@article{c5e3f13b263c4e3099bf65bcf35dca81,
title = "U-Compare bio-event meta-service: Compatible BioNLP event extraction services",
abstract = "Background Bio-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. Results We 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.",
author = "Yoshinobu Kano and Jari Bj{\"o}rne and Filip Ginter and Tapio Salakoski and Ekaterina Buyko and Udo Hahn and Cohen, {K. Bretonnel} and Karin Verspoor and Christophe Roeder and Hunter, {Lawrence E.} and Halil Kilicoglu and Sabine Bergler and {Van Landeghem}, Sofie and {Van Parys}, Thomas and {Van de Peer}, Yves and Makoto Miwa and Sophia Ananiadou and Mariana Neves and Alberto Pascual-Montano and Arzucan {\"O}zg{\"u}r and Radev, {Dragomir R.} and Sebastian Riedel and Rune S{\ae}tre and Chun, {Hong Woo} and Kim, {Jin Dong} and Sampo Pyysalo and Tomoko Ohta and Jun'ichi Tsujii",
note = "Funding Information: This research was partially supported by KAKENHI 18002007 [YK, MM, JDK, SP, TO, JT]; JST PRESTO and KAKENHI 21500130 [YK]; the Academy of Finland and computational resources were provided by CSC – IT Center for Science Ltd [JB, FG]; the Research Foundation Flanders (FWO) [SVL]; UK Biotechnology and Biological Sciences, Research Council (BBSRC project BB/ G013160/1 Automated Biological Event Extraction from the Literature for Drug Discovery) and JISC, National Centre for Text Mining [SA]; the Spanish grant BIO2010-17527 [MN, APM]; NIH Grant U54 DA021519 [AO, DRR]; SR thanks Dr. Chisato Yamasaki and Dr. Tadashi Imanishi, BIRC, AIST, for their help; the Integrated Database Project (MEXT, Japan) [SR, RS, HWC], the Genome Network Project (MEXT, Japan) [SR, RS, HWC], the Center for Intelligent Information Retrieval [SR]; NIH grants R01LM009254, R01GM083649, and R01LM008111 [LEH]. Any opinions, findings and conclusions or recommendations expressed in this material are the authors{\textquoteright} and do not necessarily reflect those of the sponsor.",
year = "2011",
month = dec,
day = "18",
doi = "10.1186/1471-2105-12-481",
language = "English (US)",
volume = "12",
journal = "BMC bioinformatics",
issn = "1471-2105",
publisher = "BioMed Central",
number = "1",
}