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Using the OntoGene pipeline for the triage task of BioCreative 2012

机译：使用OntoGene管线完成BioCreative 2012的分类任务

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摘要

In this article, we describe the architecture of the OntoGene Relation mining pipeline and its application in the triage task of BioCreative 2012. The aim of the task is to support the triage of abstracts relevant to the process of curation of the Comparative Toxicogenomics Database. We use a conventional information retrieval system (Lucene) to provide a baseline ranking, which we then combine with information provided by our relation mining system, in order to achieve an optimized ranking. Our approach additionally delivers domain entities mentioned in each input document as well as candidate relationships, both ranked according to a confidence score computed by the system. This information is presented to the user through an advanced interface aimed at supporting the process of interactive curation. Thanks, in particular, to the high-quality entity recognition, the OntoGene system achieved the best overall results in the task.
机译：在本文中，我们描述了OntoGene Relation挖掘管道的体系结构及其在BioCreative 2012的分类任务中的应用。该任务的目的是支持与比较毒物基因组学数据库的整理过程相关的摘要的分类。我们使用常规的信息检索系统（Lucene）提供基线排名，然后将其与我们的关系挖掘系统提供的信息相结合，以实现最佳排名。我们的方法还提供了每个输入文档中提到的领域实体以及候选关系，二者均根据系统计算的置信度得分进行排名。该信息通过旨在支持交互式策展过程的高级界面提供给用户。特别是由于高质量的实体识别，OntoGene系统在任务中获得了最佳的整体效果。

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