Rule Based

Unlike traditional biological research that focuses on a small set of components, systems biology studies the complex interactions among a large number of genes, proteins, and other elements of biological networks and systems. Host-pathogen systems biology examines the interactions between the components of two distinct organisms: a microbial or viral pathogen and its animal host. With the availability of complete genomic sequences of a variety of hosts and pathogens, together with breakthroughs in proteomics, metabolomics, and other experimental areas, the investigation of host-pathogen systems on a multitude of levels of detail has come within reach. This chapter introduces methods and approaches for the analysis of host-pathogen systems. We will particularly emphasize the role of biochemical networks for the study of complex relationships across species boundaries. Although the research area of host-pathogen systems biology spans multiple spatial and temporal scales, we will focus on the molecular and cellular aspects of pathogen-host interactions. We will cover the construction of biochemical networks, the identification of functional response sub-networks, and their comparative network analysis. These methods find application in the identification of host markers and drug targets for further drug development and therapeutic interventions. We will also provide a brief review of other modeling techniques and applications within host-pathogen systems biology, including rule-based modeling of signal transduction pathways, immune system models, and physiological top-down approaches.

Most of legacy systems use nowadays were modeled and documented using structured approach. Expansion of these systems in terms of functionality and maintainability requires shift towards object-oriented documentation and design, which has been widely accepted by the industry. In this paper, we present a survey of the existing Data Flow Diagram (DFD) to Unified Modeling language (UML) transformation techniques. We analyze transformation techniques using a set of parameters, identified in the survey. Based on identified parameters, we present an analysis matrix, which describes the strengths and weaknesses of transformation techniques. It is observed that most of the transformation approaches are rule based, which are incomplete and defined at abstract level that does not cover in depth transformation and automation issues. Transformation approaches are data centric, which focuses on data-store for class diagram generation. Very few of the transformation techniques have been applied o...

Most research in text classification to date has used a “bag of words” representation in which each feature corresponds to a single word. This paper examines some alternative ways to represent text based on syntactic and semantic relationships between words (phrases, synonyms ...

The work reported here is part of the PROGRES (PROgrammed Graph Rewriting Systems) project. PROGRES is a very high level multi paradigm language for the specification of complex structured data types and their operations. The data structures are modelled as directed, attributed, node and edge labelled graphs (diane graphs). The basic programming constructs of PROGRES are graph rewriting rules (productions and tests) and derived relations on nodes (paths and restrictions). These basic operations may be combined to build partly imperative, partly rule based, complex graph transformations by special control structures which regard the nondeterministic nature of graph rewriting rules. PROGRES offers its users a convenient, partly textual, partly graphical concrete syntax and a rich system of consistency checking rules for the underlying calculus of programmed diane-graph rewriting systems. This paper presents the key techniques used for the execution of PROGRES programs. We will discuss...

An implemented system for on-line analysis of multiple distributed data streams is presented. The system is conceptually universal since it does not rely on any particular platform feature and uses format adaptors to translate data streams into its own standard format. The system is as powerful as possible (from a theoretical standpoint) but still efficient enough for on-line analysis thanks to its novel rule-based language (RUSSEL) which is specifically designed for efficient processing of sequential unstructured data streams. The generic concepts are applied to security audit trail analysis. The resulting system provides powerful network security monitoring and sophisticated tools for intrusion/anomaly detection. The rule-based and command languages are described as well as the distributed architecture and the implementation. Performance measurements are reported, showing the effectiveness of the approach

This paper explores the role of gaze in coordinating turn-taking in mixed-initiative conversation and specifically how gaze indicators might be usefully modeled in computational dialogue systems. We analyzed about 20 minutes of videotape of eight dialogues by four pairs of ...

People make social inferences without intentions, awareness, or effort, i.e., spontaneously. We review recent findings on spontaneous social inferences (especially traits, goals, and causes) and closely related phenomena. We then describe current thinking on some of the most relevant processes, implicit knowledge, and theories. These include automatic and controlled processes and their interplay; embodied cognition, including mimicry; and associative versus rule-based processes. Implicit knowledge includes adult folk theories, conditions of personhood, self-knowledge to simulate others, and cultural and social class differences. Implicit theories concern Bayesian networks, recent attribution research, and questions about the utility of the disposition-situation dichotomy. Developmental research provides new insights. Spontaneous social inferences include a growing array of phenomena, but they have been insufficiently linked to other phenomena and theories. We hope the links suggeste...

Today's manufacturers increasingly face demands on customized products to meet the challenges of global competition and customer satisfaction. As a result, many manufacturers have adapted their business models to mass customization, which enables customers to order customized products tailored to their specific needs. This new model combines mass production's economies of scale with custom manufacturing's flexibility. In order to successfully

The prototype decision support system (PDSS) described within this paper represents one of the first of its kind in the urban forest/civil engineering research arena. The primary objective of this research was to develop a user-friendly, intuitive PDSS that provides users with tools for improved micro-management of the urban forest canopy. The secondary objective was to generate further discussion with

Efficient and effective response to the requirements of customers is a major performance indicator. Failure to satisfy customer requirements implies operational weaknesses in a company. These weaknesses will damage both the rights of customers and the reputation ...