LinkedScales : bases de dados em multiescala

Orientador: André SantanchèTese (doutorado) - Universidade Estadual de Campinas, Instituto de ComputaçãoResumo: As ciências biológicas e médicas precisam cada vez mais de abordagens unificadas para a análise de dados, permitindo a exploração da rede de relacionamentos e interações entre elementos. No entanto, dados essenciais estão frequentemente espalhados por um conjunto cada vez maior de fontes com múltiplos níveis de heterogeneidade entre si, tornando a integração cada vez mais complexa. Abordagens de integração existentes geralmente adotam estratégias especializadas e custosas, exigindo a produção de soluções monolíticas para lidar com formatos e esquemas específicos. Para resolver questões de complexidade, essas abordagens adotam soluções pontuais que combinam ferramentas e algoritmos, exigindo adaptações manuais. Abordagens não sistemáticas dificultam a reutilização de tarefas comuns e resultados intermediários, mesmo que esses possam ser úteis em análises futuras. Além disso, é difícil o rastreamento de transformações e demais informações de proveniência, que costumam ser negligenciadas. Este trabalho propõe LinkedScales, um dataspace baseado em múltiplos níveis, projetado para suportar a construção progressiva de visões unificadas de fontes heterogêneas. LinkedScales sistematiza as múltiplas etapas de integração em escalas, partindo de representações brutas (escalas mais baixas), indo gradualmente para estruturas semelhantes a ontologias (escalas mais altas). LinkedScales define um modelo de dados e um processo de integração sistemático e sob demanda, através de transformações em um banco de dados de grafos. Resultados intermediários são encapsulados em escalas reutilizáveis e transformações entre escalas são rastreadas em um grafo de proveniência ortogonal, que conecta objetos entre escalas. Posteriormente, consultas ao dataspace podem considerar objetos nas escalas e o grafo de proveniência ortogonal. Aplicações práticas de LinkedScales são tratadas através de dois estudos de caso, um no domínio da biologia -- abordando um cenário de análise centrada em organismos -- e outro no domínio médico -- com foco em dados de medicina baseada em evidênciasAbstract: Biological and medical sciences increasingly need a unified, network-driven approach for exploring relationships and interactions among data elements. Nevertheless, essential data is frequently scattered across sources with multiple levels of heterogeneity. Existing data integration approaches usually adopt specialized, heavyweight strategies, requiring a costly upfront effort to produce monolithic solutions for handling specific formats and schemas. Furthermore, such ad-hoc strategies hamper the reuse of intermediary integration tasks and outcomes. This work proposes LinkedScales, a multiscale-based dataspace designed to support the progressive construction of a unified view of heterogeneous sources. It departs from raw representations (lower scales) and goes towards ontology-like structures (higher scales). LinkedScales defines a data model and a systematic, gradual integration process via operations over a graph database. Intermediary outcomes are encapsulated as reusable scales, tracking the provenance of inter-scale operations. Later, queries can combine both scale data and orthogonal provenance information. Practical applications of LinkedScales are discussed through two case studies on the biology domain -- addressing an organism-centric analysis scenario -- and the medical domain -- focusing on evidence-based medicine dataDoutoradoCiência da ComputaçãoDoutor em Ciência da Computação141353/2015-5CAPESCNP

Dealing with data and software interoperability issues in digital factories

The digital factory paradigm comprises a multi-layered integration of the information related to various activities along the factory and product lifecycle manufacturing related resources. A central aspect of a digital factory is that of enabling the product lifecycle stakeholders to collaborate through the use of software solutions. The digital factory thus expands outside the actual company boundaries and offers the opportunity for the business and its suppliers to collaborate on business processes that affect the whole supply chain. This paper discusses an interoperability architecture for digital factories. To this end, it delves into the issue by analysing the main challenges that must be addressed to support an integrated and scalable factory architecture characterized by access to services, aggregation of data, and orchestration of production processes. Then, it revises the state of the art in the light of these requirements and proposes a general architectural framework conjugating the most interesting features of serviceoriented architectures and data sharing architectures. The study is exemplified through a case study

