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

The architecture of biological networks has been reported to exhibit high level of modularity, and to some extent, topological modules of networks overlap with known functional modules. However, how the modular topology of the molecular…

We test the claim by Yu et al. -- presented in Science 322, 104 (2008) -- that the degree distribution of the yeast (Saccharomyces cerevisiae) protein-interaction network is best approximated by a power law. Yu et al. consider three…

We introduce and study a general model of social network formation and evolution based on the concept of preferential link formation between similar nodes and increased similarity between connected nodes. The model is studied numerically…

We propose a growing network model that consists of two tunable mechanisms: growth by merging modules which are represented as complete graphs and a fitness-driven preferential attachment. Our model exhibits the three prominent statistical…

We consider an evolving preferential attachment random graph model where at discrete times a new node is attached to an old node, selected with probability proportional to a superlinear function of its degree. For such schemes, it is known…

Proteins in organisms, rather than act alone, usually form protein complexes to perform cellular functions. We analyze the topological network structure of protein complexes and their component proteins in the budding yeast in terms of the…

Network theorists have developed methods to characterize the complex interactions in natural phenomena. The structure of the network of interactions between proteins is important in the field of proteomics, and has been subject to intensive…

We study statistical properties of interacting protein-like surfaces and predict two strong, related effects: (i) statistically enhanced self-attraction of proteins; (ii) statistically enhanced attraction of proteins with similar…

We examine the effects of preferential attachment on a model of competing clusters. In the original model, cluster masses grow at the expense of their neighbours; on a lattice, this is known to result in the asymptotic survival and…

Social network structures play an important role in the lives of animals by affecting individual fitness and the spread of disease and information. Nevertheless, we still lack a good understanding of how these structures emerge from the…

We consider a general preferential attachment model, where the probability that a newly arriving vertex connects to an older vertex is proportional to a sublinear function of the indegree of the older vertex at that time. It is well known…

Reciprocity in social networks helps understand information exchange between two individuals, and indicates interaction patterns between pairs of users. A recent study indicates the reciprocity coefficient of a classical directed…

We propose a simple preferential attachment model of growing network using the complementary probability of Barab\'asi-Albert (BA) model, i.e., $\Pi(k_i) \propto 1-\frac{k_i}{\sum_j k_j}$. In this network, new nodes are preferentially…

Major advances in large-scale yeast two hybrid (Y2H) screening have provided a global view of binary protein-protein interactions across species as dissimilar as human, yeast, and bacteria. Remarkably, these analyses have revealed that all…

We investigate the higher-order connectivity of scale-free networks using algebraic topology. We model scale-free networks as preferential attachment graphs, and we study the algebraic-topological properties of their clique complexes. We…

Complex interactions between genes or proteins contribute a substantial part to phenotypic evolution. Here we develop an evolutionarily grounded method for the cross-species analysis of interaction networks by {\em alignment}, which maps…

The primary structure of proteins, that is their sequence, represents one of the most abundant set of experimental data concerning biomolecules. The study of correlations in families of co--evolving proteins by means of an inverse…

In this paper we introduce a new type of preferential attachment network, the growth of which is based on the eigenvalue centrality. In this network, the agents attach most probably to the nodes with larger eigenvalue centrality which…

Many complex networks from the World-Wide-Web to biological networks are growing taking into account the heterogeneous features of the nodes. The feature of a node might be a discrete quantity such as a classification of a URL document as…

We introduce a random graph model based on k-trees, which can be generated by applying a probabilistic preferential attachment rule, but which also has a simple combinatorial description. We carry out a precise distributional analysis of…