{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,11]],"date-time":"2026-01-11T01:23:45Z","timestamp":1768094625100,"version":"3.49.0"},"reference-count":80,"publisher":"Elsevier BV","issue":"3","license":[{"start":{"date-parts":[[2009,2,1]],"date-time":"2009-02-01T00:00:00Z","timestamp":1233446400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2013,7,17]],"date-time":"2013-07-17T00:00:00Z","timestamp":1374019200000},"content-version":"vor","delay-in-days":1627,"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/www.elsevier.com\/open-access\/userlicense\/1.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Computers & Mathematics with Applications"],"published-print":{"date-parts":[[2009,2]]},"DOI":"10.1016\/j.camwa.2008.10.086","type":"journal-article","created":{"date-parts":[[2008,12,10]],"date-time":"2008-12-10T15:59:28Z","timestamp":1228924768000},"page":"420-435","source":"Crossref","is-referenced-by-count":5,"title":["KINSOLVER: A simulator for computing large ensembles of biochemical and gene regulatory networks"],"prefix":"10.1016","volume":"57","author":[{"given":"Boanerges","family":"Aleman-Meza","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yihai","family":"Yu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Heinz-Bernd","family":"Sch\u00fcttler","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jonathan","family":"Arnold","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thiab R.","family":"Taha","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.camwa.2008.10.086_b1","doi-asserted-by":"crossref","first-page":"499","DOI":"10.1073\/pnas.27.11.499","article-title":"Genetic control of biochemical reactions in Neurospora","volume":"27","author":"Beadle","year":"1941","journal-title":"PNAS USA"},{"key":"10.1016\/j.camwa.2008.10.086_b2","series-title":"Metabolomics in Chapter 22 of Handbook of Industrial Mycology","author":"Arnold","year":"2004"},{"key":"10.1016\/j.camwa.2008.10.086_b3","doi-asserted-by":"crossref","first-page":"318","DOI":"10.1016\/S0022-2836(61)80072-7","article-title":"Genetic regulatory mechanisms in the synthesis of proteins","volume":"3","author":"Jacob","year":"1961","journal-title":"J. Mol. Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b4","series-title":"Handbook of Biochemical Kinetics","author":"Purich","year":"2000"},{"key":"10.1016\/j.camwa.2008.10.086_b5","doi-asserted-by":"crossref","first-page":"1183","DOI":"10.1093\/bioinformatics\/17.12.1183","article-title":"How to reconstruct a large genetic network from n gene perturbations in fewer than n2 easy steps","volume":"17","author":"Wagner","year":"2001","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b6","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1146\/annurev.ge.16.120182.000553","article-title":"Attenuation in amino acid biosynthesis operons","volume":"16","author":"Yanofsky","year":"1982","journal-title":"Ann. Rev. Genetic"},{"key":"10.1016\/j.camwa.2008.10.086_b7","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1146\/annurev.biochem.70.1.1","article-title":"Advancing our knowledge in biochemistry, genetics, and microbiology through studies of tryptophan metabolism","volume":"70","author":"Yanofsky","year":"2001","journal-title":"Annu. Rev. Biochem."},{"key":"10.1016\/j.camwa.2008.10.086_b8","doi-asserted-by":"crossref","first-page":"458","DOI":"10.1128\/MMBR.51.4.458-476.1987","article-title":"A model fungal regulatory mechanism: The GAL genes of Saccharomyces cerevisiae","volume":"51","author":"Johnston","year":"1987","journal-title":"Microbiol. Rev."},{"key":"10.1016\/j.camwa.2008.10.086_b9","doi-asserted-by":"crossref","first-page":"338","DOI":"10.1128\/mr.49.3.338-358.1985","article-title":"Gene organization and regulation in the qa (Quinic Acid) gene cluster of Neurospora crasssa","volume":"49","author":"Giles","year":"1985","journal-title":"Microbiol. Rev."