Drug drug interaction extraction from literature using a skeleton long short term memory neural network

Drug Drug Interactions (DDIs) can cause harmful effect. Two shared tasks, DDIExtraction 2011 and DDIExtraction 2013, have been held to promote the implementation and comparative assessment of natural language processing techniques in the field of the pharmacovigilance domain. However, few model can meanwhile achieve state-of-the-art performance on both tasks. A major reason is the lack of representation of DDI instance structure in common. Therefore, in this paper, we propose a novel method to make full use of the DDI structure based on deep learning, in which we grasp the skeleton structure of DDI instances by a skeleton long short term memory (skeleton-LSTM) network. The experimental results show that our method can achieve an F-score of 0.677 on DDIExtraction 2011 and an F-score of 0.714 on DDIExtraction 2013, both of which are state-of-the-art.

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