Sven Sahle

Publication Activity (10 Years)

Years Active: 2006-2022
Publications (10 Years): 10

Top Topics

Markup Language

Biochemical Networks

State Estimation

Stochastic Models

Top Venues

J. Integr. Bioinform.

PLoS Comput. Biol.

Publications

Benjamin D. Maier, Luis U. Aguilera, Sven Sahle, Pascal Mutz, Priyata Kalra, Christopher Dächert, Ralf Bartenschlager, Marco Binder, Ursula Kummer
Stochastic dynamics of Type-I interferon responses. PLoS Comput. Biol. 18 (10) (2022)
Leonard Schmiester, Yannik Schälte, Frank T. Bergmann, Tacio Camba, Erika Dudkin, Janine Egert, Fabian Fröhlich, Lara Fuhrmann, Adrian L. Hauber, Svenja Kemmer, Polina A. Lakrisenko, Carolin Loos, Simon Merkt, Wolfgang Müller, Dilan Pathirana, Elba Raimúndez-Álvarez, Lukas Refisch, Marcus Rosenblatt, Paul L. Stapor, Philipp Städter, Dantong Wang, Franz-Georg Wieland, Julio R. Banga, Jens Timmer, Alejandro F. Villaverde, Sven Sahle, Clemens Kreutz, Jan Hasenauer, Daniel Weindl
PEtab - Interoperable specification of parameter estimation problems in systems biology. PLoS Comput. Biol. 17 (1) (2021)
Michael Hucka, Frank T. Bergmann, Claudine Chaouiya, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Matthias König, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Rahuman S. Malik-Sheriff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson, Fengkai Zhang
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Release 2. J. Integr. Bioinform. 16 (2) (2019)
Frank T. Bergmann, Sarah M. Keating, Ralph Gauges, Sven Sahle, Katja Wengler
SBML Level 3 package: Render, Version 1, Release 1. J. Integr. Bioinform. 15 (1) (2018)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. J. Integr. Bioinform. 15 (1) (2018)
Frank T. Bergmann, Jonathan Cooper, Matthias König, Ion I. Moraru, David P. Nickerson, Nicolas Le Novère, Brett G. Olivier, Sven Sahle, Lucian P. Smith, Dagmar Waltemath
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3). J. Integr. Bioinform. 15 (1) (2018)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core. J. Integr. Bioinform. 15 (1) (2018)
Frank T. Bergmann, Sven Sahle, Christoph Zimmer
Piecewise parameter estimation for stochastic models in COPASI. Bioinform. 32 (10) (2016)
Christoph Zimmer, Sven Sahle
Comparison of approaches for parameter estimation on stochastic models: Generic least squares versus specialized approaches. Comput. Biol. Chem. 61 (2016)
Christoph Zimmer, Frank T. Bergmann, Sven Sahle
Reducing local minima in fitness landscapes of parameter estimation by using piecewise evaluation and state estimation. CoRR (2016)
Christoph Zimmer, Sven Sahle
A termination criterion for parameter estimation in stochastic models in systems biology. Biosyst. 137 (2015)
Ralph Gauges, Ursula Rost, Sven Sahle, Katja Wengler, Frank Thomas Bergmann
The Systems Biology Markup Language (SBML) Level 3 Package: Layout, Version 1 Core. J. Integr. Bioinform. 12 (2) (2015)
Michael Hucka, Frank T. Bergmann, Andreas Dräger, Stefan Hoops, Sarah M. Keating, Nicolas Le Novère, Chris J. Myers, Brett G. Olivier, Sven Sahle, James C. Schaff, Lucian P. Smith, Dagmar Waltemath, Darren J. Wilkinson
Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions. J. Integr. Bioinform. 12 (2) (2015)
Michael Hucka, Frank T. Bergmann, Stefan Hoops, Sarah M. Keating, Sven Sahle, James C. Schaff, Lucian P. Smith, Darren J. Wilkinson
The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core. J. Integr. Bioinform. 12 (2) (2015)
Irina Surovtsova, Natalia Simus, Katrin Hübner, Sven Sahle, Ursula Kummer
Simplification of biochemical models: a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics. BMC Syst. Biol. 6 (2012)
Dagmar Waltemath, Richard R. Adams, Daniel A. Beard, Frank T. Bergmann, Upinder S. Bhalla, Randall Britten, Vijayalakshmi Chelliah, Mike T. Cooling, Jonathan Cooper, Edmund J. Crampin, Alan Garny, Stefan Hoops, Michael Hucka, Peter J. Hunter, Edda Klipp, Camille Laibe, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Poul M. F. Nielsen, Macha Nikolski, Sven Sahle, Herbert M. Sauro, Henning Schmidt, Jacky L. Snoep, Dominic P. Tolle, Olaf Wolkenhauer, Nicolas Le Novère
Minimum Information About a Simulation Experiment (MIASE). PLoS Comput. Biol. 7 (4) (2011)
Dagmar Waltemath, Richard R. Adams, Frank T. Bergmann, Michael Hucka, Fedor A. Kolpakov, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Sven Sahle, Jacky L. Snoep, Nicolas Le Novère
Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language. BMC Syst. Biol. 5 (2011)
Irina Surovtsova, Natalia Simus, Thomas Lorenz, Artjom König, Sven Sahle, Ursula Kummer
Accessible methods for the dynamic time-scale decomposition of biochemical systems. Bioinform. 25 (21) (2009)
Andreas Weidemann, Stefan Richter, Matthias Stein, Sven Sahle, Ralph Gauges, Razif R. Gabdoulline, Irina Surovtsova, Nils Semmelrock, Bruno Besson, Isabel Rojas, Rebecca C. Wade, Ursula Kummer
SYCAMORE - a systems biology computational analysis and modeling research environment. Bioinform. 24 (12) (2008)
Stefan Hoops, Sven Sahle, Ralph Gauges, Christine Lee, Jürgen Pahle, Natalia Simus, Mudita Singhal, Liang Xu, Pedro Mendes, Ursula Kummer
COPASI - a COmplex PAthway SImulator. Bioinform. 22 (24) (2006)
Sven Sahle, Ralph Gauges, Jürgen Pahle, Natalia Simus, Ursula Kummer, Stefan Hoops, Christine Lee, Mudita Singhal, Liang Xu, Pedro Mendes
Simulation of biochemical networks using COPASI: a complex pathway simulator. WSC (2006)
Irina Surovtsova, Sven Sahle, Jürgen Pahle, Ursula Kummer
Approaches to complexity reduction in a systems biology research environment (SYCAMORE). WSC (2006)
Ralph Gauges, Ursula Rost, Sven Sahle, Katja Wegner
A model diagram layout extension for SBML. Bioinform. 22 (15) (2006)