1,721,161 research outputs found
myExperiment: An ontology for e-Research
No full textmyExperiment describes itself as a "Social Virtual Research Environment" that provides the ability to share Research Objects (ROs) over a social infrastructure to facilitate actioning of research. The myExperiment Ontology is a logical representation of the data model used by this environment, allowing its data to be published in a standard RDF format, whilst providing a generic extensible framework that can be reused by similar projects. ROs are data structures designed to semantically enhance research publications by capturing and preserving the research method so that it can be reproduced in the future. This paper provides some motivation for an RO specification and briefly considers how existing domain-specifific ontologies might be integrated. It concludes by discussing the future direction of the myExperiment Ontology and how it will best support these ROs
Scientific Social Objects: The Social Objects and Multidimensional Network of the myExperiment Website
No full textScientific research is increasingly conducted digitally and online, and consequently we are seeing the emergence of new digital objects shared as part of the conduct and discourse of science. These Scientific Social Objects are more than lumps of domain-specific data: they may comprise multiple components which can also be shared separately and independently, and some contain descriptions of scientific processes from which new objects will be generated. Using the myExperiment social website as a case study we explore Scientific Social Objects and discuss their evolution
Research Objects: Towards Exchange and Reuse of Digital Knowledge
No full textWhat will researchers be publishing in the future? Whilst there is little question that the Web will be the publication platform, as scholars move away from paper towards digital content, there is a need for mechanisms that support the production of self-contained units of knowledge and facilitate the publication, sharing and reuse of such entities. In this paper we discuss the notion of research objects, semantically rich aggregations of resources, that possess some scientific intent or support some research objective. We present a number of principles that we expect such objects and their associated services to follow
The Semantics of Semantic Annotation
Full text linkSemantic metadata will play a significant role in the provision of the Semantic Web. Agents will need metadata that describes the content of resources in order to perform operations, such as retrieval, over those resources. In addition, if rich semantic metadata is supplied, those agents can then employ reasoning over the metadata, enhancing their processing power. Key to this approach is the provision of annotations, both through automatic and human means. The semantics of these annotations, however, in terms of the mechanisms through which they are interpreted and presented to the user, are sometimes unclear. In this paper, we identify a number of candidate interpretations of annotation, and discuss the impact these interpretations may have on Semantic Web applications
Conceptual Linking: Ontology-based Open Hypermedia
No full textThis paper describes the attempts of the COHSE project to define and deploy a Conceptual Open Hypermedia Service. Consisting of • an ontological reasoning service which is used to represent a sophisticated conceptual model of document terms and their relationships; • a Web-based open hypermedia link service that can offer a range of different link-providing facilities in a scalable and non-intrusive fashion; and integrated to form a conceptual hypermedia system to enable documents to be linked via metadata describing their contents and hence to improve the consistency and breadth of linking of WWW documents at retrieval time (as readers browse the documents) and authoring time (as authors create the documents)
The myExperiment Open Repository for Scientific Workflows
No full textmyExperiment is an open repository solution for the born-digital items arising in contemporary research practice, in particular scientific workflows and experiment plans. Launched in November 2007, the public repository (myexperiment.org) has established a significant collection of scientific workflows, spanning multiple disciplines and multiple workflow systems, which has been accessed by over 16,000 users worldwide. Built according to Web 2.0 design principles, myExperiment demonstrates the success of blending modern social curation methods with the demands of researchers sharing hard-won intellectual assets and research works within a scholarly communication lifecycle. myExperiment is an important component in the revolution in creating, sharing and publishing scientific results, and has already established itself as a valuable and unique repository with a growing international presence
A Linked Data Approach to Sharing Workflows and Workflow Results
Full text linkA bioinformatics analysis pipeline is often highly elaborate, due to the inherent complexity of biological systems and the variety and size of datasets. A digital equivalent of the ‘Materials and Methods’ section in wet laboratory publications would be highly beneficial to bioinformatics, for evaluating evidence and examining data across related experiments, while introducing the potential to find associated resources and integrate them as data and services. We present initial steps towards preserving bioinformatics ‘materials and methods’ by exploiting the workflow paradigm for capturing the design of a data analysis pipeline, and RDF to link the workflow, its component services, run-time provenance, and a personalized biological interpretation of the results. An example shows the reproduction of the unique graph of an analysis procedure, its results, provenance, and personal interpretation of a text mining experiment. It links data from Taverna, myExperiment.org, BioCatalogue.org, and ConceptWiki.org. The approach is relatively ‘light-weight’ and unobtrusive to bioinformatics users
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
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