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Stefan Müller
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Inverse problems in systems biology
HW Engl, C Flamm, P Kügler, J Lu, S Müller, P Schuster
Inverse Problems 25 (12), 123014, 2009
1832009
The SBML ODE Solver Library: a native API for symbolic and fast numerical analysis of reaction networks
R Machné, A Finney, S Müller, J Lu, S Widder, C Flamm
Bioinformatics 22 (11), 1406-1407, 2006
1402006
A generalized model of the repressilator
S Müller, J Hofbauer, L Endler, C Flamm, S Widder, P Schuster
Journal of mathematical biology 53, 905-937, 2006
1312006
Sign conditions for injectivity of generalized polynomial maps with applications to chemical reaction networks and real algebraic geometry
S Müller, E Feliu, G Regensburger, C Conradi, A Shiu, A Dickenstein
Foundations of Computational Mathematics 16 (1), 69-97, 2016
1272016
Generalized mass action systems: Complex balancing equilibria and sign vectors of the stoichiometric and kinetic-order subspaces
S Muller, G Regensburger
SIAM Journal on Applied Mathematics 72 (6), 1926-1947, 2012
1082012
From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints
S Klamt, G Regensburger, MP Gerstl, C Jungreuthmayer, S Schuster, ...
PLoS computational biology 13 (4), e1005409, 2017
902017
In vivo Polycomb kinetics and mitotic chromatin binding distinguish stem cells from differentiated cells
JP Fonseca, PA Steffen, S Müller, J Lu, A Sawicka, C Seiser, L Ringrose
Genes & development 26 (8), 857-871, 2012
802012
Enzyme allocation problems in kinetic metabolic networks: Optimal solutions are elementary flux modes
S Müller, G Regensburger, R Steuer
Journal of theoretical biology 347, 182-190, 2014
742014
Generalized Mass-Action Systems and Positive Solutions of Polynomial Equations with Real and Symbolic Exponents (Invited Talk)
S Müller, G Regensburger
Computer Algebra in Scientific Computing: 16th International Workshop, CASC …, 2014
602014
A mathematical framework for yield (vs. rate) optimization in constraint-based modeling and applications in metabolic engineering
S Klamt, S Müller, G Regensburger, J Zanghellini
Metabolic Engineering 47, 153-169, 2018
532018
Elementary vectors and conformal sums in polyhedral geometry and their relevance for metabolic pathway analysis
S Müller, G Regensburger
Frontiers in Genetics 7, 179906, 2016
322016
A deficiency-based approach to parametrizing positive equilibria of biochemical reaction systems
MD Johnston, S Müller, C Pantea
Bulletin of Mathematical Biology 81, 1143-1172, 2019
302019
Parameter Identification for Chemical Reaction Systems Using Sparsity Enforcing Regularization: A Case Study for the Chlorite− Iodide Reaction
P Kugler, E Gaubitzer, S Müller
The Journal of Physical Chemistry A 113 (12), 2775-2785, 2009
292009
A generalization of Birch's theorem and vertex-balanced steady states for generalized mass-action systems
G Craciun, S Muller, C Pantea, PY Yu
arXiv preprint arXiv:1802.06919, 2018
242018
Biochemical space: a framework for systemic annotation of biological models
M Klement, T Děd, D Šafránek, J Červený, S Mueller, R Steuer
Electronic Notes in Theoretical Computer Science 306, 31-44, 2014
202014
Which sets of elementary flux modes form thermodynamically feasible flux distributions?
MP Gerstl, C Jungreuthmayer, S Müller, J Zanghellini
The FEBS journal 283 (9), 1782-1794, 2016
192016
On the bijectivity of families of exponential/generalized polynomial maps
S Müller, J Hofbauer, G Regensburger
SIAM Journal on Applied Algebra and Geometry 3 (3), 412-438, 2019
182019
Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution
W Gottstein, S Müller, H Herzel, R Steuer
Biosystems 117, 68-76, 2014
182014
A comprehensive web-based platform for domain-specific biological models
M Klement, D Šafránek, T Děd, A Pejznoch, L Nedbal, R Steuer, ...
Electronic Notes in Theoretical Computer Science 299, 61-67, 2013
182013
Complex-balanced equilibria of generalized mass-action systems: necessary conditions for linear stability
B Boros, S Müller, G Regensburger
arXiv preprint arXiv:1906.12214, 2019
162019
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