PubTator: a web-based text mining tool for assisting biocuration
作者： Chih-Hsuan Wei , Hung-Yu Kao , Zhiyong Lu
DOI: 10.1093/NAR/GKT441
关键词:
摘要: Manually curating knowledge from biomedical literature into structured databases is highly expensive and time-consuming, making it difficult to keep pace with the rapid growth of literature. There therefore a pressing need assist biocuration automated text mining tools. Here, we describe PubTator, web-based system for assisting biocuration. PubTator different few existing tools by featuring PubMed-like interface, which many biocurators find familiar, being equipped multiple challenge-winning algorithms ensure quality its automatic results. Through formal evaluation two external user groups, was shown be capable improving both efficiency accuracy manual curation. publicly available at http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/PubTator/.
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Wei Yu, Melinda Clyne, Siobhan M Dolan, Ajay Yesupriya, Anja Wulf, Tiebin Liu, Muin J Khoury, Marta Gwinn, GAPscreener: An automatic tool for screening human genetic association literature in PubMed using the support vector machine technique BMC Bioinformatics. ,vol. 9, pp. 205- 205 ,(2008) , 10.1186/1471-2105-9-205
Chih-Hsuan Wei, Hung-Yu Kao, Zhiyong Lu, SR4GN: a species recognition software tool for gene normalization. PLOS ONE. ,vol. 7, ,(2012) , 10.1371/JOURNAL.PONE.0038460
Hans-Michael Müller, Eimear E Kenny, Paul W Sternberg, Textpresso: An Ontology-Based Information Retrieval and Extraction System for Biological Literature PLoS Biology. ,vol. 2, pp. e309- ,(2004) , 10.1371/JOURNAL.PBIO.0020309
Chih-Hsuan Wei, Hung-Yu Kao, Cross-species gene normalization by species inference BMC Bioinformatics. ,vol. 12, pp. 1- 11 ,(2011) , 10.1186/1471-2105-12-S8-S5
Philip E. Bourne, Johanna McEntyre, Biocurators: contributors to the world of science. PLOS Computational Biology. ,vol. 2, ,(2006) , 10.1371/JOURNAL.PCBI.0020142
M. Neves, U. Leser, A survey on annotation tools for the biomedical literature Briefings in Bioinformatics. ,vol. 15, pp. 327- 340 ,(2014) , 10.1093/BIB/BBS084
Doug Howe, Maria Costanzo, Petra Fey, Takashi Gojobori, Linda Hannick, Winston Hide, David P. Hill, Renate Kania, Mary Schaeffer, Susan St Pierre, Simon Twigger, Owen White, Seung Yon Rhee, The future of biocuration Nature. ,vol. 455, pp. 47- 50 ,(2008) , 10.1038/455047A
S. J. F. Laulederkind, M. Tutaj, M. Shimoyama, G. T. Hayman, T. F. Lowry, R. Nigam, V. Petri, J. R. Smith, S.-J. Wang, J. de Pons, M. R. Dwinell, H. J. Jacob, Ontology searching and browsing at the Rat Genome Database Database. ,vol. 2012, ,(2012) , 10.1093/DATABASE/BAS016
K.G. Dowell, M.S. McAndrews-Hill, D.P. Hill, H.J. Drabkin, J.A. Blake, Integrating text mining into the MGI biocuration workflow. Database. ,vol. 2009, ,(2009) , 10.1093/DATABASE/BAP019
T. C. Wiegers, A. P. Davis, C. J. Mattingly, Collaborative biocuration—text-mining development task for document prioritization for curation Database. ,vol. 2012, ,(2012) , 10.1093/DATABASE/BAS037