Introduction

PubMed-EX is a browser extension that marks up PubMed search results with additional information retrieved from IASL & IISR text-mining services.

PubMed-EX's page mark-up includes section categorization, gene/disease name, and relation. The mark-ups of PubMed-EX can help researchers quickly focus on key information in retrieved abstracts and can provide additional background information on key terms. Furthermore, our text-mining server carries out all text-mining processing, freeing up your computing resources.

References

If you find PubMed-EX could ease your daily work, we would be happy to hear about it. It would be great if you could cite our paper.

• Tsai, R.T.-H., Dai, H.-J., Lai, P.-T. and Huang, C.-H. (2009) PubMed-EX: A web browser extension to enhance PubMed search with text mining features, Bioinformatics, 25, 3031-3032.
• Dai, H.-J., Lai, P.-T. and Tsai, R.T.-H. (2010) Multi-stage gene normalization and SVM-based ranking for protein interactor extraction in full-text articles, IEEE TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, vol. 7, pp. 412-420, 2010.
• Lin, R.T.K., Dai, H.-J., Bow, Y.-Y., Chiu, J.L.-T. and Tsai, R.T.-H. (2009) Using conditional random fields for result identification in biomedical abstracts Integrated Computer-Aided Engineering, 16, 339-352.
• Dai, H.-J., Huang, C.-H., Lin, R.T.K., Tsai, R.T.-H. and Hsu, W.-L. (2008) BIOSMILE web search: a web application for annotating biomedical entities and relations., Nucl. Acids Res., 1;36, W390-398.
• Tsai, R.T.-H., Chou, W.-C., Su, Y.-S., Lin, Y.-C., Sung, C.-L., Dai, H.-J., Yeh, I.T., Ku, W., Sung, T.-Y. and Hsu, W.-L. (2007) BIOSMILE: A semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features, BMC Bioinformatics, 8, 325.
• Tsai, R.T.-H., Sung, C.-L., Dai, H.-J., Hung, H.-C., Sung, T.-Y. and Hsu, W.-L. (2006) NERBio: using selected word conjunctions, term normalization, and global patterns to improve biomedical named entity recognition, BMC Bioinformatics, 7, S11.
• Lai, P.-T., Bow, Y.-Y., Huang, C.-H., Dai, H.-J., Tsai, R.T.-H. and Hsu, W.-L. (2009) Using Contextual Information to Clarify Gene Normalization Ambiguity. The IEEE International Conference on Information Reuse and Integration (IEEE IRI 2009). Las Vegas, USA.
• Lin, R.T.K., Dai, H.-J., Bow, Y.-Y., Day, M.-Y., Tsai, R.T.-H. and Hsu, W.-L. (2008) Result Identification for Biomedical Abstracts Using Conditional Random Fields. The IEEE International Conference on Information Reuse and Integration (IEEE IRI 2008). Las Vegas, Nevada, USA.
• Dai, H.-J., Hung, H.-C., Tsai, R.T.-H. and Hsu, W.-L. (2007) IASL Systems in the Gene Mention Tagging Task and Protein Interaction Article Sub-task. Proceedings of Second BioCreAtIvE Challenge Evaluation Workshop. Madrid, Spain, 69-76.