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Physical and functional constraints on biological networks lead to complex topological patterns across multiple scales in their organization. A particular type of higher-order network feature that has received considerable interest is…

Quantitative Methods · Quantitative Biology 2024-10-15 Alexis Bénichou , Jean-Baptiste Masson , Christian L. Vestergaard

Modular neural networks outperform nonmodular neural networks on tasks ranging from visual question answering to robotics. These performance improvements are thought to be due to modular networks' superior ability to model the compositional…

Machine Learning · Computer Science 2025-03-12 Akhilan Boopathy , Sunshine Jiang , William Yue , Jaedong Hwang , Abhiram Iyer , Ila Fiete

The mining of graphs in terms of their local substructure is a well-established methodology to analyze networks. It was hypothesized that motifs - subgraph patterns which appear significantly more often than expected at random - play a key…

Social and Information Networks · Computer Science 2015-01-16 Marco Winkler , Joerg Reichardt

The study of the sub-structure of complex networks is of major importance to relate topology and functionality. Many efforts have been devoted to the analysis of the modular structure of networks using the quality function known as…

Data Analysis, Statistics and Probability · Physics 2011-07-01 Belkacem Serrour , Alex Arenas , Sergio Gomez

It has become increasingly popular to study the brain as a network due to the realization that functionality cannot be explained exclusively by independent activation of specialized regions. Instead, across a large spectrum of behaviors,…

Neurons and Cognition · Quantitative Biology 2014-07-22 Petko Bogdanov , Nazli Dereli , Danielle S. Bassett , Scott T. Grafton , Ambuj K. Singh

The human brain is a complex network of interconnected brain regions organized into functional modules with distinct roles in cognition and behavior. An important question concerns the persistence and stability of these modules over the…

Neurons and Cognition · Quantitative Biology 2015-10-28 Richard F. Betzel , Bratislav Mišić , Ye He , Jeffrey Rumschlag , Xi-Nian Zuo , Olaf Sporns

Natural target functions and tasks typically exhibit hierarchical modularity -- they can be broken down into simpler sub-functions that are organized in a hierarchy. Such sub-functions have two important features: they have a distinct set…

Machine Learning · Computer Science 2023-10-31 Shreyas Malakarjun Patil , Loizos Michael , Constantine Dovrolis

In contrast to conventional artificial neural networks, which are structurally static, we present two approaches for evolving small networks into larger ones during training. The first method employs an auxiliary weight that directly…

Machine Learning · Computer Science 2025-07-29 Anil Radhakrishnan , John F. Lindner , Scott T. Miller , Sudeshna Sinha , William L. Ditto

Key network motifs searching in complex networks is one of the crucial aspects of network analysis. There has been a series of insightful findings and valuable applications for various scenarios through the analysis of network structures.…

Physics and Society · Physics 2024-08-20 Qitong Hu , Xiao-Dong Zhang

The main problem we address in this paper is whether function determines form when a society of agents organizes itself for some purpose or whether the organizing method is more important than the functionality in determining the structure…

Adaptation and Self-Organizing Systems · Physics 2007-05-23 Tanya Araujo , R. Vilela Mendes

Many real-world networks describe systems in which interactions decay with the distance between nodes. Examples include systems constrained in real space such as transportation and communication networks, as well as systems constrained in…

Statistical Mechanics · Physics 2009-11-10 Shalev Itzkovitz , Uri Alon

One of the most important features observed in real networks is that, as a network's topology evolves so does the network's ability to perform various complex tasks. To explain this, it has also been observed that as a network grows certain…

Physics and Society · Physics 2017-12-06 L. A. Bunimovich , D. C. Smith , B. Z. Webb

Networks describing the interaction of the elements that constitute a complex system grow and develop via a number of different mechanisms, such as the addition and deletion of nodes, the addition and deletion of edges, as well as the…

Molecular Networks · Quantitative Biology 2010-06-09 Arend Hintze , Christoph Adami

Functional networks provide a topological description of activity patterns in the brain, as they stem from the propagation of neural activity on the underlying anatomical or structural network of synaptic connections. This latter is well…

Disordered Systems and Neural Networks · Physics 2021-02-11 Ali Safari , Paolo Moretti , Ibai Diez , Jesus M. Cortes , Miguel Ángel Muñoz

To understand the structural dynamics of a large-scale social, biological or technological network, it may be useful to discover behavioral roles representing the main connectivity patterns present over time. In this paper, we propose a…

Social and Information Networks · Computer Science 2012-03-13 Ryan Rossi , Brian Gallagher , Jennifer Neville , Keith Henderson

The architecture of biological networks has been reported to exhibit high level of modularity, and to some extent, topological modules of networks overlap with known functional modules. However, how the modular topology of the molecular…

Molecular Networks · Quantitative Biology 2007-09-07 Jing Zhao , Guo-Hui Ding , Lin Tao , Hong Yu , Zhong-Hao Yu , Jian-Hua Luo , Zhi-Wei Cao , Yi-Xue Li

Gene regulatory networks arise in all living cells, allowing the control of gene expression patterns. The study of their topology has revealed that certain subgraphs of interactions or "motifs" appear at anomalously high frequencies. We ask…

Molecular Networks · Quantitative Biology 2015-03-19 Z. Burda , A. Krzywicki , O. C. Martin , M. Zagorski

Network motifs are often called the building blocks of networks. Analysis of motifs is found to be an indispensable tool for understanding local network structure, in contrast to measures based on node degree distribution and its functions…

Physics and Society · Physics 2017-08-23 Asim Kumer Dey , Yulia R. Gel , H. Vincent Poor

Large-scale deep neural networks consume expensive training costs, but the training results in less-interpretable weight matrices constructing the networks. Here, we propose a mode decomposition learning that can interpret the weight…

Machine Learning · Computer Science 2023-04-13 Chan Li , Haiping Huang

Recent genomic and bioinformatic advances have motivated the development of numerous random network models purporting to describe graphs of biological, technological, and sociological origin. The success of a model has been evaluated by how…

Molecular Networks · Quantitative Biology 2007-05-23 Manuel Middendorf , Etay Ziv , Carter Adams , Jen Hom , Robin Koytcheff , Chaya Levovitz , Gregory Woods , Linda Chen , Chris Wiggins