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Understanding the dependence and interplay between architecture and function in biological networks has great relevance to disease progression, biological fabrication and biological systems in general. We propose methods to assess the…

Quantitative Methods · Quantitative Biology 2009-10-17 Soumen Roy , Vladimir Filkov

Networks in nature are often formed within a spatial domain in a dynamical manner, gaining links and nodes as they develop over time. We propose a class of spatially-based growing network models and investigate the relationship between the…

Physics and Society · Physics 2013-12-30 Ari Zitin , Alex Gorowora , Shane Squires , Mark Herrera , Thomas M. Antonsen , Michelle Girvan , Edward Ott

Interpreting natural language is an increasingly important task in computer algorithms due to the growing availability of unstructured textual data. Natural Language Processing (NLP) applications rely on semantic networks for structured…

Computation and Language · Computer Science 2023-08-21 Gabriel Budel , Ying Jin , Piet Van Mieghem , Maksim Kitsak

Community structures have been identified in various complex real-world networks, for example, communication, information, internet and shareholder networks. The scaling of community size distribution indicates the heterogeneity in the…

Physics and Society · Physics 2022-07-11 Qing Yao , Bingsheng Chen , Tim S. Evans , Kim Christensen

A number of recent studies have focused on the statistical properties of networked systems such as social networks and the World-Wide Web. Researchers have concentrated particularly on a few properties which seem to be common to many…

Statistical Mechanics · Physics 2009-11-07 Michelle Girvan , M. E. J. Newman

Protein structures can be studied as complex networks of interacting amino acids. We study proteins of different structural classes from the network perspective. Our results indicate that proteins, regardless of their structural class, show…

Molecular Networks · Quantitative Biology 2007-11-19 Ganesh Bagler , Somdatta Sinha

Many complex systems--from social and communication networks to biological networks and the Internet--are thought to exhibit scale-free structure. However, prevailing explanations rely on the constant addition of new nodes, an assumption…

Adaptation and Self-Organizing Systems · Physics 2022-11-10 Christopher W. Lynn , Caroline M. Holmes , Stephanie E. Palmer

Complex network theory is used to investigate the structure of meaningful concepts in written texts of individual authors. Networks have been constructed after a two phase filtering, where words with less meaning contents are eliminated,…

Data Analysis, Statistics and Probability · Physics 2009-11-11 Silvia M. G. Caldeira , Thierry C. Petit Lobao , R. F. S. Andrade , Alexis Neme , J. G. V. Miranda

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…

Disordered Systems and Neural Networks · Physics 2007-05-23 M. J. Alava , S. N. Dorogovtsev

Modeling networks can serve as a means of summarizing high-dimensional complex systems. Adapting an approach devised for dense, weighted networks, we propose a new method for generating and estimating unweighted networks. This approach can…

Physics and Society · Physics 2024-04-12 Benjamin Leinwand , Vince Lyzinski

Many real-world networks are intrinsically directed. Such networks include activation of genes, hyperlinks on the internet, and the network of followers on Twitter among many others. The challenge, however, is to create a network model that…

Social and Information Networks · Computer Science 2022-04-15 Jesse Michel , Sushruth Reddy , Rikhav Shah , Sandeep Silwal , Ramis Movassagh

Modeling Internet growth is important both for understanding the current network and to predict and improve its future. To date, Internet models have typically attempted to explain a subset of the following characteristics: network…

Networking and Internet Architecture · Computer Science 2008-06-25 Petter Holme , Josh Karlin , Stephanie Forrest

Many complex networks demonstrate a phenomenon of striking degree correlations, i.e., a node tends to link to other nodes with similar (or dissimilar) degrees. From the perspective of degree correlations, this paper attempts to characterize…

Physics and Society · Physics 2014-10-21 Bin Jiang , Yingying Duan , Feng Lu , Tinghong Yang , Jing Zhao

We define bipartite and monopartite relational networks of chemical elements and compounds using two different datasets of inorganic chemical and material compounds, as well as study their topology. We discover that the connectivity between…

It has been reliably shown that the similarity of word embeddings obtained from popular neural models such as BERT approximates effectively a form of semantic similarity of the meaning of those words. It is therefore natural to wonder if…

Artificial Intelligence · Computer Science 2024-08-02 Mathieu d'Aquin , Emmanuel Nauer

Networks have in recent years emerged as an invaluable tool for describing and quantifying complex systems in many branches of science. Recent studies suggest that networks often exhibit hierarchical organization, where vertices divide into…

Machine Learning · Statistics 2008-11-05 Aaron Clauset , Cristopher Moore , M. E. J. Newman

It is known that many networks modeling real-life complex systems are small-word (large local clustering and small diameter) and scale-free (power law of the degree distribution), and very often they are also hierarchical. Although most of…

Combinatorics · Mathematics 2016-08-09 C. Dalfó , M. A. Fiol

In this work we propose a computational scheme inspired by the workings of human cognition. We embed some fundamental aspects of the human cognitive system into this scheme in order to obtain a minimization of computational resources and…

Physics and Society · Physics 2015-03-20 Daniel Borkmann , Andrea Guazzini , Emanuele Massaro , Stefan Rudolph

A new family of graphs, {\it entangled networks}, with optimal properties in many respects, is introduced. By definition, their topology is such that optimizes synchronizability for many dynamical processes. These networks are shown to have…

Statistical Mechanics · Physics 2009-11-11 Luca Donetti , Pablo I. Hurtado , Miguel A. Munoz

In this work, we study properties of texts from the perspective of complex network theory. Words in given texts are linked by co-occurrence and transformed into networks, and we observe that these display topological properties common to…

Physics and Society · Physics 2015-10-19 Juan Pablo Cárdenas , Iván González , Gerardo Vidal , Miguel Fuentes