Hypergraph Models of Metabolism

In this paper, we employ a directed hypergraph model to investigate the extent to which environmental variability influences the set of available biochemical reactions within a living cell. Such an approach avoids the limitations of the usual complex network formalism by allowing for the multilateral relationships (i.e. connections involving more than two nodes) that naturally occur within many biological processes. More specifically, we extend the concept of network reciprocity to complex hyper-networks, thus enabling us to characterise a network in terms of the existence of mutual hyper-connections, which may be considered a proxy for metabolic network complexity. To demonstrate these ideas, we study 115 metabolic hyper-networks of bacteria, each of which can be classified into one of 6 increasingly varied habitats. In particular, we found that reciprocity increases significantly with increased environmental variability, supporting the view that organism adaptability leads to increased complexities in the resultant biochemical networks.

A Study on the Iterative Scheme for Stratified Shields Gamma Ray Buildup FactorsUsing Layer-Splitting Technique in Double-Layer Shields

Theiterative scheme which is used to treat buildup factors for stratified shields is being investigated here using the layer-splitting technique.A simple suggested formalism for the scheme based on the Kalos’ formula is introduced, based on which the implementation of the testing technique is carried out. The second layer in a double-layer shield was split into two equivalent layers and the scheme (with the suggested formalism) was implemented on the new “three-layer” shieldconfiguration.The results of such manipulation on water-lead and water-iron shields combinations are presented here for 1MeV photons. It was found that splitting the second layer introduces some deviation on the overall buildup factor value. This expected deviation appeared to be higher in the case of low Z layer followed by high Z. However, the overall performance of the iterative scheme showed a great consistency and strong coherence even with the introduced changes. The introduced layer-splitting testing technique shows the capability to be implemented in test the iterative scheme with a wide range of formalisms.

Improved Dynamic Bayesian Networks Applied to Arabic on Line Characters Recognition

Work is in on line Arabic character recognition and the principal motivation is to study the Arab manuscript with on line technology. This system is a Markovian system, which one can see as like a Dynamic Bayesian Network (DBN). One of the major interests of these systems resides in the complete models training (topology and parameters) starting from training data. Our approach is based on the dynamic Bayesian Networks formalism. The DBNs theory is a Bayesians networks generalization to the dynamic processes. Among our objective, amounts finding better parameters, which represent the links (dependences) between dynamic network variables. In applications in pattern recognition, one will carry out the fixing of the structure, which obliges us to admit some strong assumptions (for example independence between some variables). Our application will relate to the Arabic isolated characters on line recognition using our laboratory database: NOUN. A neural tester proposed for DBN external optimization. The DBN scores and DBN mixed are respectively 70.24% and 62.50%, which lets predict their further development; other approaches taking account time were considered and implemented until obtaining a significant recognition rate 94.79%.

Spin Coherent State Path Integral for the Interaction of Two-Level System with Time Dependent Non-Uniform Magnetic Field

We study the movement of a two-level atom in interaction with time dependent nonuniform magnetic filed using the path integral formalism. The propagator is first written in the standard form by replacing the spin by a unit vector aligned along the polar and azimuthal directions. Then it is determined exactly using perturbation methods. Thus the Rabi formula of the system are deduced.

Treatment of Spin-1/2 Particle in Interaction with a Time-Dependent Magnetic Field by the Fermionic Coherent-State Path-Integral Formalism

We consider a spin-1/2 particle interacting with a time-dependent magnetic field using path integral formalism. The propagator is first of all written in the standard form replacing the spin by two fermionic oscillators via the Schwinger model. The propagator is then exactly determined, thanks to a simple transformation, and the transition probability is deduced.

Coloured Reconfigurable Nets for Code Mobility Modeling

Code mobility technologies attract more and more developers and consumers. Numerous domains are concerned, many platforms are developed and interest applications are realized. However, developing good software products requires modeling, analyzing and proving steps. The choice of models and modeling languages is so critical on these steps. Formal tools are powerful in analyzing and proving steps. However, poorness of classical modeling language to model mobility requires proposition of new models. The objective of this paper is to provide a specific formalism “Coloured Reconfigurable Nets" and to show how this one seems to be adequate to model different kinds of code mobility.

Determination of Non Uniform Sinusoidal Microstrip Leaky-Wave Antenna Radiating Performances in Millimeter Band

Here we have considered non uniform microstrip leaky-wave antenna implemented on a dielectric waveguide by a sinusoidal profile of periodic metallic grating. The non distribution of the attenuation constant α along propagation axis, optimize the radiating characteristics and performances of such antennas. The method developped here is based on an integral method where the formalism of the admittance operator is combined to a BKW approximation. First, the effect of the modeling in the modal analysis of complex waves is studied in detail. Then, the BKW model is used for the dispersion analysis of the antenna of interest. According to antenna theory, a forced continuity of the leaky-wave magnitude at discontinuities of the non uniform structure is established. To test the validity of our dispersion analysis, computed radiation patterns are presented and compared in the millimeter band.

