Related papers: Some protein interaction data do not exhibit power…
We study scale free simple graphs with an exponent of the degree distribution $\gamma$ less than two. Generically one expects such extremely skewed networks -- which occur very frequently in systems of virtually or logically connected units…
Many real networks such as the World Wide Web, financial, biological, citation and social networks have a power-law degree distribution. Networks with this feature are also called scale-free. Several models for producing scale-free networks…
Self-similar networks with scale-free degree distribution have recently attracted much attention, since these apparently incompatible properties were reconciled in a paper by Song et al. by an appropriate box-counting method that enters the…
We derive the sampling properties of random networks based on weights whose pairwise products parameterize independent Bernoulli trials. This enables an understanding of many degree-based network models, in which the structure of realized…
We present a family of scale-free network model consisting of cliques, which is established by a simple recursive algorithm. We investigate the networks both analytically and numerically. The obtained analytical solutions show that the…
Recently, a novel model to describe ordering in systems comprising agents which, although matching in their binarity (i.e., maintaining the iconic Ising features of ``+'' or ``-'', ``up'' or ``down'', ``yes'' or ``no''), still differing in…
Protein-protein interactions (PPIs) are fundamental to cellular function and disease mechanisms. Current learning-based PPI predictors focus on learning powerful protein representations but neglect designing specialized classification…
A generic communication model of a boolean network with transmission errors is proposed to explore the power-law scaling of states' evolution in small-world networks. In the model, the power spectrum of the population difference between…
Cellular functions are based on the complex interplay of proteins, therefore the structure and dynamics of these protein-protein interaction (PPI) networks are the key to the functional understanding of cells. In the last years, large-scale…
We study the synchronization transition in scale-free networks that display power-law asymptotic behaviors in their degree distributions. The critical coupling strength and the order-parameter critical exponent derived by the mean field…
Computational protein-protein interaction (PPI) prediction techniques can contribute greatly in reducing time, cost and false-positive interactions compared to experimental approaches. Sequence is one of the key and primary information of…
Protein-protein interactions (PPIs) are crucial in various biological processes and their study has significant implications for drug development and disease diagnosis. Existing deep learning methods suffer from significant performance…
A large number of complex networks, both natural and artificial, share the presence of highly heterogeneous, scale-free degree distributions. A few mechanisms for the emergence of such patterns have been suggested, optimization not being…
It is commonly believed that real networks are scale-free and fraction of nodes $P(k)$ with degree $k$ satisfies the power law $P(k) \propto k^{-\gamma} \text{ for } k > k_{min} > 0$. Preferential attachment is the mechanism that has been…
In this work we analyze scale-free networks with different power law spectra $N(k) \sim k^{-\gamma}$ under a boolean dynamic, where the boolean rule that each node obeys is a function of its connectivity $k$. This is done by using only two…
We propose a geometric growth model for weighted scale-free networks, which is controlled by two tunable parameters. We derive exactly the main characteristics of the networks, which are partially determined by the parameters. Analytical…
A complete understanding of real networks requires us to understand the consequences of the uneven interaction strengths between a system's components. Here we use the minimum spanning tree (MST) to explore the effect of weight assignment…
Many networks exhibit scale free behavior where their degree distribution obeys a power law for large vertex degrees. Models constructed to explain this phenomena have relied on preferential attachment where the networks grow by the…
Recently, it has been demonstrated that many large complex networks display a scale-free feature, that is, their connectivity distributions have the power-law form. In this paper, we investigate the synchronization phenomena in a scale-free…
There are many networks in real life which exist as form of Scale-free networks such as World Wide Web, protein-protein interaction network, semantic networks, airline networks, interbank payment networks, etc. If we want to analyze these…