Semantic publishing

A few new papers on the subject of semantic publishing were brought to my attention today. First this one:

David Shotton, Katie Portwin, Graham Klyne and Alistair Miles (2009) Adventures in semantic publishing: exemplar semantic enhancements of a research article. PLoS Computational Biology 5 (4): e1000361.

In the words of the author: “This article describes exemplar semantic enhancements we made to an original epidemiological research article. We wished to create an example of what we hope will become mainstream in publishing of on-line scientific research articles. So we took an original article: Reis et al. (2008) Impact of Environment and Social Gradient on Leptospira Infection in Urban Slums PLoS Neglected Tropical Diseases 2: e228, doi:10.1371/journal.pntd.0000228, and published a semantically enhanced version of this article on the Web at”

“This enhanced article includes interactive figures, mashups with Google Maps and with data from related publications, live links to full-text references, downloadable datasets in Excel files relating to figures in the paper, downloadable RDF metadata files describing the publication and the references it cites, and a separate Document Summary, all with their own DOIs.”

And then this one:

David Shotton (2009) CiTO, the Citation Typing Ontology, and its use for annotation of reference lists and visualization of citation networks. Paper submitted to the BioOntologies SIG at ISMB2009, Stockholm, June 2009. Preprint at

Author’s comment: “CiTO, the Citation Typing Ontology, is an ontology for de-scribing the nature of reference citations in scientific re-search articles and other scholarly works, and for publishing these descriptions on the Semantic Web. Citation are described in terms of the factual and rhetorical relationships between citing publication and cited publication, the in-text and global citation frequencies of each cited work, and the nature of the cited work itself, including its peer review status. This paper
describes CiTO and illustrates its usefulness, both for the annotation of bibliographic reference lists and for the visualization of citation networks.”

David Shotton can be reached by email (david DOT shotton AT zoo DOT ox DOT ac DOT uk), and at the Image Bioinformatics Research Group, Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK. Tel: Plus Forty-Four-1865-271193.

Jan Velterop

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