A Survey of the State of Dataspaces

Published in International Journal of Computer and Information Technology.This paper presents a survey of the state of dataspaces. With dataspaces becoming the modern technique of systems integration, the achievement of complete dataspace development is a critical issue. This has led to the design and implementation of dataspace systems using various approaches. Dataspaces are data integration approaches that target for data coexistence in the spatial domain. Unlike traditional data integration techniques, they do not require up front semantic integration of data. In this paper, we outline and compare the properties and implementations of dataspaces including the approaches of optimizing dataspace development. We finally present actual dataspace development recommendations to provide a global overview of this significant research topic.This paper presents a survey of the state of dataspaces . With dataspaces becoming the modern technique of systems integration, the ach ievement of complete dataspace development is a critical issue. This has led to the design and implementation of dataspace systems using various approaches. Dataspaces are data integration approaches that target for data coexistence in the spatial domain. Unlike traditional data integration techniques, they do not require up front semantic integration of data. In this paper, we outline and compare the properties and implementations of dataspaces including the approaches of optimizing dataspace development. We finally present actual dataspace development recommendations to provide a global overview of this significant research topic

Dynamic digital factories for agile supply chains: An architectural approach

Digital factories comprise a multi-layered integration of various activities along the factories and product lifecycles. A central aspect of a digital factory is that of enabling the product lifecycle stakeholders to collaborate through the use of software solutions. The digital factory thus expands outside the company boundaries and offers the opportunity to collaborate on business processes affecting the whole supply chain. This paper discusses an interoperability architecture for digital factories. To this end, it delves into the issue by analysing the key requirements for enabling a scalable factory architecture characterized by access to services, aggregation of data, and orchestration of production processes. Then, the paper revises the state-of-the-art w.r.t. these requirements and proposes an architectural framework conjugating features of both service-oriented and data-sharing architectures. The framework is exemplified through a case study

Preparing Laboratory and Real-World EEG Data for Large-Scale Analysis: A Containerized Approach.

Large-scale analysis of EEG and other physiological measures promises new insights into brain processes and more accurate and robust brain-computer interface models. However, the absence of standardized vocabularies for annotating events in a machine understandable manner, the welter of collection-specific data organizations, the difficulty in moving data across processing platforms, and the unavailability of agreed-upon standards for preprocessing have prevented large-scale analyses of EEG. Here we describe a "containerized" approach and freely available tools we have developed to facilitate the process of annotating, packaging, and preprocessing EEG data collections to enable data sharing, archiving, large-scale machine learning/data mining and (meta-)analysis. The EEG Study Schema (ESS) comprises three data "Levels," each with its own XML-document schema and file/folder convention, plus a standardized (PREP) pipeline to move raw (Data Level 1) data to a basic preprocessed state (Data Level 2) suitable for application of a large class of EEG analysis methods. Researchers can ship a study as a single unit and operate on its data using a standardized interface. ESS does not require a central database and provides all the metadata data necessary to execute a wide variety of EEG processing pipelines. The primary focus of ESS is automated in-depth analysis and meta-analysis EEG studies. However, ESS can also encapsulate meta-information for the other modalities such as eye tracking, that are increasingly used in both laboratory and real-world neuroimaging. ESS schema and tools are freely available at www.eegstudy.org and a central catalog of over 850 GB of existing data in ESS format is available at studycatalog.org. These tools and resources are part of a larger effort to enable data sharing at sufficient scale for researchers to engage in truly large-scale EEG analysis and data mining (BigEEG.org)

Coordination and P2P computing

Peer-to-Peer (P2P) refers to a class of systems and/or applications that use distributed resources in a decentralized and autonomous manner to achieve a goal. A number of successful applications, like BitTorrent (for file and content sharing) and SETI@Home (for distributed computing) have demonstrated the feasibility of this approach. As a new form of distributed computing, P2P computing has the same coordination problems as other forms of distributed computing. Coordination has been considered an important issue in distributed computing for a long time and many coordination models and languages have been developed. This research focuses on how to solve coordination problems in P2P computing. In particular, it is to provide a seamless P2P computing environment so that the migration of computation components is transparent. This research extends Manifold, an event-driven coordination model, to meet P2P computing requirements and integrates the P2P-Manifold model into an existing platform. The integration hides the complexity of the coordination model and makes the model easy to use