},{"key":"10.1016\/j.camwa.2008.10.086_b10","doi-asserted-by":"crossref","first-page":"7865","DOI":"10.1073\/pnas.97.14.7865","article-title":"Modeling the fission yeast cell cycle: Quantized cycle times in wee1-cdc25D mutant cells","volume":"97","author":"Sveiczer","year":"2000","journal-title":"PNAS USA"},{"issue":"1","key":"10.1016\/j.camwa.2008.10.086_b11","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1089\/cmb.2005.12.48","article-title":"Parameter estimation for a mathematical model of the cell cycle in frog eggs","volume":"12","author":"Zwolak","year":"2005","journal-title":"J. Comp. Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b12","unstructured":"J.W. Zwolak, J.J. Tyson, L.T. Watson, Estimating rate constants in cell cycle models, in: A. Tentner (Ed.), Proc. High Performance Computing Symposium 2001, in: Soc. for Modeling and Simulation Internat., San Diego, CA, 2001, pp. 53\u201357"},{"key":"10.1016\/j.camwa.2008.10.086_b13","unstructured":"J.W. Zwolak, J.J. Tyson, L.T. Watson, Parameter estimation in a cell cycle model for frog egg extracts, in: A. Tentner (Ed.), Proc. High Performance Computing Symposium 2002, in: Soc. For Modeling and Simulation Internat., San Diego, CA, 2002, pp. 67\u201374"},{"key":"10.1016\/j.camwa.2008.10.086_b14","unstructured":"J.W. Zwolak, J.J. Tyson, L.T. Watson, Finding all steady state solutions of chemical kinetic models, in: I. Banicescu (Ed.), Proc. High Performance Computing Symposium 2003, Soc. for Modeling and Simulation Internat., San Diego, CA, 2003, pp. 47\u201353"},{"key":"10.1016\/j.camwa.2008.10.086_b15","doi-asserted-by":"crossref","first-page":"801","DOI":"10.1016\/j.nonrwa.2004.02.002","article-title":"Finding all steady state solutions of chemical kinetic models","volume":"5","author":"Zwolak","year":"2004","journal-title":"Nonlinear Anal. RWA"},{"key":"10.1016\/j.camwa.2008.10.086_b16","unstructured":"J.W. Zwolak, J.J. Tyson, L.T. Watson, Globally optimized parameters for a model of mitotic control in frog egg extracts, Technical Report TR-04-18, Computer Science, Virginia Tech., 2004"},{"key":"10.1016\/j.camwa.2008.10.086_b17","doi-asserted-by":"crossref","first-page":"2809","DOI":"10.1073\/pnas.0611005104","article-title":"A genetic network for the clock of Neurospora crasssa","volume":"104","author":"Yu","year":"2007","journal-title":"PNAS USA"},{"key":"10.1016\/j.camwa.2008.10.086_b18","doi-asserted-by":"crossref","first-page":"381","DOI":"10.1126\/science.283.5400.381","article-title":"Emergent properties of networks of biological signaling pathways","volume":"283","author":"Bhalla","year":"1999","journal-title":"Science"},{"key":"10.1016\/j.camwa.2008.10.086_b19","doi-asserted-by":"crossref","first-page":"680","DOI":"10.1126\/science.278.5338.680","article-title":"Exploring the metabolic and genetic control of gene expression on a genomic scale","volume":"278","author":"DeRisi","year":"1997","journal-title":"Science"},{"key":"10.1016\/j.camwa.2008.10.086_b20","doi-asserted-by":"crossref","first-page":"994","DOI":"10.1038\/13690","article-title":"Quantitative analysis of complex protein mixtures using isotope-coded affinity tags","volume":"17","author":"Gygi","year":"1999","journal-title":"Nature Biotechnol."},{"key":"10.1016\/j.camwa.2008.10.086_b21","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1093\/bioinformatics\/15.1.72","article-title":"E-CELL: Software environment for whole-cell simulation","volume":"15","author":"Tomita","year":"1999","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b22","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1016\/S0167-7799(01)01740-1","article-title":"The virtual cell: A software environment for computational cell biology","volume":"19","author":"Loew","year":"2001","journal-title":"Trends Biotechnol."