Category Archives: Ontologies

Current Projects at the Image Bioinformatics Research Group in Oxford

Alistair Miles, of SKOS fame, who formerly worked in our research group, spent yesterday afternoon catching up with us, and has written a nice blog post on the MalariaGEN Informatics Blog describing our current activities, including our work on the … Continue reading

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Nomenclature for citations and references

Reis et al. (2008) [1] cites an earlier paper from Albert Ko’s research group, Ko et al. (1999) [2]. In conventional parlance, as the following diagram shows, the word “reference” can mean either what is found in the text, what … Continue reading

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How to cite data

As an approach towards developing best practice for data citation, I recently wrote a Data Citation Best Practice Discussion Document that is available on Google Docs, and that I have now slightly revised to Version 2 [1]. In that document, … Continue reading

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Questions of granularity – Dryad’s use of DataCite DOIs for data citation, and the Annotation Ontology

DataCite is an international organisation, founded in 2009, which promotes the use of DOIs (Digital Object Identifiers) for published datasets, in order to establish easier access to research data, to increase acceptance of research data as legitimate contributions in the … Continue reading

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Nomenclature for data publications and citations

The meaning of the word “dataset” is ambiguous, changing with context.  In FaBiO , the FRBR-aligned bibliographic ontology, we define “dataset” at the conceptual level (i.e. as a frbr:Work) thus: fabio:Dataset: “A collection of related facts, often expressed in numerical … Continue reading

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DataCite2RDF – Mapping DataCite Metadata Scheme Terms to ontologies

The DataCite Metadata Kernel version 2.0 [1] specifies the minimal metadata, and optional metadata, that should accompany a DataCite DOI for the identification of a published data entity. Within the Metadata Kernel document there is an XML mapping of these … Continue reading

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Using FaBiO to describe data entities

In addition to using CiTO and CiTO4Data to describe relationships of relevance to data entities, as discussed in the previous blog post, FaBiO, the FRBR aligned Bibliographic Ontology described elsewhere, another member of the suite of SPAR (Semantic Publishing and … Continue reading

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