Agent Decision using Granular Computing in Traffic System

In recent years multi-agent systems have emerged as one of the interesting architectures facilitating distributed collaboration and distributed problem solving. Each node (agent) of the network might pursue its own agenda, exploit its environment, develop its own problem solving strategy and establish required communication strategies. Within each node of the network, one could encounter a diversity of problem-solving approaches. Quite commonly the agents can realize their processing at the level of information granules that is the most suitable from their local points of view. Information granules can come at various levels of granularity. Each agent could exploit a certain formalism of information granulation engaging a machinery of fuzzy sets, interval analysis, rough sets, just to name a few dominant technologies of granular computing. Having this in mind, arises a fundamental issue of forming effective interaction linkages between the agents so that they fully broadcast their findings and benefit from interacting with others.

Hybrid Neural Network Methods for Lithology Identification in the Algerian Sahara

In this paper, we combine a probabilistic neural method with radial-bias functions in order to construct the lithofacies of the wells DF01, DF02 and DF03 situated in the Triassic province of Algeria (Sahara). Lithofacies is a crucial problem in reservoir characterization. Our objective is to facilitate the experts' work in geological domain and to allow them to obtain quickly the structure and the nature of lands around the drilling. This study intends to design a tool that helps automatic deduction from numerical data. We used a probabilistic formalism to enhance the classification process initiated by a Self-Organized Map procedure. Our system gives lithofacies, from well-log data, of the concerned reservoir wells in an aspect easy to read by a geology expert who identifies the potential for oil production at a given source and so forms the basis for estimating the financial returns and economic benefits.

Formal Modeling and Verification of Software Models

Graph transformation has recently become more and more popular as a general visual modeling language to formally state the dynamic semantics of the designed models. Especially, it is a very natural formalism for languages which basically are graph (e.g. UML). Using this technique, we present a highly understandable yet precise approach to formally model and analyze the behavioral semantics of UML 2.0 Activity diagrams. In our proposal, AGG is used to design Activities, then using our previous approach to model checking graph transformation systems, designers can verify and analyze designed Activity diagrams by checking the interesting properties as combination of graph rules and LTL (Linear Temporal Logic) formulas on the Activities.

Double Reduction of Ada-ECATNet Representation using Rewriting Logic

One major difficulty that faces developers of concurrent and distributed software is analysis for concurrency based faults like deadlocks. Petri nets are used extensively in the verification of correctness of concurrent programs. ECATNets [2] are a category of algebraic Petri nets based on a sound combination of algebraic abstract types and high-level Petri nets. ECATNets have 'sound' and 'complete' semantics because of their integration in rewriting logic [12] and its programming language Maude [13]. Rewriting logic is considered as one of very powerful logics in terms of description, verification and programming of concurrent systems. We proposed in [4] a method for translating Ada-95 tasking programs to ECATNets formalism (Ada-ECATNet). In this paper, we show that ECATNets formalism provides a more compact translation for Ada programs compared to the other approaches based on simple Petri nets or Colored Petri nets (CPNs). Such translation doesn-t reduce only the size of program, but reduces also the number of program states. We show also, how this compact Ada-ECATNet may be reduced again by applying reduction rules on it. This double reduction of Ada-ECATNet permits a considerable minimization of the memory space and run time of corresponding Maude program.

Research Topic Map Construction

While the explosive increase in information published on the Web, researchers have to filter information when searching for conference related information. To make it easier for users to search related information, this paper uses Topic Maps and social information to implement ontology since ontology can provide the formalisms and knowledge structuring for comprehensive and transportable machine understanding that digital information requires. Besides enhancing information in Topic Maps, this paper proposes a method of constructing research Topic Maps considering social information. First, extract conference data from the web. Then extract conference topics and the relationships between them through the proposed method. Finally visualize it for users to search and browse. This paper uses ontology, containing abundant of knowledge hierarchy structure, to facilitate researchers getting useful search results. However, most previous ontology construction methods didn-t take “people" into account. So this paper also analyzes the social information which helps researchers find the possibilities of cooperation/combination as well as associations between research topics, and tries to offer better results.

Toward a Use of Ontology to Reinforcing Semantic Classification of Message Based On LSA

For best collaboration, Asynchronous tools and particularly the discussion forums are the most used thanks to their flexibility in terms of time. To convey only the messages that belong to a theme of interest of the tutor in order to help him during his tutoring work, use of a tool for classification of these messages is indispensable. For this we have proposed a semantics classification tool of messages of a discussion forum that is based on LSA (Latent Semantic Analysis), which includes a thesaurus to organize the vocabulary. Benefits offered by formal ontology can overcome the insufficiencies that a thesaurus generates during its use and encourage us then to use it in our semantic classifier. In this work we propose the use of some functionalities that a OWL ontology proposes. We then explain how functionalities like “ObjectProperty", "SubClassOf" and “Datatype" property make our classification more intelligent by way of integrating new terms. New terms found are generated based on the first terms introduced by tutor and semantic relations described by OWL formalism.

