Literature DB >> 21921160

Information transduction capacity of noisy biochemical signaling networks.

Raymond Cheong1, Alex Rhee, Chiaochun Joanne Wang, Ilya Nemenman, Andre Levchenko.   

Abstract

Molecular noise restricts the ability of an individual cell to resolve input signals of different strengths and gather information about the external environment. Transmitting information through complex signaling networks with redundancies can overcome this limitation. We developed an integrative theoretical and experimental framework, based on the formalism of information theory, to quantitatively predict and measure the amount of information transduced by molecular and cellular networks. Analyzing tumor necrosis factor (TNF) signaling revealed that individual TNF signaling pathways transduce information sufficient for accurate binary decisions, and an upstream bottleneck limits the information gained via multiple integrated pathways. Negative feedback to this bottleneck could both alleviate and enhance its limiting effect, despite decreasing noise. Bottlenecks likewise constrain information attained by networks signaling through multiple genes or cells.

Entities:  

Mesh:

Substances:

Year:  2011        PMID: 21921160      PMCID: PMC3895446          DOI: 10.1126/science.1204553

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  48 in total

1.  Synergy, redundancy, and independence in population codes.

Authors:  Elad Schneidman; William Bialek; Michael J Berry
Journal:  J Neurosci       Date:  2003-12-17       Impact factor: 6.167

2.  Control of stochasticity in eukaryotic gene expression.

Authors:  Jonathan M Raser; Erin K O'Shea
Journal:  Science       Date:  2004-05-27       Impact factor: 47.728

3.  Estimating mutual information.

Authors:  Alexander Kraskov; Harald Stögbauer; Peter Grassberger
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-06-23

4.  Multivariate dependence and genetic networks inference.

Authors:  A A Margolin; K Wang; A Califano; I Nemenman
Journal:  IET Syst Biol       Date:  2010-11       Impact factor: 1.615

5.  Minimal model of spiky oscillations in NF-kappaB signaling.

Authors:  Sandeep Krishna; Mogens H Jensen; Kim Sneppen
Journal:  Proc Natl Acad Sci U S A       Date:  2006-07-07       Impact factor: 11.205

6.  Dynamic proteomics of individual cancer cells in response to a drug.

Authors:  A A Cohen; N Geva-Zatorsky; E Eden; M Frenkel-Morgenstern; I Issaeva; A Sigal; R Milo; C Cohen-Saidon; Y Liron; Z Kam; L Cohen; T Danon; N Perzov; U Alon
Journal:  Science       Date:  2008-11-20       Impact factor: 47.728

7.  Information flow and optimization in transcriptional regulation.

Authors:  Gasper Tkacik; Curtis G Callan; William Bialek
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-21       Impact factor: 11.205

8.  Effective intercellular communication distances are determined by the relative time constants for cyto/chemokine secretion and diffusion.

Authors:  K Francis; B O Palsson
Journal:  Proc Natl Acad Sci U S A       Date:  1997-11-11       Impact factor: 11.205

9.  Vectors for glucose-dependent protein expression in Saccharomyces cerevisiae.

Authors:  Simone Thierfelder; Kai Ostermann; Andy Göbel; Gerhard Rödel
Journal:  Appl Biochem Biotechnol       Date:  2010-10-15       Impact factor: 2.926

10.  De-ubiquitination and ubiquitin ligase domains of A20 downregulate NF-kappaB signalling.

Authors:  Ingrid E Wertz; Karen M O'Rourke; Honglin Zhou; Michael Eby; L Aravind; Somasekar Seshagiri; Ping Wu; Christian Wiesmann; Rohan Baker; David L Boone; Averil Ma; Eugene V Koonin; Vishva M Dixit
Journal:  Nature       Date:  2004-07-18       Impact factor: 49.962

View more
  182 in total

1.  Identifying sources of variation and the flow of information in biochemical networks.

Authors:  Clive G Bowsher; Peter S Swain
Journal:  Proc Natl Acad Sci U S A       Date:  2012-04-23       Impact factor: 11.205

2.  Dynamics of TGF-β signaling reveal adaptive and pulsatile behaviors reflected in the nuclear localization of transcription factor Smad4.

Authors:  Aryeh Warmflash; Qixiang Zhang; Benoit Sorre; Alin Vonica; Eric D Siggia; Ali H Brivanlou
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-11       Impact factor: 11.205

Review 3.  Dynamical systems approach to endothelial heterogeneity.

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

4.  Information processing in the adaptation of Saccharomyces cerevisiae to osmotic stress: an analysis of the phosphorelay system.

Authors:  Friedemann Uschner; Edda Klipp
Journal:  Syst Synth Biol       Date:  2014-04-19

Review 5.  Signal Transduction at the Single-Cell Level: Approaches to Study the Dynamic Nature of Signaling Networks.

Authors:  L Naomi Handly; Jason Yao; Roy Wollman
Journal:  J Mol Biol       Date:  2016-07-16       Impact factor: 5.469

6.  Tunable signal processing through a kinase control cycle: the IKK signaling node.

Authors:  Marcelo Behar; Alexander Hoffmann
Journal:  Biophys J       Date:  2013-07-02       Impact factor: 4.033

Review 7.  Models of signalling networks - what cell biologists can gain from them and give to them.

Authors:  Kevin A Janes; Douglas A Lauffenburger
Journal:  J Cell Sci       Date:  2013-05-01       Impact factor: 5.285

Review 8.  Adaptive molecular networks controlling chemotactic migration: dynamic inputs and selection of the network architecture.

Authors:  Hao Chang; Andre Levchenko
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2013-09-23       Impact factor: 6.237

9.  Epigenetic memory emerging from integrated transcription bursts.

Authors:  Volker Kurz; Edward M Nelson; Nicolas Perry; Winston Timp; Gregory Timp
Journal:  Biophys J       Date:  2013-09-17       Impact factor: 4.033

10.  Identifying Noise Sources governing cell-to-cell variability.

Authors:  Simon Mitchell; Alexander Hoffmann
Journal:  Curr Opin Syst Biol       Date:  2017-12-06
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.