| The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models M Hucka, A Finney, HM Sauro, H Bolouri, JC Doyle, H Kitano, AP Arkin, ... Bioinformatics 19 (4), 524-531, 2003 | 3839 | 2003 |
| COPASI—a complex pathway simulator S Hoops, S Sahle, R Gauges, C Lee, J Pahle, N Simus, M Singhal, L Xu, ... Bioinformatics 22 (24), 3067-3074, 2006 | 3048 | 2006 |
| The systems biology graphical notation NL Novère, M Hucka, H Mi, S Moodie, F Schreiber, A Sorokin, E Demir, ... Nature biotechnology 27 (8), 735-741, 2009 | 1060 | 2009 |
| Reproducible computational biology experiments with SED-ML-the simulation experiment description markup language D Waltemath, R Adams, FT Bergmann, M Hucka, F Kolpakov, AK Miller, ... BMC systems biology 5, 1-10, 2011 | 300 | 2011 |
| Computational modeling of biochemical networks using COPASI P Mendes, S Hoops, S Sahle, R Gauges, J Dada, U Kummer Systems Biology, 17-59, 2009 | 250 | 2009 |
| SBML Level 3: an extensible format for the exchange and reuse of biological models SM Keating, D Waltemath, M König, F Zhang, A Dräger, C Chaouiya, ... Molecular systems biology 16 (8), e9110, 2020 | 229 | 2020 |
| Minimum information about a simulation experiment (MIASE) D Waltemath, R Adams, DA Beard, FT Bergmann, US Bhalla, R Britten, ... PLoS computational biology 7 (4), e1001122, 2011 | 170 | 2011 |
| The systems biology markup language (SBML): language specification for level 3 version 2 core release 2 M Hucka, FT Bergmann, C Chaouiya, A Dräger, S Hoops, SM Keating, ... Journal of integrative bioinformatics 16 (2), 20190021, 2019 | 109 | 2019 |
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| COPASI and its applications in biotechnology FT Bergmann, S Hoops, B Klahn, U Kummer, P Mendes, J Pahle, S Sahle Journal of biotechnology 261, 215-220, 2017 | 101 | 2017 |
| The Systems Biology Markup Language (SBML): language specification for level 3 version 1 core M Hucka, FT Bergmann, S Hoops, SM Keating, S Sahle, JC Schaff, ... Journal of integrative bioinformatics 12 (2), 382-549, 2015 | 93 | 2015 |
| The systems biology markup language (SBML): language specification for level 3 version 2 core M Hucka, FT Bergmann, A Dräger, S Hoops, SM Keating, N Le Novère, ... Journal of integrative bioinformatics 15 (1), 20170081, 2018 | 89 | 2018 |
| The systems biology markup language (SBML): Language specification for level 3 version 1 core L Smith, D Wilkinson, M Hucka, F Bergmann, S Hoops, S Keating, S Sahle, ... Nature Precedings, 1-1, 2010 | 79 | 2010 |
| PEtab—Interoperable specification of parameter estimation problems in systems biology L Schmiester, Y Schälte, FT Bergmann, T Camba, E Dudkin, J Egert, ... PLoS computational biology 17 (1), e1008646, 2021 | 77 | 2021 |
| Applications and trends in systems biology in biochemistry K Hübner, S Sahle, U Kummer The FEBS journal 278 (16), 2767-2857, 2011 | 73 | 2011 |
| Systems biology markup language (SBML) level 2: Structures and facilities for model definitions M Hucka, S Hoops, S Keating, N Le Novère, S Sahle, D Wilkinson Nature Precedings, 1-1, 2008 | 67 | 2008 |
| Combining theoretical analysis and experimental data generation reveals IRF9 as a crucial factor for accelerating interferon α‐induced early antiviral signalling T Maiwald, A Schneider, H Busch, S Sahle, N Gretz, TS Weiss, U Kummer, ... The FEBS journal 277 (22), 4741-4754, 2010 | 65 | 2010 |
| A robust, locally interpretable algorithm for Lyapunov exponents F Grond, HH Diebner, S Sahle, A Mathias, S Fischer, OE Rossler Chaos, Solitons & Fractals 16 (5), 841-852, 2003 | 58 | 2003 |
| A model diagram layout extension for SBML R Gauges, U Rost, S Sahle, K Wegner Bioinformatics 22 (15), 1879-1885, 2006 | 55 | 2006 |
| Dynamics and feedback loops in the transforming growth factor β signaling pathway K Wegner, A Bachmann, JU Schad, P Lucarelli, S Sahle, P Nickel, ... Biophysical chemistry 162, 22-34, 2012 | 51 | 2012 |
