Grounded Feature Selection for Biomedical Relation Extraction by the Combinative Approach

Relation extraction is an important task in biomedical areas such as protein-protein interaction, gene-disease interactions, and drug-disease interactions. In recent years, it has been widely researched to automatically extract biomedical relations in a vest amount of biomedical text data. In this paper, we propose a hybrid approach to extracting relations based on a rule-based approach feature set. We then use different classification algorithms such as SVM, Naive Bayes, and Decision Tree classifiers for relation classification. The rationale for adopting shallow parsing and other NLP techniques to extract relations is two-folds: simplicity and robustness. We select seven features with the rule-based shallow parsing technique and evaluate the performance with four different PPI public corpora. Our experimental results show the stable performance in F-measure even with the relatively fewer features.