相关论文: Preferential attachment in the protein network evo…

A version of ``preferential attachment'' random graphs, corresponding to linear ``weights'' with random ``edge additions,'' which generalizes some previously considered models, is studied. This graph model is embedded in a continuous-time…

Based on measurements of the Internet topology data, we found out that there are two mechanisms which are necessary for the correct modeling of the Internet topology at the Autonomous Systems (AS) level: the Interactive Growth of new nodes…

A network is scale-free if its connectivity density function is proportional to a power-law distribution. Scale-free networks may provide an explanation for the robustness observed in certain physical and biological phenomena, since the…

The evolutionary reason for the increase in gene length from archaea to prokaryotes to eukaryotes observed in large scale genome sequencing efforts has been unclear. We propose here that the increasing complexity of protein-protein…

Growing attention has been brought to the fact that many real directed networks exhibit hierarchy and directionality as measured through techniques like Trophic Analysis and non-normality. We propose a simple growing network model where the…

In real life, networks are dynamic in nature; they grow over time and often exhibit power-law degree sequences. To model the evolving structure of the internet, Barab\'{a}si and Albert introduced a simple dynamic model with a power-law…

Nowadays there is a multitude of measures designed to capture different aspects of network structure. To be able to say if the structure of certain network is expected or not, one needs a reference model (null model). One frequently used…

We introduce a minimal extended evolving model for small-world networks which is controlled by a parameter. In this model the network growth is determined by the attachment of new nodes to already existing nodes that are geographically…

We study how the dynamic equilibrium of the reversible protein-protein binding network in yeast Saccharomyces cerevisiae responds to large changes in abundances of individual proteins. The magnitude of shifts between free and bound…

Inspired by empirical data on real world complex networks, the last few years have seen an explosion in proposed generative models to understand and explain observed properties of real world networks, including power law degree distribution…

It has recently been demonstrated that many biological networks exhibit a scale-free topology where the probability of observing a node with a certain number of edges (k) follows a power law: i.e. p(k) ~ k^-g. This observation has been…

Statistical analysis of protein-protein interactions shows anomalously high frequency of homodimers [Ispolatov, I., et al. (2005) Nucleic Acids Res 33, 3629-35]. Furthermore, recent findings [Wright, C.F., et al. (2005) Nature 438, 878-81]…

Preferential attachment drives the evolution of many complex networks. Its analytical studies mostly consider the simplest case of a network that grows uniformly in time despite the accelerating growth of many real networks. Motivated by…

Preferential attachment networks are a type of random network where new nodes are connected to existing ones at random, and are more likely to connect to those that already have many connections. We investigate further a family of models…

Cooperation is observed widely in nature and is thought an essential component of many evolutionary processes, yet the mechanisms by which it arises and persists are still unclear. Among several theories, network reciprocity -- a model of…

We introduce a self-organized model of graph evolution associated with preferential network random walkers. The idea is developed by using two different types of walkers, the interactions of which lead to a dynamic graph. The walkers of the…

Understanding of how protein interaction networks (PIN) of living organisms have evolved or are organized can be the first stepping stone in unveiling how life works on a fundamental ground. Here we introduce a hybrid network model composed…

Scale-free and non-computable characteristics of natural networks are found to result from the least-time dispersal of energy. To consider a network as a thermodynamic system is motivated since ultimately everything that exists can be…

Network science is a powerful framework allowing to model complex systems, it is capable to describe and take into account the intricate web of connections existing among the constituting basic element of the system. Recently scholars have…

Motivation: Protein interactions are fundamental building blocks of biochemical reaction systems underlying cellular functions. The complexity and functionality of such systems emerge not from the protein interactions themselves but from…