Integrating metabolic, transcriptional regulatory and signal transduction models in Escherichia coli

By Markus W. Covert, Nan Xiao, Tiffany J. Chen, Jonathan R. Karr. Bioinform., 2008

321 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/05a427de06784497a145ade8856a0fbe3d683cda

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In Genetics

In Molecular Biology

Citations in the corpus

Flux balance analysis of biological systems: applications and challenges (2009, methodology): “Covert and co-workers have proposed another method to simultaneously model the metabolic, regulatory and signal transduction networks, by integrating FBA with regulatory Boolean logic and ordinary differential equations for describing signal transduction [69].”
Genome-scale models of bacterial metabolism: reconstruction and applications (2008, background): “Extending models to handle kinetics is still an open issue (Famili et al ., 2005; Yugi et al ., 2005; Ishii et al ., 2007b; Smallbone et al ., 2007; Covert et al ., 2008; Jamshidi & Palsson, 2008), all the more challenging because of the potential inﬂuence of regulation, the scarcity of kinetic…”
A Whole-Cell Computational Model Predicts Phenotype from Genotype (2012, unknown): “Although we and others had previously developed methods to integrate ODEs with Boolean, probabilistic, and constraint-based submodels (Covert et al., 2001, 2004, 2008; Chandrasekaran and Price, 2010), the current effort involved so many different cellular functions and mathematical representations…”
Chapter 1. General introduction (2015, unknown): “…books Built by scientists, for scientists 12.2% 117,000 130M TOP 1%154 4,400 Chapter 1 General Introduction: Advances in Hepatic Surgery J.H.M.B. Stoot, R.J.S. Coelen, J.L.A. van Vugt and C.H.C. Dejong Additional information is available at the end of the chapter http://dx.doi.org/10.5772/54710”
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods (2012, background): “6a) , or a mathematical representation of transcription regulation 109,110 or signalling 111,112 is interfaced directly with the metabolic network to aid in modelling (FIG.”