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Conference

Semantic Web Applications and Tools for Life Sciences 

About: Semantic Web Applications and Tools for Life Sciences is an academic conference. The conference publishes majorly in the area(s): Semantic Web & Ontology (information science). Over the lifetime, 85 publications have been published by the conference receiving 364 citations.

Papers published on a yearly basis

Papers
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Proceedings Article
28 Nov 2012
TL;DR: It is argued that good workflow design is a prerequisite for repairing a workflow, or redesigning an equivalent workflow pattern with new components, and the semantic tooling that is being developed in the Workflow4Ever project to support these best practices are presented.
Abstract: In this position paper we present a set of best practices for workflow design to prevent workflow decay and increase reuse and re-purposing of scientific workflows. MyExperiment provides access to a large number of scientific workflows. However, scientists find it difficult to reuse or re-purpose these workflows for mainly two reasons: workflows suffer from decay over time and lack sufficient metadata to understand their purpose. We argue that good workflow design is a prerequisite for repairing a workflow, or redesigning an equivalent workflow pattern with new components. We present a set of best practices for workflow design and the semantic tooling that is being developed in the Workflow4Ever (Wf4Ever) project to support these best practices.

30 citations

Proceedings ArticleDOI
07 Dec 2011
TL;DR: A much improved version of LogMap, a highly scalable ontology matching system with 'built-in' reasoning and diagnosis capabilities, and provides the necessary infrastructure for domain experts to interactively contribute to the matching process.
Abstract: In this paper we present a much improved version of LogMap, a highly scalable ontology matching system with 'built-in' reasoning and diagnosis capabilities. LogMap 2.0 is not only more scalable and robust than its predecessor, but it also provides the necessary infrastructure for domain experts to interactively contribute to the matching process.

28 citations

Proceedings Article
20 Dec 2018
TL;DR: A method and tools for ontology-driven metadata enrichment is presented, selecting few relevant features which are provided by most repositories, and then evaluating several search services providing ontological access, eventually associating each feature with the specific ontologies which are most suited to describe them.
Abstract: Data-driven genomic research requires accessing several repositories of genomic datasets, produced by international consortia, which provide open access to extremely valuable and well curated biological content. The associated metadata, describing experimental and biological conditions, are highly heterogeneous; consequently, dataset collection and integration is difficult – it requires data conversions and term matching which needs to be done by humans, with biological expertise. In this paper, we present a method and tools for ontology-driven metadata enrichment. We select few relevant features which are provided by most repositories, and then we comparatively evaluate several search services providing ontological access, eventually associating each feature with the specific ontologies which are most suited to describe them. We also provide an expert validation of the approach. The method and tools are deployed in a large repository of open data, which will be soon available to the research community.

17 citations

Proceedings ArticleDOI
07 Dec 2011
TL;DR: A demo of the capabilities of DOG4DAG, the Dresden Ontology Generator for Directed Acyclic Graphs, which is available as plugin to both OBO-Edit and Protégé, and summarise the strengths and limits of the different the steps of the generation process.
Abstract: In the biomedical domain, Protege and OBO-Edit are the main ontology editors supporting the manual construction of ontologies. Since manual creation is a laborious and hence costly process, there have been efforts to automate parts of this process. Here, we give a demo of the capabilities of DOG4DAG, the Dresden Ontology Generator for Directed Acyclic Graphs, which is available as plugin to both OBO-Edit and Protege. In the demo, we describe how to generate terms and in particular siblings, definitions, and is-a relationships using an example in the domain of nervous system diseases. We summarise the strengths and limits of the different the steps of the generation process.

17 citations

Proceedings Article
01 Dec 2010
TL;DR: Populous as mentioned in this paper is a tool for gathering content with which to populate an ontology, but without having to tackle the underlying ontological representation, it separates knowledge gathering from the conceptualisation and also separates the user from the standard ontology authoring environments.
Abstract: We present Populous, a tool for gathering content with which to populate anontology. Domain experts need to add content, that is often repetitive in itsform, but without having to tackle the underlying ontological representation.Populous presents users with a table based form in which columns areconstrained to take values from particular ontologies; the user can select aconcept from an ontology via its meaningful label to give a value for a givenentity attribute. Populated tables are mapped to patterns that can then be usedto automatically generate the ontology's content. Populous's contribution is inthe knowledge gathering stage of ontology development. It separates knowledgegathering from the conceptualisation and also separates the user from thestandard ontology authoring environments. As a result, Populous can allowknowledge to be gathered in a straight-forward manner that can then be used todo mass production of ontology content.

13 citations

Performance
Metrics
No. of papers from the Conference in previous years
YearPapers
20183
20165
201514
20145
20139
20124