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overview of the protein-protein interaction annotation extraction task of biocreative ii抽取的注释蛋白质间交互作用的任务biocreative ii.pdf

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overview of the protein-protein interaction annotation extraction task of biocreative ii抽取的注释蛋白质间交互作用的任务biocreative ii

Volume 9, Suppl 2, Article S4et al.Krallinger2008 Open Access Research Overview of the protein-protein interaction annotation extraction task of BioCreative II Martin Krallinger, Florian Leitner, Carlos Rodriguez-Penagos and Alfonso Valencia Address: Structural Biology and BioComputing Programme, Spanish Nacional Cancer Research Centre (CNIO), C/Melchor F. Almagro, 3, E-28029 Madrid, Spain. Correspondence: Alfonso Valencia. Email: valencia@cnio.es Published: 01 September 2008 doi: 10.1186/gb-2008-9-S2-S4 Genome Biology 2008, 9(Suppl 2):S4 The electronic version of this article is the complete one and can be found online at /2008/9/S2/S4 © 2008 Krallinger et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Background: The biomedical literature is the primary information source for manual protein-protein interaction annotations. Text-mining systems have been implemented to extract binary protein interactions from articles, but a comprehensive comparison between the different techniques as well as with manual curation was missing. Results: We designed a community challenge, the BioCreative II protein-protein interaction (PPI) task, based on the main steps of a manual protein interaction annotation workflow. It was structured into four distinct subtasks related to: (a)detection of protein interaction-relevant articles; (b)extraction and normalization of protein interaction pairs; (c)re