论文名称：Integrating Semantic Information into Multiple Kernels for Protein-Protein Interaction Extraction from Biomedical Literatures
论文类型：期刊论文
发表刊物：PLOS ONE
收录刊物：SCIE、PubMed、Scopus
卷号：9
期号：3
页面范围：e91898
ISSN号：1932-6203
摘要：Protein-Protein Interaction (PPI) extraction is an important task in the biomedical information extraction. Presently, many machine learning methods for PPI extraction have achieved promising results. However, the performance is still not satisfactory. One reason is that the semantic resources were basically ignored. In this paper, we propose a multiple-kernel learning-based approach to extract PPIs, combining the feature-based kernel, tree kernel and semantic kernel. Particularly, we extend the shortest path-enclosed tree kernel (SPT) by a dynamic extended strategy to retrieve the richer syntactic information. Our semantic kernel calculates the protein-protein pair similarity and the context similarity based on two semantic resources: WordNet and Medical Subject Heading (MeSH). We evaluate our method with Support Vector Machine (SVM) and achieve an F-score of 69.40% and an AUC of 92.00%, which show that our method outperforms most of the state-of-the-art systems by integrating semantic information.
发表时间：2014-03-12