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Mai Z, Liu H (2013) Random parameter sampling of a generic three-tier MAPK cascade model reveals major factors affecting its versatile dynamics PLoS ONE 8(1):e54441 [PubMed]

   A generic MAPK cascade model for random parameter sampling analysis (Mai and Liu 2013)

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Alessi DR, Saito Y, Campbell DG, Cohen P, Sithanandam G, Rapp U, Ashworth A, Marshall CJ, Cowley S (1994) Identification of the sites in MAP kinase kinase-1 phosphorylated by p74raf-1. EMBO J 13:1610-9 [PubMed]
Beal MJ, Falciani F, Ghahramani Z, Rangel C, Wild DL (2005) A Bayesian approach to reconstructing genetic regulatory networks with hidden factors. Bioinformatics 21:349-56 [Journal] [PubMed]
Campagne F, Neves S, Chang CW, Skrabanek L, Ram PT, Iyengar R, Weinstein H (2004) Quantitative information management for the biochemical computation of cellular networks. Sci STKE 2004:pl11 [Journal] [PubMed]
Falschlehner C, Emmerich CH, Gerlach B, Walczak H (2007) TRAIL signalling: decisions between life and death. Int J Biochem Cell Biol 39:1462-75 [Journal] [PubMed]
Ferrell JE (2002) Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Curr Opin Cell Biol 14:140-8 [PubMed]
Ferrell JE, Machleder EM (1998) The biochemical basis of an all-or-none cell fate switch in Xenopus oocytes. Science 280:895-8 [PubMed]
Ferrell JE, Xiong W (2001) Bistability in cell signaling: How to make continuous processes discontinuous, and reversible processes irreversible. Chaos 11:227-236 [Journal] [PubMed]
HarshaRani GV, Vayttaden SJ, Bhalla US (2005) Electronic data sources for kinetic models of cell signaling. J Biochem 137:653-7 [Journal] [PubMed]
Hilioti Z, Sabbagh W, Paliwal S, Bergmann A, Goncalves MD, Bardwell L, Levchenko A (2008) Oscillatory phosphorylation of yeast Fus3 MAP kinase controls periodic gene expression and morphogenesis. Curr Biol 18:1700-6 [Journal] [PubMed]
Huang CY, Ferrell JE (1996) Ultrasensitivity in the mitogen-activated protein kinase cascade. Proc Natl Acad Sci U S A 93:10078-83 [PubMed]
Huang S, Ingber DE (2000) Shape-dependent control of cell growth, differentiation, and apoptosis: switching between attractors in cell regulatory networks. Exp Cell Res 261:91-103 [Journal] [PubMed]
Keshet Y, Seger R (2010) The MAP kinase signaling cascades: a system of hundreds of components regulates a diverse array of physiological functions. Methods Mol Biol 661:3-38 [Journal] [PubMed]
Kholodenko BN (2000) Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades. Eur J Biochem 267:1583-8 [PubMed]
Kuida K, Boucher DM (2004) Functions of MAP kinases: insights from gene-targeting studies. J Biochem 135:653-6 [Journal] [PubMed]
Kurata H, Tanaka T, Ohnishi F (2007) Mathematical identification of critical reactions in the interlocked feedback model. PLoS One 2:e1103 [Journal] [PubMed]
Le Novère N, Bornstein B, Broicher A, Courtot M, Donizelli M, Dharuri H, Li L, Sauro H, Schilstra M, Shapiro B, Snoep JL, Hucka M (2006) BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems. Nucleic Acids Res 34:D689-91 [Journal] [PubMed]
Levchenko A, Bruck J, Sternberg PW (2000) Scaffold proteins may biphasically affect the levels of mitogen-activated protein kinase signaling and reduce its threshold properties. Proc Natl Acad Sci U S A 97:5818-23 [PubMed]
Lue H, Kapurniotu A, Fingerle-Rowson G, Roger T, Leng L, Thiele M, Calandra T, Bucala R, Bernhagen J (2006) Rapid and transient activation of the ERK MAPK signalling pathway by macrophage migration inhibitory factor (MIF) and dependence on JAB1/CSN5 and Src kinase activity. Cell Signal 18:688-703 [Journal] [PubMed]
Markevich NI, Hoek JB, Kholodenko BN (2004) Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades. J Cell Biol 164:353-9 [Journal] [PubMed]
Nakakuki T, Yumoto N, Naka T, Shirouzu M, Yokoyama S, Hatakeyama M (2008) Topological analysis of MAPK cascade for kinetic ErbB signaling. PLoS One 3:e1782 [Journal] [PubMed]
Nikolaev EV, Atlas JC, Shuler ML (2007) Sensitivity and control analysis of periodically forced reaction networks using the Green's function method. J Theor Biol 247:442-61 [Journal] [PubMed]
Qiao L, Nachbar RB, Kevrekidis IG, Shvartsman SY (2007) Bistability and oscillations in the Huang-Ferrell model of MAPK signaling. PLoS Comput Biol 3:1819-26 [Journal] [PubMed]
Santos SD, Verveer PJ, Bastiaens PI (2007) Growth factor-induced MAPK network topology shapes Erk response determining PC-12 cell fate. Nat Cell Biol 9:324-30 [Journal] [PubMed]
Sasagawa S, Ozaki Y, Fujita K, Kuroda S (2005) Prediction and validation of the distinct dynamics of transient and sustained ERK activation. Nat Cell Biol 7:365-73 [Journal] [PubMed]
Schoeberl B, Eichler-Jonsson C, Gilles ED, Müller G (2002) Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors. Nat Biotechnol 20:370-5 [Journal] [PubMed]
Seger R, Krebs EG (1995) The MAPK signaling cascade. FASEB J 9:726-35 [PubMed]
Shaul YD, Seger R (2007) The MEK/ERK cascade: from signaling specificity to diverse functions. Biochim Biophys Acta 1773:1213-26 [Journal] [PubMed]
Sivakumaran S, Hariharaputran S, Mishra J, Bhalla US (2003) The Database of Quantitative Cellular Signaling: management and analysis of chemical kinetic models of signaling networks. Bioinformatics 19:408-15 [PubMed]
Torii S, Nakayama K, Yamamoto T, Nishida E (2004) Regulatory mechanisms and function of ERK MAP kinases. J Biochem 136:557-61 [Journal] [PubMed]
van Riel NA (2006) Dynamic modelling and analysis of biochemical networks: mechanism-based models and model-based experiments. Brief Bioinform 7:364-74 [Journal] [PubMed]
Wellbrock C, Karasarides M, Marais R (2004) The RAF proteins take centre stage. Nat Rev Mol Cell Biol 5:875-85 [Journal] [PubMed]
Yoon J, Deisboeck TS (2009) Investigating differential dynamics of the MAPK signaling cascade using a multi-parametric global sensitivity analysis. PLoS One 4:e4560 [Journal] [PubMed]
Yoon S, Seger R (2006) The extracellular signal-regulated kinase: multiple substrates regulate diverse cellular functions. Growth Factors 24:21-44 [Journal] [PubMed]
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