相关论文: Borromean Hypergraph Formation in Dense Random Rec…

The set of canonical decompositions of a cusped hyperbolic 3-manifold is a complete topological invariant. However, there are only a handful of infinite families for which canonical decompositions are known. In this paper, we find canonical…

We investigate bond percolation on the non-planar Hanoi network (HN-NP), which was studied in [Boettcher et al. Phys. Rev. E 80 (2009) 041115]. We calculate the fractal exponent of a subgraph of the HN-NP, which gives a lower bound for the…

The proper design of DNA sequences allows for the formation of well defined supramolecular units with controlled interactions via a consecution of self-assembling processes. Here, we benefit from the controlled DNA self-assembly to…

The hyperbolic random graph model (HRG) has proven useful in the analysis of scale-free networks, which are ubiquitous in many fields, from social network analysis to biology. However, working with this model is algorithmically and…

Protein-protein interaction (PPI) networks, providing a comprehensive landscape of protein interacting patterns, enable us to explore biological processes and cellular components at multiple resolutions. For a biological process, a number…

Considerable attention has been paid, in recent years, to the use of networks in modeling complex real-world systems. Among the many dynamical processes involving networks, propagation processes -- in which final state can be obtained by…

Recent experiments have elucidated the physical properties of kinetoplasts, which are chain-mail-like structures found in the mitochondria of trypanosome parasites formed from catenated DNA rings. Inspired by these studies, we use Monte…

In this work, we develop a systematic formalism to evaluate the upper bound of a large family of holographic entanglement entropy combinations when fixing $n$ subsystems and fine-tuning one other subsystem. The upper bound configurations…

We consider the folding of a self-avoiding homopolymer on a lattice, with saturating hydrogen bond interactions. Our goal is to numerically evaluate the statistical distribution of the topological genus of pseudoknotted configurations. The…

The RNA inverse folding problem, a key challenge in RNA design, involves identifying nucleotide sequences that can fold into desired secondary structures, which are critical for ensuring molecular stability and function. The inherent…

Covering a graph or a lattice with non-overlapping dimers is a problem that has received considerable interest in areas such as discrete mathematics, statistical physics, chemistry and materials science. Yet, the problem of percolation on…

Molecular dynamics simulations have been employed to study the formation of a physical (thermoreversible) gel by amphiphilic A-B-A triblock copolymers in aqueous solution. In order to mimic the structure of hydrogel-forming polypeptides…

Hypergraphs capture the higher-order interactions in complex systems and always admit a factor graph representation, consisting of a bipartite network of nodes and hyperedges. As hypegraphs are ubiquitous, investigating hypergraph…

We consider robustness and percolation properties of the networks of networks, in which random nodes in different individual networks (layers) can be interdependent. We explore the emergence of the giant mutually connected component,…

A new heuristic based on vertex invariants is developed to rapidly distinguish non-isomorphic graphs to a desired level of accuracy. The method is applied to sample subgraphs from an E.coli protein interaction network, and as a probe for…

Directed and heterogeneous hypergraphs capture directional higher-order interactions with intrinsically asymmetric functional dependencies among nodes. As a result, damage to certain nodes can suppress entire hyperedges, whereas failure of…

Experiments of in vitro formation of blood vessels show that cells randomly spread on a gel matrix autonomously organize to form a connected vascular network. We propose a simple model which reproduces many features of the biological…

We numerically study the structure of the interactions occurring in three-dimensional systems of hard spheres at jamming, focusing on the large-scale behavior. Given the fundamental role they play in the configuration of jammed packings, we…

The stochastic block model is widely used to generate graphs with a community structure, but no simple alternative currently exists for hypergraphs, in which more than two nodes can be connected together through a hyperedge. We discuss here…

One of the major challenges in design and developing of PET, scanners are the presence of inactive areas between the detector blocks which degrade the image spatial resolution and leads to streaking artifacts especially when we employ…