Related papers: Bridging abstract dialectical argumentation and Bo…
Computational argumentation offers formal frameworks for transparent, verifiable reasoning but has traditionally been limited by its reliance on domain-specific information and extensive feature engineering. In contrast, LLMs excel at…
We contemplate a higher-level bipolar abstract argumentation for non-elementary arguments such as: X argues against Ys sincerity with the fact that Y has presented his argument to draw a conclusion C, by omitting other facts which would not…
In recent years, large language models (LLMs) have made significant advancements in developing human-like and engaging dialogue systems. However, in tasks such as consensus-building and persuasion, LLMs often struggle to resolve conflicts…
Dynamical systems theory and complexity science provide powerful tools for analysing artificial agents and robots. Furthermore, they have been recently proposed also as a source of design principles and guidelines. Boolean networks are a…
Different Boolean networks may reveal similar dynamics although their definition differs, then preventing their distinction from the observations. This raises the question about the sufficiency of a particular Boolean network for properly…
Monitoring the biomedical literature for cases of Adverse Drug Reactions (ADRs) is a critically important and time consuming task in pharmacovigilance. The development of computer assisted approaches to aid this process in different forms…
Molecular biology features numerous complexes of proteins that coordinate in an interlocking fashion to fulfill different functions. Adaptive evolution explains some of this complexity, but needn't be the default when neutral explanations…
Deep neural networks are commonly used for medical purposes such as image generation, segmentation, or classification. Besides this, they are often criticized as black boxes as their decision process is often not human interpretable.…
Artificial Neural Networks (ANNs) often represent conflicts between features, arising naturally during training as the network learns to integrate diverse and potentially disagreeing inputs to better predict the target variable. Despite…
Machine learning algorithms can be fooled by small well-designed adversarial perturbations. This is reminiscent of cellular decision-making where ligands (called antagonists) prevent correct signalling, like in early immune recognition. We…
Regulatory interactions between genes show a large amount of cross-species variability, even when the underlying functions are conserved: There are many ways to achieve the same function. Here we investigate the ability of regulatory…
Gene expression-based heterogeneity analysis has been extensively conducted. In recent studies, it has been shown that network-based analysis, which takes a system perspective and accommodates the interconnections among genes, can be more…
The problem of reliability of the dynamics in biological regulatory networks is studied in the framework of a generalized Boolean network model with continuous timing and noise. Using well-known artificial genetic networks such as the…
This paper is concerned with the problem of stochastic control of gene regulatory networks (GRNs) observed indirectly through noisy measurements and with uncertainty in the intervention inputs. The partial observability of the gene states…
Dynamic Bayesian networks (DBNs) are a widely used framework for modeling systems whose probabilistic structure evolves over time. Standard inference methods focus on local conditional distributions and can miss larger-scale patterns in how…
One of the grand challenges of cell biology is inferring the gene regulatory network (GRN) which describes interactions between genes and their products that control gene expression and cellular function. We can treat this as a causal…
Coregulation of the expression of groups of genes has been extensively demonstrated empirically in bacterial and eukaryotic systems. Such coregulation can arise through the use of shared regulatory motifs, which allow the coordinated…
The act of persuasion, a key component in rhetoric argumentation, may be viewed as a dynamics modifier. We extend Dung's frameworks with acts of persuasion among agents, and consider interactions among attack, persuasion and defence that…
Gene Regulatory Networks (GRNs) consisting of combinations of transcription factors (TFs) and their cis promoters are assumed to be sufficient to direct the development of organisms. Mutations in GRNs are assumed to be the primary drivers…
A formal context consists of objects, properties, and the incidence relation between them. Various notions of concepts defined with respect to formal contexts and their associated algebraic structures have been studied extensively,…