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Nucleic Acids Research Advance Access published online on May 31, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn319
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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BIOSMILE web search: a web application for annotating biomedical entities and relations

Hong-Jie Dai1,2, Chi-Hsin Huang1, Ryan T. K. Lin1, Richard Tzong-Han Tsai3,* and Wen-Lian Hsu1,2

1Institute of Information Science, Academia Sinica, 2Department of Computer Science, National Tsing-Hua University, Hsinchu and 3Department of Computer Science & Engineering, Yuan Ze University, Taoyuan, Taiwan, R.O.C

*To whom correspondence should be addressed. Tel: +886 3 4628800, ext. 3004; Fax: +886 3 4638850; Email: thtsai{at}saturn.yzu.edu.tw; th.tsai{at}gmail.com

Received January 31, 2008. Revised April 30, 2008. Accepted May 7, 2008.

BIOSMILE web search (BWS), a web-based NCBI-PubMed search application, which can analyze articles for selected biomedical verbs and give users relational information, such as subject, object, location, manner, time, etc. After receiving keyword query input, BWS retrieves matching PubMed abstracts and lists them along with snippets by order of relevancy to protein–protein interaction. Users can then select articles for further analysis, and BWS will find and mark up biomedical relations in the text. The analysis results can be viewed in the abstract text or in table form. To date, BWS has been field tested by over 30 biologists and questionnaires have shown that subjects are highly satisfied with its capabilities and usability. BWS is accessible free of charge at http://bioservices.cse.yzu.edu.tw/BWS.


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