Introducing meta-services for biomedical information extraction

Florian Leitner, Martin Krallinger, Carlos Rodriguez-Penagos, Jörg Hakenberg, Conrad Plake, Cheng Ju Kuo, Chun Nan Hsu, Richard Tzong Han Tsai, Hsi Chuan Hung, William W. Lau, Calvin A. Johnson, Rune Sætre, Kazuhiro Yoshida, Yan Hua Chen, Sun Kim, Soo Yong Shin, Byoung Tak Zhang, William A. Baumgartner, Lawrence Hunter, Barry HaddowMichael Matthews, Xinglong Wang, Patrick Ruch, Frédéric Ehrler, Arzucan Özgür, Güne Erkan, Dragomir R. Radev, Michael Krauthammer, Thai Binh Luong, Robert Hoffmann, Chris Sander, Alfonso Valencia

Research output: Contribution to journalArticlepeer-review

57 Scopus citations


We introduce the first meta-service for information extraction in molecular biology, the BioCreative MetaServer (BCMS; This prototype platform is a joint effort of 13 research groups and provides automatically generated annotations for PubMed/Medline abstracts. Annotation types cover gene names, gene IDs, species, and protein-protein interactions. The annotations are distributed by the meta-server in both human and machine readable formats (HTML/XML). This service is intended to be used by biomedical researchers and database annotators, and in biomedical language processing. The platform allows direct comparison, unified access, and result aggregation of the annotations.

Original languageEnglish
Article numberS6
JournalGenome Biology
Issue numberSUPPL. 2
StatePublished - 1 Sep 2008


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