Language-based Abstractions for Dynamical Systems

Ordinary differential equations (ODEs) are the primary means to modelling dynamical systems in many natural and engineering sciences. The number of equations required to describe a system with high heterogeneity limits our capability of effectively performing analyses. This has motivated a large body of research, across many disciplines, into abstraction techniques that provide smaller ODE systems while preserving the original dynamics in some appropriate sense. In this paper we give an overview of a recently proposed computer-science perspective to this problem, where ODE reduction is recast to finding an appropriate equivalence relation over ODE variables, akin to classical models of computation based on labelled transition systems.Comment: In Proceedings QAPL 2017, arXiv:1707.0366

Logic Integer Programming Models for Signaling Networks

We propose a static and a dynamic approach to model biological signaling networks, and show how each can be used to answer relevant biological questions. For this we use the two different mathematical tools of Propositional Logic and Integer Programming. The power of discrete mathematics for handling qualitative as well as quantitative data has so far not been exploited in Molecular Biology, which is mostly driven by experimental research, relying on first-order or statistical models. The arising logic statements and integer programs are analyzed and can be solved with standard software. For a restricted class of problems the logic models reduce to a polynomial-time solvable satisfiability algorithm. Additionally, a more dynamic model enables enumeration of possible time resolutions in poly-logarithmic time. Computational experiments are included

A Multi-Engine Approach to Answer Set Programming

Answer Set Programming (ASP) is a truly-declarative programming paradigm proposed in the area of non-monotonic reasoning and logic programming, that has been recently employed in many applications. The development of efficient ASP systems is, thus, crucial. Having in mind the task of improving the solving methods for ASP, there are two usual ways to reach this goal: $(i)$ extending state-of-the-art techniques and ASP solvers, or $(ii)$ designing a new ASP solver from scratch. An alternative to these trends is to build on top of state-of-the-art solvers, and to apply machine learning techniques for choosing automatically the "best" available solver on a per-instance basis. In this paper we pursue this latter direction. We first define a set of cheap-to-compute syntactic features that characterize several aspects of ASP programs. Then, we apply classification methods that, given the features of the instances in a {\sl training} set and the solvers' performance on these instances, inductively learn algorithm selection strategies to be applied to a {\sl test} set. We report the results of a number of experiments considering solvers and different training and test sets of instances taken from the ones submitted to the "System Track" of the 3rd ASP Competition. Our analysis shows that, by applying machine learning techniques to ASP solving, it is possible to obtain very robust performance: our approach can solve more instances compared with any solver that entered the 3rd ASP Competition. (To appear in Theory and Practice of Logic Programming (TPLP).)Comment: 26 pages, 8 figure