CyberinfraV1, Main, Exploration, bibRecord, 000860

Utopia documents: linking scholarly literature with research data

Identifieur interne : 000860 ( Main/Exploration ); précédent : 000859; suivant : 000861

Utopia documents: linking scholarly literature with research data

Auteurs : T. K. Attwood ; D. B. Kell [Royaume-Uni] ; P. Mcdermott ; J. Marsh ; S. R. Pettifer ; D. Thorne

Source :

Bioinformatics [ 1367-4803 ] ; 2010.

RBID : PMC:2935404

Abstract

Motivation: In recent years, the gulf between the mass of accumulating-research data and the massive literature describing and analyzing those data has widened. The need for intelligent tools to bridge this gap, to rescue the knowledge being systematically isolated in literature and data silos, is now widely acknowledged.

Results: To this end, we have developed Utopia Documents, a novel PDF reader that semantically integrates visualization and data-analysis tools with published research articles. In a successful pilot with editors of the Biochemical Journal (BJ), the system has been used to transform static document features into objects that can be linked, annotated, visualized and analyzed interactively (http://www.biochemj.org/bj/424/3/). Utopia Documents is now used routinely by BJ editors to mark up article content prior to publication. Recent additions include integration of various text-mining and biodatabase plugins, demonstrating the system's ability to seamlessly integrate on-line content with PDF articles.

Availability: http://getutopia.com

Contact: teresa.k.attwood@manchester.ac.uk

Url:

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2935404

DOI: 10.1093/bioinformatics/btq383
PubMed: 20823323
PubMed Central: 2935404

Affiliations:

Royaume-Uni

Le document en format XML

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<author><name sortKey="Kell, D B" sort="Kell, D B" uniqKey="Kell D" first="D. B." last="Kell">D. B. Kell</name>
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<front><div type="abstract" xml:lang="en"><p><bold>Motivation:</bold>
 In recent years, the gulf between the mass of accumulating-research data and the massive literature describing and analyzing those data has widened. The need for intelligent tools to bridge this gap, to rescue the knowledge being systematically isolated in literature and data silos, is now widely acknowledged.</p>
<p><bold>Results:</bold>
 To this end, we have developed Utopia Documents, a novel PDF reader that semantically integrates visualization and data-analysis tools with published research articles. In a successful pilot with editors of the <italic>Biochemical Journal</italic>
 (<italic>BJ</italic>
), the system has been used to transform static document features into objects that can be linked, annotated, visualized and analyzed interactively (<ext-link ext-link-type="uri" xlink:href="http://www.biochemj.org/bj/424/3/">http://www.biochemj.org/bj/424/3/</ext-link>
). Utopia Documents is now used routinely by <italic>BJ</italic>
 editors to mark up article content prior to publication. Recent additions include integration of various text-mining and biodatabase plugins, demonstrating the system's ability to seamlessly integrate on-line content with PDF articles.</p>
<p><bold>Availability:</bold>
 <ext-link ext-link-type="uri" xlink:href="http://getutopia.com">http://getutopia.com</ext-link>
</p>
<p><bold>Contact:</bold>
 <email>teresa.k.attwood@manchester.ac.uk</email>
</p>
</div>
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Utopia documents: linking scholarly literature with research data

Utopia documents: linking scholarly literature with research data

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Abstract

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