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Open Access item U-Compare bio-event meta-service: compatible BioNLP event extraction services

Authors:Kano, Yoshinobu
Bjorne, Jari
Ginter, Filip
Salakoski, Tapio
Buyko, Ekaterina
Hahn, Udo
Verspoor, Karin
Roeder, Christophe
Hunter, Lawrence E
Kilicoglu, Halil
Bergler, Sabine
Landeghem, Sofie VAN
Parys, Thomas VAN
Peer, Yves VAN DE
Miwa, Makoto
Ananiadou, Sophia
Neves, Mariana L.
Pascual-Montano, Alberto
Ozgur, Arzucan
Radev, Dragomir R
Riedel, Sebastian
Saetre, Rune
Chun, Hong-Woo
Kim, Jin-Dong
Pyysalo, Sampo
Ohta, Tomoko
Tsujii, Jun'ichi
Issue Date:18-Dec-2011
Publisher:BioMed Central
Citation:BMC Bioinformatics 12(1) : 481- (2011)
Abstract:AbstractBackgroundBio-molecular event extraction from literature is recognized as an important task of bio text mining and, as such, many relevant systems have been developed and made available during the last decade. While such systems provide useful services individually, there is a need for a meta-service to enable comparison and ensemble of such services, offering optimal solutions for various purposes.ResultsWe have integrated nine event extraction systems in the U-Compare framework, making them inter-compatible and interoperable with other U-Compare components. The U-Compare event meta-service provides various meta-level features for comparison and ensemble of multiple event extraction systems. Experimental results show that the performance improvements achieved by the ensemble are significant. ConclusionsWhile individual event extraction systems themselves provide useful features for bio text mining, the U-Compare meta-service is expected to improve the accessibility to the individual systems, and to enable meta-level uses over multiple event extraction systems such as comparison and ensemble.
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