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RuleMonkey: software for stochastic simulation of rule-based models.
Colvin J, Monine MI, Gutenkunst RN, Hlavacek WS, Von Hoff DD, Posner RG. Colvin J, et al. Among authors: posner rg. BMC Bioinformatics. 2010 Jul 30;11:404. doi: 10.1186/1471-2105-11-404. BMC Bioinformatics. 2010. PMID: 20673321 Free PMC article.
Rules for modeling signal-transduction systems.
Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W. Hlavacek WS, et al. Among authors: posner rg. Sci STKE. 2006 Jul 18;2006(344):re6. doi: 10.1126/stke.3442006re6. Sci STKE. 2006. PMID: 16849649 Review.
Simulation of large-scale rule-based models.
Colvin J, Monine MI, Faeder JR, Hlavacek WS, Von Hoff DD, Posner RG. Colvin J, et al. Among authors: posner rg. Bioinformatics. 2009 Apr 1;25(7):910-7. doi: 10.1093/bioinformatics/btp066. Epub 2009 Feb 11. Bioinformatics. 2009. PMID: 19213740 Free PMC article.
GetBonNie for building, analyzing and sharing rule-based models.
Hu B, Matthew Fricke G, Faeder JR, Posner RG, Hlavacek WS. Hu B, et al. Among authors: posner rg. Bioinformatics. 2009 Jun 1;25(11):1457-60. doi: 10.1093/bioinformatics/btp173. Epub 2009 Mar 25. Bioinformatics. 2009. PMID: 19321734 Free PMC article.
Guidelines for visualizing and annotating rule-based models.
Chylek LA, Hu B, Blinov ML, Emonet T, Faeder JR, Goldstein B, Gutenkunst RN, Haugh JM, Lipniacki T, Posner RG, Yang J, Hlavacek WS. Chylek LA, et al. Among authors: posner rg. Mol Biosyst. 2011 Oct;7(10):2779-95. doi: 10.1039/c1mb05077j. Epub 2011 Jun 7. Mol Biosyst. 2011. PMID: 21647530 Free PMC article.
59 results