21 research outputs found

    Decision diagrams: Extensions and applications to reachability analysis

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    Symbolic data structures and algorithms are increasingly popular tools for the analysis of complex systems. Given a high-level model of a system, such as a Petri Net, we can automatically verify certain properties about it. In this thesis, we develop data structures and techniques that can be used to improve such analyses. First, we show how decision diagrams can be used efficiently in traditional explicit generation algorithms. Next, we show how symbolic reachability analysis can be used to detect deadlocks in Petri Nets. We also present a symbolic approach that can detect deadlocks in unbounded Petri Nets. Finally, we introduce a new type of decision diagram, ESRBDD, that combines multiple reduction rules, is canonical, and produces a more compact representation than previous efforts. We show that operations on ESRBDDs are at least as efficient as those on the underlying decision diagrams and introduce extensions to ESRBDDs that improve on their compactness and operational efficiency

    Computer Aided Verification

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    This open access two-volume set LNCS 11561 and 11562 constitutes the refereed proceedings of the 31st International Conference on Computer Aided Verification, CAV 2019, held in New York City, USA, in July 2019. The 52 full papers presented together with 13 tool papers and 2 case studies, were carefully reviewed and selected from 258 submissions. The papers were organized in the following topical sections: Part I: automata and timed systems; security and hyperproperties; synthesis; model checking; cyber-physical systems and machine learning; probabilistic systems, runtime techniques; dynamical, hybrid, and reactive systems; Part II: logics, decision procedures; and solvers; numerical programs; verification; distributed systems and networks; verification and invariants; and concurrency

    Application of Logic Synthesis Toward the Inference and Control of Gene Regulatory Networks

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    In the quest to understand cell behavior and cure genetic diseases such as cancer, the fundamental approach being taken is undergoing a gradual change. It is becoming more acceptable to view these diseases as an engineering problem, and systems engineering approaches are being deployed to tackle genetic diseases. In this light, we believe that logic synthesis techniques can play a very important role. Several techniques from the field of logic synthesis can be adapted to assist in the arguably huge effort of modeling cell behavior, inferring biological networks, and controlling genetic diseases. Genes interact with other genes in a Gene Regulatory Network (GRN) and can be modeled as a Boolean Network (BN) or equivalently as a Finite State Machine (FSM). As the expression of genes deter- mine cell behavior, important problems include (i) inferring the GRN from observed gene expression data from biological measurements, and (ii) using the inferred GRN to explain how genetic diseases occur and determine the ”best” therapy towards treatment of disease. We report results on the application of logic synthesis techniques that we have developed to address both these problems. In the first technique, we present Boolean Satisfiability (SAT) based approaches to infer the predictor (logical support) of each gene that regulates melanoma, using gene expression data from patients who are suffering from the disease. From the output of such a tool, biologists can construct targeted experiments to understand the logic functions that regulate a particular target gene. Our second technique builds upon the first, in which we use a logic synthesis technique; implemented using SAT, to determine gene regulating functions for predictors and gene expression data. This technique determines a BN (or family of BNs) to describe the GRN and is validated on a synthetic network and the p53 network. The first two techniques assume binary valued gene expression data. In the third technique, we utilize continuous (analog) expression data, and present an algorithm to infer and rank predictors using modified Zhegalkin polynomials. We demonstrate our method to rank predictors for genes in the mutated mammalian and melanoma networks. The final technique assumes that the GRN is known, and uses weighted partial Max-SAT (WPMS) towards cancer therapy. In this technique, the GRN is assumed to be known. Cancer is modeled using a stuck-at fault model, and ATPG techniques are used to characterize genes leading to cancer and select drugs to treat cancer. To steer the GRN state towards a desirable healthy state, the optimal selection of drugs is formulated using WPMS. Our techniques can be used to find a set of drugs with the least side-effects, and is demonstrated in the context of growth factor pathways for colon cancer

    Computer Aided Verification

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    This open access two-volume set LNCS 11561 and 11562 constitutes the refereed proceedings of the 31st International Conference on Computer Aided Verification, CAV 2019, held in New York City, USA, in July 2019. The 52 full papers presented together with 13 tool papers and 2 case studies, were carefully reviewed and selected from 258 submissions. The papers were organized in the following topical sections: Part I: automata and timed systems; security and hyperproperties; synthesis; model checking; cyber-physical systems and machine learning; probabilistic systems, runtime techniques; dynamical, hybrid, and reactive systems; Part II: logics, decision procedures; and solvers; numerical programs; verification; distributed systems and networks; verification and invariants; and concurrency

    Proceedings of the 22nd Conference on Formal Methods in Computer-Aided Design – FMCAD 2022

