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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: yang j. Mol Biosyst. 2011 Oct;7(10):2779-95. doi: 10.1039/c1mb05077j. Epub 2011 Jun 7. Mol Biosyst. 2011. PMID: 21647530 Free PMC article.
'On-the-fly' or 'generate-first' modeling?
Blinov ML, Faeder JR, Yang J, Goldstein B, Hlavacek WS. Blinov ML, et al. Among authors: yang j. Nat Biotechnol. 2005 Nov;23(11):1344-5; author reply 1345. doi: 10.1038/nbt1105-1344. Nat Biotechnol. 2005. PMID: 16273053 No abstract available.
On imposing detailed balance in complex reaction mechanisms.
Yang J, Bruno WJ, Hlavacek WS, Pearson JE. Yang J, et al. Biophys J. 2006 Aug 1;91(3):1136-41. doi: 10.1529/biophysj.105.071852. Epub 2006 May 12. Biophys J. 2006. PMID: 16698778 Free PMC article. No abstract available.
Depicting signaling cascades.
Blinov ML, Yang J, Faeder JR, Hlavacek WS. Blinov ML, et al. Among authors: yang j. Nat Biotechnol. 2006 Feb;24(2):137-8; author reply 138. doi: 10.1038/nbt0206-137. Nat Biotechnol. 2006. PMID: 16465147 No abstract available.
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