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

We study the growth of a directed network, in which the growth is constrained by the cost of adding links to the existing nodes. We propose a new preferential-attachment scheme, in which a new node attaches to an existing node i with…

Successive whole genome duplications have recently been firmly established in all major eukaryote kingdoms. It is not clear, however, how such dramatic evolutionary process has contributed to shape the large scale topology of…

Many real-world networks exhibit degree-assortativity, with nodes of similar degree more likely to link to one another. Particularly in social networks, the contribution to the total assortativity varies with degree, featuring a distinctive…

A first-order percolation transition, called explosive percolation, was recently discovered in evolution networks with random edge selection under a certain restriction. However, the network percolation with more realistic evolution…

We present an analysis of the statistical properties and growth of the free on-line encyclopedia Wikipedia. By describing topics by vertices and hyperlinks between them as edges, we can represent this encyclopedia as a directed graph. The…

We consider a growing network, whose growth algorithm is based on the preferential attachment typical for scale-free constructions, but where the long-range bonds are disadvantaged. Thus, the probability to get connected to a site at…

Proteins participating in a protein-protein interaction network can be grouped into homology classes following their common ancestry. Proteins added to the network correspond to genes added to the classes, so that the dynamics of the two…

A network growth mechanism based on a two-step preferential rule is investigated as a model of network growth in which no global knowledge of the network is required. In the first filtering step a subset of fixed size $m$ of existing nodes…

The architecture of the network of protein-protein physical interactions in Saccharomyces cerevisiae is exposed through the combination of two complementary theoretical network measures, betweenness centrality and `Q-modularity'. The yeast…

The random graph model has recently been extended to a random preferential attachment graph model, in order to enable the study of general asymptotic properties in network types that are better represented by the preferential attachment…

In this paper, we study the large-scale protein interaction network of yeast uti lizing a stochastic method based upon percolation of random graphs. In order to find the global features of connectivities in the network, we introduce numeric…

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…

We introduce evolving networks where new vertices preferentially connect to the more central parts of a network. This makes such networks compact. Finite networks grown under the preferential compactness mechanism have complex…

Reciprocity characterizes the information exchange between users in a network, and some empirical studies have revealed that social networks have a high proportion of reciprocal edges. Classical directed preferential attachment (PA) models,…

In many social complex systems, in which agents are linked by non-linear interactions, the history of events strongly influences the whole network dynamics. However, a class of "commonly accepted beliefs" seems rarely studied. In this…

Ever since the Barab\'{a}si-Albert (BA) scale-free network has been proposed, network modeling has been studied intensively in light of the network growth and the preferential attachment (PA). However, numerous real systems are featured…

We introduce a stochastic model of growing networks where both, the number of new nodes which joins the network and the number of connections, vary stochastically. We provide an exact mapping between this model and zero range process, and…

Proteins need to selectively interact with specific targets among a multitude of similar molecules in the cell. But despite a firm physical understanding of binding interactions, we lack a general theory of how proteins evolve high…

We define a dynamic model of random networks, where new vertices are connected to old ones with a probability proportional to a sublinear function of their degree. We first give a strong limit law for the empirical degree distribution, and…

Proteins, essential to biological systems, perform functions intricately linked to their three-dimensional structures. Understanding the relationship between protein structures and their amino acid sequences remains a core challenge in…