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AB
2008
Springer
14 years 6 months ago
An Algorithm for Qualitative Simulation of Gene Regulatory Networks with Steep Sigmoidal Response Functions
A specific class of ODEs has been shown to be adequate to describe the essential features of the complex dynamics of Gene-Regulatory Networks (GRN). But, the effective exploitatio...
Liliana Ironi, Luigi Panzeri, Erik Plahte
AB
2008
Springer
14 years 6 months ago
Algorithms for Inference, Analysis and Control of Boolean Networks
Boolean networks (BNs) are known as a mathematical model of genetic networks. In this paper, we overview algorithmic aspects of inference, analysis and control of BNs while focusin...
Tatsuya Akutsu, Morihiro Hayashida, Takeyuki Tamur...
AB
2008
Springer
14 years 6 months ago
On the Computational Power of Biochemistry
We explore the computational power of biochemistry with respect to basic chemistry, identifying complexation as the basic mechanism that distinguishes the former from the latter. W...
Luca Cardelli, Gianluigi Zavattaro
AB
2008
Springer
14 years 6 months ago
The Smallest Multistationary Mass-Preserving Chemical Reaction Network
Biochemical models that exhibit bistability are of interest to biologists and mathematicians alike. Chemical reaction network theory can provide sufficient conditions for the exist...
Anne Shiu
AB
2008
Springer
14 years 6 months ago
Local Structure and Behavior of Boolean Bioregulatory Networks
Abstract. A well-known discrete approach to modeling biological regulatory networks is the logical framework developed by R. Thomas. The network structure is captured in an interac...
Heike Siebert
AB
2008
Springer
14 years 6 months ago
Investigating Generic Methods to Solve Hopf Bifurcation Problems in Algebraic Biology
Abstract. Symbolic methods for investigating Hopf bifurcation problems of vector fields arising in the context of algebraic biology have recently obtained renewed attention. Howev...
Thomas Sturm, Andreas Weber 0004
AB
2008
Springer
14 years 6 months ago
Algebraic Analysis of Bifurcation and Limit Cycles for Biological Systems
In this paper, we show how to analyze bifurcation and limit cycles for biological systems by using an algebraic approach based on triangular decomposition, Gr¨obner bases, discrim...
Wei Niu, Dongming Wang
AB
2008
Springer
14 years 6 months ago
Property Preservation along Embedding of Biological Regulatory Networks
In the course of understanding biological regulatory networks (BRN), scientists usually start by studying small BRNs that they believe to be of particular importance to represent a...
Mbarka Mabrouki, Marc Aiguier, Jean-Paul Comet, Pa...
AB
2008
Springer
14 years 6 months ago
Neural Algebra and Consciousness: A Theory of Structural Functionality in Neural Nets
Abstract. Thoughts are spatio-temporal patterns of coalitions of firing neurons and their interconnections. Neural algebras represent these patterns as formal algebraic objects, a...
Erwin Engeler