Negation of protein-protein interactions: analysis and extraction
Negation of protein-protein interactions: analysis and extraction
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DOI：
10.1093/bioinformatics/btm184
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发表时间：
2007-07-01
期刊：
影响因子：
5.8
通讯作者：
Poesio, Massimo
中科院分区：
文献类型：
--
作者：
Sanchez-Graillet, Olivia;Poesio, Massimo
动机：关于蛋白质-蛋白质相互作用的负面信息--从对相互作用是否发生的不确定性到知道它没有发生--通常对生物学家非常有用，并可能导致重要的发现。然而，据我们所知，在文本挖掘文献中还没有提出关于提取此类信息的建议。结果：在本工作中，我们分析了所报告的负面信息的类型，并使用一个完整的依存关系解析器来提取此类信息。我们进行了初步评估研究，表明我们的系统取得了令人鼓舞的结果。最后，我们获得了一个初始的蛋白质-蛋白质负相互作用语料库，作为构建更大的蛋白质相互作用的基础。
Motivation: Negative information about protein-protein interactions-from uncertainty about the occurrence of an interaction to knowledge that it did not occur-is often of great use to biologists and could lead to important discoveries. Yet, to our knowledge, no proposals focusing on extracting such information have been proposed in the text mining literature.Results: In this work, we present an analysis of the types of negative information that is reported, and a heuristic-based system using a full dependency parser to extract such information. We performed a preliminary evaluation study that shows encouraging results of our system. Finally, we have obtained an initial corpus of negative protein-protein interactions as basis for the construction of larger ones.