},{"key":"10.1016\/j.camwa.2008.10.086_b23","doi-asserted-by":"crossref","first-page":"534","DOI":"10.1093\/bioinformatics\/16.6.534","article-title":"Systemic properties of ensembles of metabolic networks: Application of graphical and statistical methods to simple unbranched pathways","volume":"16","author":"Alves","year":"2000","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b24","doi-asserted-by":"crossref","first-page":"16904","DOI":"10.1073\/pnas.262658899","article-title":"An ensemble method for identifying regulatory circuits with special reference to the qa gene cluster of Neurospora crasssa","volume":"99","author":"Battogtokh","year":"2002","journal-title":"PNAS USA"},{"key":"10.1016\/j.camwa.2008.10.086_b25","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1126\/science.284.5411.92","article-title":"Complexity in biological signaling systems","volume":"284","author":"Weng","year":"1999","journal-title":"Science"},{"key":"10.1016\/j.camwa.2008.10.086_b26","first-page":"89","article-title":"MetaModel: A program for modeling and control analysis of metabolic pathways on the IBM PC and compatibles","volume":"7","author":"Cornish-Bowden","year":"1991","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/j.camwa.2008.10.086_b27","first-page":"563","article-title":"GEPASI: A software package for modeling the dynamics, steady states and control of biochemical and other systems","volume":"9","author":"Mendes","year":"1993","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/j.camwa.2008.10.086_b28","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1016\/S0968-0004(97)01103-1","article-title":"Biochemistry by numbers: Simulation of biochemical pathways with Gepasi 3","volume":"22","author":"Mendes","year":"1997","journal-title":"Trends Biochem. Sci."},{"key":"10.1016\/j.camwa.2008.10.086_b29","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1111\/j.1432-1033.1987.tb11214.x","article-title":"Metabolic control and its analysis","volume":"165","author":"Sauro","year":"1987","journal-title":"Eur. J. Biochem."},{"key":"10.1016\/j.camwa.2008.10.086_b30","first-page":"441","article-title":"SCAMP: A general-purpose simulator and metabolic control analysis program","volume":"9","author":"Sauro","year":"1993","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/j.camwa.2008.10.086_b31","doi-asserted-by":"crossref","first-page":"134","DOI":"10.1016\/0003-2697(83)90660-7","article-title":"Analysis of numerical methods for computer simulation of kinetic processes: Development of KINSIM-a flexible, portable system","volume":"130","author":"Barshop","year":"1983","journal-title":"Anal. Biochem."},{"key":"10.1016\/j.camwa.2008.10.086_b32","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1016\/S0968-0004(97)01062-1","article-title":"New PC versions of the kinetic-simulation and fitting programs, KINSIM and FITSIM","volume":"22","author":"Dang","year":"1997","journal-title":"Trends Biochem. Sci."},{"key":"10.1016\/j.camwa.2008.10.086_b33","doi-asserted-by":"crossref","first-page":"3680","DOI":"10.1093\/bioinformatics\/bth422","article-title":"The JigCell model builder and run manager","volume":"20","author":"Vass","year":"2004","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b34","first-page":"285","article-title":"Omics","volume":"7","author":"Allen","year":"2003","journal-title":"J. Integrative Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b35","first-page":"201","article-title":"MIST: A user-friendly metabolic simulator","volume":"11","author":"Ehlde","year":"1995","journal-title":"Comput. Appl. Biosci."},{"key":"10.1016\/j.camwa.2008.10.086_b36","series-title":"Mathematical Biology","author":"Murray","year":"1993"},{"key":"10.1016\/j.camwa.2008.10.086_b37","unstructured":"K. Murphy, S. Mian, Modeling gene expression data using dynamic Bayesian networks, Technical Report, Berkeley, 1999"},{"issue":"3\u20134","key":"10.1016\/j.camwa.2008.10.086_b38","doi-asserted-by":"crossref","first-page":"601","DOI":"10.1089\/106652700750050961","article-title":"Using Bayesian network to analyze expression data","volume":"7","author":"Friedman","year":"2000","journal-title":"J. Comput. Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b39","first-page":"112","article-title":"Modeling regulatory networks with weight matrices","volume":"4","author":"Weaver","year":"1999","journal-title":"Pac. Symp. Biocomput."