GEPASI swMATH ID: 7916 Software Authors: P. Mendes Description: Gepasi is a software package for modeling biochemical systems. It simulates the kinetics of systems of biochemical reactions and provides a number of tools to fit models to data, optimize any function of the model, perform metabolic control analysis and linear stability analysis. Gepasi simplifies the task of model building by assisting the user in translating the language of chemistry (reactions) to mathematics (matrices and differential equations) in a transparent way. This is combined with a set of sophisticated numerical algorithms that assure the results are obtained fast and accurate. Gepasi is intended primarily for research purposes but because of its user-friendly interface it is equally good for education. Homepage: http://www.gepasi.org/ Related Software: E-CELL; Virtual Cell; SCAMP; MCELL; MetaModel; ODEPACK; Bio-SPICE; COPASI; KEGG; MEG; gnuplot; STOCHSIM; PySCeS; GraphPad Prism; Prism; Mathematica; REVEAL; Macaulay2; CoCoA; BioModels Cited in: 28 Publications all top 5 Cited by 69 Authors 4 Lazár, Dušan 2 Archetti, Marco 2 Heiner, Monika 2 Scheuring, István 2 Snoep, Jacky L. 2 Westerhoff, Hans V. 1 Aleman-Meza, Boanerges 1 Arnold, Jonathan 1 Bakalis, Evangelos 1 Bakker, Barbara M. 1 Baldari, Cosima Tatiana 1 Banerjee, Nilanjana 1 Califano, Andrea 1 Chen, Ming 1 Corpas, Manuel 1 Curti, Michele 1 Degano, Pierpaolo 1 Demir, Ozlem 1 Dyck, Cheryl 1 Edelstein-Keshet, Leah 1 Finegood, Diane T. 1 Ghosh, Avijit 1 Gilbert, David 1 Hariharaputran, Sridhar 1 Hayot, Fernand 1 Hofestädt, Ralf 1 Ilík, Petr 1 Jablonský, Jiří 1 Jayaprakash, Ciriyam 1 Jonker, Catholijn M. 1 Kell, Douglas B. 1 Koch, Ina 1 Komba, Mitsuhiro 1 Kooi, Bob W. 1 Kormeier, Benjamin 1 Kosmas, Marios K. 1 Kruk, Jerzy 1 Kurnaz, Isil Aksan 1 Łabęcki, Marek 1 Laubenbacher, Reinhard C. 1 Lindahl, Paul A. 1 Marée, Athanasius F. M. 1 Margolin, Adam A. 1 Mendoza-Cózatl, David G. 1 Miller, David John 1 Moreno-Sánchez, Rafael 1 Morgan, Jeff J. 1 Nauš, Jan 1 Nemenman, Ilya 1 Ortoleva, Peter J. 1 Papamichael, Emmanouel M. 1 Priami, Corrado 1 Reijenga, Karin A. 1 Ribeiro, André Silva 1 Schüttler, Heinz-Bernd 1 Stigler, Brandilyn 1 Stirbet, Alexandrina D. 1 Strasser, Reto J. 1 Strzałka, Kazimierz 1 Surovtsev, Ivan V. 1 Taha, Thiab R. 1 Treur, Jan 1 van Megen, Yvonne M. G. A. 1 van Verseveld, Henk W. 1 Veitia, Reiner A. 1 Wang, Kai 1 Weitzke, Elizabeth L. 1 Wijngaards, Wouter C. A. 1 Yu, Yihai all top 5 Cited in 9 Serials 15 Journal of Theoretical Biology 2 Computational Biology and Chemistry 1 Computers & Mathematics with Applications 1 Journal of Computational Physics 1 Mathematical Biosciences 1 Bulletin of Mathematical Biology 1 Mathematics and Computers in Simulation 1 Theoretical Computer Science 1 Natural Computing all top 5 Cited in 8 Fields 28 Biology and other natural sciences (92-XX) 7 Computer science (68-XX) 3 Numerical analysis (65-XX) 2 Game theory, economics, finance, and other social and behavioral sciences (91-XX) 1 History and biography (01-XX) 1 Mathematical logic and foundations (03-XX) 1 Ordinary differential equations (34-XX) 1 Partial differential equations (35-XX) Citations by Year