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Modular logical modelling of the budding yeast cell cycle.
Fauré A, Naldi A, Lopez F, Chaouiya C, Ciliberto A, Thieffry D. Fauré A, et al. Among authors: naldi a. Mol Biosyst. 2009 Dec;5(12):1787-96. doi: 10.1039/B910101m. Epub 2009 Jul 31. Mol Biosyst. 2009. PMID: 19763337
Cooperative development of logical modelling standards and tools with CoLoMoTo.
Naldi A, Monteiro PT, Müssel C; Consortium for Logical Models and Tools; Kestler HA, Thieffry D, Xenarios I, Saez-Rodriguez J, Helikar T, Chaouiya C. Naldi A, et al. Bioinformatics. 2015 Apr 1;31(7):1154-9. doi: 10.1093/bioinformatics/btv013. Epub 2015 Jan 25. Bioinformatics. 2015. PMID: 25619997
Logical modelling of regulatory networks with GINsim 2.3.
Naldi A, Berenguier D, Fauré A, Lopez F, Thieffry D, Chaouiya C. Naldi A, et al. Biosystems. 2009 Aug;97(2):134-9. doi: 10.1016/j.biosystems.2009.04.008. Epub 2009 May 6. Biosystems. 2009. PMID: 19426782
Model checking to assess T-helper cell plasticity.
Abou-Jaoudé W, Monteiro PT, Naldi A, Grandclaudon M, Soumelis V, Chaouiya C, Thieffry D. Abou-Jaoudé W, et al. Among authors: naldi a. Front Bioeng Biotechnol. 2015 Jan 28;2:86. doi: 10.3389/fbioe.2014.00086. eCollection 2014. Front Bioeng Biotechnol. 2015. PMID: 25674559 Free PMC article.
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. Among authors: naldi a. Mol Syst Biol. 2020 Aug;16(8):e9110. doi: 10.15252/msb.20199110. Mol Syst Biol. 2020. PMID: 32845085 Free PMC article. Review.
104 results