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2020 – today
- 2023
[j31]Axel Theorell, Jörg Stelling
:
Assumptions on decision making and environment can yield multiple steady states in microbial community models. BMC Bioinform. 24-S(1): 262 (2023)- [j30]Baptiste Turpin, Eline Y. Bijman, Hans-Michael Kaltenbach, Jörg Stelling:
Efficient design of synthetic gene circuits under cell-to-cell variability. BMC Bioinform. 24(1): 460 (2023) - 2022
- [j29]Axel Theorell, Johann F. Jadebeck, Katharina Nöh, Jörg Stelling:
PolyRound: polytope rounding for random sampling in metabolic networks. Bioinform. 38(2): 566-567 (2022) - [j28]Mustafa Hani Khammash, Jörg Stelling:
Systems and Synthetic Biology. Proc. IEEE 110(5): 518-522 (2022) - [j27]Axel Theorell, Jörg Stelling:
Metabolic Networks, Microbial Consortia, and Analogies to Smart Grids. Proc. IEEE 110(5): 541-556 (2022) - 2021
- [j26]Mattia G. Gollub, Hans-Michael Kaltenbach, Jörg Stelling:
Probabilistic thermodynamic analysis of metabolic networks. Bioinform. 37(18): 2938-2945 (2021) - [c8]Axel Theorell, Jörg Stelling:
Microbial Community Decision Making Models in Batch and Chemostat Cultures. CMSB 2021: 141-158 - [c7]Baptiste Turpin, Eline Y. Bijman, Hans-Michael Kaltenbach, Jörg Stelling:
Population Design for Synthetic Gene Circuits. CMSB 2021: 181-197 - 2020
- [j25]Pencho Yordanov, Jörg Stelling, Irene Otero-Muras:
BioSwitch: a tool for the detection of bistability and multi-steady state behaviour in signalling and gene regulatory networks. Bioinform. 36(5): 1640-1641 (2020) - [j24]Mikolaj Rybinski, Simon Möller, Mikael Sunnåker, Claude Lormeau, Jörg Stelling:
TopoFilter: a MATLAB package for mechanistic model identification in systems biology. BMC Bioinform. 21(1): 34 (2020)
2010 – 2019
- 2017
- [j23]Irene Otero-Muras, Pencho Yordanov, Jörg Stelling:
Chemical Reaction Network Theory elucidates sources of multistability in interferon signaling. PLoS Comput. Biol. 13(4) (2017) - 2016
- [j22]Ruben G. A. van Heck, Mathias Ganter, Vítor A. P. Martins dos Santos, Jörg Stelling:
Efficient Reconstruction of Predictive Consensus Metabolic Network Models. PLoS Comput. Biol. 12(8) (2016) - [j21]Moritz Lang, Jörg Stelling:
Modular Parameter Identification of Biomolecular Networks. SIAM J. Sci. Comput. 38(6) (2016) - 2015
- [j20]Claudia Schillings, Mikael Sunnåker, Jörg Stelling, Christoph Schwab:
Efficient Characterization of Parametric Uncertainty of Complex (Bio)chemical Networks. PLoS Comput. Biol. 11(8) (2015) - [r1]Jörg Stelling, Hans-Michael Kaltenbach:
Deterministic Description of Biochemical Networks. Encyclopedia of Systems and Control 2015 - 2014
- [j19]Mikael Sunnåker, Elías Zamora-Sillero, Adrián López García de Lomana, Florian Rudroff, Uwe Sauer, Jörg Stelling, Andreas Wagner:
Topological augmentation to infer hidden processes in biological systems. Bioinform. 30(2): 221-227 (2014) - [j18]Sotiris Dimopoulos, Christian E. Mayer, Fabian Rudolf, Jörg Stelling:
Accurate cell segmentation in microscopy images using membrane patterns. Bioinform. 30(18): 2644-2651 (2014) - [j17]Irene Otero-Muras, Pencho Yordanov, Jörg Stelling:
A method for inverse bifurcation of biochemical switches: inferring parameters from dose response curves. BMC Syst. Biol. 8: 114 (2014) - 2013
- [j16]Mathias Ganter, Thomas Bernard, Sébastien Moretti, Jörg Stelling, Marco Pagni:
MetaNetX.org: a website and repository for accessing, analysing and manipulating metabolic networks. Bioinform. 29(6): 815-816 (2013) - [j15]Alberto Giovanni Busetto, Alain Hauser, Gabriel Krummenacher, Mikael Sunnåker, Sotiris Dimopoulos, Cheng Soon Ong, Jörg Stelling, Joachim M. Buhmann:
Near-optimal experimental design for model selection in systems biology. Bioinform. 29(20): 2625-2632 (2013) - [j14]Mario A. Marchisio, Moreno Colaiacovo, Ellis Whitehead, Jörg Stelling:
Modular, rule-based modeling for the design of eukaryotic synthetic gene circuits. BMC Syst. Biol. 7: 42 (2013) - 2012
