Literature DB >> 22659063

Concordant chemical reaction networks.

Guy Shinar1, Martin Feinberg.   

Abstract

We describe a large class of chemical reaction networks, those endowed with a subtle structural property called concordance. We show that the class of concordant networks coincides precisely with the class of networks which, when taken with any weakly monotonic kinetics, invariably give rise to kinetic systems that are injective - a quality that, among other things, precludes the possibility of switch-like transitions between distinct positive steady states. We also provide persistence characteristics of concordant networks, instability implications of discordance, and consequences of stronger variants of concordance. Some of our results are in the spirit of recent ones by Banaji and Craciun, but here we do not require that every species suffer a degradation reaction. This is especially important in studying biochemical networks, for which it is rare to have all species degrade.
Copyright © 2012 Elsevier Inc. All rights reserved.

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Year:  2012        PMID: 22659063      PMCID: PMC4679294          DOI: 10.1016/j.mbs.2012.05.004

Source DB:  PubMed          Journal:  Math Biosci        ISSN: 0025-5564            Impact factor:   2.144


  7 in total

1.  Graph-theoretic criteria for injectivity and unique equilibria in general chemical reaction systems.

Authors:  Murad Banaji; Gheorghe Craciun
Journal:  Adv Appl Math       Date:  2010-02-01       Impact factor: 0.848

2.  Model of calcium oscillations due to negative feedback in olfactory cilia.

Authors:  J Reidl; P Borowski; A Sensse; J Starke; M Zapotocky; M Eiswirth
Journal:  Biophys J       Date:  2005-12-02       Impact factor: 4.033

3.  Understanding bistability in complex enzyme-driven reaction networks.

Authors:  Gheorghe Craciun; Yangzhong Tang; Martin Feinberg
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-30       Impact factor: 11.205

4.  Multiple equilibria in complex chemical reaction networks: extensions to entrapped species models.

Authors:  G Craciun; M Feinberg
Journal:  Syst Biol (Stevenage)       Date:  2006-07

5.  Input output robustness in simple bacterial signaling systems.

Authors:  Guy Shinar; Ron Milo; María Rodríguez Martínez; Uri Alon
Journal:  Proc Natl Acad Sci U S A       Date:  2007-12-06       Impact factor: 11.205

6.  Structural sources of robustness in biochemical reaction networks.

Authors:  Guy Shinar; Martin Feinberg
Journal:  Science       Date:  2010-03-12       Impact factor: 47.728

Review 7.  Design principles for robust biochemical reaction networks: what works, what cannot work, and what might almost work.

Authors:  Guy Shinar; Martin Feinberg
Journal:  Math Biosci       Date:  2011-03-04       Impact factor: 2.144

  7 in total
  6 in total

1.  Sharper graph-theoretical conditions for the stabilization of complex reaction networks.

Authors:  Daniel Knight; Guy Shinar; Martin Feinberg
Journal:  Math Biosci       Date:  2015-01-17       Impact factor: 2.144

2.  Metrics for regulated biochemical pathway systems.

Authors:  Jacob D Davis; Eberhard O Voit
Journal:  Bioinformatics       Date:  2019-06-01       Impact factor: 6.937

3.  Dynamical properties of Discrete Reaction Networks.

Authors:  Loïc Paulevé; Gheorghe Craciun; Heinz Koeppl
Journal:  J Math Biol       Date:  2013-05-31       Impact factor: 2.259

4.  Logical-continuous modelling of post-translationally regulated bistability of curli fiber expression in Escherichia coli.

Authors:  Kaveh Pouran Yousef; Adam Streck; Christof Schütte; Heike Siebert; Regine Hengge; Max von Kleist
Journal:  BMC Syst Biol       Date:  2015-07-23

5.  The role of the Hes1 crosstalk hub in Notch-Wnt interactions of the intestinal crypt.

Authors:  Sophie K Kay; Heather A Harrington; Sarah Shepherd; Keith Brennan; Trevor Dale; James M Osborne; David J Gavaghan; Helen M Byrne
Journal:  PLoS Comput Biol       Date:  2017-02-28       Impact factor: 4.475

6.  A computational framework for a Lyapunov-enabled analysis of biochemical reaction networks.

Authors:  M Ali Al-Radhawi; David Angeli; Eduardo D Sontag
Journal:  PLoS Comput Biol       Date:  2020-02-24       Impact factor: 4.475

  6 in total

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