PubTator: a web-based text mining tool for assisting biocuration.

Chih Hsuan Wei, Hung Yu Kao, Zhiyong Lu

Research output: Contribution to journalArticlepeer-review

311 Citations (Scopus)


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 the literature. There is therefore a pressing need to assist biocuration with automated text mining tools. Here, we describe PubTator, a web-based system for assisting biocuration. PubTator is different from the few existing tools by featuring a PubMed-like interface, which many biocurators find familiar, and being equipped with multiple challenge-winning text mining algorithms to ensure the quality of its automatic results. Through a formal evaluation with two external user groups, PubTator was shown to be capable of improving both the efficiency and accuracy of manual curation. PubTator is publicly available at

Original languageEnglish
Pages (from-to)W518-522
JournalUnknown Journal
Issue numberWeb Server issue
Publication statusPublished - 2013 Jul

All Science Journal Classification (ASJC) codes

  • Genetics


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