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    The Conference on Formal Methods in Computer-Aided Design (FMCAD) is an annual conference on the theory and applications of formal methods in hardware and system verification. FMCAD provides a leading forum to researchers in academia and industry for presenting and discussing groundbreaking methods, technologies, theoretical results, and tools for reasoning formally about computing systems. FMCAD covers formal aspects of computer-aided system design including verification, specification, synthesis, and testing

    Proceedings of the 22nd Conference on Formal Methods in Computer-Aided Design – FMCAD 2022

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    The Conference on Formal Methods in Computer-Aided Design (FMCAD) is an annual conference on the theory and applications of formal methods in hardware and system verification. FMCAD provides a leading forum to researchers in academia and industry for presenting and discussing groundbreaking methods, technologies, theoretical results, and tools for reasoning formally about computing systems. FMCAD covers formal aspects of computer-aided system design including verification, specification, synthesis, and testing

    Tools and Algorithms for the Construction and Analysis of Systems

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    This book is Open Access under a CC BY licence. The LNCS 11427 and 11428 proceedings set constitutes the proceedings of the 25th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2019, which took place in Prague, Czech Republic, in April 2019, held as part of the European Joint Conferences on Theory and Practice of Software, ETAPS 2019. The total of 42 full and 8 short tool demo papers presented in these volumes was carefully reviewed and selected from 164 submissions. The papers are organized in topical sections as follows: Part I: SAT and SMT, SAT solving and theorem proving; verification and analysis; model checking; tool demo; and machine learning. Part II: concurrent and distributed systems; monitoring and runtime verification; hybrid and stochastic systems; synthesis; symbolic verification; and safety and fault-tolerant systems

    Proceedings of the 26th International Symposium on Theoretical Aspects of Computer Science (STACS'09)

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    The Symposium on Theoretical Aspects of Computer Science (STACS) is held alternately in France and in Germany. The conference of February 26-28, 2009, held in Freiburg, is the 26th in this series. Previous meetings took place in Paris (1984), Saarbr¨ucken (1985), Orsay (1986), Passau (1987), Bordeaux (1988), Paderborn (1989), Rouen (1990), Hamburg (1991), Cachan (1992), W¨urzburg (1993), Caen (1994), M¨unchen (1995), Grenoble (1996), L¨ubeck (1997), Paris (1998), Trier (1999), Lille (2000), Dresden (2001), Antibes (2002), Berlin (2003), Montpellier (2004), Stuttgart (2005), Marseille (2006), Aachen (2007), and Bordeaux (2008). ..

    Foundations of Software Science and Computation Structures

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    This open access book constitutes the proceedings of the 22nd International Conference on Foundations of Software Science and Computational Structures, FOSSACS 2019, which took place in Prague, Czech Republic, in April 2019, held as part of the European Joint Conference on Theory and Practice of Software, ETAPS 2019. The 29 papers presented in this volume were carefully reviewed and selected from 85 submissions. They deal with foundational research with a clear significance for software science

    Preuves de non réalisabilité et filtrage de domaines pour les problèmes de satisfaction de contraintes : application à la confection d'horaires

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    Contexte global -- Objectifs de cette thèse -- Organisation de la thèse -- Notions préliminaires -- Problèmes de coloration de graphes -- Les problèmes de sastisfaction de contraintes -- Problème SAT de satisfaisabilité booléenne -- Programmation par contraintes -- Sous-ensembles incohérents irréductibles -- Revue de la littérature concernant l'extraction d'IIS dans les CSP, la résolution du problème SAT et l'extraction d'IIS pour le problème SAT -- Détection de sous-ensembles incohérents dans des CSP -- Le problème SAT et sa résolution -- Utilisation d'heuristiques pour trouver des sous-ensembles incohérents minimaux pour le problème SAT -- Algorithmes de détection d'IIS -- Autres procédures -- Algorithme tabou pour Max WSAT -- Détails d'implémentation -- Résultats expérimentaux -- Revue de la littérature concernant le filtrage de contraintes globales de CSP -- Algorithme de filtrage pour la contrainte AllDifferent -- Algorithme de filtrage de domaines pour la contrainte SomeDifferent -- Autres travaux concernant le filtrage de contraintes globales -- Algorithme de filtrage pour la contrainte SomeDifferent -- Description de l'algorithme de filtrage -- Résultats expérimentaux -- Revue de la littérature concernant le problème de confection d'horaires pour le personnel navigant aérien -- Les méthodes de résolution du PBS -- Détection de sous-ensembles incohérents minimaux dans le problème de confection d'horaires pour le personnel navigant aérien -- Algorithmes de détection de sous-ensembles incohérents minimaux -- Algorithme tabou -- Algorithme exact de vérification des sous-problèmes incohérents -- Résultats expérimentaux -- Méthodes de recherche locale
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