Semantic Federation of Musical and Music-Related Information for Establishing a Personal Music Knowledge Base

Music is perceived and described very subjectively by every individual. Nowadays, people often get lost in their steadily growing, multi-placed, digital music collection. Existing music player and management applications get in trouble when dealing with poor metadata that is predominant in personal music collections. There are several music information services available that assist users by providing tools for precisely organising their music collection, or for presenting them new insights into their own music library and listening habits. However, it is still not the case that music consumers can seamlessly interact with all these auxiliary services directly from the place where they access their music individually. To profit from the manifold music and music-related knowledge that is or can be available via various information services, this information has to be gathered up, semantically federated, and integrated into a uniform knowledge base that can personalised represent this data in an appropriate visualisation to the users. This personalised semantic aggregation of music metadata from several sources is the gist of this thesis. The outlined solution particularly concentrates on users’ needs regarding music collection management which can strongly alternate between single human beings. The author’s proposal, the personal music knowledge base (PMKB), consists of a client-server architecture with uniform communication endpoints and an ontological knowledge representation model format that is able to represent the versatile information of its use cases. The PMKB concept is appropriate to cover the complete information flow life cycle, including the processes of user account initialisation, information service choice, individual information extraction, and proactive update notification. The PMKB implementation makes use of SemanticWeb technologies. Particularly the knowledge representation part of the PMKB vision is explained in this work. Several new Semantic Web ontologies are defined or existing ones are massively modified to meet the requirements of a personalised semantic federation of music and music-related data for managing personal music collections. The outcome is, amongst others, • a new vocabulary for describing the play back domain, • another one for representing information service categorisations and quality ratings, and • one that unites the beneficial parts of the existing advanced user modelling ontologies. The introduced vocabularies can be perfectly utilised in conjunction with the existing Music Ontology framework. Some RDFizers that also make use of the outlined ontologies in their mapping definitions, illustrate the fitness in practise of these specifications. A social evaluation method is applied to carry out an examination dealing with the reutilisation, application and feedback of the vocabularies that are explained in this work. This analysis shows that it is a good practise to properly publish Semantic Web ontologies with the help of some Linked Data principles and further basic SEO techniques to easily reach the searching audience, to avoid duplicates of such KR specifications, and, last but not least, to directly establish a \"shared understanding\". Due to their project-independence, the proposed vocabularies can be deployed in every knowledge representation model that needs their knowledge representation capacities. This thesis added its value to make the vision of a personal music knowledge base come true.:1 Introduction and Background 11 1.1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11 1.2 Personal Music Collection Use Cases . . . . . . . . . . . . . . . . . . . . . . . . . 14 1.3 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16 2 Music Information Management 17 2.1 Knowledge Management . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 17 2.1.1 Knowledge Representation . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 2.1.1.1 Knowledge Representation Models . . . . . . . . . . . . . . . . . 18 2.1.1.2 Semantic Graphs . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 2.1.1.3 Ontologies . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19 2.1.1.4 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19 2.1.2 Knowledge Management Systems . . . . . . . . . . . . . . . . . . . . . . . 19 2.1.2.1 Information Services . . . . . . . . . . . . . . . . . . . . . . . . . 19 2.1.2.2 Ontology-based Distributed Knowledge Management Systems . . 20 2.1.2.3 Knowledge Management System Design Guideline . . . . . . . . 21 2.1.3 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22 2.2 Semantic Web Technologies . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22 2.2.1 The Evolution of the World Wide Web . . . . . . . . . . . . . . . . . . . . . 22 Personal Music Knowledge Base Contents 2.2.1.1 The Hypertext Web . . . . . . . . . . . . . . . . . . . . . . . . . . 23 2.2.1.2 The Normative Principles of Web Architecture . . . . . . . . . . . 23 2.2.1.3 The Semantic Web . . . . . . . . . . . . . . . . . . . . . . . . . . 