Related papers: Content based network model with duplication and d…
In this paper, we propose a simple rule that generates scale-free small-world networks with tunable assortative coefficient. These networks are constructed by two-stage adding process for each new node. The model can reproduce scale-free…
The Moran model with recombination is considered, which describes the evolution of the genetic composition of a population under recombination and resampling. There are $n$ sites (or loci), a finite number of letters (or alleles) at every…
We present a technique to characterize differentially expressed genes in terms of their position in a high-dimensional co-expression network. The set-up of Gaussian graphical models is used to construct representations of the co-expression…
We introduce a growing network model---the copying model---in which a new node attaches to a randomly selected target node and, in addition, independently to each of the neighbors of the target with copying probability $p$. When…
We study the spreading dynamics on graphs with a power law degree distribution p_k ~ k^-gamma with 2<gamma<3, as an example of a branching process with diverging reproductive number. We provide evidence that the divergence of the second…
A simplex-based network is referred to as a higher-order network, in which describe that the interactions can include more than two nodes. Many multicomponent interactions can be grasped through simplicial complexes, which have recently…
We investigate a growing network model that combines preferential and uniform attachment with two distinct mechanisms of edge deletion. In addition to the usual uniform probability edge deletion, we introduce a novel node-based rule in…
Understanding cascading processes on complex network topologies is paramount for modelling how diseases, information, fake news and other media spread. In this paper, we extend the multi-type branching process method developed in Keating et…
Spatial random graphs capture several important properties of real-world networks. We prove quenched results for the continuum space version of scale-free percolation introduced in [DW18]. This is an undirected inhomogeneous random graph…
This paper presents an in-depth analysis of the scale generalisation properties of the scale-covariant and scale-invariant Gaussian derivative networks, complemented with both conceptual and algorithmic extensions. For this purpose,…
This Letter introduces a generalization of known duplication-divergence models for growing random graphs. This general duplication-divergence model includes a new coupled divergence asymmetry rate, which allows to obtain the structure of…
We study a social network consisting of over $10^4$ individuals, with a degree distribution exhibiting two power scaling regimes separated by a critical degree $k_{\rm crit}$, and a power law relation between degree and local clustering. We…
Deep clustering is a fundamental yet challenging task for data analysis. Recently we witness a strong tendency of combining autoencoder and graph neural networks to exploit structure information for clustering performance enhancement.…
Predicting the effect of amino acid mutations on enzyme thermodynamic stability (DDG) is fundamental to protein engineering and drug design. While recent deep learning approaches have shown promise, they often process sequence and structure…
Generative Adversarial Networks (GANs) are proficient at generating synthetic data but continue to suffer from mode collapse, where the generator produces a narrow range of outputs that fool the discriminator but fail to capture the full…
We study the evolution of networks when the creation and decay of links are based on the position of nodes in the network measured by their centrality. We show that the same network dynamics arises under various centrality measures, and…
In this study, we introduce a domain-decomposition-based distributed training and inference approach for message-passing neural networks (MPNN). Our objective is to address the challenge of scaling edge-based graph neural networks as the…
We present a detailed analysis of the Connecting Nearest Neighbors (CNN) model by V\'azquez. We show that the degree distribution follows a power law, but the scaling exponent can vary with the parameter setting. Moreover, the…
We derive an analytic expression for site-specific stationary distributions of amino acids from the Structurally Constrained Neutral (SCN) model of protein evolution with conservation of folding stability. The stationary distributions that…
We consider a stochastic model for directed scale-free networks following power-laws in the degree distributions in both incoming and outgoing directions. In our model, the number of vertices grow geometrically with time with growth rate p.…