Automatic annotation of bioinformatics workflows with biomedical ontologies

Legacy scientific workflows, and the services within them, often present scarce and unstructured (i.e. textual) descriptions. This makes it difficult to find, share and reuse them, thus dramatically reducing their value to the community. This paper presents an approach to annotating workflows and their subcomponents with ontology terms, in an attempt to describe these artifacts in a structured way. Despite a dearth of even textual descriptions, we automatically annotated 530 myExperiment bioinformatics-related workflows, including more than 2600 workflow-associated services, with relevant ontological terms. Quantitative evaluation of the Information Content of these terms suggests that, in cases where annotation was possible at all, the annotation quality was comparable to manually curated bioinformatics resources.Comment: 6th International Symposium on Leveraging Applications (ISoLA 2014 conference), 15 pages, 4 figure

Semantic annotation of Web APIs with SWEET

Recently technology developments in the area of services on the Web are marked by the proliferation of Web applications and APIs. The development and evolution of applications based on Web APIs is, however, hampered by the lack of automation that can be achieved with current technologies. In this paper we present SWEET - Semantic Web sErvices Editing Tool - a lightweight Web application for creating semantic descriptions of Web APIs. SWEET directly supports the creation of mashups by enabling the semantic annotation of Web APIs, thus contributing to the automation of the discovery, composition and invocation service tasks. Furthermore, it enables the development of composite SWS based applications on top of Linked Data

Semantically annotated hypermedia services

Hypermedia systems’ researchers investigate the various approaches in the way documents and resources are linked, navigated and stored in a distributed environment. Unfortunately, those systems fail to provide effortlessly usable discrete services, since it is difficult both to discover and to invoke any of them. This paper proposes the usage of emerging technologies that try to augment the Web resources with semantics in order to provide Hypermedia services that can be easily discovered, and integrated by potential third party developers. In this context, we analyze the benefits for the Hypermedia community upon the adoption of Semantic Web technologies for the description of Hypermedia services, and we implement an initial corresponding ontology