On the Trap Space Semantics of Normal Logic Programs
The logical semantics of normal logic programs has traditionally been based on the notions of Clark’s completion and two-valued or three-valued canonical models, including …
The logical semantics of normal logic programs has traditionally been based on the notions of Clark’s completion and two-valued or three-valued canonical models, including …
We analyzed publicly available single-cell RNA sequencing data (GEO accession GSE147424) derived from human skin biopsies of lesional and non-lesional atopic dermatitis samples …
The regular models of a normal logic program are a particular type of partial (i.e. 3-valued) models which correspond to stable partial models with minimal undefinedness. In this …
Chemical Reaction Networks (CRNs) are a standard formalism used in chemistry and biology to model complex molecular interaction systems. In the perspective of systems biology, …
Boolean Networks (BNs) are widely used as a modeling formalism in several domains, notably systems biology and computer science. A fundamental problem in BN analysis is the …
Molecular interaction maps (MIMs) are static graphical representations depicting complex biochemical networks that can be formalized using one of the Systems Biology Graphical …
Boolean network modeling of gene regulation but also of post-transcriptomic systems has proven over the years that it can bring powerful analyses and corresponding insight to the …
Cancer-associated fibroblasts (CAFs) are amongst the key players of the tumor microenvironment (TME) and are involved in cancer initiation, progression, and resistance to therapy. …
Boolean Networks (BNs) are an efficient modeling formalism with applications in various research fields such as mathematics, computer science, and more recently systems biology. …
Abstract Rheumatoid arthritis (RA) is a complex autoimmune disease with an unknown aetiology. However, rheumatoid arthritis fibroblast-like synoviocytes (RA-FLS) play a …
Rheumatoid Arthritis (RA) is an autoimmune disease characterized by a highly invasive pannus formation consisting mainly of Synovial Fibroblasts (RASFs). This pannus leads to …
Boolean modelling of gene regulation but also of post-transcriptomic systems has proven over the years that it can bring powerful analyses and corresponding insight to the many …
Tropical geometry can be used to find the order of time scales of variables in chemical reaction networks and search for model reductions [SGF+15]. In this report, we consider the …
The Turing completeness result for continuous chemical reaction networks (CRN) shows that any computable function over the real numbers can be computed by a CRN over a finite set …
In this short paper extracted from [7], we present a polynomialization algorithm of quadratic time complexity to transform a system of elementary differential equations in …
Chemical reaction networks (CRNs) are a standard formalism used in chemistry and biology to reason about the dynamics of molecular interaction networks. In their interpretation by …
Chemical Reaction Networks (CRNs) provide a useful abstraction of molecular interaction networks in which molecular structures as well as mass conservation principles are …
With the automation of biological experiments and the increase of quality of single cell data that can now be obtained by phospho-proteomic and time lapse videomicroscopy, …
With the automation of biological experiments and the increase of quality of single cell data that can now be obtained by phosphoproteomic and time lapse videomicroscopy, …
Biochemical reaction networks are one of the most widely used formalism in systems biology to describe the molecular mechanisms of high-level cell processes. However modellers …