1,720,967 research outputs found
Deriving Barbed Bisimulations for Bigraphical Reactive Systems
Full text linkWe study the definition of a general abstract notion of barbed bisimilarity for reactive systems on bigraphs. More precisely, given a bigraphical reactive system, we define the corresponding barbs from the contextual labels given by the IPO construction, in a general and systematic way. These barbs correspond to observe which names on the interface are actually involved in reactions (and how). As examples, we apply this construction to the (bigraphical representation of the) pi-calculus and of Mobile Ambients, and compare the resulting barbed equivalences with those previously known for these calculi
An Algebra for Directed Bigraphs
Full text linkWe study the algebraic structure of directed bigraphs, a bigraphical model of computations with locations, connections and resources previously introduced as a unifying generalization of other variants of bigraphs. We give a sound and complete axiomatization of the (pre)category of directed bigraphs. Using this axiomatization, we give an adequate encoding of the Fusion calculus, showing the utility of the added directnes
Graph Algebras for Bigraphs
Full text linkBinding bigraphs are a graphical formalism intended to be a meta-model for mobile, concurrent and communicating systems. In this paper we present an algebra of typed graph terms which correspond precisely to binding bigraphs over a given signature. As particular cases, pure bigraphs and local bigraphs are described by two sublanguages which can be given a simple syntactic characterization.
Moreover, we give a formal connection between these languages and Synchronized Hyperedge Replacement algebras and the hierarchical graphs used in Architectural Design Rewriting. This allows to transfer results and constructions among formalisms which have been developed independently, e.g., the systematic definition of congruent bisimulations for SHR graphs via the IPO construction
Reactive systems over directed bigraphs
Full text linkAbstract. We study the construction of labelled transition systems from reactive systems defined over directed bigraphs, a computational meta-model which subsumes other variants of bigraphs. First we consider wide transition systems whose labels are all those generated by the IPO construction; the corresponding bisimulation is always a congruence. Then, we show that these LTSs can be simplified further by restricting to a subclass of labels, which can be characterized syntactically. We apply this theory to the Fusion calculus: we give an encoding of Fusion in directed bigraphs, and describe its simplified wide transition system and corresponding bisimulation.
A framework for protein and membrane interactions
Full text linkWe introduce the BioBeta Framework, a meta-model for both protein-level and membrane-level interactions of living cells. This formalism aims to provide a formal setting where to encode, compare and merge models at different abstraction levels; in particular, higher-level (e.g. membrane) activities can be given a formal biological justification in terms of low-level (i.e., protein) interactions. A BioBeta specification provides a protein signature together a set of protein reactions, in the spirit of the kappa-calculus. Moreover, the specification describes when a protein configuration triggers one of the only two membrane interaction allowed, that is "pinch" and "fuse". In this paper we define the syntax and semantics of BioBeta, analyse its properties, give it an interpretation as biobigraphical reactive systems, and discuss its expressivity by comparing with kappa-calculus and modelling significant examples. Notably, BioBeta has been designed after a bigraphical metamodel for the same purposes. Hence, each instance of the calculus corresponds to a bigraphical reactive system, and vice versa (almost). Therefore, we can inherith the rich theory of bigraphs, such as the automatic construction of labelled transition systems and behavioural congruences
Bigraphical models for protein and membrane interactions
Full text linkWe present a bigraphical framework suited for modeling biological systems both at protein level and at membrane level. We characterize formally bigraphs corresponding to biologically meaningful systems, and bigraphic rewriting rules representing biologically admissible interactions. At the protein level, these bigraphic reactive systems correspond exactly to systems of kappa-calculus. Membrane-level interactions are represented by just two general rules, whose application can be triggered by protein-level interactions in a well-defined and precise way. This framework can be used to compare and merge models at different abstraction levels; in particular, higher-level (e.g. mobility) activities can be given a formal biological justification in terms of low-level (i.e., protein) interactions. As examples, we formalize in our framework the vesiculation and the phagocytosis processes
Going Beyond Counting First Authors in Author Co-citation Analysis
Full text linkThe present study examines one of the fundamental aspects of author co-citation analysis (ACA) - the way co-citation
counts are defined. Co-citation counting provides the data on which all subsequent statistical analyses and mappings
are based, and we compare ACA results based on two different types of co-citation counting - the traditional type that
only counts the first one among a cited work's authors on the one hand and a non-traditional type that takes into
account the first 5 authors of a cited work on the other hand. Results indicate that the picture produced through this non-traditional author co-citation counting contains more coherent author groups and is therefore considerably clearer. However, this picture represents fewer specialties in the research field being studied than that produced through the traditional first-author co-citation counting when the same number of top-ranked authors is selected and analyzed. Reasons for these effects are discussed
Variations on the Author
Full text link“Variations on the Author” discusses two of Eduardo Coutinho’s recent films (Um Dia na Vida, from 2010, and Últimas Conversas, posthumously released in 2015) and their contribution to the general question of documentary authorship. The director’s filmography is characterized by a consistent yet self-effacing form of authorial self-inscription: Coutinho often features as an interviewer that rather than express opinions propels discourses; an interviewer that is good at listening. This mode of self-inscription characterizes him as an author who is not expressive but who is nonetheless markedly present on the screen. In Um Dia na Vida, however, Coutinho is completely absent form the image, while Últimas Conversas, on the contrary, includes a confessional prologue that moves the director from the margins to the center of his films. This article examines the ways in which these works stand out in the filmography of a director who offers new insights into the notion of cinematic authorship
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