},{"key":"10.1016\/j.camwa.2008.10.086_b40","doi-asserted-by":"crossref","first-page":"469","DOI":"10.1007\/s001099900023","article-title":"Gene expression profiling, genetic networks and cellular states: An integrating concept for tumorigenesis and drug discovery","volume":"77","author":"Huang","year":"1999","journal-title":"J. Mol. Med."},{"key":"10.1016\/j.camwa.2008.10.086_b41","unstructured":"I. Shmulevich, Yli O. Harja, J. Astola, Inference on genetic regulatory networks under the best-fit extension paradigm, in: Proc. of the IEEE-EURASIP Workshop on Nonlinear Signal and Image Processing, NSIP-01, June 3\u20136, Maryland, Baltimore, 2001"},{"key":"10.1016\/j.camwa.2008.10.086_b42","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1093\/bioinformatics\/18.2.261","article-title":"Probabilistic Boolean networks: A rule-based uncertainty model for gene regulatory networks","volume":"18","author":"Shmulevich","year":"2002","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b43","doi-asserted-by":"crossref","unstructured":"N.A. Allen, C.A. Shaffer, M.T. Vass, N. Ramakrishnan, L.T. Watson, Improving the development process for eukaryotic cell cycle models with A modeling support environment, in: S. Chick, P.J. Sanchez, D. Ferrin, D.J. Morrice (Eds.), Proc. of the Winter Simulation Conference, 2003, pp. 782\u2013790","DOI":"10.1109\/WSC.2003.1261496"},{"key":"10.1016\/j.camwa.2008.10.086_b44","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1016\/0022-2836(89)90438-5","article-title":"DNA sequence, organization and regulation of the qa gene cluster of Neurospora crasssa","volume":"207","author":"Geever","year":"1989","journal-title":"J. Mol. Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b45","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1023\/A:1021565722755","article-title":"IntelliGEN: A distributed workflow system for discovering protein\u2013protein interactions","volume":"13","author":"Kochut","year":"2003","journal-title":"Parallel Distributed Databases"},{"key":"10.1016\/j.camwa.2008.10.086_b46","series-title":"Differential Equations in Engineering Problems","author":"Salvadori","year":"1954"},{"key":"10.1016\/j.camwa.2008.10.086_b47","series-title":"Applied Mathematics and Modeling for Chemical Engineers","author":"Rice","year":"1995"},{"key":"10.1016\/j.camwa.2008.10.086_b48","series-title":"Java Server and Servlets, Building Portable Web Applications","author":"Rossbach","year":"2000"},{"key":"10.1016\/j.camwa.2008.10.086_b49","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1007\/BF02234758","article-title":"Classical fifth-, sixth-, seventh- and eighth order Runge\u2013Kutta formulas with step size control","volume":"4","author":"Fehlberg","year":"1969","journal-title":"Computing"},{"key":"10.1016\/j.camwa.2008.10.086_b50","series-title":"Solving Ordinary Differential Equation I. Nonstiff Problems","author":"Hairer","year":"1987"},{"key":"10.1016\/j.camwa.2008.10.086_b51","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1137\/0904010","article-title":"Automatic selection of methods for solving stiff and nonstiff systems of ordinary differential equations","volume":"4","author":"Petzold","year":"1983","journal-title":"SIAM J. Sci. Statist. Comput."},{"issue":"2","key":"10.1016\/j.camwa.2008.10.086_b52","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1049\/ip-syb:20045032","article-title":"Globally optimized parameters for a model of mitotic control in frog egg extracts","volume":"152","author":"Zwolak","year":"2005","journal-title":"IEE Proc. \u2014 Systems Biol."