2010)

Vester, D.; Pflugmacher, A.; Hoffmann, D.; Seitz, C.; Heldt, S.; Bettenbrock, K.; Genzel, Y.; Reichl, U.: Real-time RT-qPCR assay for the analysis of human influenza A virus transcription and replication dynamics. Journal of Virological Methods 168 (1-2), pp. 63 - 71 (2010)

Zeiger, L.; Grammel, H.: Model-based high cell density cultivation of Rhodospirillum rubrum under respiratory dark conditions. Biotechnology and Bioengineering 105 (4), pp. 729 - 739 (2010)

Coombs, D.; Straube, R.; Ward, M. J.: Diffusion on a Sphere with Localized Traps: Mean First Passage Time, Eigenvalue Asymptotics, and Fekete Points. SIAM Journal on Applied Mathematics 70 (1), pp. 302 - 332 (2009)

Kremling, A.; Kremling, S.; Bettenbrock, K.: Catabolite repression in Escherichia Coli - a comparison of modelling approaches. FEBS Journal 276 (2), pp. 594 - 602 (2009)

Mirschel, S.; Steinmetz, K.; Rempel, M.; Ginkel, M.; Gilles, E. D.: ProMoT: Modular Modeling for Systems Biology. Bioinformatics 25 (5), pp. 687 - 689 (2009)

Poltz, R.; Franke, R.; Schweitzer, K.; Klamt, S.; Gilles, E. D.; Naumann, M.: Logical network of genotoxic stress-induced NF-kB signal transduction predicts putative target structures for therapeutic intervention strategies. Advances and Applications in Bioinformatics and Chemistry 2, pp. 125 - 138 (2009)

Samaga, R.; Saez-Rodriguez, J.; Alexopoulos, L. G.; Sorger, P. K.; Klamt, S.: The logic of EGFR/ErbB signaling: theoretical properties and analysis of high-throughput data. PLoS Computational Biology 5 (8), e1000438 (2009)

Schenkendorf, R.; Kremling, A.; Mangold, M.: Optimal Experimental Design with the Sigma Point method. IET Systems Biology 3 (1), pp. 10 - 23 (2009)

Schlatter, R.; Conzelmann, H.; Gilles, E. D.; Sawodny, O.; Sauter, T.: Analysis of an apoptotic core model focused on experimental design using artificial data. IET Systems Biology 3 (4), pp. 255 - 265 (2009)

Schlatter, R.; Schmich, K.; Avalos Vizcarra, I.; Scheurich, P.; Sauter, T.; Borner, C.; Ederer, M.; Merfort, I.; Sawodny, O.: ON/OFF and Beyond - A Boolean Model of Apoptosis. PLoS Computational Biology 5 (12), e1000595 (2009)

Straube, R.; Ridgway, D.: Investigating the effects of molecular crowding on Ca²⁺ Diffusion using a particle-based simulation model. Chaos 19 (3), 037110 (2009)

Straube, R.; Ward, M. J.: An asymptotic analysis of intracellular signaling gradients arising from multiple small compartments. SIAM Journal on Applied Mathematics 70 (1), pp. 248 - 269 (2009)