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The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.
Hucka M, Finney A, Sauro HM, Bolouri H, Doyle JC, Kitano H, Arkin AP, Bornstein BJ, Bray D, Cornish-Bowden A, Cuellar AA, Dronov S, Gilles ED, Ginkel M, Gor V, Goryanin II, Hedley WJ, Hodgman TC, Hofmeyr JH, Hunter PJ, Juty NS, Kasberger JL, Kremling A, Kummer U, Le Novère N, Loew LM, Lucio D, Mendes P, Minch E, Mjolsness ED, Nakayama Y, Nelson MR, Nielsen PF, Sakurada T, Schaff JC, Shapiro BE, Shimizu TS, Spence HD, Stelling J, Takahashi K, Tomita M, Wagner J, Wang J; SBML Forum. Hucka M, et al. Among authors: loew lm. Bioinformatics. 2003 Mar 1;19(4):524-31. doi: 10.1093/bioinformatics/btg015. Bioinformatics. 2003. PMID: 12611808
SBML Level 3: an extensible format for the exchange and reuse of biological models.
Keating SM, Waltemath D, König M, Zhang F, Dräger A, Chaouiya C, Bergmann FT, Finney A, Gillespie CS, Helikar T, Hoops S, Malik-Sheriff RS, Moodie SL, Moraru II, Myers CJ, Naldi A, Olivier BG, Sahle S, Schaff JC, Smith LP, Swat MJ, Thieffry D, Watanabe L, Wilkinson DJ, Blinov ML, Begley K, Faeder JR, Gómez HF, Hamm TM, Inagaki Y, Liebermeister W, Lister AL, Lucio D, Mjolsness E, Proctor CJ, Raman K, Rodriguez N, Shaffer CA, Shapiro BE, Stelling J, Swainston N, Tanimura N, Wagner J, Meier-Schellersheim M, Sauro HM, Palsson B, Bolouri H, Kitano H, Funahashi A, Hermjakob H, Doyle JC, Hucka M; SBML Level 3 Community members. Keating SM, et al. Mol Syst Biol. 2020 Aug;16(8):e9110. doi: 10.15252/msb.20199110. Mol Syst Biol. 2020. PMID: 32845085 Free PMC article. Review.
Rule-based modeling with Virtual Cell.
Schaff JC, Vasilescu D, Moraru II, Loew LM, Blinov ML. Schaff JC, et al. Among authors: loew lm. Bioinformatics. 2016 Sep 15;32(18):2880-2. doi: 10.1093/bioinformatics/btw353. Epub 2016 Jun 9. Bioinformatics. 2016. PMID: 27497444 Free PMC article.
Pathway Commons at virtual cell: use of pathway data for mathematical modeling.
Blinov ML, Schaff JC, Ruebenacker O, Wei X, Vasilescu D, Gao F, Morgan F, Ye L, Lakshminarayana A, Moraru II, Loew LM. Blinov ML, et al. Among authors: loew lm. Bioinformatics. 2014 Jan 15;30(2):292-4. doi: 10.1093/bioinformatics/btt660. Epub 2013 Nov 22. Bioinformatics. 2014. PMID: 24273241 Free PMC article.
The virtual cell.
Schaff J, Loew LM. Schaff J, et al. Among authors: loew lm. Pac Symp Biocomput. 1999:228-39. doi: 10.1142/9789814447300_0023. Pac Symp Biocomput. 1999. PMID: 10380200 Free article.
Physiological modeling with virtual cell framework.
Schaff JC, Slepchenko BM, Loew LM. Schaff JC, et al. Among authors: loew lm. Methods Enzymol. 2000;321:1-23. doi: 10.1016/s0076-6879(00)21184-1. Methods Enzymol. 2000. PMID: 10909048
Virtual Cell modelling and simulation software environment.
Moraru II, Schaff JC, Slepchenko BM, Blinov ML, Morgan F, Lakshminarayana A, Gao F, Li Y, Loew LM. Moraru II, et al. Among authors: loew lm. IET Syst Biol. 2008 Sep;2(5):352-62. doi: 10.1049/iet-syb:20080102. IET Syst Biol. 2008. PMID: 19045830 Free PMC article.
Quantitative cell biology with the Virtual Cell.
Slepchenko BM, Schaff JC, Macara I, Loew LM. Slepchenko BM, et al. Among authors: loew lm. Trends Cell Biol. 2003 Nov;13(11):570-6. doi: 10.1016/j.tcb.2003.09.002. Trends Cell Biol. 2003. PMID: 14573350 Review.
Computational cell biology: spatiotemporal simulation of cellular events.
Slepchenko BM, Schaff JC, Carson JH, Loew LM. Slepchenko BM, et al. Among authors: loew lm. Annu Rev Biophys Biomol Struct. 2002;31:423-41. doi: 10.1146/annurev.biophys.31.101101.140930. Epub 2001 Oct 25. Annu Rev Biophys Biomol Struct. 2002. PMID: 11988477 Review.
199 results