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Publications

Publications by João Rocha Silva

2014

Dendro: Collaborative Research Data Management Built on Linked Open Data

Authors
da Silva, JR; Castro, JA; Ribeiro, C; Lopes, JC;

Publication
SEMANTIC WEB: ESWC 2014 SATELLITE EVENTS

Abstract
Research datasets in the so-called "long-tail of science" are easily lost after their primary use. Support for preservation, if available, is hard to fit in the research agenda. Our previous work has provided evidence that dataset creators are motivated to spend time on data description, especially if this also facilitates data exchange within a group or a project. This activity should take place early in the data generation process, when it can be regarded as an actual part of data creation. We present the first prototype of the Dendro platform, designed to help researchers use concepts from domain-specific ontologies to collaboratively describe and share datasets within their groups. Unlike existing solutions, ontologies are used at the core of the data storage and querying layer, enabling users to establish meaningful domain-specific links between data, for any domain. The platform is currently being tested with research groups from the University of Porto.

2017

Involving data creators in an ontology-based design process for metadata models

Authors
Castro, JA; Amorim, RC; Gattelli, R; Karimova, Y; Da Silva, JR; Ribeiro, C;

Publication
Developing Metadata Application Profiles

Abstract
Research data are the cornerstone of science and their current fast rate of production is disquieting researchers. Adequate research data management strongly depends on accurate metadata records that capture the production context of the datasets, thus enabling data interpretation and reuse. This chapter reports on the authors' experience in the development of the metadata models, formalized as ontologies, for several research domains, involving members from small research teams in the overall process. This process is instantiated with four case studies: vehicle simulation; hydrogen production; biological oceanography and social sciences. The authors also present a data description workflow that includes a research data management platform, named Dendro, where researchers can prepare their datasets for further deposit in external data repositories. © 2017, IGI Global.

2014

LabTablet: Semantic Metadata Collection on a Multi-domain Laboratory Notebook

Authors
Amorim, RC; Castro, JA; da Silva, JR; Ribeiro, C;

Publication
METADATA AND SEMANTICS RESEARCH, MTSR 2014

Abstract
The value of research data is recognized, and so is the importance of the associated metadata to contextualize, describe and ultimately render them understandable in the long term. Laboratory notebooks are an excellent source of domain-specific metadata, but this paper-based approach can pose risks of data loss, while limiting the possibilities of collaborative metadata production. The paper discusses the advantages of tools to complement paper-based laboratory notebooks in capturing metadata, regardless of the research domain. We propose LabTablet, an electronic laboratory book aimed at the collection of metadata from the early stages of the research workflow. To evaluate the use of LabTablet and the proposed workflow, researchers in two domains were asked to perform a set of tasks and provided insights about their experience. By rethinking the workflow and helping researchers to actively contribute to data description, the research outputs can be described with generic and domain-dependent metadata, thus improving their chances of being deposited, reused and preserved.

2013

Managing Research Data at the University of Porto: Requirements, Technologies, and Services

Authors
da Silva, JR; Ribeiro, C; Lopes, JC;

Publication
INNOVATIONS IN XML APPLICATIONS AND METADATA MANAGEMENT: ADVANCING TECHNOLOGIES

Abstract
This chapter consists of a solution for the management of research data at a higher education and research institution. The chapter is based on a small-scale data audit study, which included contacts with researchers and yielded some preliminary requirements and use cases. These requirements led to the design of a data curation workflow involving the researcher, the curator, and a data repository. The authors describe the features of the data repository prototype, which is an extension to the widely used DSpace repository platform and introduced a set of features mentioned by the majority of the interviewed researchers as relevant for a data repository. The data repository platform contributes to the curation workflow at the university, with XML technology at its core-data is stored using XML documents, which can be systematically processed and queried unlike its original-format counterpart. This system is capable of indexing, querying, and retrieving, in whole or in part, datasets represented in tabular form. There is also the possibility of using elements from domain-specific XML schemas for the cataloguing process, improving the interoperability and quality of the deposited data. Copyright (C) 2013, IGI Global. Copying or distributing in print or electronic forms without written permission of IGI Global is prohibited.

2014

Ontology-Based Multi-Domain metadata for research data management using triple stores

Authors
Silva, JRD; Ribeiro, C; Lopes, JC;

Publication
ACM International Conference Proceeding Series

Abstract
Most current research data management solutions rely on a fixed set of descriptors (e.g. Dublin Core Terms) for the description of the resources that they manage. These are easy to understand and use, but their semantics are limited to general concepts, leaving out domain-specific metadata. The textual values for descriptors are easily indexed through free-text indexes, but faceted search and dataset interlinking becomes limited. From the point of view of the relational database schema modeler, designing a more flexible metadata model represents a non-trivial challenge because it means representing entities with attributes unknown at the time of modeling and that can change in time. Those traits, combined with the presence of hierarchies among the entities, can make the relational schema quite complex. This work demonstrates the approaches followed by current opensource platforms and proposes a graph-based model for achieving modular, ontology-based metadata for interlinked data assets in the Semantic Web. The proposed model was implemented in a collaborative research data management platform currently under development at the University of Porto. © 2014 ACM.

2017

Promoting Semantic Annotation of Research Data by Their Creators: A Use Case with B2NOTE at the End of the RDM Workflow

Authors
Karimova, Y; Castro, JA; da Silva, JR; Pereira, N; Ribeiro, C;

Publication
Metadata and Semantic Research - 11th International Conference, MTSR 2017 Tallinn, Estonia, November 28 - December 1, 2017, Proceedings

Abstract
Research data management is promoted at different levels with awareness actions carried out to encourage cooperation between researchers. However, data management requires tools to set the scene for researchers and institutions to disseminate the research data they produce. In this context good quality metadata play an important role by enabling data reuse. EUDAT is an European common data infrastructure, with integrated services for data preservation and dissemination. The TAIL project, at the University of Porto, proposes workflows based on Dendro, a collaborative environment that helps researchers prepare well described datasets and deposit them in a data repository. We propose a data deposit workflow use case for a small research project with emphasis in data annotation. Data is organized and described in Dendro; deposited in B2SHARE; and semantic annotation is performed with the new B2NOTE service from EUDAT. © Springer International Publishing AG 2017.

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