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A modular model of the apoptosis machinery.
Kutumova EO, Kiselev IN, Sharipov RN, Lavrik IN, Kolpakov FA. Kutumova EO, et al. Among authors: kiselev in. Adv Exp Med Biol. 2012;736:235-45. doi: 10.1007/978-1-4419-7210-1_13. Adv Exp Med Biol. 2012. PMID: 22161332
Computational master-regulator search reveals mTOR and PI3K pathways responsible for low sensitivity of NCI-H292 and A427 lung cancer cell lines to cytotoxic action of p53 activator Nutlin-3.
Boyarskikh U, Pintus S, Mandrik N, Stelmashenko D, Kiselev I, Evshin I, Sharipov R, Stegmaier P, Kolpakov F, Filipenko M, Kel A. Boyarskikh U, et al. BMC Med Genomics. 2018 Feb 13;11(Suppl 1):12. doi: 10.1186/s12920-018-0330-5. BMC Med Genomics. 2018. PMID: 29504919 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. Mol Syst Biol. 2020 Aug;16(8):e9110. doi: 10.15252/msb.20199110. Mol Syst Biol. 2020. PMID: 32845085 Free PMC article. Review.
BioUML-towards a universal research platform.
Kolpakov F, Akberdin I, Kiselev I, Kolmykov S, Kondrakhin Y, Kulyashov M, Kutumova E, Pintus S, Ryabova A, Sharipov R, Yevshin I, Zhatchenko S, Kel A. Kolpakov F, et al. Nucleic Acids Res. 2022 Jul 5;50(W1):W124-W131. doi: 10.1093/nar/gkac286. Nucleic Acids Res. 2022. PMID: 35536253 Free PMC article.
Mathematical modeling of antihypertensive therapy.
Kutumova E, Kiselev I, Sharipov R, Lifshits G, Kolpakov F. Kutumova E, et al. Front Physiol. 2022 Dec 14;13:1070115. doi: 10.3389/fphys.2022.1070115. eCollection 2022. Front Physiol. 2022. PMID: 36589434 Free PMC article.
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