24 2.2.2 Common Semantic Web Knowledge Representation Languages . . . . . . 25 2.2.3 Resource Description Levels and their Relations . . . . . . . . . . . . . . . 26 2.2.4 Semantic Web Knowledge Representation Models . . . . . . . . . . . . . . 29 2.2.4.1 Construction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30 2.2.4.2 Mapping . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30 2.2.4.3 Context Modelling . . . . . . . . . . . . . . . . . . . . . . . . . . . 31 2.2.4.4 Storing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32 2.2.4.5 Providing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 33 2.2.4.6 Consuming . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35 2.2.5 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 36 2.3 Music Content and Context Data . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37 2.3.1 Categories of Musical Characteristics . . . . . . . . . . . . . . . . . . . . . 37 2.3.2 Music Metadata Formats . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38 2.3.3 Music Metadata Services . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40 2.3.3.1 Audio Signal Carrier Indexing Services . . . . . . . . . . . . . . . . 41 2.3.3.2 Music Recommendation and Discovery Services . . . . . . . . . . 42 2.3.3.3 Music Content and Context Analysis Services . . . . . . . . . . . 43 2.3.4 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43 2.4 Personalisation and Environmental Context . . . . . . . . . . . . . . . . . . . . . . 44 2.4.1 User Modelling . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 44 2.4.2 Context Modelling . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 45 2.4.3 Stereotype Modelling . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46 2.5 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46 3 The Personal Music Knowledge Base 48 3.1 Foundations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 48 3.1.1 Knowledge Representation . . . . . . . . . . . . . . . . . . . . . . . . . . . 48 3.1.2 Knowledge Management . . . . . . . . . . . . . . . . . . . . . . . . . . . . 50 3.2 Architecture . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 51 3.3 Workflow . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53 3.3.1 User Account Initialisation . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53 3.3.2 Individual Information Extraction . . . . . . . . . . . . . . . . . . . . . . . . 53 3.3.3 Information Service Choice . . . . . . . . . . . . . . . . . . . . . . . . . . . 54 3.3.4 Proactive Update Notification . . . . . . . . . . . . . . . . . . . . . . . . . . 55 3.3.5 Information Exploration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 55 3.3.6 Personal Associations and Context . . . . . . . . . . . . . . . . . . . . . . . 56 3.4 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56 4 A Personal Music Knowledge Base 57 4.1 Knowledge Representation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 57 4.1.1 The Info Service Ontology . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59 4.1.2 The Play Back Ontology and related Ontologies . . . . . . . . . . . . . . . . 61 4.1.2.1 The Ordered List Ontology . . . . . . . . . . . . . . . . . . . . . . 61 4.1.2.2 The Counter Ontology . . . . . . . . . . . . . . . . . . . . . . . . . 62 4.1.2.3 The Association Ontology . . . . . . . . . . . . . . . . . . . . . . . 64 4.1.2.4 The Play Back Ontology . . . . . . . . . . . . . . . . . . . . . . . . 65 4.1.3 The Recommendation Ontology . . . . . . . . . . . . . . . . . . . . . . . . 69 4.1.4 The Cognitive Characteristics Ontology and related Vocabularies . . . . . . 72 4.1.4.1 The Weighting Ontology . . . . . . . . . . . . . . . . . . . . . . . 72 4.1.4.2 The Cognitive Characteristics Ontology . . . . . . . . . . . . . . . 73 4.1.4.3 The Property Reification Vocabulary . . . . . . . . . . . . . . . . . 78 4.1.5 The Media Types Taxonomy . . . . . . . . . . . . . . . . . . . . . . . . . . . 84 4.1.6 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 85 4.2 Knowledge Management System . . . . . . . . . . . . . . . . . . . . . . . . . . . . 85 4.3 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 86 5 Personal Music Knowledge Base in Practice 87 5.1 Application . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 87 5.1.1 AudioScrobbler RDF Service . . . . . . . . . . . . . . . . . . . . . . . . . . 87 5.1.2 PMKB ID3 Tag Extractor . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 89 5.2 Evaluation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90 5.2.1 Reutilisation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90 5.2.2 Application . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 91 5.2.3 Reviews and Mentions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 91 5.2.4 Indexing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 91 5.3 Summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 92 6 Conclusion and Future Work 93 6.1 Conclusion . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 93 6.2 Future Work . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9

Methods and Tools for Intelligent ESB

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