- [j13]Pedro Gonnet, Sotiris Dimopoulos, Lukas Widmer, Jörg Stelling:
A specialized ODE integrator for the efficient computation of parameter sensitivities. BMC Syst. Biol. 6: 46 (2012) - [j12]Stefan J. Jol, Anne Kümmel, Marco Terzer, Jörg Stelling, Matthias Heinemann:
System-Level Insights into Yeast Metabolism by Thermodynamic Analysis of Elementary Flux Modes. PLoS Comput. Biol. 8(3) (2012) - 2011
- [j11]Elías Zamora-Sillero, Marc Hafner, Ariane Ibig, Jörg Stelling, Andreas Wagner:
Efficient characterization of high-dimensional parameter spaces for systems biology. BMC Syst. Biol. 5: 142 (2011) - [j10]Mario A. Marchisio, Jörg Stelling:
Automatic Design of Digital Synthetic Gene Circuits. PLoS Comput. Biol. 7(2) (2011) - [c6]Hans-Michael Kaltenbach, Simona Constantinescu, Justin Feigelman, Jörg Stelling:
Graph-Based Decomposition of Biochemical Reaction Networks into Monotone Subsystems. WABI 2011: 139-150
2000 – 2009
- 2009
- [j9]Dirk Müller, Jörg Stelling:
Precise Regulation of Gene Expression Dynamics Favors Complex Promoter Architectures. PLoS Comput. Biol. 5(1) (2009) - [c5]Mario A. Marchisio, Jörg Stelling:
Synthetic Gene Network Computational Design. ISCAS 2009: 309-312 - [c4]Marco Terzer, Jörg Stelling:
Parallel Extreme Ray and Pathway Computation. PPAM (2) 2009: 300-309 - [p1]Henry Mirsky, Jörg Stelling, Rudiyanto Gunawan, Neda Bagheri, Stephanie R. Taylor, Eric Kwei, Jason E. Shoemaker, Francis J. Doyle III:
Automatic Control in Systems Biology. Handbook of Automation 2009: 1335-1360 - 2008
- [j8]Mario A. Marchisio, Jörg Stelling:
Computational design of synthetic gene circuits with composable parts. Bioinform. 24(17): 1903-1910 (2008) - [j7]Marco Terzer, Jörg Stelling:
Large-scale computation of elementary flux modes with bit pattern trees. Bioinform. 24(19): 2229-2235 (2008) - [j6]Neda Bagheri, Jörg Stelling, Francis J. Doyle III:
Circadian Phase Resetting via Single and Multiple Control Targets. PLoS Comput. Biol. 4(7) (2008) - 2007
- [j5]Neda Bagheri, Jörg Stelling, Francis J. Doyle III:
Quantitative performance metrics for robustness in circadian rhythms. Bioinform. 23(3): 358-364 (2007) - [j4]Marco Terzer, Jörg Stelling:
Elementary flux modes - state-of-the-art implementation and scope of application. BMC Syst. Biol. 1(S-1): P2 (2007) - 2006
- [c3]Marco Terzer, Jörg Stelling:
Accelerating the Computation of Elementary Modes Using Pattern Trees. WABI 2006: 333-343 - 2005
- [j3]Daniel E. Zak, Jörg Stelling, Francis J. Doyle III:
Sensitivity analysis of oscillatory (bio)chemical systems. Comput. Chem. Eng. 29(3): 663-673 (2005) - [c2]Neda Bagheri, Jörg Stelling, Francis J. Doyle:
Optimal phase-tracking of the nonlinear circadian oscillator. ACC 2005: 3235-3240 - 2003
- [j2]Steffen Klamt, Jörg Stelling, Martin Ginkel, Ernst Dieter Gilles:
FluxAnalyzer: exploring structure, pathways, and flux distributions in metabolic networks on interactive flux maps. Bioinform. 19(2): 261-269 (2003) - [j1]Michael Hucka, Andrew Finney, Herbert M. Sauro, H. Bolouri, John C. Doyle, Hiroaki Kitano, Adam P. Arkin, Benjamin J. Bornstein, Dennis Bray, Athel Cornish-Bowden, Autumn A. Cuellar, Serge Dronov, Ernst Dieter Gilles, Martin Ginkel, Victoria Gor, Igor Goryanin, W. J. Hedley, T. Charles Hodgman, Jan-Hendrik S. Hofmeyr, Peter J. Hunter, Nick S. Juty, J. L. Kasberger, Andreas Kremling, Ursula Kummer, Nicolas Le Novère, Leslie M. Loew, D. Lucio, Pedro Mendes, E. Minch, Eric Mjolsness, Yoichi Nakayama, M. R. Nelson, Poul M. F. Nielsen, T. Sakurada, James C. Schaff, Bruce E. Shapiro, Thomas Simon Shimizu, Hugh D. Spence, Jörg Stelling, Koichi Takahashi, Masaru Tomita, J. Wagner, J. Wang:
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. Bioinform. 19(4): 524-531 (2003) - [c1]Stefan Schuster, Steffen Klamt, Jörg Stelling:
Making predictions about robustness and flexibility from metabolic network structure. German Conference on Bioinformatics 2003: 129-134
Coauthor Index
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