Literature DB >> 18250321

Emergent decision-making in biological signal transduction networks.

Tomás Helikar1, John Konvalina, Jack Heidel, Jim A Rogers.   

Abstract

The complexity of biochemical intracellular signal transduction networks has led to speculation that the high degree of interconnectivity that exists in these networks transforms them into an information processing network. To test this hypothesis directly, a large scale model was created with the logical mechanism of each node described completely to allow simulation and dynamical analysis. Exposing the network to tens of thousands of random combinations of inputs and analyzing the combined dynamics of multiple outputs revealed a robust system capable of clustering widely varying input combinations into equivalence classes of biologically relevant cellular responses. This capability was nontrivial in that the network performed sharp, nonfuzzy classifications even in the face of added noise, a hallmark of real-world decision-making.

Mesh:

Year:  2008        PMID: 18250321      PMCID: PMC2538858          DOI: 10.1073/pnas.0705088105

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  34 in total

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Review 2.  Genomics, complexity and drug discovery: insights from Boolean network models of cellular regulation.

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Review 3.  Integrins in invasive growth.

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Journal:  Science       Date:  2002-03-01       Impact factor: 47.728

Review 5.  Protein-protein interactions at G-protein-coupled receptors.

Authors:  G Milligan; J H White
Journal:  Trends Pharmacol Sci       Date:  2001-10       Impact factor: 14.819

Review 6.  Activation of MAPK cascades by G-protein-coupled receptors: the case of gonadotropin-releasing hormone receptor.

Authors:  Z Naor; O Benard; R Seger
Journal:  Trends Endocrinol Metab       Date:  2000-04       Impact factor: 12.015

Review 7.  Cell communication networks: epidermal growth factor receptor transactivation as the paradigm for interreceptor signal transmission.

Authors:  A Gschwind; E Zwick; N Prenzel; M Leserer; A Ullrich
Journal:  Oncogene       Date:  2001-03-26       Impact factor: 9.867

8.  Inhibition of Src family kinases blocks epidermal growth factor (EGF)-induced activation of Akt, phosphorylation of c-Cbl, and ubiquitination of the EGF receptor.

Authors:  C Kenneth Kassenbrock; Seija Hunter; Pamela Garl; Gary L Johnson; Steven M Anderson
Journal:  J Biol Chem       Date:  2002-05-06       Impact factor: 5.157

Review 9.  Roles of MAPKKK ASK1 in stress-induced cell death.

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Journal:  Cell Struct Funct       Date:  2003-02       Impact factor: 2.212

10.  Parameter estimation in biochemical systems models with alternating regression.

Authors:  I-Chun Chou; Harald Martens; Eberhard O Voit
Journal:  Theor Biol Med Model       Date:  2006-07-19       Impact factor: 2.432

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  69 in total

Review 1.  Beyond the wiring diagram: signalling through complex neuromodulator networks.

Authors:  Vladimir Brezina
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-08-12       Impact factor: 6.237

Review 2.  Dynamical systems approach to endothelial heterogeneity.

Authors:  Erzsébet Ravasz Regan; William C Aird
Journal:  Circ Res       Date:  2012-06-22       Impact factor: 17.367

Review 3.  Disentangling biological signaling networks by dynamic coupling of signaling lipids to modifying enzymes.

Authors:  Raymond D Blind
Journal:  Adv Biol Regul       Date:  2013-10-18

4.  Network modelling of gene regulation.

Authors:  Joshua W K Ho; Michael A Charleston
Journal:  Biophys Rev       Date:  2010-12-23

5.  Logical Reduction of Biological Networks to Their Most Determinative Components.

Authors:  Mihaela T Matache; Valentin Matache
Journal:  Bull Math Biol       Date:  2016-07-14       Impact factor: 1.758

6.  Canalization and control in automata networks: body segmentation in Drosophila melanogaster.

Authors:  Manuel Marques-Pita; Luis M Rocha
Journal:  PLoS One       Date:  2013-03-08       Impact factor: 3.240

7.  The logic of EGFR/ErbB signaling: theoretical properties and analysis of high-throughput data.

Authors:  Regina Samaga; Julio Saez-Rodriguez; Leonidas G Alexopoulos; Peter K Sorger; Steffen Klamt
Journal:  PLoS Comput Biol       Date:  2009-08-07       Impact factor: 4.475

Review 8.  Logic-based models for the analysis of cell signaling networks.

Authors:  Melody K Morris; Julio Saez-Rodriguez; Peter K Sorger; Douglas A Lauffenburger
Journal:  Biochemistry       Date:  2010-04-20       Impact factor: 3.162

9.  Propagation of kinetic uncertainties through a canonical topology of the TLR4 signaling network in different regions of biochemical reaction space.

Authors:  Jayson Gutiérrez; Georges St Laurent; Silvio Urcuqui-Inchima
Journal:  Theor Biol Med Model       Date:  2010-03-15       Impact factor: 2.432

10.  Bioinformatic primer for clinical and translational science.

Authors:  Randolph S Faustino; Anca Chiriac; Andre Terzic
Journal:  Clin Transl Sci       Date:  2008-09       Impact factor: 4.689

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