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This article introduces the physics of information in the context of molecular biology and genomics. Entropy and information, the two central concepts of Shannon's theory of information and communication, are often confused with each other…

Biomolecules · Quantitative Biology 2007-05-23 Christoph Adami

A variety of idealized models of communication systems exist, and all may have something in common. Starting with Shannons communication model and ending with the OSI model, this paper presents progressively more advanced forms of modeling…

Networking and Internet Architecture · Computer Science 2009-12-04 Sabah Al Fedaghi , Alaa Alsaqa , Zahraa Fadel

A framework integrating information theory and network science is proposed, giving rise to a potentially new area. By incorporating and integrating concepts such as complexity, coding, topological projections and network dynamics, the…

Information Theory · Computer Science 2019-04-10 Henrique F. de Arruda , Filipi N. Silva , Cesar H. Comin , Diego R. Amancio , Luciano da F. Costa

Biologists rely heavily on the language of information, coding, and transmission that is commonplace in the field of information theory as developed by Claude Shannon, but there is open debate about whether such language is anything more…

Populations and Evolution · Quantitative Biology 2008-10-24 C. T. Bergstrom , M. Rosvall

Networks and network computations have become a primary mathematical tool for analyzing the structure of many kinds of complex systems, ranging from the Internet and transportation networks to biochemical interactions and social networks. A…

Social and Information Networks · Computer Science 2023-07-11 M. E. J. Newman

Understanding the origins of complexity is a fundamental challenge with implications for biological and technological systems. Network theory emerges as a powerful tool to model complex systems. Networks are an intuitive framework to…

Disordered Systems and Neural Networks · Physics 2024-10-22 Blai Vidiella , Salva Duran-Nebreda , Sergi Valverde

To comprehend the multipartite organization of large-scale biological and social systems, we introduce a new information theoretic approach that reveals community structure in weighted and directed networks. The method decomposes a network…

Physics and Society · Physics 2008-02-13 M. Rosvall , C. T. Bergstrom

Understanding the internal dynamics of Recurrent Neural Networks (RNNs) is crucial for advancing their interpretability and improving their design. This study introduces an innovative information-theoretic method to identify and analyze…

Machine Learning · Computer Science 2025-10-03 Arend Hintze , Asadullah Najam , Jory Schossau

Assessing where and how information is stored in biological networks (such as neuronal and genetic networks) is a central task both in neuroscience and in molecular genetics, but most available tools focus on the network's structure as…

Information Theory · Computer Science 2023-02-24 Clifford Bohm , Douglas Kirkpatrick , Victoria Cao , Christoph Adami

The problems of causality, modeling, and control for chaotic, high-dimensional dynamical systems are formulated in the language of information theory. The central quantity of interest is the Shannon entropy, which measures the amount of…

Dynamical Systems · Mathematics 2022-06-01 Adrián Lozano-Durán , Gonzalo Arranz

We propose an information-theoretic framework for analyzing control systems based on the close relationship of controllers to communication channels. A communication channel takes an input state and transforms it into an output state. A…

Data Analysis, Statistics and Probability · Physics 2007-05-23 Hugo Touchette , Seth Lloyd

Accurately determining dependency structure is critical to discovering a system's causal organization. We recently showed that the transfer entropy fails in a key aspect of this---measuring information flow---due to its conflation of dyadic…

Information Theory · Computer Science 2017-11-22 Ryan G. James , James P. Crutchfield

Probability theory is fundamental for modeling uncertainty, with traditional probabilities being real and non-negative. Complex probability extends this concept by allowing complex-valued probabilities, opening new avenues for analysis in…

Information Theory · Computer Science 2025-03-07 Chan Li , Hejun Xu , Zhu Cao

How to enhance the communication efficiency and quality on vehicular networks is one critical important issue. While with the larger and larger scale of vehicular networks in dense cities, the real-world datasets show that the vehicular…

Networking and Internet Architecture · Computer Science 2020-08-05 Jingjing Wang , Chunxiao Jiang , Longxiang Gao , Shui Yu , Zhu Han , Yong Ren

Rough speaking, information theory deals with data transmitted over a channel such as the internet. Modern information theory is generally considered to have been founded in 1948 by Shannon in his seminal paper, "A mathematical theory of…

Information Theory · Computer Science 2010-03-25 HaengJin Choe

Information theory is a statistical theory dealing with the relative state of detectors and physical systems. Because of this physicality of information, the classical framework of Shannon needs to be extended to deal with quantum…

Quantum Physics · Physics 2011-12-09 Christoph Adami

A crucial challenge in network theory is the study of the robustness of a network after facing a sequence of failures. In this work, we propose a dynamical definition of network's robustness based on Information Theory, that considers…

Complex systems often have features that can be modeled by advanced mathematical tools [1]. Of special interests are the features of complex systems that have a network structure as such systems are important for modeling technological and…

Classical Physics · Physics 2019-06-13 Nikolay K. Vitanov , Kaloyan N. Vitanov , Zlatinka I. Dimitrova

Realistic modeling of brain involves large number of neurons. The important question is how this size affects transmission efficiency? Here, these issue is studied in terms of Shannon's Theory. Mutual Information between input and output…

Neurons and Cognition · Quantitative Biology 2023-07-26 Bartosz Paprocki , Agnieszka Pregowska , Janusz Szczepanski

Existing information-theoretic frameworks based on maximum entropy network ensembles are not able to explain the emergence of heterogeneity in complex networks. Here, we fill this gap of knowledge by developing a classical framework for…

Physics and Society · Physics 2020-07-08 Filippo Radicchi , Dmitri Krioukov , Harrison Hartle , Ginestra Bianconi