},{"issue":"4","key":"10.1016\/j.camwa.2008.10.086_b53","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1145\/1218052.1218054","article-title":"LSODE and LSOD, Two new initial value ordinary differential equation solvers","volume":"15","author":"Hindmarsh","year":"1980","journal-title":"ACM SIGNUM Newsletter"},{"key":"10.1016\/j.camwa.2008.10.086_b54","series-title":"Scientific Computing","first-page":"55","article-title":"ODEPACK, a systematized collection of ODE solvers","author":"Hindmarsh","year":"1983"},{"key":"10.1016\/j.camwa.2008.10.086_b55","doi-asserted-by":"crossref","unstructured":"S.C. Eisenstat, M.C. Gursky, M.H. Schultz, A.H. Sherman, Yale Sparse Matrix Package: II. The Nonsymmetric Codes, Yale University Computer Science Dept. Report no. 114, 1977","DOI":"10.21236\/ADA047725"},{"key":"10.1016\/j.camwa.2008.10.086_b56","doi-asserted-by":"crossref","first-page":"1145","DOI":"10.1002\/nme.1620180804","article-title":"Yale Sparse matrix package: II. The symmetric codes","volume":"18","author":"Eisenstat","year":"1982","journal-title":"Int. J. Num. Math. Eng."},{"key":"10.1016\/j.camwa.2008.10.086_b57","doi-asserted-by":"crossref","first-page":"524","DOI":"10.1093\/bioinformatics\/btg015","article-title":"The systems biology markup language (SBML): A medium for representation and exchange of biochemical network models","volume":"19","author":"Hucka","year":"2003","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b58","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1038\/35002125","article-title":"A synthetic oscillatory network of transcriptional regulators","volume":"403","author":"Elowitz","year":"2000","journal-title":"Nature"},{"key":"10.1016\/j.camwa.2008.10.086_b59","series-title":"Enzyme Kinetics","author":"Segel","year":"1975"},{"key":"10.1016\/j.camwa.2008.10.086_b60","doi-asserted-by":"crossref","first-page":"8649","DOI":"10.1021\/ja00780a001","article-title":"Oscillations in chemical systems, Part 2. Thorough analysis of temporal oscillations in the bromate\u2013cerium\u2013malonic acid system","volume":"94","author":"Field","year":"1972","journal-title":"J. Am. Chem. Soc."},{"key":"10.1016\/j.camwa.2008.10.086_b61","series-title":"Oscillations and Traveling Waves in Chemical Systems","first-page":"92","article-title":"A quantitative account of oscillations, excitability, and travelling waves in a realistic model of the Belousov\u2013Zhabotinskii reaction","author":"Tyson","year":"1985"},{"key":"10.1016\/j.camwa.2008.10.086_b62","doi-asserted-by":"crossref","unstructured":"J. He, M. Sosonkina, C.A. Shaffer, J.J. Tyson, L.T. Watson, J.W. Zwolak, A hierarchical parallel scheme for global parameter estimation in systems biology, in: Proc. of International Parallel and Distributed Processing Symposium, Los Alamitos, California, 2004, pp. 1\u20139","DOI":"10.1109\/IPDPS.2004.1302958"},{"issue":"8","key":"10.1016\/j.camwa.2008.10.086_b63","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0003105","article-title":"Systems biology of the clock in Neurospora crasssa","volume":"3","author":"Dong","year":"2008","journal-title":"PLoS ONE"},{"key":"10.1016\/j.camwa.2008.10.086_b64","doi-asserted-by":"crossref","first-page":"869","DOI":"10.1093\/bioinformatics\/14.10.869","article-title":"Non-linear optimization of biochemical pathways: Applications to metabolic engineering and parameter estimation","volume":"14","author":"Mendes","year":"1998","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b65","doi-asserted-by":"crossref","first-page":"443","DOI":"10.1002\/spe.444","article-title":"J3DV: A java-based 3D database visualization tool","volume":"32","author":"Fang","year":"2002","journal-title":"Software \u2014 Practice Experience"},{"key":"10.1016\/j.camwa.2008.10.086_b66","series-title":"The Jackknife, the Bootstrap and Other Resampling Plans","author":"Efron","year":"1982"},{"key":"10.1016\/j.camwa.2008.10.086_b67","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1006\/jtbi.2001.2405","article-title":"Regulation of gene expression in flux balance models of metabolism","volume":"213","author":"Covert","year":"2001","journal-title":"J. Theor. Biol."