Identification of States and Events for the Static and Dynamic Simulation of Single Electron Tunneling Circuits

The implementation of single-electron tunneling (SET) simulators based on the master-equation (ME) formalism requires the efficient and accurate identification of an exhaustive list of active states and related tunnel events. Dynamic simulations also require the control of the emerging states and guarantee the safe elimination of decaying states. This paper describes algorithms for use in the stationary and dynamic control of the lists of active states and events. The paper presents results obtained using these algorithms with different SET structures.

A Graphical Environment for Petri Nets INA Tool Based on Meta-Modelling and Graph Grammars

The Petri net tool INA is a well known tool by the Petri net community. However, it lacks a graphical environment to cerate and analyse INA models. Building a modelling tool for the design and analysis from scratch (for INA tool for example) is generally a prohibitive task. Meta-Modelling approach is useful to deal with such problems since it allows the modelling of the formalisms themselves. In this paper, we propose an approach based on the combined use of Meta-modelling and Graph Grammars to automatically generate a visual modelling tool for INA for analysis purposes. In our approach, the UML Class diagram formalism is used to define a meta-model of INA models. The meta-modelling tool ATOM3 is used to generate a visual modelling tool according to the proposed INA meta-model. We have also proposed a graph grammar to automatically generate INA description of the graphically specified Petri net models. This allows the user to avoid the errors when this description is done manually. Then the INA tool is used to perform the simulation and the analysis of the resulted INA description. Our environment is illustrated through an example.

Authentication Analysis of the 802.11i Protocol

IEEE has designed 802.11i protocol to address the security issues in wireless local area networks. Formal analysis is important to ensure that the protocols work properly without having to resort to tedious testing and debugging which can only show the presence of errors, never their absence. In this paper, we present the formal verification of an abstract protocol model of 802.11i. We translate the 802.11i protocol into the Strand Space Model and then prove the authentication property of the resulting model using the Strand Space formalism. The intruder in our model is imbued with powerful capabilities and repercussions to possible attacks are evaluated. Our analysis proves that the authentication of 802.11i is not compromised in the presented model. We further demonstrate how changes in our model will yield a successful man-in-the-middle attack.

New Approach for Manipulation of Stratified Programs

Negation is useful in the majority of the real world applications. However, its introduction leads to semantic and canonical problems. We propose in this paper an approach based on stratification to deal with negation problems. This approach is based on an extension of predicates nets. It is characterized with two main contributions. The first concerns the management of the whole class of stratified programs. The second contribution is related to usual operations optimizations on stratified programs (maximal stratification, incremental updates ...).

Modelling of Electron States in Quantum -Wire Systems - Influence of Stochastic Effects on the Confining Potential

In this work, we address theoretically the influence of red and white Gaussian noise for electronic energies and eigenstates of cylindrically shaped quantum dots. The stochastic effect can be imagined as resulting from crystal-growth statistical fluctuations in the quantum-dot material composition. In particular we obtain analytical expressions for the eigenvalue shifts and electronic envelope functions in the k . p formalism due to stochastic variations in the confining band-edge potential. It is shown that white noise in the band-edge potential leaves electronic properties almost unaffected while red noise may lead to changes in state energies and envelopefunction amplitudes of several percentages. In the latter case, the ensemble-averaged envelope function decays as a function of distance. It is also shown that, in a stochastic system, constant ensembleaveraged envelope functions are the only bounded solutions for the infinite quantum-wire problem and the energy spectrum is completely discrete. In other words, the infinite stochastic quantum wire behaves, ensemble-averaged, as an atom.

Modeling Biology Inspired Reactive Agents Using X-machines

Recent advances in both the testing and verification of software based on formal specifications of the system to be built have reached a point where the ideas can be applied in a powerful way in the design of agent-based systems. The software engineering research has highlighted a number of important issues: the importance of the type of modeling technique used; the careful design of the model to enable powerful testing techniques to be used; the automated verification of the behavioural properties of the system; the need to provide a mechanism for translating the formal models into executable software in a simple and transparent way. This paper introduces the use of the X-machine formalism as a tool for modeling biology inspired agents proposing the use of the techniques built around X-machine models for the construction of effective, and reliable agent-based software systems.

Concept Abduction in Description Logics with Cardinality Restrictions

Recently the usefulness of Concept Abduction, a novel non-monotonic inference service for Description Logics (DLs), has been argued in the context of ontology-based applications such as semantic matchmaking and resource retrieval. Based on tableau calculus, a method has been proposed to realize this reasoning task in ALN, a description logic that supports simple cardinality restrictions as well as other basic constructors. However, in many ontology-based systems, the representation of ontology would require expressive formalisms for capturing domain-specific constraints, this language is not sufficient. In order to increase the applicability of the abductive reasoning method in such contexts, we would like to present in the scope of this paper an extension of the tableaux-based algorithm for dealing with concepts represented inALCQ, the description logic that extends ALN with full concept negation and quantified number restrictions.