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To model biological systems using networks, it is desirable to allow more than two levels of expression for the nodes and to allow the introduction of parameters. Various modeling and simulation methods addressing these needs using Boolean…

Molecular Networks · Quantitative Biology 2014-04-23 Yi Ming Zou

This paper leans on two similar areas so far detached from each other. On the one hand, Dung's pioneering contributions to abstract argumentation, almost thirty years ago, gave rise to a plethora of successors, including abstract…

Logic in Computer Science · Computer Science 2024-07-09 Eugenio Azpeitia , Stan Muñoz Gutiérrez , David A. Rosenblueth , Octavio Zapata

Boolean networks are popular tools for the exploration of qualitative dynamical properties of biological systems. Several dynamical interpretations have been proposed based on the same logical structure that captures the interactions…

Discrete Mathematics · Computer Science 2022-03-04 Aurélien Naldi , Adrien Richard , Elisa Tonello

Abstract Dialectical Frameworks (ADFs) generalize Dung's argumentation frameworks allowing various relationships among arguments to be expressed in a systematic way. We further generalize ADFs so as to accommodate arbitrary acceptance…

Artificial Intelligence · Computer Science 2018-09-10 Gerhard Brewka , Jörg Pührer , Hannes Strass , Johannes P. Wallner , Stefan Woltran

Abstract Dialectical Frameworks (ADFs) are argumentation frameworks where each node is associated with an acceptance condition. This allows us to model different types of dependencies as supports and attacks. Previous studies provided a…

Artificial Intelligence · Computer Science 2019-07-24 João Alcântara , Samy Sá , Juan Acosta-Guadarrama

Random boolean networks are a model of genetic regulatory networks that has proven able to describe experimental data in biology. They not only reproduce important phenomena in cell dynamics, but they are also extremely interesting from a…

Dynamical Systems · Mathematics 2015-02-26 Marco Villani , Davide Campioli , Chiara Damiani , Andrea Roli , Alessandro Filisetti , Roberto Serra

Among the most general structures extending the framework by Dung are the abstract dialectical frameworks (ADFs). They come equipped with various types of semantics, with the most prominent - the labeling-based one - analyzed in the context…

Artificial Intelligence · Computer Science 2016-07-05 Sylwia Polberg

Methods of modeling cellular regulatory networks as diverse as differential equations and Boolean networks co-exist, however, without any closer correspondence to each other. With the example system of the fission yeast cell cycle control…

Molecular Networks · Quantitative Biology 2015-03-13 Maria Davidich , Stefan Bornholdt

We present a novel framework designed to extend model reconciliation approaches, commonly used in human-aware planning, for enhanced human-AI interaction. By adopting a structured argumentation-based dialogue paradigm, our framework enables…

Artificial Intelligence · Computer Science 2024-08-09 Stylianos Loukas Vasileiou , Ashwin Kumar , William Yeoh , Tran Cao Son , Francesca Toni

The combination of argumentation and probability paves the way to new accounts of qualitative and quantitative uncertainty, thereby offering new theoretical and applicative opportunities. Due to a variety of interests, probabilistic…

Artificial Intelligence · Computer Science 2018-03-12 Regis Riveret , Pietro Baroni , Yang Gao , Guido Governatori , Antonino Rotolo , Giovanni Sartor

Boolean networks are special types of finite state time-discrete dynamical systems. A Boolean network can be described by a function from an n-dimensional vector space over the field of two elements to itself. A fundamental problem in…

Quantitative Methods · Quantitative Biology 2013-07-03 Yi Ming Zou

Gene regulatory networks exhibit remarkable stability, maintaining functional phenotypes despite genetic and environmental perturbations. Discrete dynamical models, such as Boolean networks, provide systems biologists with a tractable…

Molecular Networks · Quantitative Biology 2025-11-25 Claus Kadelka

Interacting biological systems at all organizational levels display emergent behavior. Modeling these systems is made challenging by the number and variety of biological components and interactions (from molecules in gene regulatory…

Molecular Networks · Quantitative Biology 2023-10-20 Jordan C. Rozum , Colin Campbell , Eli Newby , Fatemeh Sadat Fatemi Nasrollahi , Reka Albert

Argumentation is a very active research field of Artificial Intelligence concerned with the representation and evaluation of arguments used in dialogues between humans and/or artificial agents. Acceptability semantics of formal…

Artificial Intelligence · Computer Science 2025-03-05 Zlatina Mileva , Antonis Bikakis , Fabio Aurelio D'Asaro , Mark Law , Alessandra Russo

We propose a formal framework for intelligent systems which can reason about scientific domains, in particular about the carcinogenicity of chemicals, and we study its properties. Our framework is grounded in a philosophy of scientific…

Artificial Intelligence · Computer Science 2013-01-18 Peter McBurney , Simon Parsons

Understanding learning as a dynamic process is challenging due to the interaction of multiple factors, including cognitive load, internal state change, and subjective evaluation. Existing approaches often address these elements in…

Computers and Society · Computer Science 2026-01-08 Miyuki T. Nakata

In this paper, we introduce a new framework for modelling the exchange of multiple arguments across agents in a social network. To date, most modelling work concerned with opinion dynamics, testimony, or communication across social networks…

Social and Information Networks · Computer Science 2025-04-15 Leon Assaad , Rafael Fuchs , Ammar Jalalimanesh , Kirsty Phillips , Klee Schöppl , Ulrike Hahn

This paper presents the foundation for a decomposition theory for Boolean networks, a type of discrete dynamical system that has found a wide range of applications in the life sciences, engineering, and physics. Given a Boolean network…

Dynamical Systems · Mathematics 2022-06-10 Claus Kadelka , Reinhard Laubenbacher , David Murrugarra , Alan Veliz-Cuba , Matthew Wheeler

This paper describes a computational framework for a grammar architecture in which different linguistic domains such as morphology, syntax, and semantics are treated not as separate components but compositional domains. Word and phrase…

cmp-lg · Computer Science 2008-02-03 Cem Bozsahin , Elvan Gocmen

In dialogical argumentation it is often assumed that the involved parties always correctly identify the intended statements posited by each other, realize all of the associated relations, conform to the three acceptability states (accepted,…

Artificial Intelligence · Computer Science 2017-12-11 Sylwia Polberg , Anthony Hunter
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