4863
On Finite Alphabets and Infinite Bases II: Completed and Ready Simulation
We prove that the equational theory of the process algebra BCCSP modulo completed simulation equivalence does not have a finite basis. Furhermore, we prove that with a finite alphabet of actions, the equational theory of BCCSP modulo ready simulation equivalence does not have a finite basis. In contrast, with an infinite alphabet, the latter equational theory does have a finite basis.
8043922
Intensionality of modal logic for Robust Ambient Calculus
Abstract Computation with mobility becomes a novel distributed computation paradigm with the development of network technology. The calculus of Mobile Ambient is a widely studied formal mechanism for describing both mobile computing and mobile computation. To improve this process calculus, Robust Mobile Ambient is introduced by providing co-actions. This paper deals with the modal logic for finite fragment of this calculus without communication primitives. In details, we compare standard behavioral equivalence with the equivalence induced by the logic (=L) and with the structural congruence. As a result, we prove the intensionality of the logic and at the same time, an axiomatization for = L is given. The authors thank the three referees for many constructive suggestions and comments.
34739655
On the Bisimulation Congruence in chi-Calculus
In this paper, we study weak bisimulation congruences for the χ-calculus, a symmetric variant of the π-calculus. We distinguish two styles of such bisimulation definitions, i.e. “open” and “closed” bisimulation, the difference between which lies in that in open style the equivalence is closed under context in every bisimulation step whereas in closed style the equivalence is closed under context only at the very beginning. As a result, we show that both in labelled and barbed congruence, the open and closed style definitions coincide. Thus all bisimulation congruences collapse into two equivalences, that is, the well-known open congruence and open barbed congruence, which are the same in the strong case, while in the weak case their difference can be reflected by one axiom. The results of this paper close some conjectures in the literatures and shed light on the algebraic theory of a large class of mobile process calculi.
17905406
On the Markovian Randomized Strategy of Controller for Markov Decision Processes
This paper focuses on the so called controller synthesis problem, which addresses the question of how to limit the internal behavior of a given system implementation to meet its specification, regardless of the behavior enforced by the environment. We consider this problem in the probabilistic setting, where the underlying model has both probabilism and nondeterminism and the nondeterministic choices in some states are assumed to be controllable while the others are under the control of an unpredictable environment. As for the specification, it is defined by probabilistic computation tree logic. We show that under the restriction that the controller exploits only Markovian randomized strategy, the existence of such a controller is decidable, which is done by a reduction to the decidability of first-order theory for reals. This also gives rise to an algorithm which can synthesize the controller if it does exist.
15877902
Tree logic with recursion and model checking algorithm
Semi-structured data plays an increasingly important role in the exchange of information between globally distributed applications, which invokes renewed interests in typed programming languages that can manipulate tree-like data structures. Tree logic, inherited from ambient logic, is introduced as the formal foundation of related programming language and type systems. In this paper, we introduce recursion into such logic system, which can describe the tree data more clearly and concisely. By making a distinction between proposition and predicate, a concise semantics interpretation for our modal logic is given. We also develop a model checking algorithm for the logic without . operator. The correctness of the algorithm is shown. Such work can be seen as the basis of the semi-structured data processing language and more flexible type system.
8665982
Structure analysis for dynamic software architecture based on spatial logic
The requirement for modifying system structure during system execution is specified by dynamic software architectures. The system architecture style should remain one style or transform within a scope so that some constraints need to be imposed on during the system execution. Our work expands such an idea along two directions in the setting of formalism. The first direction is to model the system by a graph-based calculus stressing the structure. The other direction lies in that we tailor spatial logic to be a suitable logic as the system specification for structure. The model and specification are basis for the model checking algorithm that is to verify whether the system evolution satisfies some structure constraints. We invite a master-slave architecture style as a running example from the beginning and throughout the paper to demonstrate our approach. Such work can be seen as the basis of the structure analysis for architectures.
8821639
Realistic video avatar
We present a system for the implementation of a photorealistic avatar using video captured from a user. This is achieved by constructing the dynamic video texture map and combining it with the 3D mesh model of the user to render the photorealistic avatar. The dynamic video texture map reflects the user's facial expressions and is generated by composing the cylindrical texture map of the user with constant updates either directly from the input video or derived from a temporal and spatial interpolation scheme. To derive the 3D mesh model for the user, we define feature points on a generic model and use the feature points identified on the video sequence to deform and obtain the avatar model. The goal of this realistic video avatar project is to provide a vivid representation of participants with a more realistic quality avatar, as compared to using only the facial animation parameters defined in MPEG-4 without the corresponding image updates. This scheme is suitable for conferencing applications because it requires much lower bandwidth than live video, and yet provides a 3D avatar representation for any virtual environment.
17692093
Life after Video Coding Standards: Rate Shaping and Error Concealment
Is there life after video coding standards? One might think that research has no room to advance with the video coding standards already defined. On the contrary, exciting research opportunities arise after the standards are specified. In this paper, we introduce two standard-related research areas: rate shaping and error concealment, as examples of interesting research that finds its context in standards. Experiment results are also shown.
43120543
A simulation study on some heuristics for test suite reduction
In order to test a program, software testers must first define a testing objective. From this a test suite is then constructed. In fact, some subsets of the constructed test suite may still satisfy the same testing objective. Such subsets are referred to as representative sets of the test suite. Finding the optimal representative sets of the test suite reduction problem is known to be NP-complete. Different heuristics, including G, GE, grE and H, have been proposed by different researchers. However, it has been demonstrated that none of these four heuristics are guaranteed to deliver smaller sized representative sets. This paper presents the result of a simulation study of these four heuristics. The aim of the study is to provide application guidelines for choosing the most appropriate heuristic for test suite reduction.
2822926
Sorting with Fixed-length Reversals
Abstract A popular puzzle TOP-SPIN consists of a permutation of 20 numbered disks on an oval track, with a turnstile capable of reversing a string of 4 consecutive disks. The goal is to sort the disks into identity permutation using reversals. We consider the more general case of sorting n element permutations with a turnstile of size k. The problem of computing the reversal distances is of considerable importance in reconstructing the evolutionary history of the genome. The minimum reversal sequence sorting the one genome to another corresponds to the most likely evolutionary path between them. We give a complete solution for all n and k, of the number of equivalence classes of n-permutations under k-reversal, for both permutations and circular permutations. We also prove the upper and lower bounds on the reversal distances between two permutations.
2083478
An integrative approach for causal gene identification and gene regulatory pathway inference
MOTIVATION
Gene expression variation can often be linked to certain chromosomal regions and are tightly associated with phenotypic variation such as disease conditions. Inferring the causal genes for the expression variation is of great importance but rather challenging as the linked region generally contains multiple genes. Even when a single candidate gene is proposed, the underlying biological mechanism by which the regulation is enforced remains unknown. Novel approaches are needed to both infer the causal genes and generate hypothesis on the underlying regulatory mechanisms.


RESULTS
We propose a new approach which aims at achieving the above objectives by integrating genotype information, gene expression, protein-protein interaction, protein phosphorylation, and transcription factor (TF)-DNA binding information. A network based stochastic algorithm is designed to infer the causal genes and identify the underlying regulatory pathways. We first quantitatively verified our method by a test using data generated by yeast knock-out experiments. Over 40% of inferred causal genes are correct, which is significantly better than 10% by random guess. We then applied our method to a recent genome-wide expression variation study in yeast. We show that our method can correctly identify the causal genes and effectively output experimentally verified pathways. New potential gene regulatory pathways are generated and presented as a global network.


AVAILABILITY
Source code is available upon request.