Yet Another Characterization of Strong Equivalence

Strong equivalence of disjunctive logic programs is characterized here by a calculus that operates with syntactically simple formulas

Lumpability Abstractions of Rule-based Systems

The induction of a signaling pathway is characterized by transient complex formation and mutual posttranslational modification of proteins. To faithfully capture this combinatorial process in a mathematical model is an important challenge in systems biology. Exploiting the limited context on which most binding and modification events are conditioned, attempts have been made to reduce the combinatorial complexity by quotienting the reachable set of molecular species, into species aggregates while preserving the deterministic semantics of the thermodynamic limit. Recently we proposed a quotienting that also preserves the stochastic semantics and that is complete in the sense that the semantics of individual species can be recovered from the aggregate semantics. In this paper we prove that this quotienting yields a sufficient condition for weak lumpability and that it gives rise to a backward Markov bisimulation between the original and aggregated transition system. We illustrate the framework on a case study of the EGF/insulin receptor crosstalk.Comment: In Proceedings MeCBIC 2010, arXiv:1011.005

Strong Equivalence of Qualitative Optimization Problems

We introduce the framework of qualitative optimization problems (or, simply, optimization problems) to represent preference theories. The formalism uses separate modules to describe the space of outcomes to be compared (the generator) and the preferences on outcomes (the selector). We consider two types of optimization problems. They differ in the way the generator, which we model by a propositional theory, is interpreted: by the standard propositional logic semantics, and by the equilibrium-model (answer-set) semantics. Under the latter interpretation of generators, optimization problems directly generalize answer-set optimization programs proposed previously. We study strong equivalence of optimization problems, which guarantees their interchangeability within any larger context. We characterize several versions of strong equivalence obtained by restricting the class of optimization problems that can be used as extensions and establish the complexity of associated reasoning tasks. Understanding strong equivalence is essential for modular representation of optimization problems and rewriting techniques to simplify them without changing their inherent properties

The Consistency dimension and distribution-dependent learning from queries

We prove a new combinatorial characterization of polynomial learnability from equivalence queries, and state some of its consequences relating the learnability of a class with the learnability via equivalence and membership queries of its subclasses obtained by restricting the instance space. Then we propose and study two models of query learning in which there is a probability distribution on the instance space, both as an application of the tools developed from the combinatorial characterization and as models of independent interest.Postprint (published version