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PLoS Comput Biol. 2018 Feb 15;14(2):e1005962. doi: 10.1371/journal.pcbi.1005962. eCollection 2018 Feb.

A comprehensive and quantitative comparison of text-mining in 15 million full-text articles versus their corresponding abstracts.

Author information

1
Center for Biological Sequence Analysis, Department of Bio and Health Informatics, Technical University of Denmark, Lyngby, Denmark.
2
Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
3
Office for Innovation and Sector Services, Technical Information Center of Denmark, Technical University of Denmark, Lyngby, Denmark.

Abstract

Across academia and industry, text mining has become a popular strategy for keeping up with the rapid growth of the scientific literature. Text mining of the scientific literature has mostly been carried out on collections of abstracts, due to their availability. Here we present an analysis of 15 million English scientific full-text articles published during the period 1823-2016. We describe the development in article length and publication sub-topics during these nearly 250 years. We showcase the potential of text mining by extracting published protein-protein, disease-gene, and protein subcellular associations using a named entity recognition system, and quantitatively report on their accuracy using gold standard benchmark data sets. We subsequently compare the findings to corresponding results obtained on 16.5 million abstracts included in MEDLINE and show that text mining of full-text articles consistently outperforms using abstracts only.

PMID:
29447159
PMCID:
PMC5831415
DOI:
10.1371/journal.pcbi.1005962
[Indexed for MEDLINE]
Free PMC Article

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