},{"key":"10.1016\/j.camwa.2008.10.086_b68","doi-asserted-by":"crossref","DOI":"10.1093\/genetics\/71.3.337","article-title":"Genetical and biochemical evidence for further interrelationships between the polyaromatic synthetic and the quinate-shikimate catabolic pathways in Neurospora crassa","volume":"71","author":"Case","year":"1972","journal-title":"Genetics"},{"key":"10.1016\/j.camwa.2008.10.086_b69","doi-asserted-by":"crossref","first-page":"1633","DOI":"10.1093\/genetics\/149.4.1633","article-title":"Stochastic kinetic analysis of development pathway bifurcation in phage \u03bb-infected Escherichia coli cells","volume":"149","author":"Arkin","year":"1998","journal-title":"Genetics"},{"key":"10.1016\/j.camwa.2008.10.086_b70","series-title":"A Genetic Switch, Phage Lambda and Higher Organisms","author":"Ptashne","year":"1992"},{"key":"10.1016\/j.camwa.2008.10.086_b71","doi-asserted-by":"crossref","first-page":"2340","DOI":"10.1021\/j100540a008","article-title":"Exact stochastic simulation of coupled chemical reactions","volume":"81","author":"Gillespie","year":"1977","journal-title":"J. Phys. Chem."},{"key":"10.1016\/j.camwa.2008.10.086_b72","doi-asserted-by":"crossref","first-page":"470","DOI":"10.1093\/bioinformatics\/18.3.470","article-title":"STOCKS: STOChastic Kinetic Simulations of biochemical systems with Gillespie algorithm","volume":"18","author":"Kierzek","year":"2002","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b73","doi-asserted-by":"crossref","first-page":"288","DOI":"10.1093\/bioinformatics\/17.3.288","article-title":"MEG (Model Extender for Gepasi): A program for the modeling of complex, heterogeneous, cellular systems","volume":"17","author":"Mendes","year":"2001","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b74","series-title":"Principles of Mathematical Analysis","author":"Rudin","year":"1976"},{"key":"10.1016\/j.camwa.2008.10.086_b75","doi-asserted-by":"crossref","first-page":"339","DOI":"10.1038\/35002131","article-title":"Construction of a genetic toggle switch in Escherichia coli","volume":"403","author":"Gardner","year":"2000","journal-title":"Nature"},{"key":"10.1016\/j.camwa.2008.10.086_b76","series-title":"Differential Equations with Discontinuous Right hand Sides","author":"Filippov","year":"1988"},{"key":"10.1016\/j.camwa.2008.10.086_b77","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1093\/bioinformatics\/17.5.461","article-title":"A graph layout algorithm for drawing metabolic pathways","volume":"17","author":"Becker","year":"2001","journal-title":"Bioinformatics"},{"key":"10.1016\/j.camwa.2008.10.086_b78","unstructured":"L. Deligiannidis, T.R. Taha, B. Aleman-Meza, Y. Yu, H.-B. Schuttler, J. Arnold, GKIN: A Graphical User Interface for KINSOLVER, in: Proc. of the 2005 International Arabic Conference on Information Technology, ACIT\u20192005, Dec. 6\u20138, 2005, Al Isra Private University, Amman, Jordan, 2005, pp. 245\u2013251"},{"key":"10.1016\/j.camwa.2008.10.086_b79","unstructured":"Gene. Computing Life Web Page, Genetics Department, University of Georgia. https:\/\/2.zoppoz.workers.dev:443\/http\/gene.genetics.uga.edu\/stc\/"},{"key":"10.1016\/j.camwa.2008.10.086_b80","doi-asserted-by":"crossref","first-page":"441","DOI":"10.1111\/j.0014-3820.2004.tb01660.x","article-title":"Essential eukaryotic core","volume":"58","author":"Strobel","year":"2004","journal-title":"Evolution"}],"container-title":["Computers & Mathematics with Applications"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/api.elsevier.com\/content\/article\/PII:S0898122108006287?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/api.elsevier.com\/content\/article\/PII:S0898122108006287?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2021,9,27]],"date-time":"2021-09-27T11:35:30Z","timestamp":1632742530000},"score":1,"resource":{"primary":{"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/linkinghub.elsevier.com\/retrieve\/pii\/S0898122108006287"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,2]]},"references-count":80,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2009,2]]}},"alternative-id":["S0898122108006287"],"URL":"https:\/\/2.zoppoz.workers.dev:443\/https\/doi.org\/10.1016\/j.camwa.2008.10.086","relation":{},"ISSN":["0898-1221"],"issn-type":[{"value":"0898-1221","type":"print"}],"subject":[],"published":{"date-parts":[[2009,2]]}}}