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Network of packages with regulatory interactions (dependences and conflicts) from Debian GNU/Linux operating system is compiled and used as analogy of a gene regulatory network. Using a trace-back algorithm we assembly networks from the potential pool of packages for both scale-free and exponential topology from real and a null model data, respectively. We calculate the maximum number of packages that can be functionally installed in the system (i.e., the active network size). We show that scale-free regulatory networks allow a larger active network size than random ones. Small genomes with scale-free regulatory topology could allow much more functionality than large genomes with an exponential one, with implications on its dynamics, robustness and evolution.
In protein-protein interaction networks certain topological properties appear to be recurrent: networks maps are considered scale-free. It is possible that this topology is reflected in the protein structure. In this paper we investigate the role of
The amount of mutual information contained in time series of two elements gives a measure of how well their activities are coordinated. In a large, complex network of interacting elements, such as a genetic regulatory network within a cell, the avera
A clock is, from an information-theoretic perspective, a system that emits information about time. One may therefore ask whether the theory of information imposes any constraints on the maximum precision of clocks. Here we show a quantum-over-classic
Auto-regulatory feedback loops are one of the most common network motifs. A wide variety of stochastic models have been constructed to understand how the fluctuations in protein numbers in these loops are influenced by the kinetic parameters of the m
Bacteria live in environments that are continuously fluctuating and changing. Exploiting any predictability of such fluctuations can lead to an increased fitness. On longer timescales bacteria can learn the structure of these fluctuations through evo