Visualising a scientific article
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- University of Glasgow
PDF (1.8 MB)
- Document Type:
- Manuscript
- Date:
- Received 28 November 2008 16:15 UTC; Posted 28 November 2008
- Subjects:
- Ecology, Bioinformatics
- Abstract:
This paper describes my entry in the Elsevier Grand Challenge “Knowledge Enhancement in the Life Sciences” contest. The entry takes a collection of fulltext issues of Molecular Phylogenetics and Evolution as the starting point, then extracts citation links to both papers and data, such as Genbank sequences and specimens, together with geotagged localities, and builds a “web” of objects linked by typed relationships. Each object (such as a publication, a sequence, a specimen, a taxon name, etc.) is treated equally, so that you can take a publication and see what taxa it refers to, or take the taxon and find all the publications that refer to the taxon. Although the database has been seeded with some articles from Molecular Phylogenetics and Evolution, much of the data comes from GenBank, PubMed, and specimen databases. These are accessed through bioGUID, a tool I constructed to resolve globally unique identifiers and return associated metadata.
Discussion
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7 votes
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1 comment
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Additional information
- License:
- This document is licensed to the public under the Creative Commons Attribution 3.0 License
- How to cite this document:
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Page, Roderic. Visualising a scientific article. Available from Nature Precedings <http://dx.doi.org/10.1038/npre.2008.2579.1> (2008)
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Benjamin Good on 29 November 2008 02:15 UTC
Very interesting work. I’d be curious to see how a larger set of papers would look through the lens you have provided. For example, do a PubMed search and use this summarization/visualization on the results (assuming you could get enough data out of the articles). Might be a much more effective way to explore large literature repositories and would point the way to real automated aggregation of knowledge.