Stefan Müller

Publication Activity (10 Years)

Years Active: 2006-2024
Publications (10 Years): 10

Top Topics

Gene Regulatory

Polynomial Equations

Chemical Reactions

Top Venues

PLoS Comput. Biol.

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Stefan Müller, Georg Regensburger
Sufficient Conditions for Linear Stability of Complex-Balanced Equilibria in Generalized Mass-Action Systems. SIAM J. Appl. Dyn. Syst. 23 (1) (2024)
Marcus S. Aichmayr, Stefan Müller, Georg Regensburger
A SageMath Package for Elementary and Sign Vectors with Applications to Chemical Reaction Networks. ICMS (2024)
Marcus S. Aichmayr, Stefan Müller, Georg Regensburger
A SageMath Package for Elementary and Sign Vectors with Applications to Chemical Reaction Networks. CoRR (2024)
Stefan Müller, Diana Széliová, Jürgen Zanghellini
Elementary vectors and autocatalytic sets for resource allocation in next-generation models of cellular growth. PLoS Comput. Biol. 18 (2) (2022)
Stefan Müller, Christoph Flamm, Peter F. Stadler
What makes a reaction network "chemical"? J. Cheminformatics 14 (1) (2022)
Matthias P. Gerstl, Stefan Müller, Georg Regensburger, Jürgen Zanghellini
Flux tope analysis: studying the coordination of reaction directions in metabolic networks. Bioinform. 35 (2) (2019)
Stefan Müller, Josef Hofbauer, Georg Regensburger
On the Bijectivity of Families of Exponential/Generalized Polynomial Maps. SIAM J. Appl. Algebra Geom. 3 (3) (2019)
Steffen Klamt, Georg Regensburger, Matthias P. Gerstl, Christian Jungreuthmayer, Stefan Schuster, Radhakrishnan Mahadevan, Jürgen Zanghellini, Stefan Müller
From elementary flux modes to elementary flux vectors: Metabolic pathway analysis with arbitrary linear flux constraints. PLoS Comput. Biol. 13 (4) (2017)
Stefan Müller, Elisenda Feliu, Georg Regensburger, Carsten Conradi, Anne Shiu, Alicia Dickenstein
Sign Conditions for Injectivity of Generalized Polynomial Maps with Applications to Chemical Reaction Networks and Real Algebraic Geometry. Found. Comput. Math. 16 (1) (2016)
Yu-Ting Hsiao, Wei-Po Lee, Wei Yang, Stefan Müller, Christoph Flamm, Ivo L. Hofacker, Philipp Kügler
Practical Guidelines for Incorporating Knowledge-Based and Data-Driven Strategies into the Inference of Gene Regulatory Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 13 (1) (2016)
Stefan Müller, Georg Regensburger
Generalized Mass-Action Systems and Positive Solutions of Polynomial Equations with Real and Symbolic Exponents. CoRR (2014)
Willi Gottstein, Stefan Müller, Hanspeter Herzel, Ralf Steuer
Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution. Biosyst. 117 (2014)
Matej Klement, T. Ded, David Safránek, Jan Cervený, Stefan Müller, Ralf Steuer
Biochemical Space: A Framework for Systemic Annotation of Biological Models. Electron. Notes Theor. Comput. Sci. 306 (2014)
Stefan Müller, Georg Regensburger
Generalized Mass-Action Systems and Positive Solutions of Polynomial Equations with Real and Symbolic Exponents (Invited Talk). CASC (2014)
Matej Klement, David Safránek, T. Ded, Ales Pejznoch, Ladislav Nedbal, Ralf Steuer, Jan Cervený, Stefan Müller
A Comprehensive Web-based Platform For Domain-Specific Biological Models. Electron. Notes Theor. Comput. Sci. 299 (2013)
Stefan Müller, Georg Regensburger
Generalized Mass Action Systems: Complex Balancing Equilibria and Sign Vectors of the Stoichiometric and Kinetic-Order Subspaces. SIAM J. Appl. Math. 72 (6) (2012)
Rainer Machné, Andrew Finney, Stefan Müller, James Lu, Stefanie Widder, Christoph Flamm
The SBML ODE Solver Library: a native API for symbolic and fast numerical analysis of reaction networks. Bioinform. 22 (11) (2006)