• Corpus ID: 86157445

The channel capacity and information density of biochemical signaling cascades

@article{Tsuruyama2012TheCC,
  title={The channel capacity and information density of biochemical signaling cascades},
  author={Tatsuaki Tsuruyama},
  journal={arXiv: Molecular Networks},
  year={2012}
}
  • T. Tsuruyama
  • Published 2 May 2012
  • Biology
  • arXiv: Molecular Networks
Living cell signaling systems include multistep biochemical signaling reaction cascades (BSCs) comprising modifications of molecular signaling proteins. Substantial data on BSCs have been accumulated in the field of molecular biology and the analysis of signaling systems requires qualitative evaluation. However, quantification of the information and channel capacity of BSCs has not been focused on from the perspective of information theory. In the current study, we aimed to derive basic… 

References

SHOWING 1-10 OF 31 REFERENCES
Information Transduction Capacity of Noisy Biochemical Signaling Networks
TLDR
An integrative theoretical and experimental framework is developed, based on the formalism of information theory, to quantitatively predict and measure the amount of information transduced by molecular and cellular networks.
Robustness and Compensation of Information Transmission of Signaling Pathways
TLDR
This work describes robustness and compensation of information transmission of signaling pathways at the cell population level and calculated the mutual information transmitted through signaling pathways for the growth factor–mediated gene expression.
Modeling and simulation in signal transduction pathways: a systems biology approach.
Investigating Differential Dynamics of the MAPK Signaling Cascade Using a Multi-Parametric Global Sensitivity Analysis
TLDR
This work systematically perturbed the entire parameter space, including initial conditions, using a Monte Carlo approach, and investigates which protein components or kinetic reaction steps contribute to the differentiation of ERK responses, adding a mechanistic insight of the contribution of key pathway components.
Ultrasensitivity in the mitogen-activated protein kinase cascade.
  • C. Y. Huang, J. Ferrell
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 1996
TLDR
It is demonstrated that the cascade arrangement has unexpected consequences for the dynamics of MAPK signaling, and MAPK is predicted to behave like a highly cooperative enzyme, even though it was not assumed that any of the enzymes in the cascade were regulated cooperatively.
Signal propagation of the MAPK cascade in Xenopus oocytes: role of bistability and ultrasensitivity for a mixed problem
TLDR
It is shown that the existence of a propagating front depends sensitively on the initial and boundary conditions at the plasma membrane, and possible biological consequences of this finding are discussed.
Graph-theoretic characterizations of monotonicity of chemical networks in reaction coordinates
TLDR
This paper derives new results for certain classes of chemical reaction networks, linking structural to dynamical properties, and shows that a phosphorylation/dephosphorylation process, which is involved in many signaling cascades, has a global stability property.
Heparin affects signaling pathways stimulated by fibroblast growth factor-1 and -2 in type II cells.
TLDR
The data suggest that heparin's known capacity to alter DNA synthesis and, possibly, other biological end points is realized via cross talk between multiple signaling pathways.
Visualization of ATP levels inside single living cells with fluorescence resonance energy transfer-based genetically encoded indicators
TLDR
It was found that ATP levels in the mitochondrial matrix of HeLa cells are significantly lower than those of cytoplasm and nucleus, and it was demonstrated that He La cells change ATP-generating pathway in response to changes of nutrition in the environment.
Thrombin (PAR-1)-induced proliferation in astrocytes via MAPK involves multiple signaling pathways.
TLDR
The data suggest that thrombin-induced mitogenic action in astrocytes occurs independently of EGF receptor transphosphorylation, and this effect can be fully mimicked by a specific PAR-1-AP but only to a small degree by PAR-3-AP and PAR-4-AP.
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